Items where Subject is "genetics & nucleic acid processing"

A

Aakula, Anna, Isomursu, Aleksi, Rupp, Christian, Erickson, Andrew, Gupta, Nikhil, Kauko, Otto, Shah, Pragya, Padzik, Artur, Pokharel, Yuba Raj, Kaur, Amanpreet, Li, Song-Ping, Trotman, Lloyd, Taimen, Pekka, Rannikko, Antti, Lammerding, Jan, Paatero, Ilkka, Mirtti, Tuomas, Ivaska, Johanna, Westermarck, Jukka (December 2022) PP2A methylesterase PME-1 suppresses anoikis and is associated with therapy relapse of PTEN-deficient prostate cancers. Molecular Oncology. ISSN 1574-7891

Abbatemarco, Simona, Bondaz, Alexandra, Schwager, Francoise, Wang, Jing, Hammell, Christopher M, Gotta, Monica (October 2021) PQN-59 and GTBP-1 contribute to stress granule formation but are not essential for their assembly in C. elegans embryos. Journal of Cell Science. ISSN 0021-9533

Abel, Haley J, Larson, David E, Regier, Allison A, Chiang, Colby, Das, Indraniel, Kanchi, Krishna L, Layer, Ryan M, Neale, Benjamin M, Salerno, William J, Reeves, Catherine, Buyske, Steven, NHGRI Centers for Common Disease Genomics, Matise, Tara C, Muzny, Donna M, Zody, Michael C, Lander, Eric S, Dutcher, Susan K, Stitziel, Nathan O, Hall, Ira M (July 2020) Mapping and characterization of structural variation in 17,795 human genomes. Nature, 583 (7814). pp. 83-89. ISSN 0028-0836

Abraham, J., Nasmyth, K. A., Strathern, J. N., Klar, A. J. S., Hicks, J. B. (1984) Regulation of mating-type information in yeast. Negative control requiring sequences both 5′ and 3′ to the regulated region. Journal of Molecular Biology, 176 (3). pp. 307-331. ISSN 00222836 (ISSN)

Abuhashem, Abderhman, Chivu, Alexandra, Zhao, Yixin, Rice, Edward, Siepel, Adam, Danko, Charles, Hadjantonakis, Anna-Katerina (2022) RNA Pol II pausing facilitates phased pluripotency transitions by buffering transcription. bioRxiv. (Submitted)

Abuhashem, Abderhman, Chivu, Alexandra G, Zhao, Yixin, Rice, Edward J, Siepel, Adam, Danko, Charles G, Hadjantonakis, Anna-Katerina (August 2022) RNA Pol II pausing facilitates phased pluripotency transitions by buffering transcription. Genes and Development. ISSN 0890-9369

Abulwerdi, F. A., Xu, W., Ageeli, A. A., Yonkunas, M. J., Arun, G., Nam, H., Schneekloth, J. S., Dayie, T. K., Spector, D., Baird, N., Le Grice, S. F. J. (February 2019) Selective Small-Molecule Targeting of a Triple Helix Encoded by the Long Noncoding RNA, MALAT1. ACS Chemical Biology, 14 (2). pp. 223-235. ISSN 15548929 (ISSN) (Public Dataset)

Adams, M. D., Kelley, J. M., Gocayne, J. D., Dubnick, M., Polymeropoulos, M. H., Xiao, H., Merril, C. R., Wu, A., Olde, B., Moreno, R. F., Kerlavage, A. R., McCombie, W. R., Venter, J. C. (1991) Complementary DNA sequencing: Expressed sequence tags and human genome project. Science, 252 (5013). pp. 1651-1656. ISSN 00368075 (ISSN)

Adams, R. M., Kinney, J. B., Walczak, A. M., Mora, T. (December 2018) Epistasis in a Fitness Landscape Defined by Antibody-Antigen Binding Free Energy. Cell Syst, 8 (1). pp. 86-93. ISSN 2405-4712 (Print)2405-4712

Adrion, JR, Cole, C. B., Dukler, N., Galloway, JG, Gladstein, AL, Gower, G, Kyriazis, CC, Ragsdale, AP, Tsambos, G, Baumdicker, F, Carlson, J., Cartwright, R. A., Durvasula, A, Gronau, I., Kim, BY, McKenzie, P, Messer, PW, Noskova, E, Ortega-Del Vecchyo, D., Racimo, F, Struck, TJ, Gravel, S, Gutenkunst, R. N., Lohmueller, K. E., Ralph, PL, Schrider, D. R., Siepel, A., Kelleher, J. E., Kern, A. D. (June 2020) A Community-Maintained Standard Library of Population Genetic Models. Elife, 9. ISSN 2050-084X (Electronic)2050-084X (Linking)

Adrover, Jose M, McDowell, Sheri AC, He, Xue-Yan, Quail, Daniela F, Egeblad, Mikala (February 2023) NETworking with cancer: The bidirectional interplay between cancer and neutrophil extracellular traps. Cancer Cell. ISSN 1535-6108

Aganezov, S., Goodwin, S., Sherman, R. M., Sedlazeck, F. J., Arun, G., Bhatia, S., Lee, I., Kirsche, M., Wappel, R., Kramer, M., Kostroff, K., Spector, D. L., Timp, W., McCombie, W. R., Schatz, M. C. (September 2020) Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing. Genome Res, 30 (9). pp. 1258-1273. ISSN 1088-9051 (Print)1088-9051

Aganezov, S., Zban, I., Aksenov, V., Alexeev, N., Schatz, M. C. (December 2019) Recovering rearranged cancer chromosomes from karyotype graphs. BMC Bioinformatics, 20 (Suppl). p. 641. ISSN 1471-2105 (Public Dataset)

Aganezov, Sergey, Yan, Stephanie M, Soto, Daniela C, Kirsche, Melanie, Zarate, Samantha, Avdeyev, Pavel, Taylor, Dylan J, Shafin, Kishwar, Shumate, Alaina, Xiao, Chunlin, Wagner, Justin, McDaniel, Jennifer, Olson, Nathan D, Sauria, Michael EG, Vollger, Mitchell R, Rhie, Arang, Meredith, Melissa, Martin, Skylar, Lee, Joyce, Koren, Sergey, Rosenfeld, Jeffrey A, Paten, Benedict, Layer, Ryan, Chin, Chen-Shan, Sedlazeck, Fritz J, Hansen, Nancy F, Miller, Danny E, Phillippy, Adam M, Miga, Karen H, McCoy, Rajiv C, Dennis, Megan Y, Zook, Justin M, Schatz, Michael C (April 2022) A complete reference genome improves analysis of human genetic variation. Science, 376 (6588). eabl3533. ISSN 0036-8075

Aghi, K, Goetz, TG, Pfau, DR, Sun, SD, Guthman, EM, Roepke, TA (January 2024) Using Animal Models for Gender-Affirming Hormone Therapy. Journal of the Endocrine Society, 8 (1). ISSN 2472-1972

Aghi, Krisha, Goetz, Teddy G, Pfau, Daniel R, Sun, Simón ED, Roepke, Troy A, Guthman, Eartha Mae (July 2022) Centering the needs of transgender, non-binary, and gender-diverse populations in neuroendocrine models of gender-affirming hormone therapy. Biological Psychiatry: Cognitive Neuroscience and Neuroimaging. ISSN 2451-9022

Aguirre, A. J., Nowak, J. A., Camarda, N. D., Moffitt, R. A., Ghazani, A. A., Hazar-Rethinam, M., Raghavan, S., Kim, J., Brais, L. K., Ragon, D., Welch, M. W., Reilly, E., McCabe, D., Marini, L., Anderka, K., Helvie, K., Oliver, N., Babic, A., Da Silva, A., Nadres, B., Van Seventer, E. E., Shahzade, H. A., St Pierre, J. P., Burke, K. P., Clancy, T. E., Cleary, J. M., Doyle, L. A., Jajoo, K., McCleary, N. J., Meyerhardt, J. A., Murphy, J. E., Ng, K., Patel, A. K., Perez, K., Rosenthal, M. H., Rubinson, D. A., Ryou, M., Shapiro, G. I., Sicinska, E., Silverman, S. G., Nagy, R. J., Lanman, R. B., Knoerzer, D., Welsch, D. J., Yurgelun, M. B., Fuchs, C. S., Garraway, L. A., Getz, G., Hornick, J. L., Johnson, B. E., Kulke, M. H., Mayer, R. J., Miller, J. W., Shyn, P. B., Tuveson, D. A., Wagle, N., Yeh, J. J., Hahn, W. C., Corcoran, R. B., Carter, S. L., Wolpin, B. M. (June 2018) Real-time genomic characterization of advanced pancreatic cancer to enable precision medicine. Cancer Discov, 8 (9). pp. 1096-1111. ISSN 2159-8274

Aguirre, Lyndsey (March 2023) Dissection of Quantitative Epistasis in Tomato Meristem Development. PhD thesis, Cold Spring Harbor Laboratory.

Aguirre-Chen, C., Stec, N., Ramos, O. M., Kim, N., Kramer, M., McCarthy, S., Gillis, J., McCombie, W. R., Hammell, C. M. (May 2020) A Caenorhabditis elegans Model for Integrating the Functions of Neuropsychiatric Risk Genes Identifies Components Required for Normal Dendritic Morphology. G3: Genes, Genomes, Genetics, 10 (5). pp. 1617-1628. ISSN 21601836

Ahmed, Shehab S, Rifat, Zaara T, Lohia, Ruchi, Campbell, Arthur J, Dunker, A Keith, Rahman, M Sohel, Iqbal, Sumaiya (March 2022) Characterization of intrinsically disordered regions in proteins informed by human genetic diversity. PLoS Computational Biology, 18 (3). e1009911. ISSN 1553-734X

Ahola, H., Stenlund, A., Moreno-Lopez, J., Pettersson, U. (July 1987) Promoters and processing sites within the transforming region of bovine papillomavirus type 1. J Virol, 61 (7). pp. 2240-4. ISSN 0022-538X (Print)0022-538X (Linking)

Ahola, H., Stenlund, A., Moreno-Lopez, J., Pettersson, U. (May 1983) Sequences of bovine papillomavirus type 1 DNA--functional and evolutionary implications. Nucleic Acids Res, 11 (9). pp. 2639-50. ISSN 0305-1048 (Print)0305-1048 (Linking)

Ajiro, Masahiko, Awaya, Tomonari, Kim, Young Jin, Iida, Kei, Denawa, Masatsugu, Tanaka, Nobuo, Kurosawa, Ryo, Matsushima, Shingo, Shibata, Saiko, Sakamoto, Tetsunori, Studer, Rolenz, Krainer, Adrian R, Hagiwara, Masatoshi (July 2021) Therapeutic manipulation of IKBKAP mis-splicing with a small molecule to cure familial dysautonomia. Nature Communications, 12 (1). p. 4507. ISSN 2041-1723

Aksoy, O., Chicas, A., Zeng, T., Zhao, Z., McCurrach, M., Wang, X., Lowe, S. W. (July 2012) The atypical E2F family member E2F7 couples the p53 and RB pathways during cellular senescence. Genes Dev, 26 (14). pp. 1546-57. ISSN 1549-5477 (Electronic)0890-9369 (Linking)

Albeanu, D. F., Provost, A. C., Agarwal, P., Soucy, E. R., Zak, J. D., Murthy, V. N. (November 2018) Olfactory marker protein (OMP) regulates formation and refinement of the olfactory glomerular map. Nat Commun, 9 (1). p. 5073. ISSN 2041-1723

Alexander, Katherine A, Coté, Allison, Nguyen, Son C, Zhang, Liguo, Gholamalamdari, Omid, Agudelo-Garcia, Paula, Lin-Shiao, Enrique, Tanim, KMA, Lim, Joan, Biddle, Nicolas, Dunagin, Margaret C, Good, Charly R, Mendoza, Mariel R, Little, Shawn C, Belmont, Andrew, Joyce, Eric F, Raj, Arjun, Berger, Shelley L (April 2021) p53 mediates target gene association with nuclear speckles for amplified RNA expression. Molecular Cell, 81 (8). 1666-1681.e6. ISSN 1097-2765

Alexander, Katherine A, García-García, María J (January 2019) Imprinted gene expression at the Dlk1-Dio3 cluster is controlled by both maternal and paternal IG-DMRs in a tissue-specific fashion. bioRxiv. (Submitted)

Alexander, Katherine A, Wang, Xu, Shibata, Maho, Clark, Andrew G, García-García, María J (November 2015) TRIM28 Controls Genomic Imprinting through Distinct Mechanisms during and after Early Genome-wide Reprogramming. Cell Reports, 13 (6). pp. 1194-1205. ISSN 2211-1247

Almagro, S., Riveline, D., Hirano, T., Houchmandzadeh, B., Dimitrov, S. (February 2004) The mitotic chromosome is an assembly of rigid elastic axes organized by structural maintenance of chromosomes (SMC) proteins and surrounded by a soft chromatin envelope. Journal of Biological Chemistry, 279 (7). pp. 5118-5126. ISSN 0021-9258

Alonge, M., Wang, X., Benoit, M., Soyk, S., Pereira, L., Zhang, L., Suresh, H., Ramakrishnan, S., Maumus, F., Ciren, D., Levy, Y., Harel, T. H., Shalev-Schlosser, G., Amsellem, Z., Razifard, H., Caicedo, A. L., Tieman, D. M., Klee, H., Kirsche, M., Aganezov, S., Ranallo-Benavidez, T. R., Lemmon, Z. H., Kim, J., Robitaille, G., Kramer, M., Goodwin, S., McCombie, W. R., Hutton, S., Van Eck, J., Gillis, J., Eshed, Y., Sedlazeck, F. J., van der Knaap, E., Schatz, M. C., Lippman, Z. B. (July 2020) Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato. Cell, 182 (1). 145-161.e23. ISSN 0092-8674 (Print)0092-8674

Alpsoy, Aktan, Wu, Xiaoli S, Pal, Sujay, Klingbeil, Olaf, Kumar, Pramod, El Demerdash, Osama, Nalbant, Benan, Vakoc, Christopher R (January 2024) IκBζ is a dual-use coactivator of NF-κB and POU transcription factors. Molecular Cell. S1097-2765(24)00008. ISSN 1097-2765 (Public Dataset)

Alves, Cristiane S, Nogueira, Fabio TS (June 2021) Plant Small RNA World Growing Bigger: tRNA-Derived Fragments, Longstanding Players in Regulatory Processes. Frontiers in Molecular Biosciences, 8. ISSN 2296-889X

Amaral, Paulo, Carbonell-Sala, Silvia, De La Vega, Francisco M, Faial, Tiago, Frankish, Adam, Gingeras, Thomas, Guigo, Roderic, Harrow, Jennifer L, Hatzigeorgiou, Artemis G, Johnson, Rory, Murphy, Terence D, Pertea, Mihaela, Pruitt, Kim D, Pujar, Shashikant, Takahashi, Hazuki, Ulitsky, Igor, Varabyou, Ales, Wells, Christine A, Yandell, Mark, Carninci, Piero, Salzberg, Steven L (October 2023) The status of the human gene catalogue. Nature, 622 (7981). pp. 41-47. ISSN 0028-0836

Amaral, Paulo, Carbonell-Sala, Silvia, De La Vega, Francisco M, Faial, Tiago, Frankish, Adam, Gingeras, Thomas, Guigo, Roderic, Harrow, Jennifer L, Hatzigeorgiou, Artemis G, Johnson, Rory, Murphy, Terence D, Pertea, Mihaela, Pruitt, Kim D, Pujar, Shashikant, Takahashi, Hazuki, Ulitsky, Igor, Varabyou, Ales, Wells, Christine A, Yandell, Mark, Carninci, Piero, Salzberg, Steven L (March 2023) The status of the human gene catalogue. (Submitted)

Amero, S. A., Raychaudhuri, G., Cass, C. L., Vanvenrooij, W. J., Habets, W. J., Krainer, A. R., Beyer, A. L. (September 1992) Independent deposition of heterogeneous nuclear ribonucleoproteins and small nuclear ribonucleoprotein particles at sites of transcription. Proceedings of the National Academy of Sciences of the United States of America, 89 (18). pp. 8409-8413. ISSN 0027-8424

Anaparthy, N., Ho, Y. J., Martelotto, L., Hammell, M., Hicks, J. (January 2019) Single-Cell Applications of Next-Generation Sequencing. Cold Spring Harb Perspect Med, 9 (10). ISSN 2157-1422

Andersen, J. N., Jansen, P. G., Echwald, S. M., Mortensen, O. H., Fukada, T., Del Vecchio, R., Tonks, N. K., Moller, N. P. (January 2004) A genomic perspective on protein tyrosine phosphatases: gene structure, pseudogenes, and genetic disease linkage. FASEB J, 18 (1). pp. 8-30. ISSN 1530-6860 (Electronic)

Andersen, J. N., Tonks, N. K. (2004) Protein tyrosine phosphatase-based therapeutics- lessons from PTP1B. In: Protein phosphatases. Topics in current genetics, 5 . Springer-Verlag, Berlin, pp. 201-230. ISBN 3540205608

Ando, Y., Elkayam, E., McPherson, R. L., Dasovich, M., Cheng, S. J., Voorneveld, J., Filippov, D. V., Ong, S. E., Joshua-Tor, L., Leung, A. K. L. (January 2019) ELTA: Enzymatic Labeling of Terminal ADP-Ribose. Mol Cell, 73 (4). 845-856 e5. ISSN 1097-2765

Andresen, B. S., Nielsen, K. B., Madsen, P. P., Corydon, T. J., Kjems, J., Krainer, A. R., Elpeleg, O. N., Schroeder, L. D., Gregersen, N. (October 2002) Simple mutations in the coding region of three acyl-CoA dehydrogenase genes may lead to skipping of the constitutive exon due to disruption of potential splice enhancer sequences or mRNA secondary structures. American Journal of Human Genetics, 71 (4). p. 196. ISSN 0002-9297

Antonyak, M. A., Lukey, M. J., Cerione, R. A. (March 2019) Lipid-filled vesicles modulate macrophages. Science, 363 (6430). pp. 931-932. ISSN 1095-9203

Arakawa, S., Gocayne, J. D., McCombie, W. R., Urquhart, D. A., Hall, L. M., Fraser, C. M., Venter, J. C. (1990) Cloning, localization, and permanent expression of a Drosophila octopamine receptor. Neuron, 4 (3). pp. 343-354. ISSN 08966273 (ISSN)

Aras, R. A., Fischer, W., Perez-Perez, G. I., Crosatti, M., Ando, T., Haas, R., Blaser, M. J. (November 2003) Plasticity of repetitive DNA sequences within a bacterial (type IV) secretion system component. Journal of Experimental Medicine, 198 (9). pp. 1349-1360. ISSN 0022-1007

Aras, R. A., Kang, J., Tschumi, A. I., Harasaki, Y., Blaser, M. J. (November 2003) Extensive repetitive DNA facilitates prokaryotic genome plasticity. Proceedings of the National Academy of Sciences of the United States of America, 100 (23). pp. 13579-13584. ISSN 0027-8424

Aras, R. A., Small, A. J., Ando, T., Blaser, M. J. (December 2002) Helicobacter pylori interstrain restriction-modification diversity prevents genome subversion by chromosomal DNA from competing strains. Nucleic Acids Research, 30 (24). pp. 5391-5397. ISSN 0305-1048

Aravin, A. A., Bourc'his, D. (April 2008) Small RNA guides for de novo DNA methylation in mammalian germ cells. Genes Dev, 22 (8). pp. 970-5.

Aravin, A. A., Sachidanandam, R., Bourc'his, D., Schaefer, C., Pezic, D., Toth, K. F., Bestor, T., Hannon, G. J. (2008) A piRNA Pathway Primed by Individual Transposons Is Linked to De Novo DNA Methylation in Mice. Molecular Cell, 31 (6). pp. 785-799. ISSN 10972765 (ISSN)

Aravin, A. A., van der Heijden, G. W., Castaneda, J., Vagin, V. V., Hannon, G. J., Bortvin, A. (December 2009) Cytoplasmic Compartmentalization of the Fetal piRNA Pathway in Mice. Plos Genetics, 5 (12). e1000764. ISSN 1553-7390

Arbour, KC, Manchado, E, Bott, MJ, Ahn, L, Tobi, Y, Ni, AA, Yu, HA, Shannon, A, Ladanyi, M, Perron, V, Ginsberg, MS, Johnson, A, Holodny, A, Kris, MG, Rudin, CM, Lito, P, Rosen, N, Lowe, S, Riely, GJ (January 2022) Phase 1 Clinical Trial of Trametinib and Ponatinib in Patients With NSCLC Harboring KRAS Mutations. JTO Clinical and Research Reports, 3 (1). p. 100256. ISSN 2666-3643 (In Press)

Arrazola, M. S., Saquel, C., Catalan, R. J., Barrientos, S. A., Hernandez, D. E., Catenaccio, A., Court, F. A. (May 2019) Axonal degeneration is mediated by necroptosis activation Necroptosis mediates axonal degeneration. J Neurosci, 39 (20). pp. 3832-2844. ISSN 0270-6474

Artz, Oliver, Ackermann, Amanda, Taylor, Laura, Koo, Peter K, Pedmale, Ullas V (January 2023) Light and temperature regulate m6A-RNA modification to regulate growth in plants. bioRxiv. (Submitted)

Arun, G., Akhade, V. S., Donakonda, S., Rao, M. R. S. (2012) Mrhl rna, a long noncoding rna, negatively regulates wnt signaling through its protein partner ddx5/p68 in mouse spermatogonial cells. Molecular and Cellular Biology, 32 (15). pp. 3140-3152. ISSN 02707306

Arun, G., Diermeier, S. D., Spector, D. L. (February 2018) Therapeutic Targeting of Long Non-Coding RNAs in Cancer. Trends Mol Med, 24 (3). pp. 257-277. ISSN 1471-4914

Asiimwe, Rebecca, Alexander, Dobin (February 2024) STAR+WASP reduces reference bias in the allele-specific mapping of RNA-seq reads. bioRxiv. (Submitted)

Asp, M., Giacomello, S., Larsson, L., Wu, C., Furth, D., Qian, X., Wardell, E., Custodio, J., Reimegard, J., Salmen, F., Osterholm, C., Stahl, P. L., Sundstrom, E., Akesson, E., Bergmann, O., Bienko, M., Mansson-Broberg, A., Nilsson, M., Sylven, C., Lundeberg, J. (December 2019) A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart. Cell, 179 (7). 1647-1660.e19. ISSN 0092-8674

Atwal, G. S. (November 2012) Talk from Mickey Atwal at the Cold Spring Harbor Laboratory In-House Symposium (2012). [Video] (Unpublished)

Atwal, G. S., Kirchhoff, T., Bond, E. E., Montagna, M., Menin, C., Bertorelle, R., Scaini, M. C., Bartel, F., Böhnke, A., Pempe, C., Gradhand, E., Hauptmann, S., Offit, K., Levine, A. J., Bond, G. L. (June 2009) Altered tumor formation and evolutionary selection of genetic variants in the human MDM4 oncogene. Proc Natl Acad Sci U S A, 106 (25). pp. 10236-10241. ISSN 1091-6490 (Electronic)0027-8424 (Linking)

Aubert, Juliette, Bellegarde, Fanny, Oltehua-Lopez, Omar, Leblanc, Olivier, Arteaga-Vazquez, Mario A, Martienssen, Robert A, Grimanelli, Daniel (August 2022) AGO104 is a RdDM effector of paramutation at the maize b1 locus. PLoS One, 17 (8). e0273695-e0273695. ISSN 1932-6203 (Public Dataset)

Austad, S., Campisi, J., Sinclair, D. (September 2010) MOLECULAR GENETICS OF AGING. In: 2010 Meeting of Molecular Genetics of Aging, September 28–October 2, 2010, Cold Spring Harbor.

Michael Wigler (1987) Processes for inserting DNA into eucaryotic cells and for producing proteinaceous materials. United States Patent 4634665. .

Ayoub, N., Noma, K., Isaac, S., Kahan, T., Grewal, S. I. S., Cohen, A. (June 2003) A novel jmjC domain protein modulates heterochromatization in fission yeast. Molecular and Cellular Biology, 23 (12). pp. 4356-4370. ISSN 0270-7306

Azevedo, H., Ferreira, M., Mascarello, A., Osten, P., Werneck Guimaraes, C. R. (December 2019) The serotonergic and alpha-1 adrenergic receptor modulator ACH-000029 ameliorates anxiety-like behavior in a post-traumatic stress disorder model. Neuropharmacology, 164. p. 107912. ISSN 0028-3908

Aznarez, Isabel, Nomakuchi, Tomoki T., Tetenbaum-Novatt, Jaclyn, Rahman, Mohammad Alinoor, Fregoso, Oliver, Rees, Holly, Krainer, Adrian R. (May 2018) Mechanism of Nonsense-Mediated mRNA Decay Stimulation by Splicing Factor SRSF1. Cell Reports, 23 (7). pp. 2186-2198. ISSN 2211-1247

B

BRAIN Initiative Cell Census Network (BICCN) (October 2021) A multimodal cell census and atlas of the mammalian primary motor cortex. Nature, 598 (7879). pp. 86-102. ISSN 0028-0836

Bagchi, A., Mills, A. A. (April 2008) The quest for the 1p36 tumor suppressor. Cancer Res, 68 (8). pp. 2551-6.

Bakin, A. V., Safina, A., Rinehart, C., Daroqui, C., Darbary, H., Helfman, D. M. (October 2004) A critical role of tropomyosins in TGF-beta regulation of the actin cytoskeleton and cell motility in epithelial cells. Molecular Biology of the Cell, 15 (10). pp. 4682-4694. ISSN 1059-1524

Bakken, Trygve E, Jorstad, Nikolas L, Hu, Qiwen, Lake, Blue B, Tian, Wei, Kalmbach, Brian E, Crow, Megan, Hodge, Rebecca D, Krienen, Fenna M, Sorensen, Staci A, Eggermont, Jeroen, Yao, Zizhen, Aevermann, Brian D, Aldridge, Andrew I, Bartlett, Anna, Bertagnolli, Darren, Casper, Tamara, Castanon, Rosa G, Crichton, Kirsten, Daigle, Tanya L, Dalley, Rachel, Dee, Nick, Dembrow, Nikolai, Diep, Dinh, Ding, Song-Lin, Dong, Weixiu, Fang, Rongxin, Fischer, Stephan, Goldman, Melissa, Goldy, Jeff, Graybuck, Lucas T, Herb, Brian R, Hou, Xiaomeng, Kancherla, Jayaram, Kroll, Matthew, Lathia, Kanan, van Lew, Baldur, Li, Yang Eric, Liu, Christine S, Liu, Hanqing, Lucero, Jacinta D, Mahurkar, Anup, McMillen, Delissa, Miller, Jeremy A, Moussa, Marmar, Nery, Joseph R, Nicovich, Philip R, Niu, Sheng-Yong, Orvis, Joshua, Osteen, Julia K, Owen, Scott, Palmer, Carter R, Pham, Thanh, Plongthongkum, Nongluk, Poirion, Olivier, Reed, Nora M, Rimorin, Christine, Rivkin, Angeline, Romanow, William J, Sedeño-Cortés, Adriana E, Siletti, Kimberly, Somasundaram, Saroja, Sulc, Josef, Tieu, Michael, Torkelson, Amy, Tung, Herman, Wang, Xinxin, Xie, Fangming, Yanny, Anna Marie, Zhang, Renee, Ament, Seth A, Behrens, M Margarita, Bravo, Hector Corrada, Chun, Jerold, Dobin, Alexander, Gillis, Jesse, Hertzano, Ronna, Hof, Patrick R, Höllt, Thomas, Horwitz, Gregory D, Keene, C Dirk, Kharchenko, Peter V, Ko, Andrew L, Lelieveldt, Boudewijn P, Luo, Chongyuan, Mukamel, Eran A, Pinto-Duarte, António, Preissl, Sebastian, Regev, Aviv, Ren, Bing, Scheuermann, Richard H, Smith, Kimberly, Spain, William J, White, Owen R, Koch, Christof, Hawrylycz, Michael, Tasic, Bosiljka, Macosko, Evan Z, McCarroll, Steven A, Ting, Jonathan T, Zeng, Hongkui, Zhang, Kun, Feng, Guoping, Ecker, Joseph R, Linnarsson, Sten, Lein, Ed S (October 2021) Comparative cellular analysis of motor cortex in human, marmoset and mouse. Nature, 598 (7879). pp. 111-119. ISSN 0028-0836

Balasooriya, Gayan I, Wee, Tse-Luen, Spector, David L (October 2023) A sub-set of guanine- and cytosine-rich genes are actively transcribed at the nuclear Lamin B1 region. bioRxiv. (Public Dataset) (Submitted)

Balasooriya, Gayan I, Spector, David L (October 2022) Allele-specific differential regulation of monoallelically expressed autosomal genes in the cardiac lineage. Nature Communications, 13 (1). p. 5984. ISSN 2041-1723

Balinth, Seamus, Fisher, Matthew L, Hwangbo, Yon, Wu, Caizhi, Ballon, Carlos, Sun, Xueqin, Mills, Alea A (July 2022) EZH2 regulates a SETDB1/ΔNp63α axis via RUNX3 to drive a cancer stem cell phenotype in squamous cell carcinoma. Oncogene. ISSN 0950-9232 (Public Dataset)

Ballouz, Sara, Kawaguchi, Risa Karakida, Pena, Maria T, Fischer, Stephan, Crow, Megan, French, Leon, Knight, Frank M, Adams, Linda B, Gillis, Jesse (November 2023) The transcriptional legacy of developmental stochasticity. Nature Communications, 14 (1). p. 7226. ISSN 2041-1723 (Public Dataset)

Ballouz, S., Dobin, A., Gillis, J. A. (August 2019) Is it time to change the reference genome? Genome Biol, 20 (1). ISSN 1474-7596

Balogun, Onyinye, Davis, Melissa, Mehallow, Michelle, Robine, Nicolas, Winterkorn, Lara, Oschwald, Dayna, Zody, Michael, Aparicio, Samuel, Maniatis, Tom, Varmus, Harold, Sawyers, Charles, Tuveson, David (2023) Polyethnic-1000: A New York-based initiative to advance cancer genomics through recruitment of diverse racial & ethnic populations. In: AACR Conference on the Science of Cancer Health Disparities in Racial/Ethnic Minorities and the Medically Underserved.

Banerjee, N., Zhang, M. Q. (December 2003) Identifying cooperativity among transcription factors controlling the cell cycle in yeast. Nucleic Acids Research, 31 (23). pp. 7024-7031. ISSN 0305-1048

Banito, Ana, Li, Xiang, Laporte, Aimée N., Roe, Jae-Seok, Sanchez-Vega, Francisco, Huang, Chun-Hao, Dancsok, Amanda R., Hatzi, Katerina, Chen, Chi-Chao, Tschaharganeh, Darjus F., Chandwani, Rohit, Tasdemir, Nilgun, Jones, Kevin B., Capecchi, Mario R., Vakoc, Christopher R., Schultz, Nikolaus, Ladanyi, Marc, Nielsen, Torsten O., Lowe, Scott W. (March 2018) The SS18-SSX Oncoprotein Hijacks KDM2B-PRC1.1 to Drive Synovial Sarcoma. Cancer Cell, 33 (3). pp. 527-541. ISSN 1535-6108

Barberis, D., Casazza, A., Sordella, R., Corso, S., Artigiani, S., Settleman, J., Comoglio, P. M., Tamagnone, L. (October 2005) p190 Rho-GTPase activating protein associates with plexins and it is required for semaphorin signalling. Journal of Cell Science, 118 (Pt 20). pp. 4689-700. ISSN 0021-9533

Bardot, E. S., Valdes, V. J., Zhang, J., Perdigoto, C. N., Nicolis, S., Hearn, S. A., Silva, J. M., Ezhkova, E. (May 2013) Polycomb subunits Ezh1 and Ezh2 regulate the Merkel cell differentiation program in skin stem cells. Embo Journal, 32 (14). pp. 1990-2000. ISSN 02614189

Barkan, A., Martienssen, R. A. (April 1991) Inactivation of maize transposon Mu suppresses a mutant phenotype by activating an outward-reading promoter near the end of Mu1. Proceedings of the National Academy of Sciences of the United States of America, 88 (8). pp. 3502-3506. ISSN 0027-8424

Barnes, S. L., Belliveau, N. M., Ireland, W. T., Kinney, J. B., Phillips, R. (February 2019) Mapping DNA sequence to transcription factor binding energy in vivo. PLoS Comput Biol, 15 (2). e1006226. ISSN 1553-734x

Barnes, Allison C, Rodríguez-Zapata, Fausto, Juárez-Núñez, Karla A, Gates, Daniel J, Janzen, Garrett M, Kur, Andi, Wang, Li, Jensen, Sarah E, Estévez-Palmas, Juan M, Crow, Taylor M, Kavi, Heli S, Pil, Hannah D, Stokes, Ruthie L, Knizner, Kevan T, Aguilar-Rangel, Maria R, Demesa-Arévalo, Edgar, Skopelitis, Tara, Pérez-Limón, Sergio, Stutts, Whitney L, Thompson, Peter, Chiu, Yu-Chun, Jackson, David, Muddiman, David C, Fiehn, Oliver, Runcie, Daniel, Buckler, Edward S, Ross-Ibarra, Jeffrey, Hufford, Matthew B, Sawers, Ruairidh JH, Rellán-Álvarez, Rubén (July 2022) An adaptive teosinte mexicana introgression modulates phosphatidylcholine levels and is associated with maize flowering time. Proceedings of the National Academy of Sciences of USA, 119 (27). e2100036119. ISSN 0027-8424

Barnhart, Michael D, Yang, Yi, Nakagaki-Silva, Erick E, Hammond, Thomas H, Pizzinga, Mariavittoria, Gooding, Clare, Stott, Katherine, Smith, Christopher WJ (November 2022) Phosphorylation of the smooth muscle master splicing regulator RBPMS regulates its splicing activity. Nucleic Acids Research, 50 (20). pp. 11895-11915. ISSN 0305-1048

Barriga, Francisco M, Tsanov, Kaloyan M, Ho, Yu-Jui, Sohail, Noor, Zhang, Amy, Baslan, Timour, Wuest, Alexandra N, Del Priore, Isabella, Meškauskaitė, Brigita, Livshits, Geulah, Alonso-Curbelo, Direna, Simon, Janelle, Chaves-Perez, Almudena, Bar-Sagi, Dafna, Iacobuzio-Donahue, Christine A, Notta, Faiyaz, Chaligne, Ronan, Sharma, Roshan, Pe'er, Dana, Lowe, Scott W (November 2022) MACHETE identifies interferon-encompassing chromosome 9p21.3 deletions as mediators of immune evasion and metastasis. Nature Cancer, 3 (11). pp. 1367-1385. ISSN 2662-1347

Baslan, T., Kendall, J. T., Rodgers, L., Cox, H., Riggs, M., Stepansky, A., Troge, J. E., Ravi, K., Esposito, D., Lakshmi, B., Wigler, M., Navin, N. E., Hicks, J. B. (May 2012) Genome-wide copy number analysis of single cells. Nat Protoc, 7 (6). pp. 1024-41. ISSN 1750-2799 (Electronic)1750-2799 (Linking)

Baslan, Timour, Kovaka, Sam, Sedlazeck, Fritz J, Zhang, Yanming, Wappel, Robert, Tian, Sha, Lowe, Scott W, Goodwin, Sara, Schatz, Michael C (September 2021) High resolution copy number inference in cancer using short-molecule nanopore sequencing. Nucleic Acids Research. ISSN 0305-1048

Bastow, R., Mylne, J. S., Lister, C., Lippman, Z., Martienssen, R. A., Dean, C. (January 2004) Vernalization requires epigenetic silencing of FLC by histone methylation. Nature, 427 (6970). pp. 164-7. ISSN 1476-4687 (Electronic)0028-0836 (Linking)

Bateson, William (1907) The progress of genetics. An inaugural address to the third conference on Hybridization and Plant-breeding. In: Third International Conference on Genetics Report.

Batut, P. J., Dobin, A., Plessy, C., Carninci, P., Gingeras, T. R. (2013) High-fidelity promoter profiling reveals widespread alternative promoter usage and transposon-driven developmental gene expression. Genome Res, 23 (1). pp. 169-180. ISSN 1549-5469 (Electronic)1088-9051 (Linking)

Baum, Alina, Fulton, Benjamin O, Wloga, Elzbieta, Copin, Richard, Pascal, Kristen E, Russo, Vincenzo, Giordano, Stephanie, Lanza, Kathryn, Negron, Nicole, Ni, Min, Wei, Yi, Atwal, Gurinder S, Murphy, Andrew J, Stahl, Neil, Yancopoulos, George D, Kyratsous, Christos A (August 2020) Antibody cocktail to SARS-CoV-2 spike protein prevents rapid mutational escape seen with individual antibodies. Science, 369 (6506). pp. 1014-1018. ISSN 0036-8075

Baumann, U., Targosz, B. S., Lemeer, S., Nikolova, V., Kratzat, S., Fernandez-Saiz, V., Reiter, C., Rudelius, M., Miething, C., Kuster, B., Peschel, C., Keller, U., Bassermann, F. (September 2011) SCF(Fbxo25) suppresses B cell lymphomagenesis by targeting Hax-1 for ubiquitin mediated proteasomal degradation. Onkologie, 34. p. 190. ISSN 0378-584X

Bayer, M., Nawy, T., Giglione, C., Galli, M., Meinnel, T., Lukowitz, W. (March 2009) Paternal Control of Embryonic Patterning in Arabidopsis thaliana. Science, 323 (5920). pp. 1485-1488. ISSN 0036-8075

Bazett-Jones, D. P., Kimura, K., Hirano, T. (June 2002) Efficient supercoiling of DNA by a single condensin complex as revealed by electron spectroscopic imaging. Molecular Cell, 9 (6). pp. 1183-1190. ISSN 1097-2765

Beach, D. (1992) Genetic Dissection of Cell Cycle Dependency. Harvey Lectures, 86. pp. 19-31. ISSN 0073-0874

Beach, D. (1990) Genetic dissection of cell cycle dependency. Harvey Lect, 86. pp. 19-31. ISSN 0073-0874 (Print)0073-0874 (Linking)

Beausejour, C. M., Krtolica, A., Galimi, F., Narita, M., Lowe, S. W., Yaswen, P., Campisi, J. (August 2003) Reversal of human cellular senescence: roles of the p53 and p16 pathways. Embo Journal, 22 (16). pp. 4212-4222. ISSN 0261-4189

Bell, S. P., Marahrens, Y., Rao, H., Stillman, B. (1993) The replicon model and eukaryotic chromosomes. Cold Spring Harbor Symposia on Quantitative Biology, 58. pp. 435-442. ISSN 00917451 (ISSN)

Belleau, Pascal, Deschênes, Astrid, Chambwe, Nyasha, Tuveson, David A, Krasnitz, Alexander (December 2022) Genetic ancestry inference from cancer-derived molecular data across genomic and transcriptomic platforms. Cancer Research. CAN-22. ISSN 0008-5472

Belliveau, N. M., Barnes, S. L., Ireland, W. T., Jones, D. L., Sweredoski, M. J., Moradian, A., Hess, S., Kinney, J. B., Phillips, R. (May 2018) Systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria. Proc Natl Acad Sci U S A, 115 (21). E4796-e4805. ISSN 0027-8424

Bemer, M., Wolters-Arts, M., Grossniklaus, U., Angenent, G. C. (August 2008) The MADS Domain Protein DIANA Acts Together with AGAMOUS-LIKE80 to Specify the Central Cell in Arabidopsis Ovules. Plant Cell, 20 (8). pp. 2088-2101.

Ben-Hur, V., Denichenko, P., Siegfried, Z., Maimon, A., Krainer, A., Davidson, B., Karni, R. (January 2013) S6K1 Alternative Splicing Modulates Its Oncogenic Activity and Regulates mTORC1. Cell Reports, 3 (1). pp. 103-115. ISSN 22111247

Bender, H. S., Murchison, E. P., Pickett, H. A., Deakin, J. E., Strong, M. A., Conlan, C., McMillan, D. A., Neumann, A. A., Greider, C. W., Hannon, G. J., Reddel, R. R., Graves, J. A. M. (2012) Extreme Telomere Length Dimorphism in the Tasmanian Devil and Related Marsupials Suggests Parental Control of Telomere Length. PLoS One, 7 (9). ISSN 19326203 (ISSN)

Benetti, R., Gonzalo, S., Jaco, I., Munoz, P., Gonzalez, S., Schoeftner, S., Murchison, E. P., Andl, T., Chen, T. P., Klatt, P., Li, E., Serrano, M., Millar, S., Hannon, G. J., Blasco, M. A. (March 2008) A mammalian microRNA cluster controls DNA methylation and telomere recombination via Rbl2-dependent regulation of DNA methyltransferases. Nature Structural & Molecular Biology, 15 (3). pp. 268-279. ISSN 1545-998515459993 (ISSN)

Benita, Y., Kikuchi, H., Smith, A. D., Zhang, M. Q., Chung, D. C., Xavier, R. J. (August 2009) An integrative genomics approach identifies Hypoxia Inducible Factor-1 (HIF-1)-target genes that form the core response to hypoxia. Nucleic Acids Res, 37 (14). 4587–4602.

Benitez, Asiel A, Khalil-Agüero, Sara, Nandakumar, Anjali, Gupta, Namita T, Zhang, Wen, Atwal, Gurinder S, Murphy, Andrew J, Sleeman, Matthew A, Haxhinasto, Sokol (July 2020) Absence of central tolerance in Aire-deficient mice synergizes with immune-checkpoint inhibition to enhance antitumor responses. Communications Biology, 3 (1). p. 355. ISSN 2399-3642

Bennett, C. F., Krainer, A. R., Cleveland, D. W. (July 2019) Antisense Oligonucleotide Therapies for Neurodegenerative Diseases. Annu Rev Neurosci, 42. pp. 385-406. ISSN 0147-006x

Benoit, M. (August 2020) The Great Escape: How a Plant DNA Virus Hijacks an Imprinted Host Gene to Avoid Silencing. Plant Cell, 32 (10). pp. 3051-3052. ISSN 1040-4651

Benoit, Matthias (January 2022) Four to the floor: Active DNA demethylation defines somatic epigenetic patterns and impacts quantitative traits. The Plant cell. ISSN 1532-298X

Benoit, Matthias (January 2022) Hot 'n cold: Applying the cis-regulatory code to predict heat and cold stress response in maize. The Plant cell, 34 (1). pp. 497-498. ISSN 1532-298X

Benoit, Matthias (December 2020) Slice and Dice: DCL2 Mediates the Production of 22-Nucleotide siRNAs that Influence Trait Variation in Soybean. The Plant Cell, 32 (12). pp. 3646-3647. ISSN 1040-4651

Benoit, Matthias, Drost, Hajk-Georg (April 2021) A Predictive Approach to Infer the Activity and Natural Variation of Retrotransposon Families in Plants. Methods in Molecular Biology, 2250. pp. 1-14. ISSN 1064-3745

Berenstein, D., Olesen, K., Speck, C., Skovgaard, O. (May 2002) Genetic organization of the Vibrio harveyi dnaA gene region and analysis of the function of the V-harveyi DnaA protein in Escherichia coli. Journal of Bacteriology, 184 (9). 2533-+. ISSN 0021-9193

Berg, L., Lusky, M., Stenlund, A., Botchan, M. R. (August 1986) Repression of bovine papilloma virus replication is mediated by a virally encoded trans-acting factor. Cell, 46 (5). pp. 753-62. ISSN 0092-8674 (Print)0092-8674 (Linking)

Bergmann, J. H., Jakubsche, J. N., Martins, N. M., Kagansky, A., Nakano, M., Kimura, H., Kelly, D. A., Turner, B. M., Masumoto, H., Larionov, V., Earnshaw, W. C. (January 2012) Epigenetic engineering: Histone H3K9 acetylation is compatible with kinetochore structure and function. Journal of Cell Science, 125 (2). pp. 411-421. ISSN 00219533 (ISSN)

Bergmann, J. H., Martins, N. M. C., Larionov, V., Masumoto, H., Earnshaw, W. C. (July 2012) HACking the centromere chromatin code: Insights from human artificial chromosomes. Chromosome Research, 20 (5). pp. 505-519.

Bergmann, Jan H., Spector, David L. (February 2014) Long non-coding RNAs: modulators of nuclear structure and function. Current Opinion in Cell Biology, 26. pp. 10-18. ISSN 0955-0674

Bernstein, E., Caudy, A. A., Hammond, S. M., Hannon, G. J. (2001) Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature, 409 (6818). pp. 363-366. ISSN 00280836 (ISSN)

Bernstein, E., Denli, A. M., Hannon, G. J. (2001) The rest is silence. RNA, 7 (11). pp. 1509-1521. ISSN 13558382 (ISSN)

Bernstein, E., Kim, S. Y., Carmell, M. A., Murchison, E. P., Alcorn, H., Li, M. Z., Mills, A. A., Elledge, S. J., Anderson, K. V., Hannon, G. J. (2003) Dicer is essential for mouse development. Nature Genetics, 35 (3). pp. 215-217. ISSN 10614036 (ISSN)

Berube, Benjamin (August 2021) Epigenetic Control of Meiotic Recombination and Drive. PhD thesis, Cold Spring Harbor Laboratory.

Berube, Benjamin, Ernst, Evan, Cahn, Jonathan, Roche, Benjamin, de Santis Alves, Cristiane, Lynn, Jason, Scheben, Armin, Grimanelli, Daniel, Siepel, Adam, Ross-Ibarra, Jeffrey, Kermicle, Jerry, Martienssen, Robert A (August 2024) Teosinte Pollen Drive guides maize diversification and domestication by RNAi. Nature. ISSN 0028-0836 (Public Dataset)

Bestman, J. E., Cline, H. T. (December 2008) The RNA binding protein CPEB regulates dendrite morphogenesis and neuronal circuit assembly in vivo. Proc Natl Acad Sci U S A, 105 (51). 20494-20499 .

Beukema, P., Cecil, K. L., Peterson, E., Mann, V. R., Matsushita, M., Takashima, Y., Navlakha, S., Barth, A. L. (June 2018) TrpM8-mediated somatosensation in mouse neocortex. J Comp Neurol, 526 (9). pp. 1444-1456. ISSN 0021-9967

Bevan, M., Bancroft, I., Mewes, H. W., Martienssen, R., McCombie, R. (1999) Clearing a path through the jungle: Progress in Arabidopsis genomics. Bioessays, 21 (2). pp. 110-120. ISSN 02659247 (ISSN)

Bevan, M., Bennetzen, J. L., Martienssen, R. (April 1998) Genome studies and molecular evolution commonalities, contrasts, continuity and change in plant genomes. Current Opinion in Plant Biology, 1 (2). pp. 101-102. ISSN 1369-5266

Beyaz, Semir, Mana, Miyeko D, Yilmaz, Ömer H (April 2021) High-fat diet activates a PPAR-δ program to enhance intestinal stem cell function. Cell Stem Cell, 28 (4). pp. 598-599. ISSN 1934-5909

Bhagwat, A. S., Lu, B., Vakoc, C. R. (April 2018) Enhancer dysfunction in leukemia. Blood, 131 (16). pp. 1795-1804. ISSN 0006-4971

Bhaloo, Shirin, Gazzo, Andrea, Paula, Arnaud Da Cruz, da Silva, Edaise M, Selenica, Pier, Zhu, Yingjie, Blanco-Heredia, Juan, Pei, Xin, Patel, Juber, Wen, Hannah, Riaz, Nadeem, Powell, Simon, Chandarlapaty, Sarat, Norton, Larry, Brown, David, Weigelt, Britta, Pareja, Fresia, Reis-Filho, Jorge (2023) Whole-genome Sequencing Analysis of Metaplastic Breast Cancers Shows Infrequent Homologous Recombination Deficiency. In: 112th Annual Meeting of the United-States-and-Canadian-Academy-of-Pathology (USCAP), MAR 11-16, 2023, Mexico.

Bharathy, N., Berlow, N. E., Wang, E., Abraham, J., Settelmeyer, T. P., Hooper, J. E., Svalina, M. N., Bajwa, Z., Goros, M. W., Hernandez, B. S., Wolff, J. E., Pal, R., Davies, A. M., Ashok, A., Bushby, D., Mancini, M., Noakes, C., Goodwin, N. C., Ordentlich, P., Keck, J., Hawkins, D. S., Rudzinski, E. R., Mansoor, A., Perkins, T. J., Vakoc, C. R., Michalek, J. E., Keller, C. (May 2019) Preclinical rationale for entinostat in embryonal rhabdomyosarcoma. Skelet Muscle, 9 (1). p. 12. ISSN 2044-5040

Bharathy, N., Berlow, N. E., Wang, E., Abraham, J., Settelmeyer, T. P., Hooper, J. E., Svalina, M. N., Ishikawa, Y., Zientek, K., Bajwa, Z., Goros, M. W., Hernandez, B. S., Wolff, J. E., Rudek, M. A., Xu, L., Anders, N. M., Pal, R., Harrold, A. P., Davies, A. M., Ashok, A., Bushby, D., Mancini, M., Noakes, C., Goodwin, N. C., Ordentlich, P., Keck, J., Hawkins, D. S., Rudzinski, E. R., Chatterjee, B., Bachinger, H. P., Barr, F. G., Liddle, J., Garcia, B. A., Mansoor, A., Perkins, T. J., Vakoc, C. R., Michalek, J. E., Keller, C. (November 2018) The HDAC3-SMARCA4-miR-27a axis promotes expression of the PAX3:FOXO1 fusion oncogene in rhabdomyosarcoma. Sci Signal, 11 (557). ISSN 1945-0877

Bharathy, Narendra, Cleary, Megan M, Kim, Jin-Ah, Nagamori, Kiyo, Crawford, Kenneth A, Wang, Eric, Saha, Debarya, Settelmeyer, Teagan P, Purohit, Reshma, Skopelitis, Damianos, Chang, Kenneth, Doran, Jessica A, Kirschbaum, C Ward, Bharathy, Suriya, Crews, Davis W, Randolph, Matthew E, Karnezis, Anthony N, Hudson-Price, Lisa, Dhawan, Jyotsna, Michalek, Joel E, Ciulli, Alessio, Vakoc, Christopher R, Keller, Charles (January 2022) SMARCA4 biology in alveolar rhabdomyosarcoma. Oncogene. ISSN 0950-9232

Bhargava, V., Goldstein, C. D., Russell, L., Xu, L., Ahmed, M., Li, W., Casey, A., Servage, K., Kollipara, R., Picciarelli, Z., Kittler, R., Yatsenko, A., Carmell, M., Orth, K., Amatruda, J. F., Yanowitz, J. L., Buszczak, M. (December 2019) GCNA Preserves Genome Integrity and Fertility Across Species. Dev Cell, 52 (1). pp. 38-52. ISSN 1534-5807 (Public Dataset)

Bhattacharjee, S., Roche, B., Martienssen, R. A. (June 2019) RNA-induced initiation of transcriptional silencing (RITS) complex structure and function. RNA Biol, 16 (9). pp. 1133-1146. ISSN 1547-6286

Bhattacharya, Nicholas, Thomas, Neil, Rao, Roshan, Dauparas, Justas, Koo, Peter K, Baker, David, Song, Yun S, Ovchinnikov, Sergey (2022) Interpreting Potts and Transformer Protein Models Through the Lens of Simplified Attention. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 27. pp. 34-45. ISSN 2335-6936

Bibel, Brianna, Elkayam, Elad, Silletti, Steve, Komives, Elizabeth, Joshua-Tor, Leemor (January 2022) Target binding triggers hierarchical phosphorylation of human Argonaute-2 to promote target release. Elife, 11 (e76908). ISSN 2050-084x

Bibel, Brianna, Elkayam, Elad, Silletti, Steve, Komives, Elizabeth A, Joshua-Tor, Leemor (May 2022) Target binding triggers hierarchical phosphorylation of human Argonaute-2 to promote target release. eLife, 11. ISSN 2050-084X

Biederstedt, E., Oliver, J. C., Hansen, N. F., Jajoo, A., Dunn, N., Olson, A., Busby, B., Dilthey, A. T. (September 2018) NovoGraph: Human genome graph construction from multiple long-read de novo assemblies. F1000Res, 7. p. 1391. ISSN 2046-1402

Bieler, M, Hussain, S, Daaland, ESB, Mirrione, M. M., Henn, F. A., Davanger, S (April 2021) Changes in concentrations of NMDA receptor subunit GluN2B, Arc and syntaxin-1 in dorsal hippocampus Schaffer collateral synapses in a rat learned helplessness model of depression. The Journal of Comparative Neurology, 529 (12). pp. 3194-3205.

Bienvenu, François, Akcay, Erol, Legendre, Stéphane, McCandlish, David (June 2017) The genealogical decomposition of a matrix population model with applications to the aggregation of stages. Theoretical Population Biology, 115. pp. 69-80.

Biffi, G., Oni, T. E., Spielman, B., Hao, Y., Elyada, E., Park, Y., Preall, J., Tuveson, D. A. (October 2018) IL-1-induced JAK/STAT signaling is antagonized by TGF-beta to shape CAF heterogeneity in pancreatic ductal adenocarcinoma. Cancer Discov, 9 (2). pp. 282-301. ISSN 2159-8274

Bignon, Christophe, Gruet, Antoine, Longhi, Sonia (October 2022) Split-GFP Reassembly Assay: Strengths and Caveats from a Multiparametric Analysis. International Journal of Molecular Sciences, 23 (21). p. 13167. ISSN 1422-0067

Bina, M., Wyss, P., Ren, W. H., Szpankowski, W., Thomas, E., Randhawa, R., Reddy, S., John, P. M., Pares-Matos, E. I., Stein, A., Xu, H., Lazarus, S. A. (December 2004) Exploring the characteristics of sequence elements in proximal promoters of human genes. Genomics, 84 (6). pp. 929-940. ISSN 0888-7543

Birbrair, A., Zhang, T., Wang, Z. M., Messi, M. L., Enikolopov, G. N., Mintz, A., Delbono, O. (January 2013) Skeletal muscle pericyte subtypes differ in their differentiation potential. Stem Cell Research, 10 (1). pp. 67-84. ISSN 1873-5061

Birney, E., Kumar, S., Krainer, A. R. (December 1993) Analysis of the RNA-recognition motif and RS and RGG domains: conservation in metazoan pre-mRNA splicing factors. Nucleic Acids Research, 21 (25). pp. 5803-5816. ISSN 0305-1048

Bish, R. A., Fregoso, O. I., Piccini, A., Myers, M. P. (August 2008) Conjugation of Complex Polyubiquitin Chains to WRNIP1. J Proteome Res, 7 (8). 3481-3489 .

Blakeslee, Albert Francis (1920) A dwarf mutation in portulaca showing vegetative reversions. Genetics, 5.

Boato, Francesco, Guan, Xiaofei, Zhu, Yanjie, Ryu, Youngjae, Voutounou, Mariel, Rynne, Christopher, Freschlin, Chase R, Zumbo, Paul, Betel, Doron, Matho, Katie, Makarov, Sergey N, Wu, Zhuhao, Son, Young-Jin, Nummenmaa, Aapo, Huang, Josh Z, Edwards, Dylan J, Zhong, Jian (January 2023) Activation of MAP2K signaling by genetic engineering or HF-rTMS promotes corticospinal axon sprouting and functional regeneration. Science Translational Medicine, 15 (677). eabq6885. ISSN 1946-6234 (Public Dataset)

Bodineau, Clément, Tomé, Mercedes, Courtois, Sarah, Costa, Ana SH, Sciacovelli, Marco, Rousseau, Benoit, Richard, Elodie, Vacher, Pierre, Parejo-Pérez, Carlos, Bessede, Emilie, Varon, Christine, Soubeyran, Pierre, Frezza, Christian, Murdoch, Piedad Del Socorro, Villar, Victor H, Durán, Raúl V (August 2021) Two parallel pathways connect glutamine metabolism and mTORC1 activity to regulate glutamoptosis. Nature Communications, 12 (1). p. 4814. ISSN 2041-1723

Bodkin, J. A., Coleman, M. J., Godfrey, L. J., Carvalho, C. M. B., Morgan, C. J., Suckow, R. F., Anderson, T., Ongur, D., Kaufman, M. J., Lewandowski, K. E., Siegel, A. J., Waldstreicher, E., Grochowski, C. M., Javitt, D. C., Rujescu, D., Hebbring, S., Weinshilboum, R., Rodriguez, S. B., Kirchhoff, C., Visscher, T., Vuckovic, A., Fialkowski, A., McCarthy, S., Malhotra, D., Sebat, J., Goff, D. C., Hudson, J. I., Lupski, J. R., Coyle, J. T., Rudolph, U., Levy, D. L. (May 2019) Targeted Treatment of Individuals With Psychosis Carrying a Copy Number Variant Containing a Genomic Triplication of the Glycine Decarboxylase Gene. Biol Psychiatry, 86 (7). pp. 523-535. ISSN 0006-3223

Bodnar, M. S., Spector, D. L. (June 2013) Chromatin Meets Its Organizers. Cell, 153 (6). pp. 1187-1189. ISSN 0092-8674

Boettner, B., Harjes, P., Ishimaru, S., Heke, M., Fan, H. Q., Qin, Y., Van Aelst, L., Gaul, U. (September 2003) The AF-6 homolog Canoe acts as a Rap1 effector during dorsal closure of the Drosophila embryo. Genetics, 165 (1). pp. 159-169. ISSN 0016-6731

Boettner, B., Van Aelst, L. (October 2009) Control of cell adhesion dynamics by Rap1 signaling. Curr Opin Cell Biol, 21 (5). 684-693 .

Boettner, B., Van Aelst, L. (September 2013) Introduction to the ECR special issue on the roles of small GTPases. Experimental Cell Research, 319 (15). p. 2309. ISSN 00144827

Bogdanove, A. J., Koebnik, R., Lu, H., Furutani, A., Angiuoli, S. V., Patil, P. B., Van Sluys, M. A., Ryan, R. P., Meyer, D. F., Han, S. W., Aparna, G., Rajaram, M., Delcher, A. L., Phillippy, A. M., Puiu, D., Schatz, M. C., Shumway, M., Sommer, D. D., Trapnell, C., Benahmed, F., Dimitrov, G., Madupu, R., Radune, D., Sullivan, S., Jha, G., Ishihara, H., Lee, S. W., Pandey, A., Sharma, V., Sriariyanun, M., Szurek, B., Vera-Cruz, C. M., Dorman, K. S., Ronald, P. C., Verdier, V., Dow, J. M., Sonti, R. V., Tsuge, S., Brendel, V. P., Rabinowicz, P. D., Leach, J. E., White, F. F., Salzberg, S. L. (2011) Two new complete genome sequences offer insight into host and tissue specificity of plant pathogenic Xanthomonas spp. Journal of Bacteriology, 193 (19). pp. 5450-5464. ISSN 00219193 (ISSN)

Boivin, B., Vaniotis, G., Allen, B. G., Hebert, T. E. (January 2008) G protein-coupled receptors in and on the cell nucleus: a new signaling paradigm? J Recept Signal Transduct Res, 28 (1-2). pp. 15-28.

Boivin, B., Zhang, S. H., Arbiser, J. L., Zhang, Z.-Y., Tonks, N. K. (July 2008) A modified cysteinyl-labeling assay reveals reversible oxidation of classical and dual specificity phosphatases in angiomyolipoma cells. Proc Natl Acad Sci U S A, 105 (29). pp. 9959-9964.

Boles, M. K., Wilkinson, B. M., Maxwell, A., Lai, L., Mills, A. A., Nishijima, I., Salinger, A. P., Moskowitz, I., Hirschi, K. K., Liu, B., Bradley, A., Justice, M. J. (March 2009) A mouse chromosome 4 balancer ENU-mutagenesis screen isolates eleven lethal lines. BMC Genet, 10 (1). p. 12.

Bolton, Kelly L, Koh, Youngil, Foote, Michael B, Im, Hogune, Jee, Justin, Sun, Choong Hyun, Safonov, Anton, Ptashkin, Ryan, Moon, Joon Ho, Lee, Ji Yeon, Jung, Jongtak, Kang, Chang Kyung, Song, Kyoung-Ho, Choe, Pyoeng Gyun, Park, Wan Beom, Kim, Hong Bin, Oh, Myoung-Don, Song, Han, Kim, Sugyeong, Patel, Minal, Derkach, Andriy, Gedvilaite, Erika, Tkachuk, Kaitlyn A, Wiley, Brian J, Chan, Ireaneus C, Braunstein, Lior Z, Gao, Teng, Papaemmanuil, Elli, Esther Babady, N, Pessin, Melissa S, Kamboj, Mini, Diaz, Luis A, Ladanyi, Marc, Rauh, Michael J, Natarajan, Pradeep, Machiela, Mitchell J, Awadalla, Philip, Joseph, Vijai, Offit, Kenneth, Norton, Larry, Berger, Michael F, Levine, Ross L, Kim, Eu Suk, Kim, Nam Joong, Zehir, Ahmet (October 2021) Clonal hematopoiesis is associated with risk of severe Covid-19. Nature Communications, 12 (1). p. 5975. ISSN 2041-1723

Bommert, P., Nagasawa, N. S., Jackson, D. (March 2013) Quantitative variation in maize kernel row number is controlled by the FASCIATED EAR2 locus. Nature Genetics, 45 (3). pp. 334-337. ISSN 1061-4036

Bommert, P., Satoh-Nagasawa, N., Jackson, D. P., Hirano, H.Y. (January 2005) Genetics and evolution of inflorescence and flower development in grasses. Plant Cell Physiol, 46 (1). pp. 69-78. ISSN 0032-0781 (Print)

Bonham, ChristopherA, Mandati, Vinay, Singh, RakeshK, Pappin, DarrylJ, Tonks, NicholasK (March 2023) Coupling substrate-trapping with proximity-labeling to identify protein tyrosine phosphatase PTP1B signaling networks. Journal of Biological Chemistry. p. 104582. ISSN 0021-9258

Bordeleau, M. E., Robert, F., Gerard, B., Lindqvist, L., Chen, S. M., Wendel, H. G., Brem, B., Greger, H., Lowe, S. W., Porco, J. A., Pelletier, J. (July 2008) Therapeutic suppression of translation initiation modulates chemosensitivity in a mouse lymphoma model. J Clin Invest, 118 (7). 2651- 2660.

Borg, M, Jacob, Y., Susaki, D., LeBlanc, C., Buendia, D, Axelsson, E., Kawashima, T., Voigt, P., Boavida, L. C., Becker, J. D., Higashiyama, T., Martienssen, R. A., Berger, F. (June 2020) Targeted reprogramming of H3K27me3 resets epigenetic memory in plant paternal chromatin. Nature Cell Biology, 22 (6). p. 621. ISSN 1465-7392

Borges, F., Calarco, J. P., Martienssen, R. A. (2013) Reprogramming the Epigenome in Arabidopsis Pollen. Cold Spring Harbor Symposia on Quantitative Biology, 77. pp. 1-5. ISSN 00917451 (ISSN)

Borges, F., Martienssen, R. A. (April 2013) Establishing epigenetic variation during genome reprogramming. RNA Biology, 10 (4). pp. 490-4. ISSN 1555-8584 (Electronic)1547-6286 (Linking)

Borges, F., Parent, J. S., van Ex, F., Wolff, P., Martinez, G., Kohler, C., Martienssen, R. A. (February 2018) Transposon-derived small RNAs triggered by miR845 mediate genome dosage response in Arabidopsis. Nat Genet, 50 (2). pp. 186-192. ISSN 1061-4036

Borges, F., Donoghue, M. T. A., LeBlanc, C., Wear, E. E., Tanurdžić, M., Berube, B., Brooks, A., Thompson, W. F., Hanley-Bowdoin, L., Martienssen, R. A. (November 2020) Loss of Small-RNA-Directed DNA Methylation in the Plant Cell Cycle Promotes Germline Reprogramming and Somaclonal Variation. Curr Biol, 31 (3). pp. 591-600. ISSN 0960-9822

Bortiri, E., Jackson, D. P., Hake, S. (April 2006) Advances in maize genomics: The emergence of positional cloning. Current Opinion in Plant Biology, 9 (2). pp. 164-171. ISSN 13695266

Botcheva, K., McCorkle, S. R., McCombie, W. R., Dunn, J. J., Anderson, C. W. (December 2011) Distinct p53 genomic binding patterns in normal and cancer-derived human cells. Cell Cycle, 10 (24). pp. 4237-4249. ISSN 1538-4101

Bott, A. J., Shen, J., Tonelli, C., Zhan, L., Sivaram, N., Jiang, Y. P., Yu, X., Bhatt, V., Chiles, E., Zhong, H., Maimouni, S., Dai, W., Velasquez, S., Pan, J. A., Muthalagu, N., Morton, J., Anthony, T. G., Feng, H., Lamers, W. H., Murphy, D. J., Guo, J. Y., Jin, J., Crawford, H. C., Zhang, L., White, E., Lin, R. Z., Su, X., Tuveson, D. A., Zong, W. X. (October 2019) Glutamine Anabolism Plays a Critical Role in Pancreatic Cancer by Coupling Carbon and Nitrogen Metabolism. Cell Rep, 29 (5). 1287-1298.e6.

Boudrez, A., Beullens, M., Groenen, P., Van Eynde, A., Vulsteke, V., Jagiello, I., Murray, M., Krainer, A. R., Stalmans, W., Bollen, M. (August 2000) NIPP1-mediated interaction of protein phosphatase-1 with CDC5L, a regulator of pre-mRNA splicing and mitotic entry. Journal of Biological Chemistry, 275 (33). pp. 25411-25417. ISSN 0021-9258

Bourque, G., Burns, K. H., Gehring, M., Gorbunova, V., Seluanov, A., Hammell, M., Imbeault, M., Izsvak, Z., Levin, H. L., Macfarlan, T. S., Mager, D. L., Feschotte, C. (November 2018) Ten things you should know about transposable elements. Genome Biol, 19 (1). p. 199. ISSN 1474-7596

Boutchueng-Djidjou, M., Belleau, P., Bilodeau, N., Fortier, S., Bourassa, S., Droit, A., Elowe, S., Faure, R. L. (October 2018) A type 2 diabetes disease module with a high collective influence for Cdk2 and PTPLAD1 is localized in endosomes. PLoS One, 13 (10). e0205180. ISSN 1932-6203

Boyce-Jacino, M. T., Sachidanandam, R., Donaldson, M. A., Abecasis, G. R., Lawrence, R., Studebaker, J. F., Ankener, W. M., Kuo, F. S., Alfisi, S. V., Gelfand, C. A., Phillips, M., Cardon, L. R. (October 2002) A first generation haplotype map of chromosome 19. American Journal of Human Genetics, 71 (4). p. 205. ISSN 0002-9297

Bradley, Sherille D, Talukder, Amjad H, Lai, Ivy, Davis, Rebecca, Alvarez, Hector, Tiriac, Herve, Zhang, Minying, Chiu, Yulun, Melendez, Brenda, Jackson, Kyle R, Katailiha, Arjun, Sonnemann, Heather M, Li, Fenge, Kang, Yaan, Qiao, Na, Pan, Bih-Fang, Lorenzi, Philip L, Hurd, Mark, Mittendorf, Elizabeth A, Peterson, Christine B, Javle, Milind, Bristow, Christopher, Kim, Michael, Tuveson, David A, Hawke, David, Kopetz, Scott, Wolff, Robert A, Hwu, Patrick, Maitra, Anirban, Roszik, Jason, Yee, Cassian, Lizée, Gregory (October 2020) Vestigial-like 1 is a shared targetable cancer-placenta antigen expressed by pancreatic and basal-like breast cancers. Nature Communications, 11 (1). p. 5332. ISSN 2041-1723

Bradnam, K. R., Fass, J. N., Alexandrov, A., Baranay, P., Bechner, M., Birol, I., Boisvert, S., Chapman, J. A., Chapuis, G., Chikhi, R., Chitsaz, H., Chou, W. C., Corbeil, J., Del Fabbro, C., Docking, T. R., Durbin, R., Earl, D., Emrich, S., Fedotov, P., Fonseca, N. A., Ganapathy, G., Gibbs, R. A., Gnerre, S., Godzaridis, E., Goldstein, S., Haimel, M., Hall, G., Haussler, D., Hiatt, J. B., Ho, I. Y., Howard, J., Hunt, M., Jackman, S. D., Jaffe, D. B., Jarvis, E. D., Jiang, H., Kazakov, S., Kersey, P. J., Kitzman, J. O., Knight, J. R., Koren, S., Lam, T. W., Lavenier, D., Laviolette, F., Li, Y., Li, Z., Liu, B., Liu, Y., Luo, R., Maccallum, I., Macmanes, M. D., Maillet, N., Melnikov, S., Naquin, D., Ning, Z., Otto, T. D., Paten, B., Paulo, O. S., Phillippy, A. M., Pina-Martins, F., Place, M., Przybylski, D., Qin, X., Qu, C., Ribeiro, F. J., Richards, S., Rokhsar, D. S., Ruby, J. G., Scalabrin, S., Schatz, M. C., Schwartz, D. C., Sergushichev, A., Sharpe, T., Shaw, T. I., Shendure, J., Shi, Y., Simpson, J. T., Song, H., Tsarev, F., Vezzi, F., Vicedomini, R., Vieira, B. M., Wang, J., Worley, K. C., Yin, S., Yiu, S. M., Yuan, J., Zhang, G., Zhang, H., Zhou, S., Korf, I. F. (2013) Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. Gigascience, 2 (1). p. 10. ISSN 2047-217x

Brenchley, R., Spannagl, M., Pfeifer, M., Barker, G. L. A., D'Amore, R., Allen, A. M., McKenzie, N., Kramer, M., Kerhornou, A., Bolser, D., Kay, S., Waite, D., Trick, M., Bancroft, I., Gu, Y., Huo, N., Luo, M. C., Sehgal, S., Gill, B., Kianian, S., Anderson, O., Kersey, P., Dvorak, J., McCombie, W. R., Hall, A., Mayer, K. F. X., Edwards, K. J., Bevan, M. W., Hall, N. (November 2012) Analysis of the bread wheat genome using whole-genome shotgun sequencing. Nature, 491 (7426). pp. 705-710. ISSN 00280836

Brenner, E. D., Stevenson, D. W., McCombie, R. W., Katari, M. S., Rudd, S. A., Mayer, K. F., Palenchar, P. M., Runko, S. J., Twigg, R. W., Dai, G., Martienssen, R. A., Benfey, P. N., Coruzzi, G. M. (2003) Expressed sequence tag analysis in Cycas, the most primitive living seed plant. Genome Biology, 4 (12). R78. ISSN 1474-7596

Breuss, M. W., Antaki, D., George, R. D., Kleiber, M., James, K. N., Ball, L. L., Hong, O., Mitra, I., Yang, X., Wirth, S. A., Gu, J., Garcia, C. A. B., Gujral, M., Brandler, W. M., Musaev, D., Nguyen, A., McEvoy-Venneri, J., Knox, R., Sticca, E., Botello, M. C. C., Uribe Fenner, J., Perez, M. C., Arranz, M., Moffitt, A. B., Wang, Z., Hervas, A., Devinsky, O., Gymrek, M., Sebat, J., Gleeson, J. G. (December 2019) Autism risk in offspring can be assessed through quantification of male sperm mosaicism. Nat Med, 26 (1). pp. 143-150. ISSN 1078-8956

Brien, G. L., Remillard, D., Shi, J., Hemming, M. L., Chabon, J., Wynne, K., Dillon, E. T., Cagney, G., Van Mierlo, G., Baltissen, M. P., Vermeulen, M., Qi, J., Frohling, S., Gray, N. S., Bradner, J. E., Vakoc, C. R., Armstrong, S. A. (November 2018) Targeted degradation of BRD9 reverses oncogenic gene expression in synovial sarcoma. Elife, 7. ISSN 2050-084x

Brina, Daniela, Ponzoni, Adele, Troiani, Martina, Calì, Bianca, Pasquini, Emiliano, Attanasio, Giuseppe, Mosole, Simone, Mirenda, Michela, D'Ambrosio, Mariantonietta, Colucci, Manuel, Guccini, Ilaria, Revandkar, Ajinkya, Alajati, Abdullah, Tebaldi, Toma, Donzel, Deborah, Lauria, Fabio, Parhizgari, Nahjme, Valdata, Aurora, Maddalena, Martino, Calcinotto, Arianna, Bolis, Marco, Rinaldi, Andrea, Barry, Simon, Rüschoff, Jan Hendrik, Sabbadin, Marianna, Sumanasuriya, Semini, Crespo, Mateus, Sharp, Adam, Yuan, Wei, Grinu, Mathew, Boyle, Alexandra, Miller, Cynthia, Trotman, Lloyd, Delaleu, Nicolas, Fassan, Matteo, Moch, Holger, Viero, Gabriella, de Bono, Johann, Alimonti, Andrea (August 2023) The Akt/mTOR and MNK/eIF4E pathways rewire the prostate cancer translatome to secrete HGF, SPP1 and BGN and recruit suppressive myeloid cells. Nature Cancer, 4 (8). pp. 1102-1121. ISSN 2662-1347 (Public Dataset)

Broach, J. R., Li, Y. Y., Feldman, J., Jayaram, M., Abraham, J., Nasmyth, K. A., Hicks, J. B. (1982) Localization and sequence analysis of yeast origins of DNA replication. Cold Spring Harbor Symposia on Quantitative Biology, 47 (2). pp. 1165-1173. ISSN 00917451 (ISSN)

Broach, J. R., Strathern, J. N., Hicks, J. B. (1979) Transformation in yeast: Development of a hybrid cloning vector and isolation of the CAN1 gene. Gene, 8 (1). pp. 121-133. ISSN 03781119 (ISSN)

Brooks, L., Strable, J., Zhang, X., Ohtsu, K., Zhou, R., Sarkar, A., Hargreaves, S., Elshire, R. J., Eudy, D., Pawlowska, T., Ware, D. H., Janick-Buckner, D., Buckner, B., Timmermans, M. C. P., Schnable, P. S., Nettleton, D., Scanlon, M. J. (May 2009) Microdissection of shoot meristem functional domains. PLoS Genet, 5 (5). e1000476.

Broughton, S. J., Tully, T., Greenspan, R. J. (January 2003) Conditioning deficits of CaM-kinase transgenic Drosophila melanogaster in a new excitatory courtship assay. Journal of Neurogenetics, 17 (1). pp. 91-102. ISSN 0167-7063

Brown, P., Cervenáková, L., Goldfarb, L. G., McCombie, W. R., Rubenstein, R., Will, R. G., Pocchiari, M., Martinez-Lage, J. F., Scalici, C., Masullo, C., Graupera, G., Ligan, J., Gajdusek, D. C. (1994) Iatrogenic Creutzfeldt-Jakob disease: An example of the interplay between ancient genes and modern medicine. Neurology, 44 (2). pp. 291-293. ISSN 00283878 (ISSN)

Brown, P., Goldfarb, L. G., McCombie, W. R., Nieto, A., Squillacote, D., Sheremata, W., Little, B. W., Godec, M. S., Gibbs Jr, C. J., Gajdusek, D. C. (1992) Atypical Creutzfeldt-Jakob disease in an American family with an insert mutation in the PRNP amyloid precursor gene. Neurology, 42 (2). pp. 422-427. ISSN 00283878 (ISSN)

Brown, Anna-Leigh, Wilkins, Oscar G, Keuss, Matthew J, Hill, Sarah E, Zanovello, Matteo, Lee, Weaverly Colleen, Bampton, Alexander, Lee, Flora CY, Masino, Laura, Qi, Yue A, Bryce-Smith, Sam, Gatt, Ariana, Hallegger, Martina, Fagegaltier, Delphine, Phatnani, Hemali, NYGC ALS Consortium, Newcombe, Jia, Gustavsson, Emil K, Seddighi, Sahba, Reyes, Joel F, Coon, Steven L, Ramos, Daniel, Schiavo, Giampietro, Fisher, Elizabeth MC, Raj, Towfique, Secrier, Maria, Lashley, Tammaryn, Ule, Jernej, Buratti, Emanuele, Humphrey, Jack, Ward, Michael E, Fratta, Pietro (February 2022) TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A. Nature, 603 (7899). pp. 131-137. ISSN 0028-0836

Brown, Fiona C, Still, Eric, Koche, Richard P, Yim, Christina Y, Takao, Sumiko, Cifani, Paolo, Reed, Casie, Gunasekera, Shehana, Ficarro, Scott B, Romanienko, Peter, Mark, Willie, McCarthy, Craig, de Stanchina, Elisa, Gonen, Mithat, Seshan, Venkatraman, Bhola, Patrick, O'Donnell, Conor, Spitzer, Barbara, Stutzke, Crystal, Lavallée, Vincent-Philippe, Hébert, Josée, Krivtsov, Andrei V, Melnick, Ari, Paietta, Elisabeth M, Tallman, Martin S, Letai, Anthony, Sauvageau, Guy, Pouliot, Gayle, Levine, Ross, Marto, Jarrod A, Armstrong, Scott A, Kentsis, Alex (April 2018) MEF2C Phosphorylation Is Required for Chemotherapy Resistance in Acute Myeloid Leukemia. Cancer Discovery, 8 (4). pp. 478-497. ISSN 2159-8274

Brush, G. S., Kelly, T. J., Stillman, B. (1995) Identification of eukaryotic DNA replication proteins using simian virus 40 in vitro replication system. Methods in Enzymology, 262. pp. 522-548. ISSN 00766879 (ISSN)

Brägelmann, Johannes, Lorenz, Carina, Borchmann, Sven, Nishii, Kazuya, Wegner, Julia, Meder, Lydia, Ostendorp, Jenny, Ast, David F, Heimsoeth, Alena, Nakasuka, Takamasa, Hirabae, Atsuko, Okawa, Sachi, Dammert, Marcel A, Plenker, Dennis, Klein, Sebastian, Lohneis, Philipp, Gu, Jianing, Godfrey, Laura K, Forster, Jan, Trajkovic-Arsic, Marija, Zillinger, Thomas, Haarmann, Mareike, Quaas, Alexander, Lennartz, Stefanie, Schmiel, Marcel, D'Rozario, Joshua, Thomas, Emily S, Li, Henry, Schmitt, Clemens A, George, Julie, Thomas, Roman K, von Karstedt, Silvia, Hartmann, Gunther, Büttner, Reinhard, Ullrich, Roland T, Siveke, Jens T, Ohashi, Kadoaki, Schlee, Martin, Sos, Martin L (September 2021) MAPK-pathway inhibition mediates inflammatory reprogramming and sensitizes tumors to targeted activation of innate immunity sensor RIG-I. Nature Communications, 12 (1). p. 5505. ISSN 2041-1723

Buckler, E. S., Holland, J. B., Bradbury, P. J., Acharya, C. B., Brown, P. J., Browne, C., Ersoz, E., Flint-Garcia, S., Garcia, A., Glaubitz, J. C., Goodman, M. M., Harjes, C., Guill, K., Kroon, D. E., Larsson, S., Lepak, N. K., Li, H., Mitchell, S. E., Pressoir, G., Peiffer, J. A., Rosas, M. O., Rocheford, T. R., Romay, M. C., Romero, S., Salvo, S., Sanchez Villeda, H., da Silva, H. S., Sun, Q., Tian, F., Upadyayula, N., Ware, D. H., Yates, H., Yu, J., Zhang, Z., Kresovich, S., McMullen, M. D. (August 2009) The genetic architecture of maize flowering time. Science, 325 (5941). pp. 714-8. ISSN 1095-9203 (Electronic)

Budziszewski, G. J., Lewis, S. P., Glover, L. W., Reineke, J., Jones, G., Ziemnik, L. S., Lonowski, J., Nyfeler, B., Aux, G., Zhou, Q., McElver, J., Patton, D. A., Martienssen, R., Grossniklaus, U., Ma, H., Law, M., Levin, J. Z. (December 2001) Arabidopsis genes essential for seedling viability: Isolation of Insertional mutants and molecular cloning. Genetics, 159 (4). pp. 1765-1778. ISSN 0016-6731

Buell, C. R., McCombie, W. R., Wing, R. A., Yuan, Q., Ouyang, S., Liu, J., Zhu, W., Wang, A., Maiti, R., Haas, B., Wortman, J., Pertea, M., Jones, K. M., Kim, M., Overton, L., Tsitrin, T., Fadrosh, D., Bera, J., Weaver, J., Jin, S., Johri, S., Reardon, M., Webb, K., Hill, J., Moffat, K., Tallon, L., Van Aken, S., Lewis, M., Utterback, T., Feldblyum, T., Zismann, V., Iobst, S., Hsiao, J., De Vazeille, A. R., Salzberg, S. L., White, O., Fraser, C., Yu, Y., Kim, H., Rambo, T., Currie, J., Collura, K., Kernodle-Thompson, S., Wei, F., Kudrna, D., Ammiraju, J. S. S., Luo, M., Goicoechea, J. L., Henry, D., Oates, R., Palmer, M., Pries, G., Saski, C., Simmons, J., Soderlund, C., Nelson, W., De La Bastide, M., Spiegel, L., Nascimento, L., Huang, E., Preston, R., Zutavern, T., Palmer, L., O'Haughnessy, A., Dike, S., Minx, P., Cordum, H., Wilson, R., Jin, W., Lee, H. R., Jiang, J., Jackson, S. (2005) Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species. The Rice Chromosome 3 Sequencing Consortium. Genome Research, 15 (9). pp. 1284-1291. ISSN 10889051 (ISSN)

Bui, H. T., Shaw, J. M. (October 2013) Dynamin assembly strategies and adaptor proteins in mitochondrial fission. Current Biology, 23 (19). R891-R899. ISSN 09609822 (ISSN)

Buja, A., Volfovsky, N., Krieger, A. M., Lord, C., Lash, A. E., Wigler, M., Iossifov, I. (February 2018) Damaging de novo mutations diminish motor skills in children on the autism spectrum. Proc Natl Acad Sci U S A, 115 (8). E1859-E1866. ISSN 0027-8424

Bukowski, R., Guo, X., Lu, Y., Zou, C., He, B., Rong, Z., Wang, B., Xu, D., Yang, B., Xie, C., Fan, L., Gao, S., Xu, X., Zhang, G., Li, Y., Jiao, Y., Doebley, J. F., Ross-Ibarra, J., Lorant, A., Buffalo, V., Romay, M. C., Buckler, E. S., Ware, D., Lai, J., Sun, Q., Xu, Y. (April 2018) Construction of the third generation Zea mays haplotype map. Gigascience, 7 (4). pp. 1-12. ISSN 2047-217x

Bukowski, R., Guo, X., Lu, Y., Zou, C., He, B., Rong, Z., Wang, B., Xu, D., Yang, B., Xie, C., Fan, L., Gao, S., Xu, X., Zhang, G., Li, Y., Jiao, Y., Doebley, J. F., Ross-Ibarra, J., Lorant, A., Buffalo, V., Romay, M. C., Buckler, E. S., Ware, D., Lai, J., Sun, Q., Xu, Y. (April 2018) Construction of the third-generation Zea mays haplotype map. Gigascience, 7 (4). pp. 1-12. ISSN 2047-217x

Burbulis, Ian E., Wierman, Margaret B., Wolpert, Matt, Haakenson, Mark, Lopes, Maria-Beatriz, Schiff, David, Hicks, James, Loe, Justin, Ratan, Aakrosh, McConnell, Michael J. (July 2018) Improved molecular karyotyping in Glioblastoma. Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, 11. pp. 16-26. ISSN 0027-5107

Burger, P. B., Yuan, H. J., Karakas, E., Geballe, M., Furukawa, H., Liotta, D. C., Snyder, J. P., Traynelis, S. F. (August 2012) Mapping the Binding of GluN2B-Selective N-Methyl-D-aspartate Receptor Negative Allosteric Modulators. Molecular Pharmacology, 82 (2). pp. 344-359. ISSN 0026-895X

Burns, C. G., Ohi, R., Krainer, A. R., Gould, K. L. (November 1999) Evidence that Myb-related CDC5 proteins are required for pre-mRNA splicing. Proceedings of the National Academy of Sciences of the United States of America, 96 (24). pp. 13789-13794. ISSN 0027-8424

Byrne, M., Kidney, C., Martienssen, R. (July 2004) Homeobox genes in Arabidopsis and their epigenetic regulation. Developmental Biology, 271 (2). p. 553. ISSN 0012-1606

Byrne, M. E., Kidner, C. A., Martienssen, R. A. (October 2003) Plant stem cells: divergent pathways and common themes in shoots and roots. Current Opinion in Genetics & Development, 13 (5). pp. 551-7. ISSN 0959-437X

Bywater, M. J., Poortinga, G., Sanij, E., Hein, N., Peck, A., Cullinane, C., Wall, M., Cluse, L., Drygin, D., Anderes, K., Huser, N., Proffitt, C., Bliesath, J., Haddach, M., Schwaebe, M. K., Ryckman, D. M., Rice, W. G, Schmitt, C., Lowe, Scott W, Johnstone, R. W., Pearson, R. B., McArthur, G. A., Hannan, R. D. (July 2012) Inhibition of RNA Polymerase I as a Therapeutic Strategy to Promote Cancer-Specific Activation of p53. Cancer Cell, 22 (1). pp. 51-65. ISSN 1535-6108

C

Cable, Jennifer, Heard, Edith, Hirose, Tetsuro, Prasanth, Kannanganattu V, Chen, Ling-Ling, Henninger, Jonathan E, Quinodoz, Sofia A, Spector, David L, Diermeier, Sarah D, Porman, Allison M, Kumar, Dhiraj, Feinberg, Mark W, Shen, Xiaohua, Unfried, Juan Pablo, Johnson, Rory, Chen, Chun-Kan, Wilusz, Jeremy E, Lempradl, Adelheid, McGeary, Sean E, Wahba, Lamia, Pyle, Anna Marie, Hargrove, Amanda E, Simon, Matthew D, Marcia, Marco, Przanowska, Róża K, Chang, Howard Y, Jaffrey, Samie R, Contreras, Lydia M, Chen, Qi, Shi, Junchao, Mendell, Joshua T, He, Lin, Song, Erwei, Rinn, John L, Lalwani, Mukesh Kumar, Kalem, Murat Can, Chuong, Edward B, Maquat, Lynne E, Liu, Xuhang (November 2021) Noncoding RNAs: biology and applications-a Keystone Symposia report. Annals of the New York Academy of Sciences. ISSN 0077-8923

Caceres, J. F., Krainer, A. R. (December 1993) Functional analysis of pre-mRNA splicing factor SF2/ASF structural domains. EMBO Journal, 12 (12). pp. 4715-4726. ISSN 0261-4189

Caceres, J. F., Screaton, G. R., Krainer, A. R. (January 1998) A specific subset of SR proteins shuttles continuously between the nucleus and the cytoplasm. Genes & Development, 12 (1). pp. 55-66. ISSN 0890-9369

Cai, C. L., Rajaram, M., Zhou, X., Liu, Q., Marchica, J., Li, J. Y., Powers, R. S. (May 2012) Activation of multiple cancer pathways and tumor maintenance function of the 3q amplified oncogene FNDC3B. Cell Cycle, 11 (9). pp. 1773-1781. ISSN 1538-4101

Caiado, F., Maia-Silva, D., Jardim, C., Schmolka, N., Carvalho, T., Reforco, C., Faria, R., Kolundzija, B., Simoes, A. E., Baubec, T., Vakoc, C. R., da Silva, M. G., Manz, M. G., Schumacher, T. N., Norell, H., Silva-Santos, B. (November 2019) Lineage tracing of acute myeloid leukemia reveals the impact of hypomethylating agents on chemoresistance selection. Nat Commun, 10 (1). p. 4986. ISSN 2041-1723

Calarco, J. P., Borges, F., Donoghue, M, Van Ex, F., Jullien, P. E., Lopes, T., Gardner, R., Berger, F., Feijó, J. A, Becker, J. D., Martienssen, R. A. (2012) Reprogramming of DNA Methylation in Pollen Guides Epigenetic Inheritance via Small RNA. Cell, 151 (1). pp. 194-205. ISSN 0092-8674

Calarco, Joseph P. (2013) Chromatin Dynamics during Germline Development. PhD thesis, Cold Spring Harbor Laboratory.

Calarco, Joseph P., Martienssen, Robert A. (2012) Imprinting: DNA methyltransferases illuminate reprogramming. Current Biology, 22 (21). pp. 929-931. ISSN 0960-9822

Campagna, Leonardo, Mo, Ziyi, Siepel, Adam, Uy, J Albert C (November 2022) Selective sweeps on different pigmentation genes mediate convergent evolution of island melanism in two incipient bird species. Plos Genetics, 18 (11). e1010474. ISSN 1553-7390

Campbell, P. J., Getz, G., Korbel, J. O., Stuart, J. M., Jennings, J. L., Stein, L. D., Perry, M. D., Nahal-Bose, H. K., Ouellette, B. F. F., Li, C. H., Rheinbay, E., Nielsen, G. P., Sgroi, D. C., Wu, C. L., Faquin, W. C., Deshpande, V., Boutros, P. C., Lazar, A. J., Hoadley, K. A., Louis, D. N., Dursi, L. J., Yung, C. K., Bailey, M. H., Saksena, G., Raine, K. M., Buchhalter, I., Kleinheinz, K., Schlesner, M., Zhang, J., Wang, W., Wheeler, D. A., Ding, L., Simpson, J. T., O’Connor, B. D., Yakneen, S., Ellrott, K., Miyoshi, N., Butler, A. P., Royo, R., Shorser, S. I., Vazquez, M., Rausch, T., Tiao, G., Waszak, S. M., Rodriguez-Martin, B., Shringarpure, S., Wu, D. Y., Demidov, G. M., Delaneau, O., Hayashi, S., Imoto, S., Habermann, N., Segre, A. V., Garrison, E., Cafferkey, A., Alvarez, E. G., Heredia-Genestar, J. M., Muyas, F., Drechsel, O., Bruzos, A. L., Temes, J., Zamora, J., Baez-Ortega, A., Kim, H. L., Mashl, R. J., Ye, K., DiBiase, A., Huang, K. L., Letunic, I., McLellan, M. D., Newhouse, S. J., Shmaya, T., Kumar, S., Wedge, D. C., Wright, M. H., Yellapantula, V. D., Gerstein, M., Khurana, E., Marques-Bonet, T., Navarro, A., Bustamante, C. D., Siebert, R., Nakagawa, H., Easton, D. F., Ossowski, S., Tubio, J. M. C., De La Vega, F. M., Estivill, X., Yuen, D., Mihaiescu, G. L., Omberg, L., Ferretti, V., Sabarinathan, R., Pich, O., Gonzalez-Perez, A., Taylor-Weiner, A., Fittall, M. W., Demeulemeester, J., Tarabichi, M., Roberts, N. D., Van Loo, P., Cortés-Ciriano, I., Urban, L., Park, P., Zhu, B., Pitkänen, E., Li, Y., Saini, N., Klimczak, L. J., Weischenfeldt, J., Sidiropoulos, N., Alexandrov, L. B., Rabionet, R., Escaramis, G., Bosio, M., Holik, A. Z., Susak, H., Prasad, A., Erkek, S., Calabrese, C., Raeder, B., Harrington, E., Mayes, S., Turner, D., Juul, S., Roberts, S. A., Song, L., Koster, R., Mirabello, L., Hua, X., Tanskanen, T. J., Tojo, M., Chen, J., Aaltonen, L. A., Rätsch, G., Schwarz, R. F., Butte, A. J., Brazma, A., Chanock, S. J., Chatterjee, N., Stegle, O., Harismendy, O., Bova, G. S., Gordenin, D. A., Haan, D., Sieverling, L., Feuerbach, L., Chalmers, D., Joly, Y., Knoppers, B., Molnár-Gábor, F., Phillips, M., Thorogood, A., Townend, D., Goldman, M., Fonseca, N. A., Xiang, Q., Craft, B., Piñeiro-Yáñez, E., Muñoz, A., Petryszak, R., Füllgrabe, A., Al-Shahrour, F., Keays, M., Haussler, D., Weinstein, J., Huber, W., Valencia, A., Papatheodorou, I., Zhu, J., Fan, Y., Torrents, D., Bieg, M., Chen, K., Chong, Z., Cibulskis, K., Eils, R., Fulton, R. S., Gelpi, J. L., Gonzalez, S., Gut, I. G., Hach, F., Heinold, M., Hu, T., Huang, V., Hutter, B., Jäger, N., Jung, J., Kumar, Y., Lalansingh, C., Leshchiner, I., Livitz, D., Ma, E. Z., Maruvka, Y. E., Milovanovic, A., Nielsen, M. M., Paramasivam, N., Pedersen, J. S., Puiggròs, M., Sahinalp, S. C., Sarrafi, I., Stewart, C., Stobbe, M. D., Wala, J. A., Wang, J., Wendl, M., Werner, J., Wu, Z., Xue, H., Yamaguchi, T. N., Yellapantula, V., Davis-Dusenbery, B. N., Grossman, R. L., Kim, Y., Heinold, M. C., Hinton, J., Jones, D. R., Menzies, A., Stebbings, L., Hess, J. M., Rosenberg, M., Dunford, A. J., Gupta, M., Imielinski, M., Meyerson, M., Beroukhim, R., Reimand, J., Dhingra, P., Favero, F., Dentro, S., Wintersinger, J., Rudneva, V., Park, J. W., Hong, E. P., Heo, S. G., Kahles, A., Lehmann, K. V., Soulette, C. M., Shiraishi, Y., Liu, F., He, Y., Demircioğlu, D., Davidson, N. R., Greger, L., Li, S., Liu, D., Stark, S. G., Zhang, F., Amin, S. B., Bailey, P., Chateigner, A., Frenkel-Morgenstern, M., Hou, Y., Huska, M. R., Kilpinen, H., Lamaze, F. C., Li, C., Li, X., Li, X., Liu, X., Marin, M. G., Markowski, J., Nandi, T., Ojesina, A. I., Pan-Hammarström, Q., Park, P. J., Pedamallu, C. S., Su, H., Tan, P., Teh, B. T., Wang, J., Xiong, H., Ye, C., Yung, C., Zhang, X., Zheng, L., Zhu, S., Awadalla, P., Creighton, C. J., Wu, K., Yang, H., Göke, J., Zhang, Z., Brooks, A. N., Fittall, M. W., Martincorena, I., Rubio-Perez, C., Juul, M., Schumacher, S., Shapira, O., Tamborero, D., Mularoni, L., Hornshøj, H., Deu-Pons, J., Muiños, F., Bertl, J., Guo, Q., Gonzalez-Perez, A., Xiang, Q., Bazant, W., Barrera, E., Al-Sedairy, S. T., Aretz, A., Bell, C., Betancourt, M., Buchholz, C., Calvo, F., Chomienne, C., Dunn, M., Edmonds, S., Green, E., Gupta, S., Hutter, C. M., Jegalian, K., Jones, N., Lu, Y., Nakagama, H., Nettekoven, G., Planko, L., Scott, D., Shibata, T., Shimizu, K., Stratton, M. R., Yugawa, T., Tortora, G., VijayRaghavan, K., Zenklusen, J. C., Townend, D., Knoppers, B. M., Aminou, B., Bartolome, J., Boroevich, K. A., Boyce, R., Buchanan, A., Byrne, N. J., Chen, Z., Cho, S., Choi, W., Clapham, P., Dow, M. T., Dursi, L. J., Eils, J., Farcas, C., Fayzullaev, N., Flicek, P., Heath, A. P., Hofmann, O., Hong, J. H., Hudson, T. J., Hübschmann, D., Ivkovic, S., Jeon, S. H., Jiao, W., Kabbe, R., Kahles, A., Kerssemakers, J. N. A., Kim, H., Kim, J., Koscher, M., Koures, A., Kovacevic, M., Lawerenz, C., Liu, J., Mijalkovic, S., Mijalkovic-Lazic, A. M., Miyano, S., Nastic, M., Nicholson, J., Ocana, D., Ohi, K., Ohno-Machado, L., Pihl, T. D., Prinz, M., Radovic, P., Short, C., Sofia, H. J., Spring, J., Struck, A. J., Tijanic, N., Vicente, D., Wang, Z., Williams, A., Woo, Y., Wright, A. J., Yang, L., Hamilton, M. P., Johnson, T. A., Kahraman, A., Kellis, M., Polak, P., Sallari, R., Sinnott-Armstrong, N., von Mering, C., Beltran, S., Gerhard, D. S., Gut, M., Trotta, J. R., Whalley, J. P., Niu, B., Espiritu, S. M. G., Gao, S., Huang, Y., Lalansingh, C. M., Teague, J. W., Wendl, M. C., Abascal, F., Bader, G. D., Bandopadhayay, P., Barenboim, J., Brunak, S., Carlevaro-Fita, J., Chakravarty, D., Chan, C. W. Y., Choi, J. K., Diamanti, K., Fink, J. L., Frigola, J., Gambacorti-Passerini, C., Garsed, D. W., Haradhvala, N. J., Harmanci, A. O., Helmy, M., Herrmann, C., Hobolth, A., Hodzic, E., Hong, C., Isaev, K., Izarzugaza, J. M. G., Johnson, R., Juul, R. I., Kim, J., Kim, J. K., Jan, Komorowski, Lanzós, A., Larsson, E., Lee, D., Li, S., Li, X., Lin, Z., Liu, E. M., Lochovsky, L., Lou, S., Madsen, T., Marchal, K., Martinez-Fundichely, A., McGillivray, P. D., Meyerson, W., Paczkowska, M., Park, K., Park, K., Pons, T., Pulido-Tamayo, S., Reyes-Salazar, I., Reyna, M. A., Rubin, M. A., Salichos, L., Sander, C., Schumacher, S. E., Shackleton, M., Shen, C., Shrestha, R., Shuai, S., Tsunoda, T., Umer, H. M., Uusküla-Reimand, L., Verbeke, L. P. C., Wadelius, C., Wadi, L., Warrell, J., Wu, G., Yu, J., Zhang, J., Zhang, X., Zhang, Y., Zhao, Z., Zou, L., Lawrence, M. S., Raphael, B. J., Bailey, P. J., Craft, D., Goldman, M. J., Aburatani, H., Binder, H., Dinh, H. Q., Heath, S. C., Hoffmann, S., Imbusch, C. D., Kretzmer, H., Laird, P. W., Martin-Subero, J. I., Nagae, G., Shen, H., Wang, Q., Weichenhan, D., Zhou, W., Berman, B. P., Brors, B., Plass, C., Akdemir, K. C., Bowtell, D. D. L., Burns, K. H., Busanovich, J., Chan, K., Dueso-Barroso, A., Edwards, P. A., Etemadmoghadam, D., Haber, J. E., Jones, D. T. W., Ju, Y. S., Kazanov, M. D., Koh, Y., Kumar, K., Lee, E. A., Lee, J. J. K., Lynch, A. G., Macintyre, G., Markowetz, F., Navarro, F. C. P., Pearson, J. V., Rippe, K., Scully, R., Villasante, I., Waddell, N., Yang, L., Yao, X., Yoon, S. S., Zhang, C. Z., Bergstrom, E. N., Boot, A., Covington, K., Fujimoto, A., Huang, M. N., Islam, S. M. A., McPherson, J. R., Morganella, S., Mustonen, V., Ng, A. W. T., Prokopec, S. D., Vázquez-García, I., Wu, Y., Yousif, F., Yu, W., Rozen, S. G., Rudneva, V. A., Shringarpure, S. S., Turner, D. J., Xia, T., Atwal, G., Chang, D. K., Cooke, S. L., Faltas, B. M., Haider, S., Kaiser, V. B., Karlić, R., Kato, M., Kübler, K., Margolin, A., Martin, S., Nik-Zainal, S., P’ng, C., Semple, C. A., Smith, J., Sun, R. X., Thai, K., Wright, D. W., Yuan, K., Biankin, A. V., Garraway, L., Grimmond, S. M., Adams, D. J., Anur, P., Cao, S., Christie, E. L., Cmero, M., Cun, Y., Dawson, K. J., Dentro, S. C., Deshwar, A. G., Donmez, N., Drews, R. M., Gerstung, M., Ha, G., Haase, K., Jerman, L., Ji, Y., Jolly, C., Lee, J., Lee-Six, H., Malikic, S., Mitchell, T. J., Morris, Q. D., Oesper, L., Peifer, M., Peto, M., Rosebrock, D., Rubanova, Y., Salcedo, A., Sengupta, S., Shi, R., Shin, S. J., Spiro, O., Vembu, S., Wintersinger, J. A., Yang, T. P., Yu, K., Zhu, H., Spellman, P. T., Weinstein, J. N., Chen, Y., Fujita, M., Han, L., Hasegawa, T., Komura, M., Li, J., Mizuno, S., Shimizu, E., Wang, Y., Xu, Y., Yamaguchi, R., Yang, F., Yang, Y., Yoon, C. J., Yuan, Y., Liang, H., Alawi, M., Borozan, I., Brewer, D. S., Cooper, C. S., Desai, N., Grundhoff, A., Iskar, M., Su, X., Zapatka, M., Lichter, P., Alsop, K., Bruxner, T. J. C., Christ, A. N., Cordner, S. M., Cowin, P. A., Drapkin, R., Fereday, S., George, J., Hamilton, A., Holmes, O., Hung, J. A., Kassahn, K. S., Kazakoff, S. H., Kennedy, C. J., Leonard, C. R., Mileshkin, L., Miller, D. K., Arnau, G. M., Mitchell, C., Newell, F., Nones, K., Patch, A. M., Quinn, M. C., Taylor, D. F., Thorne, H., Traficante, N., Vedururu, R., Waddell, N. M., Waring, P. M., Wood, S., Xu, Q., deFazio, A., Anderson, M. J., Antonello, D., Barbour, A. P., Bassi, C., Bersani, S., Cataldo, I., Chantrill, L. A., Chiew, Y. E., Chou, A., Cingarlini, S., Cloonan, N., Corbo, V., Davi, M. V., Duthie, F. R., Gill, A. J., Graham, J. S., Harliwong, I., Jamieson, N. B., Johns, A. L., Kench, J. G., Landoni, L., Lawlor, R. T., Mafficini, A., Merrett, N. D., Miotto, M., Musgrove, E. A., Nagrial, A. M., Oien, K. A., Pajic, M., Pinese, M., Robertson, A. J., Rooman, I., Rusev, B. C., Samra, J. S., Scardoni, M., Scarlett, C. J., Scarpa, A., Sereni, E., Sikora, K. O., Simbolo, M., Taschuk, M. L., Toon, C. W., Vicentini, C., Wu, J., Zeps, N., Behren, A., Burke, H., Cebon, J., Dagg, R. A., De Paoli-Iseppi, R., Dutton-Regester, K., Field, M. A., Fitzgerald, A., Hersey, P., Jakrot, V., Johansson, P. A., Kakavand, H., Kefford, R. F., Lau, L. M. S., Long, G. V., Pickett, H. A., Pritchard, A. L., Pupo, G. M., Saw, R. P. M., Schramm, S. J., Shang, C. A., Shang, P., Spillane, A. J., Stretch, J. R., Tembe, V., Thompson, J. F., Vilain, R. E., Wilmott, J. S., Yang, J. Y., Hayward, N. K., Mann, G. J., Scolyer, R. A., Bartlett, J., Bavi, P., Chadwick, D. E., Chan-Seng-Yue, M., Cleary, S., Connor, A. A., Czajka, K., Denroche, R. E., Dhani, N. C., Eagles, J., Gallinger, S., Grant, R. C., Hedley, D., Hollingsworth, M. A., Jang, G. H., Johns, J., Kalimuthu, S., Liang, S. B., Lungu, I., Luo, X., Mbabaali, F., McPherson, T. A., Miller, J. K., Moore, M. J., Notta, F., Pasternack, D., Petersen, G. M., Roehrl, M. H. A., Sam, M., Selander, I., Serra, S., Shahabi, S., Thayer, S. P., Timms, L. E., Wilson, G. W., Wilson, J. M., Wouters, B. G., McPherson, J. D., Beck, T. A., Bhandari, V., Collins, C. C., Fleshner, N. E., Fox, N. S., Fraser, M., Heisler, L. E., Lalonde, E., Livingstone, J., Meng, A., Sabelnykova, V. Y., Shiah, Y. J., Van der Kwast, T., Bristow, R. G., Ding, S., Fan, D., Li, L., Nie, Y., Xiao, X., Xing, R., Yang, S., Yu, Y., Zhou, Y., Banks, R. E., Bourque, G., Brennan, P., Letourneau, L., Riazalhosseini, Y., Scelo, G., Vasudev, N., Viksna, J., Lathrop, M., Tost, J., Ahn, S. M., Aparicio, S., Arnould, L., Aure, M. R., Bhosle, S. G., Birney, E., Borg, A., Boyault, S., Brinkman, A. B., Brock, J. E., Broeks, A., Børresen-Dale, A. L., Caldas, C., Chin, S. F., Davies, H., Desmedt, C., Dirix, L., Dronov, S., Ehinger, A., Eyfjord, J. E., Fatima, A., Foekens, J. A., Futreal, P. A., Garred, Ø, Giri, D. D., Glodzik, D., Grabau, D., Hilmarsdottir, H., Hooijer, G. K., Jacquemier, J., Jang, S. J., Jonasson, J. G., Jonkers, J., Kim, H. Y., King, T. A., Knappskog, S., Kong, G., Krishnamurthy, S., Lakhani, S. R., Langerød, A., Larsimont, D., Lee, H. J., Lee, J. Y., Lee, M. T. M., Lingjærde, O. C., MacGrogan, G., Martens, J. W. M., O’Meara, S., Pauporté, I., Pinder, S., Pivot, X., Provenzano, E., Purdie, C. A., Ramakrishna, M., Ramakrishnan, K., Reis-Filho, J., Richardson, A. L., Ringnér, M., Rodriguez, J. B., Rodríguez-González, F. G., Romieu, G., Salgado, R., Sauer, T., Shepherd, R., Sieuwerts, A. M., Simpson, P. T., Smid, M., Sotiriou, C., Span, P. N., Stefánsson, Ó A., Stenhouse, A., Stunnenberg, H. G., Sweep, F., Tan, B. K. T., Thomas, G., Thompson, A. M., Tommasi, S., Treilleux, I., Tutt, A., Ueno, N. T., Van Laere, S., Van den Eynden, G. G., Vermeulen, P., Viari, A., Vincent-Salomon, A., Wong, B. H., Yates, L., Zou, X., van Deurzen, C. H. M., van de Vijver, M. J., van’t Veer, L., Ammerpohl, O., Aukema, S., Bergmann, A. K., Bernhart, S. H., Borkhardt, A., Borst, C., Burkhardt, B., Claviez, A., Goebler, M. E., Haake, A., Haas, S., Hansmann, M., Hoell, J. I., Hummel, M., Karsch, D., Klapper, W., Kneba, M., Kreuz, M., Kube, D., Küppers, R., Lenze, D., Loeffler, M., López, C., Mantovani-Löffler, L., Möller, P., Ott, G., Radlwimmer, B., Richter, J., Rohde, M., Rosenstiel, P. C., Rosenwald, A., Schilhabel, M. B., Schreiber, S., Stadler, P. F., Staib, P., Stilgenbauer, S., Sungalee, S., Szczepanowski, M., Toprak, U. H., Trümper, L. H. P., Wagener, R., Zenz, T., Hovestadt, V., von Kalle, C., Kool, M., Korshunov, A., Landgraf, P., Lehrach, H., Northcott, P. A., Pfister, S. M., Reifenberger, G., Warnatz, H. J., Wolf, S., Yaspo, M. L., Assenov, Y., Gerhauser, C., Minner, S., Schlomm, T., Simon, R., Sauter, G., Sültmann, H., Biswas, N. K., Maitra, A., Majumder, P. P., Sarin, R., Barbi, S., Bonizzato, G., Cantù, C., Dei Tos, A. P., Fassan, M., Grimaldi, S., Luchini, C., Malleo, G., Marchegiani, G., Milella, M., Paiella, S., Pea, A., Pederzoli, P., Ruzzenente, A., Salvia, R., Sperandio, N., Arai, Y., Hama, N., Hiraoka, N., Hosoda, F., Nakamura, H., Ojima, H., Okusaka, T., Totoki, Y., Urushidate, T., Fukayama, M., Ishikawa, S., Katai, H., Katoh, H., Komura, D., Rokutan, H., Saito-Adachi, M., Suzuki, A., Taniguchi, H., Tatsuno, K., Ushiku, T., Yachida, S., Yamamoto, S., Aikata, H., Arihiro, K., Ariizumi, S. I., Chayama, K., Furuta, M., Gotoh, K., Hayami, S., Hirano, S., Kawakami, Y., Maejima, K., Nakamura, T., Nakano, K., Ohdan, H., Sasaki-Oku, A., Tanaka, H., Ueno, M., Yamamoto, M., Yamaue, H., Choo, S. P., Cutcutache, I., Khuntikeo, N., Ong, C. K., Pairojkul, C., Popescu, I., Ahn, K. S., Aymerich, M., Lopez-Guillermo, A., López-Otín, C., Puente, X. S., Campo, E., Amary, F., Baumhoer, D., Behjati, S., Bjerkehagen, B., Futreal, P. A., Myklebost, O., Pillay, N., Tarpey, P., Tirabosco, R., Zaikova, O., Flanagan, A. M., Boultwood, J., Bowen, D. T., Cazzola, M., Green, A. R., Hellstrom-Lindberg, E., Malcovati, L., Nangalia, J., Papaemmanuil, E., Vyas, P., Ang, Y., Barr, H., Beardsmore, D., Eldridge, M., Gossage, J., Grehan, N., Hanna, G. B., Hayes, S. J., Hupp, T. R., Khoo, D., Lagergren, J., Lovat, L. B., MacRae, S., O’Donovan, M., O’Neill, J. R., Parsons, S. L., Preston, S. R., Puig, S., Roques, T., Sanders, G., Sothi, S., Tavaré, S., Tucker, O., Turkington, R., Underwood, T. J., Welch, I., Fitzgerald, R. C., Berney, D. M., De Bono, J. S., Cahill, D., Camacho, N., Dennis, N. M., Dudderidge, T., Edwards, S. E., Fisher, C., Foster, C. S., Ghori, M., Gill, P., Gnanapragasam, V. J., Gundem, G., Hamdy, F. C., Hawkins, S., Hazell, S., Howat, W., Isaacs, W. B., Karaszi, K., Kay, J. D., Khoo, V., Kote-Jarai, Z., Kremeyer, B., Kumar, P., Lambert, A., Leongamornlert, D. A., Livni, N., Lu, Y. J., Luxton, H. J., Marsden, L., Massie, C. E., Matthews, L., Mayer, E., McDermott, U., Merson, S., Neal, D. E., Ng, A., Nicol, D., Ogden, C., Rowe, E. W., Shah, N. C., Thomas, S., Thompson, A., Verrill, C., Visakorpi, T., Warren, A. Y., Whitaker, H. C., Zhang, H., van As, N., Eeles, R. A., Abeshouse, A., Agrawal, N., Akbani, R., Al-Ahmadie, H., Albert, M., Aldape, K., Ally, A., Appelbaum, E. L., Armenia, J., Asa, S., Auman, J. T., Balasundaram, M., Balu, S., Barnholtz-Sloan, J., Bathe, O. F., Baylin, S. B., Benz, C., Berchuck, A., Berrios, M., Bigner, D., Birrer, M., Bodenheimer, T., Boice, L., Bootwalla, M. S., Bosenberg, M., Bowlby, R., Boyd, J., Broaddus, R. R., Brock, M., Brooks, D., Bullman, S., Caesar-Johnson, S. J., Carey, T. E., Carlsen, R., Cerfolio, R., Chandan, V. S., Chen, H. W., Cherniack, A. D., Chien, J., Cho, J., Chuah, E., Cibulskis, C., Cope, L., Cordes, M. G., Curley, E., Czerniak, B., Danilova, L., Davis, I. J., Defreitas, T., Demchok, J. A., Dhalla, N., Dhir, R., Doddapaneni, H. V., El-Naggar, A., Felau, I., Ferguson, M. L., Finocchiaro, G., Fong, K. M., Frazer, S., Friedman, W., Fronick, C. C., Fulton, L. A., Gabriel, S. B., Gao, J., Gehlenborg, N., Gershenwald, J. E., Ghossein, R., Giama, N. H., Gibbs, R. A., Gomez, C., Govindan, R., Hayes, D. N., Hegde, A. M., Heiman, D. I., Heins, Z., Hepperla, A. J., Holbrook, A., Holt, R. A., Hoyle, A. P., Hruban, R. H., Hu, J., Huang, M., Huntsman, D., Huse, J., Iacobuzio-Donahue, C. A., Ittmann, M., Jayaseelan, J. C., Jefferys, S. R., Jones, C. D., Jones, S. J. M., Juhl, H., Kang, K. J., Karlan, B., Kasaian, K., Kebebew, E., Kim, H. K., Korchina, V., Kundra, R., Lai, P. H., Lander, E., Le, X., Lee, D., Levine, D. A., Lewis, L., Ley, T., Li, H. I., Lin, P., Linehan, W. M., Liu, F. F., Lu, Y., Lype, L., Ma, Y., Maglinte, D. T., Mardis, E. R., Marks, J., Marra, M. A., Matthew, T. J., Mayo, M., McCune, K., Meier, S. R., Meng, S., Mieczkowski, P. A., Mikkelsen, T., Miller, C. A., Mills, G. B., Moore, R. A., Morrison, C., Mose, L. E., Moser, C. D., Mungall, A. J., Mungall, K., Mutch, D., Muzny, D. M., Myers, J., Newton, Y., Noble, M. S., O’Donnell, P., O’Neill, B. P., Ochoa, A., Park, J. W., Parker, J. S., Pass, H., Pastore, A., Pennell, N. A., Perou, C. M., Petrelli, N., Potapova, O., Rader, J. S., Ramalingam, S., Rathmell, W. K., Reuter, V., Reynolds, S. M., Ringel, M., Roach, J., Roberts, L. R., Robertson, A. G., Sadeghi, S., Saller, C., Sanchez-Vega, F., Schadendorf, D., Schein, J. E., Schmidt, H. K., Schultz, N., Seethala, R., Senbabaoglu, Y., Shelton, T., Shi, Y., Shih, J., Shmulevich, I., Shriver, C., Signoretti, S., Simons, J. V., Singer, S., Sipahimalani, P., Skelly, T. J., Smith-McCune, K., Socci, N. D., Soloway, M. G., Sood, A. K., Tam, A., Tan, D., Tarnuzzer, R., Thiessen, N., Thompson, R. H., Thorne, L. B., Tsao, M., Umbricht, C., Van Den Berg, D. J., Van Meir, E. G., Veluvolu, U., Voet, D., Wang, L., Weinberger, P., Weisenberger, D. J., Wigle, D., Wilkerson, M. D., Wilson, R. K., Winterhoff, B., Wiznerowicz, M., Wong, T., Wong, W., Xi, L., Yau, C., Zhang, H., Zhang, H., Zhang, J., The, Icgc Tcga Pan-Cancer Analysis of Whole Genomes Consortium (2020) Pan-cancer analysis of whole genomes. Nature, 578 (7793). pp. 82-93. ISSN 0028-0836 (Public Dataset)

Cannon, S. B., McCombie, W. R., Sato, S., Tabata, S., Denny, R., Palmer, L., Katari, M., Young, N. D., Stacey, G. (December 2003) Evolution and microsynteny of the apyrase gene family in three legume genomes. Molecular Genetics and Genomics, 270 (4). pp. 347-361. ISSN 1617-4615

Cano, Alejandro V, Gitschlag, Bryan L, Rozhoňová, Hana, Stoltzfus, Arlin, McCandlish, David M, Payne, Joshua L (May 2023) Mutation bias and the predictability of evolution. Philosophical Transactions of the Royal Society B: Biological Sciences, 378 (1877). p. 20220055. ISSN 0962-8436

Cano, Alejandro V, Rozhoňová, Hana, Stoltzfus, Arlin, McCandlish, David M, Payne, Joshua L (February 2022) Mutation bias shapes the spectrum of adaptive substitutions. Proceedings of the National Academy of Sciences of USA, 119 (7). e2119720119-e2119720119. ISSN 0027-8424

Cao, Zhendong, Budinich, Krista A, Huang, Hua, Ren, Diqiu, Lu, Bin, Zhang, Zhen, Chen, Qingzhou, Zhou, Yeqiao, Huang, Yu-Han, Alikarami‬, Fatemeh, Kingsley, Molly C, Lenard, Alexandra K, Wakabayashi, Aoi, Khandros, Eugene, Bailis, Will, Qi, Jun, Carroll, Martin P, Blobel, Gerd A, Faryabi, Robert B, Bernt, Kathrin M, Berger, Shelley L, Shi, Junwei (August 2021) ZMYND8-regulated IRF8 transcription axis is an acute myeloid leukemia dependency. Molecular Cell. ISSN 1097-2765

Carlston, Colleen, Weinmann, Robin, Stec, Natalia, Abbatemarco, Simona, Schwager, Francoise, Wang, Jing, Ouyang, Huiwu, Ewald, Collin Y, Gotta, Monica, Hammell, Christopher M (November 2021) PQN-59 antagonizes microRNA-mediated repression during post-embryonic temporal patterning and modulates translation and stress granule formation in C. elegans. PLoS Genetics, 17 (11). e1009599. ISSN 1553-7390

Carlton, J. M., Hirt, R. P., Silva, J. C., Delcher, A. L., Schatz, M., Zhao, Q., Wortman, J. R., Bidwell, S. L., Alsmark, U. C. M., Besteiro, S., Sicheritz-Ponten, T., Noel, C. J., Dacks, J. B., Foster, P. G., Simillion, C., Van De Peer, Y., Miranda-Saavedra, D., Barton, G. J., Westrop, G. D., Müller, S., Dessi, D., Fiori, P. L., Ren, Q., Paulsen, I., Zhang, H., Bastida-Corcuera, F. D., Simoes-Barbosa, A., Brown, M. T., Hayes, R. D., Mukherjee, M., Okumura, C. Y., Schneider, R., Smith, A. J., Vanacova, S., Villalvazo, M., Haas, B. J., Pertea, M., Feldblyum, T. V., Utterback, T. R., Shu, C. L., Osoegawa, K., De Jong, P. J., Hrdy, I., Horvathova, L., Zubacova, Z., Dolezal, P., Malik, S. B., Logsdon Jr, J. M., Henze, K., Gupta, A., Wang, C. C., Dunne, R. L., Upcroft, J. A., Upcroft, P., White, O., Salzberg, S. L., Tang, P., Chiu, C. H., Lee, Y. S., Embley, T. M., Coombs, G. H., Mottram, J. C., Tachezy, J., Fraser-Liggett, C. M., Johnson, P. J. (2007) Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis. Science, 315 (5809). pp. 207-212. ISSN 00368075 (ISSN)

Carmell, M. A., Zhang, L., Conklin, D. S., Hannon, G. J., Rosenquist, T. A. (2003) Germline transmission of RNAi in mice. Nature Structural Biology, 10 (2). pp. 91-92. ISSN 10728368 (ISSN)

Cartegni, L., Chew, S. L., Krainer, A. R. (April 2002) Listening to silence and understanding nonsense: Exonic mutations that affect splicing. Nature Reviews Genetics, 3 (4). pp. 285-298. ISSN 1471-0056

Cartegni, L., Krainer, A. R. (February 2003) Correction of disease-associated exon skipping by synthetic exon-specific activators. Nature Structural Biology, 10 (2). pp. 120-125. ISSN 1072-8368

Cartegni, L., Wang, J. H., Zhu, Z. W., Zhang, M. Q., Krainer, A. R. (July 2003) ESEfinder: a web resource to identify exonic splicing enhancers. Nucleic Acids Research, 31 (13). pp. 3568-3571. ISSN 0305-1048

Carter, J. A., Preall, J. B., Atwal, G. S. (October 2019) Bayesian Inference of Allelic Inclusion Rates in the Human T Cell Receptor Repertoire. Cell Syst, 9 (5). pp. 475-482. ISSN 2405-4712 (Public Dataset)

Carter, Jason A, Strömich, Léonie, Peacey, Matthew, Chapin, Sarah R, Velten, Lars, Steinmetz, Lars M, Brors, Benedikt, Pinto, Sheena, Meyer, Hannah V (August 2022) Transcriptomic diversity in human medullary thymic epithelial cells. Nature Communications, 13 (1). p. 4296. ISSN 2041-1723

Carvalho, F. I., Johns, C., Gillespie, M. E. (May 2012) Gene expression analysis: Teaching Students to do 30,000 Experiments at once with Microarray. Biochemistry and Molecular Biology Education, 40 (3). pp. 181-190. ISSN 1470-8175

Casey, Will, Mishra, Bud (2003) A Nearly Linear-Time General Algorithm for Genome-Wide Bi-allele Haplotype Phasing. In: High Performance Computing - HiPC 2003. Lecture Notes in Computer Science, 2913 . Springer Berlin Heidelberg, pp. 204-215. ISBN 978-3-540-20626-2

Castel, S. E., Cervera, A., Mohammadi, P., Aguet, F., Reverter, F., Wolman, A., Guigo, R., Iossifov, I., Vasileva, A., Lappalainen, T. (August 2018) Modified penetrance of coding variants by cis-regulatory variation contributes to disease risk. Nat Genet, 50 (9). pp. 1327-1334. ISSN 1061-4036

Castel, S. E., Martienssen, R. A. (February 2013) RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond. Nat Rev Genet, 14 (2). pp. 100-12. ISSN 1471-0064 (Electronic)1471-0056 (Linking)

Castellano, L., Giamas, G., Jacob, J., Coombes, R. C., Lucchesi, W., Thiruchelvam, P., Barton, G., Jiao, L. R., Wait, R., Waxman, J., Hannon, G. J., Stebbing, J. (2009) The estrogen receptor-α-induced microRNA signature regulates itself and its transcriptional response. Proceedings of the National Academy of Sciences of the United States of America, 106 (37). pp. 15732-15737. ISSN 00278424 (ISSN)

Castle, William Ernest (1906) Inbreeding, cross-breeding, and sterility in Drosophila. Science, 23 (578). p. 153.

Castle, William Ernest, Carpenter, F. W., Clark, A. H., Mast, S. O., Barrows, W. M. (May 1906) The effects of inbreeding, cross-breeding, and selection upon the fertility and variability of Drosophila. Proceedings of the American Academy of Arts and Sciences, 41 (33). pp. 732-786.

Castle, William Ernest, Phillips, John C. (September 1909) A successful ovarian transplantation in the guinea-pig, and its bearing on problems of genetics. Science, 30 (766). pp. 312-313.

Catizone, Allison N, Good, Charly Ryan, Alexander, Katherine A, Berger, Shelley L, Sammons, Morgan A (April 2019) Comparison of genotoxic versus nongenotoxic stabilization of p53 provides insight into parallel stress-responsive transcriptional networks. Cell Cycle, 18 (8). pp. 809-823. ISSN 1538-4101

Caudy, A. A. (2003) Mechanism and applications of RNAi. PhD thesis, Cold Spring Harbor Laboratory.

Caudy, A. A., Ketting, R. F., Hammond, S. M., Denli, A. M., Bathoorn, A. M. P., Tops, B. B. J., Silva, J. M., Myers, M. M., Hannon, G. J., Plasterk, R. H. A. (2003) A micrococcal nuclease homologue in RNAi effector complexes. Nature, 425 (6956). pp. 411-414. ISSN 00280836 (ISSN)

Caudy, A. A., Myers, M., Hannon, G. J., Hammond, S. M. (2002) Fragile X-related protein and VIG associate with the RNA interference machinery. Genes and Development, 16 (19). pp. 2491-2496. ISSN 08909369 (ISSN)

Cecchini, Katharine, Biasini, Adriano, Yu, Tianxiong, Säflund, Martin, Mou, Haiwei, Arif, Amena, Eghbali, Atiyeh, Colpan, Cansu, Gainetdinov, Ildar, de Rooij, Dirk G, Weng, Zhiping, Zamore, Phillip, Ozata, Deniz M (November 2022) The transcription factor TCFL5 responds to A MYB to elaborate the male meiotic program in mice. Reproduction. REP-22. ISSN 1470-1626

Celniker, S. E., Dillon, L. A., Gerstein, M. B., Gunsalus, K. C., Henikoff, S., Karpen, G. H., Kellis, M., Lai, E. C., Lieb, J. D., MacAlpine, D. M., Micklem, G., Piano, F., Snyder, M., Stein, L. D., White, K. P., Waterston, R. H. (June 2009) Unlocking the secrets of the genome. Nature, 459 (7249). pp. 927-30. ISSN 1476-4687 (Electronic)0028-0836 (Linking)

Chabes, A., Georgieva, B., Domkin, V., Zhao, X. L., Rothstein, R., Thelander, L. (February 2003) Survival of DNA damage in yeast directly depends on increased dNTP levels allowed by relaxed feedback inhibition of ribonucleotide reductase. Cell, 112 (3). pp. 391-401. ISSN 0092-8674

Chabes, A., Thelander, L. (May 2003) DNA building blocks at the foundation of better survival. Cell Cycle, 2 (3). pp. 171-3. ISSN 1551-4005

Chakraborty, A. A., Tansey, W. P. (January 2009) Adenoviral E1A Function through Myc. Cancer Res, 69 (1). pp. 6-9.

Chakraborty, A. A. , Tansey, W. P. (June 2009) Inference of cell cycle-dependent proteolysis by laser scanning cytometry. Experimental Cell Research, 315 (10). pp. 1772-1778.

Chan, K., Robert, F., Oertlin, C., Kapeller-Libermann, D., Avizonis, D., Gutierrez, J., Handly-Santana, A., Doubrovin, M., Park, J., Schoepfer, C., Da Silva, B., Yao, M., Gorton, F., Shi, J., Thomas, C. J., Brown, L. E., Porco, J. A., Pollak, M., Larsson, O., Pelletier, J., Chio, I. I. C. (November 2019) eIF4A supports an oncogenic translation program in pancreatic ductal adenocarcinoma. Nat Commun, 10 (1). p. 5151. ISSN 2041-1723

Chan-Seng-Yue, M., Kim, J. C., Wilson, G. W., Ng, K., Figueroa, E. F., O'Kane, G. M., Connor, A. A., Denroche, R. E., Grant, R. C., McLeod, J., Wilson, J. M., Jang, G. H., Zhang, A., Liang, S. B., Borgida, A., Chadwick, D., Kalimuthu, S., Lungu, I., Bartlett, J. M. S., Krzyzanowski, P. M., Sandhu, V., Tiriac, H., Froeling, F. E. M., Karasinska, J. M., Topham, J. T., Renouf, D. J., Schaeffer, D. F., Jones, S. J. M., Marra, M. A., Laskin, J., Chetty, R., Stein, L. D., Zogopoulos, G., Haibe-Kains, B., Campbell, P. J., Tuveson, D. A., Knox, J. J., Fischer, S. E., Gallinger, S., Notta, F. (January 2020) Transcription phenotypes of pancreatic cancer are driven by genomic events during tumor evolution. Nat Genet. ISSN 1061-4036 (Public Dataset)

Chandra, T., Kirschner, K., Thuret, J., Pope, B. D., Ryba, T., Newman, S., Ahmed, K., Samarajiwa, S. A., Salama, R., Carroll, T., Stark, R., Janky, R., Narita, M., Xue, L., Chicas, A., Nũnez, S., Janknecht, Ralf, Hayashi-Takanaka, Y., Wilson, M. D., Marshall, A., Odom, D. T, Babu, M.  M., Bazett-Jones, D. P., Tavaré, S., Edwards, P. A. W., Lowe, S. W., Kimura, H., Gilbert, D. M., Narita, M. (2012) Independence of Repressive Histone Marks and Chromatin Compaction during Senescent Heterochromatic Layer Formation. Molecular Cell, 47 (2). pp. 203-214. ISSN 1097-2765

Chandrasekhar, Arjun, Marshall, James AR, Austin, Cortnea, Navlakha, Saket, Gordon, Deborah M (October 2021) Better tired than lost: Turtle ant trail networks favor coherence over short edges. PLoS Computational Biology, 17 (10). e1009523. ISSN 1553-7358

Chang, K. C., Diermeier, S. D., Yu, A. T., Brine, L. D., Russo, S., Bhatia, S., Alsudani, H., Kostroff, K., Bhuiya, T., Brogi, E., Pappin, D. J., Bennett, C. F., Rigo, F., Spector, D. L. (December 2020) MaTAR25 lncRNA regulates the Tensin1 gene to impact breast cancer progression. Nat Commun, 11 (1). p. 6438. ISSN 2041-1723

Chang, KC, Spector, DL (January 2021) MaTAR25: a long non-coding RNA involved in breast cancer progression. Molecular and Cellular Oncology, 8 (2). p. 1882286. ISSN 2372-3556

Chatterjee, Deeptiman, Costa, Caique Almeida Machado, Wang, Xian-Feng, Jevitt, Allison, Huang, Yi-Chun, Deng, Wu-Min (November 2022) Single-cell transcriptomics identifies Keap1-Nrf2 regulated collective invasion in a Drosophila tumor model. eLife, 11. e80956. ISSN 2050-084X

Cheadle, L., Tzeng, C. P., Kalish, B. T., Harmin, D. A., Rivera, S., Ling, E., Nagy, M. A., Hrvatin, S., Hu, L., Stroud, H., Burkly, L. C., Chen, C., Greenberg, M. E. (August 2018) Visual Experience-Dependent Expression of Fn14 Is Required for Retinogeniculate Refinement. Neuron, 99 (3). 525-539.e10. ISSN 0896-6273 (Print)0896-6273

Chen, C. M., Chiu, S. L., Shen, W., Cline, H. T. (2009) Co-expression of Argonaute2 Enhances Short Hairpin RNA-induced RNA Interference in Xenopus CNS Neurons In Vivo. Frontiers in Neuroscience, 3. p. 63.

Chen, G., Hata, N., Zhang, M. Q. (2004) Transcription factor binding element detection using functional clustering of mutant expression data. Nucleic Acids Res, 32 (8). pp. 2362-71. ISSN 1362-4962 (Electronic)

Chen, H. H., Luche, R., Wei, B., Tonks, N. K. (October 2004) Characterization of two distinct dual specificity phosphatases encoded in alternative open reading frames of a single gene located on human chromosome 10q22.2. J Biol Chem, 279 (40). pp. 41404-13. ISSN 0021-9258 (Print)

Chen, J. P., Jiao, Y. P., Laza, H., Payton, P., Ware, D., Xin, Z. G. (November 2019) Identification of the First Nuclear Male Sterility Gene (Male-sterile 9) in Sorghum. Plant Genome, 12 (3). Article No 190020. ISSN 1940-3372

Chen, N. (May 2004) Using RepeatMasker to identify repetitive elements in genomic sequences. Curr Protoc Bioinformatics, Chapte. Unit 4.10.

Chen, X., Sun, Y. C., Zhan, H., Kebschull, J. M., Fischer, S., Matho, K., Huang, Z. J., Gillis, J., Zador, A. M. (October 2019) High-Throughput Mapping of Long-Range Neuronal Projection Using In Situ Sequencing. Cell, 179 (3). 772-786.e19. ISSN 0092-8674 (Public Dataset)

Chen, Y. C., Carter, H., Parla, J., Kramer, M., Goes, F. S., Pirooznia, M., Zandi, P. P., McCombie, W. R., Potash, J. B., Karchin, R. (January 2013) A Hybrid Likelihood Model for Sequence-Based Disease Association Studies. PLoS Genetics, 9 (1). ISSN 15537390 (ISSN)

Chen, Z., Trotman, L. C., Shaffer, D., Lin, H. K., Dotan, Z. A., Niki, M., Koutcher, J. A., Scher, H. I., Ludwig, T., Gerald, W., Cordon-Cardo, C., Pandolfi, P. P. (August 2005) Crucial role of p53-dependent cellular senescence in suppression of Pten-deficient tumorigenesis. Nature, 436 (7051). pp. 725-30. ISSN 1476-4687 (Electronic)0028-0836 (Linking)

Chen, Shuonan, Loper, Jackson, Chen, Xiaoyin, Vaughan, Alex, Zador, Anthony M, Paninski, Liam (March 2021) BARcode DEmixing through Non-negative Spatial Regression (BarDensr). PLoS Computational Biology, 17 (3). e1008256. ISSN 1553-734X

Chen, Wei-Chia, Zhou, Juannan, Sheltzer, Jason M, Kinney, Justin B, McCandlish, David M (October 2021) Field-theoretic density estimation for biological sequence space with applications to 5' splice site diversity and aneuploidy in cancer. Proceedings of the National Academy of Sciences of USA, 118 (40). ISSN 1091-6490

Chen, Wenkang, Chen, Lu, Zhang, Xuan, Yang, Ning, Guo, Jianghua, Wang, Min, Ji, Shenghui, Zhao, Xiangyu, Yin, Pengfei, Cai, Lichun, Xu, Jing, Zhang, Lili, Han, Yingjia, Xiao, Yingni, Xu, Gen, Wang, Yuebin, Wang, Shuhui, Wu, Sheng, Yang, Fang, Jackson, David, Cheng, Jinkui, Chen, Saihua, Sun, Chuanqing, Qin, Feng, Tian, Feng, Fernie, Alisdair R, Li, Jiansheng, Yan, Jianbing, Yang, Xiaohong (March 2022) Convergent selection of a WD40 protein that enhances grain yield in maize and rice. Science, 375 (6587). eabg7985. ISSN 0036-8075

Chen, Z., Jaafar, L., Agyekum, D. G., Xiao, H., Wade, M. F., Kumaran, R. I., Spector, D. L., Bao, G., Porteus, M. H., Dynan, W. S., Meiler, S. E. (August 2013) Receptor-mediated delivery of engineered nucleases for genome modification. Nucleic Acids Research, 41 (19). ISSN 03051048 (ISSN)

Cheng, C., Alexander, R., Min, R. Q., Leng, J., Yip, K. Y., Rozowsky, J., Yan, K. K., Dong, X. J., Djebali, S., Ruan, Y. J., Davis, C. A., Carninci, P., Lassman, T., Gingeras, T. R., Guigo, R., Birney, E., Weng, Z. P., Snyder, M., Gerstein, M. (September 2012) Understanding transcriptional regulation by integrative analysis of transcription factor binding data. Genome Research, 22 (9). pp. 1658-1667. ISSN 1088-9051

Cheng, D., Tuveson, D. (January 2018) Kras in Organoids. Cold Spring Harb Perspect Med, 8 (10). ISSN 2157-1422

Cheng, H., Dharmadhikari, A. V., Varland, S., Ma, N., Domingo, D., Kleyner, R., Rope, A. F., Yoon, M., Stray-Pedersen, A., Posey, J. E., Crews, S. R., Eldomery, M. K., Akdemir, Z. C., Lewis, A. M., Sutton, V. R., Rosenfeld, J. A., Conboy, E., Agre, K., Xia, F., Walkiewicz, M., Longoni, M., High, F. A., van Slegtenhorst, M. A., Mancini, G. M. S., Finnila, C. R., van Haeringen, A., den Hollander, N., Ruivenkamp, C., Naidu, S., Mahida, S., Palmer, E. E., Murray, L., Lim, D., Jayakar, P., Parker, M. J., Giusto, S., Stracuzzi, E., Romano, C., Beighley, J. S., Bernier, R. A., Kury, S., Nizon, M., Corbett, M. A., Shaw, M., Gardner, A., Barnett, C., Armstrong, R., Kassahn, K. S., Van Dijck, A., Vandeweyer, G., Kleefstra, T., Schieving, J., Jongmans, M. J., de Vries, B. B. A., Pfundt, R., Kerr, B., Rojas, S. K., Boycott, K. M., Person, R., Willaert, R., Eichler, E. E., Kooy, R. F., Yang, Y., Wu, J. C., Lupski, J. R., Arnesen, T., Cooper, G. M., Chung, W. K., Gecz, J., Stessman, H. A. F., Meng, L., Lyon, G. J. (May 2018) Truncating Variants in NAA15 Are Associated with Variable Levels of Intellectual Disability, Autism Spectrum Disorder, and Congenital Anomalies. Am J Hum Genet, 102 (5). pp. 985-994. ISSN 0002-9297

Cheng, H., Gottlieb, L., Marchi, E., Kleyner, R., Bhardwaj, P., Rope, A. F., Rosenheck, S., Moutton, S., Philippe, C., Eyaid, W., Alkuraya, F. S., Toribio, J., Mena, R., Prada, C. E., Stessman, H., Bernier, R., Wermuth, M., Kauffmann, B., Blaumeiser, B., Kooy, R. F., Baralle, D., Mancini, G. M. S., Conway, S. J., Xia, F., Chen, Z., Meng, L., Mihajlovic, L., Marmorstein, R., Lyon, G. J. (May 2019) Phenotypic and biochemical analysis of an international cohort of individuals with variants in NAA10 and NAA15. Hum Mol Genet, 28 (17). pp. 2900-2919. ISSN 0964-6906

Cheng, Derek K, Oni, Tobiloba E, Thalappillil, Jennifer S, Park, Youngkyu, Ting, Hsiu-Chi, Alagesan, Brinda, Prasad, Nadia V, Addison, Kenneth, Rivera, Keith D, Pappin, Darryl J, Van Aelst, Linda, Tuveson, David A (May 2021) Oncogenic KRAS engages an RSK1/NF1 pathway to inhibit wild-type RAS signaling in pancreatic cancer. Proceedings of the National Academy of Sciences of USA, 118 (21). e2016904118-e2016904118. ISSN 0027-8424

Cheng, Yunfei, Li, Gencheng, Smedley, Christopher J, Giel, Marie-Claire, Kitamura, Seiya, Woehl, Jordan L, Bianco, Giulia, Forli, Stefano, Homer, Joshua A, Cappiello, John R, Wolan, Dennis W, Moses, John E, Sharpless, K Barry (September 2022) Diversity oriented clicking delivers β-substituted alkenyl sulfonyl fluorides as covalent human neutrophil elastase inhibitors. Proceedings of the National Academy of Sciences of USA, 119 (37). e2208540119. ISSN 0027-8424

Cherepinsky, V., Feng, J. W., Rejali, M., Mishra, B. (August 2003) Shrinkage-based similarity metric for cluster analysis of microarray data. Proceedings of the National Academy of Sciences of the United States of America, 100 (17). pp. 9668-9673. ISSN 0027-8424

Chi, S. W., Hannon, G. J., Darnell, R. B. (2012) An alternative mode of microRNA target recognition. Nature Structural and Molecular Biology, 19 (3). pp. 321-327. ISSN 15459993 (ISSN)

Chia, J. M., Song, C., Bradbury, P. J., Costich, D., de Leon, N., Doebley, J., Elshire, R. J., Gaut, B., Geller, L., Glaubitz, J. C., Gore, M., Guill, K. E., Holland, J., Hufford, M. B., Lai, J., Li, M., Liu, X., Lu, Y., McCombie, R., Nelson, R., Poland, J., Prasanna, B. M., Pyhajarvi, T., Rong, T., Sekhon, R. S., Sun, Q., Tenaillon, M. I., Tian, F., Wang, J., Xu, X., Zhang, Z., Kaeppler, S. M., Ross-Ibarra, J., McMullen, M. D., Buckler, E. S., Zhang, G., Xu, Y., Ware, D. (June 2012) Maize HapMap2 identifies extant variation from a genome in flux. Nat Genet, 44 (7). 803-U238. ISSN 1546-1718 (Electronic)1061-4036 (Linking)

Chicas, A., Kapoor, A., Wang, X. W., Aksoy, O., Evertts, A. G., Zhang, M. Q., Garcia, B. A., Bernstein, E., Lowe, S. W. (June 2012) H3K4 demethylation by Jarid1a and Jarid1b contributes to retinoblastoma-mediated gene silencing during cellular senescence. Proceedings of the National Academy of Sciences of the United States of America, 109 (23). pp. 8971-8976. ISSN 0027-8424

Chin, C. S., Wagner, J., Zeng, Q., Garrison, E., Garg, S., Fungtammasan, A., Rautiainen, M., Aganezov, S., Kirsche, M., Zarate, S., Schatz, M. C., Xiao, C., Rowell, W. J., Markello, C., Farek, J., Sedlazeck, F. J., Bansal, V., Yoo, B., Miller, N., Zhou, X., Carroll, A., Barrio, A. M., Salit, M., Marschall, T., Dilthey, A. T., Zook, J. M. (September 2020) A diploid assembly-based benchmark for variants in the major histocompatibility complex. Nat Commun, 11 (1). p. 4794. ISSN 2041-1723

Chitwood, D. H., Nogueira, F. T. S., Howell, M. D., Montgomery, T. A., Carrington, J. C., Timmermans, M. C. P. (March 2009) Pattern formation via small RNA mobility. Genes Dev, 23 (5). pp. 549-554. ISSN 0890-9369

Choe, L., D'Ascenzo, M., Relkin, N. R., Pappin, D., Ross, P., Williamson, B., Guertin, S., Pribil, P., Lee, K. H. (October 2007) 8-plex quantitation of changes in cerebrospinal fluid protein expression in subjects undergoing intravenous immunoglobulin treatment for Alzheimer's disease. Proteomics, 7 (20). pp. 3651-60. ISSN 1615-9853 (Print)1615-9853 (Linking)

Choi, K., Zhao, X., Tock, A. J., Lambing, C., Underwood, C. J., Hardcastle, T. J., Serra, H., Kim, J., Cho, H. S., Kim, J., Ziolkowski, P. A., Yelina, N. E., Hwang, I., Martienssen, R. A., Henderson, I. R. (April 2018) Nucleosomes and DNA methylation shape meiotic DSB frequency in Arabidopsis thaliana transposons and gene regulatory regions. Genome Res, 28 (4). pp. 532-546. ISSN 1088-9051

Choi, Y. J., Lin, C. P., Ho, J. J., He, X., Okada, N., Bu, P., Zhong, Y., Kim, S. Y., Bennett, M. J., Chen, C., Ozturk, A., Hicks, G. G., Hannon, G. J., He, L. (2011) MiR-34 miRNAs provide a barrier for somatic cell reprogramming. Nature Cell Biology, 13 (11). pp. 1353-1360. ISSN 14657392 (ISSN)

Choi, Charlotte P, Tay, Rebecca J, Starostik, Margaret R, Feng, Suhua, Moresco, James J, Montgomery, Brooke E, Xu, Emily, Hammonds, Maya A, Schatz, Michael C, Montgomery, Taiowa A, Yates, John R, Jacobsen, Steven E, Kim, John K (February 2021) SNPC-1.3 is a sex-specific transcription factor that drives male piRNA expression in C. elegans. eLife, 10. pp. 1-35. ISSN 2050-084X

Choisne, N., Demange, N., Orjeda, G., Samain, S., D'Hont, A., Cattolico, L., Pelletier, E., Couloux, A., Segurens, B., Wincker, P., Scarpelli, C., Weissenbach, J., Salanoubat, M., Quetier, F., Singh, N. K., Mohapatra, T., Sharma, T. R., Gaikwad, K., Singh, A., Dalal, V., Srivastava, S. K., Dixit, A., Pal, A. K., Ghazi, I. A., Yadav, M., Pandit, A., Bhargava, A., Sureshbabu, K., Dixit, R., Singh, H., Swain, S. C., Pal, S., Ragiba, M., Singh, P. K., Singhal, V., Mendiratta, S. D., Batra, K., Raghuvanshi, S., Mohanty, A., Bharti, A. K., Gaur, A., Gupta, V., Kumar, D., Vydianathan, R., Vij, S., Kapur, A., Khurana, P., Sharma, S., Khurana, J. P., Tyagi, A. K., Yuan, Q. P., Ouyang, S., Liu, J., Zhu, W., Wang, A. H., Lin, H. N., Hamilton, J., Haas, B., Wortman, J., Jones, K. M., Kim, M., Overton, L., Tsitrin, T., Fadrosh, D., Bera, J., Weaver, B., Jin, S. H., Johri, S., Reardon, M., Vuong, H., Tallon, L., Van Aken, S., Lewis, M., Utterback, T., Feldblyum, T., Zismann, V., Iobst, S., Hsiao, J., de Vazeille, A. R., Salzberg, S. L., White, O., Fraser, C., Buell, C. R., Yu, Y., Rambo, T., Currie, J., Collura, K., Kim, H. R., Stum, D., Wang, W. M., Kudrna, D., Mueller, C., Wing, R. A., Kramer, M., Spiegel, L., Nascimento, L., Preston, R., Zutavern, T., Palmer, L., O'Shaughnessy, A., McCombie, W. R. (September 2005) The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biology, 3. ISSN 1741-7007

Chorbadjiev, Liubomir, Cokol, Murat, Weinstein, Zohar, Shi, Kevin, Fleisch, Chris, Dimitrov, Nikolay, Mladenov, Svetlin, Xu, Simon, Hall, Jake, Ford, Steven, Lee, Yoon-Ha, Yamrom, Boris, Marks, Steven, Munoz, Adriana, Lash, Alex, Volfovsky, Natalia, Iossifov, Ivan (February 2024) The Genotype and Phenotypes in Families (GPF) platform manages the large and complex data at SFARI. bioRxiv. (Submitted)

Chou, Hsiang-Chen (July 2021) The role of human ORC2 in DNA replication, mitosis and organization of the nucleus. PhD thesis, Cold Spring Harbor Laboratory.

Chou, Tsung-Han, Epstein, Max, Fritzemeier, Russell G, Akins, Nicholas S, Paladugu, Srinu, Ullman, Elijah Z, Liotta, Dennis C, Traynelis, Stephen F, Furukawa, Hiro (August 2024) Molecular mechanism of ligand gating and opening of NMDA receptor. Nature, 632 (8023). pp. 209-217. ISSN 0028-0836 (Public Dataset)

Chou, S. T., Bailey, C. L., Hardison, R. C., Blobel, G. A., Vakoc, C. R., Weiss, M. J. (November 2007) GATA-1 represses PU.1/Sfpi-1 gene transcription in erythroMegakaryocytic progenitors. Blood, 110 (11). 371A-371A. ISSN 0006-4971

Chou, S. T., Khandros, E., Bailey, L. C., Nichols, K. E., Vakoc, C. R., Yao, Y., Huang, Z., Crispino, J. D., Hardison, R. C., Blobel, G. A., Weiss, M. J. (July 2009) Graded repression of PU.1/Sfpi1 gene transcription by GATA factors regulates hematopoietic cell fate. Blood, 114 (5). pp. 983-994.

Chou, Hsiang-Chen, Bhalla, Kuhulika, Demerdesh, Osama El, Klingbeil, Olaf, Hanington, Kaarina, Aganezov, Sergey, Andrews, Peter, Alsudani, Habeeb, Chang, Kenneth, Vakoc, Christopher R, Schatz, Michael C, McCombie, W Richard, Stillman, Bruce (February 2021) The human Origin Recognition Complex is essential for pre-RC assembly, mitosis and maintenance of nuclear structure. eLife, 10. ISSN 2050-084X

Chou, Tsung-Han, Epstein, Max, Michalski, Kevin, Fine, Eve, Biggin, Philip C, Furukawa, Hiro (May 2022) Structural insights into binding of therapeutic channel blockers in NMDA receptors. Nature Structural and Molecular Biology. ISSN 1545-9993

Chou, Tsung-Han, Kang, Hyunook, Simorowski, Noriko, Traynelis, Stephen F, Furukawa, Hiro (October 2022) Structural insights into assembly and function of GluN1-2C, GluN1-2A-2C, and GluN1-2D NMDARs. Molecular Cell. S1097-2765(22)00965. ISSN 1097-2765

Chougule, K, Tello-Ruiz, MK, Wei, S, Olson, A, Lu, Z, Kumari, S, Kumar, V, Contreras-Moreira, B, Naamati, G, Dyer, S, Papatheodorou, I, George, N, Elser, J, Naithani, S, Jaiswal, P, Ware, D (January 2024) Pan genome resources for grapevine. In: UNSPECIFIED.

Chougule, K. M., Wang, L., Stein, J. C., Wang, X., Devisetty, U. K., Klein, R. R., Ware, D. (August 2018) Improved RNA-seq Workflows Using CyVerse Cyberinfrastructure. Curr Protoc Bioinformatics. e53. ISSN 1934-3396

Christensen, S. A., Nemchenko, A., Borrego, E., Murray, I., Sobhy, I. S., Bosak, L., Deblasio, S., Erb, M., Robert, C. A., Vaughn, K. A., Herrfurth, C., Tumlinson, J., Feussner, I., Jackson, D., Turlings, T. C., Engelberth, J., Nansen, C., Meeley, R., Kolomiets, M. V. (April 2013) The maize lipoxygenase, ZmLOX10, mediates green leaf volatile, jasmonate and herbivore-induced plant volatile production for defense against insect attack. Plant Journal, 74 (1). pp. 59-73. ISSN 09607412 (ISSN)

Chung, Taemoon, Merrill, Joseph R, Lyons, Scott K (2024) CRISPR/Cas for PET Reporter Gene Engineering. In: Methods in Molecular Biology. UNSPECIFIED, pp. 285-301. ISBN 9781071634981

Church, Deanna M., Goodstadt, Leo, Hillier, LaDeana W., Zody, Michael C., Goldstein, Steve, She, Xinwe, Bult, Carol J., Agarwala, Richa, Cherry, Joshua L., DiCuccio, Michael, Hlavina, Wratko, Kapustin, Yuri, Meric, Peter, Maglott, Donna, Birtle, Zoë, Marques, Ana C., Graves, Tina, Zhou, Shiguo, Teague, Brian, Potamousis, Konstantinos, Churas, Christopher, Place, Michael, Herschleb, Jill, Runnheim, Ron, Forrest, Daniel, Amos-Landgraf, James, Schwartz, David C., Cheng, Ze, Lindblad-Toh, Kerstin, Eichler, Evan E., Ponting, Chris P., The Mouse Genome Sequencing, Consortium (May 2009) Lineage-Specific Biology Revealed by a Finished Genome Assembly of the Mouse. PLoS Biol, 7 (5). e1000112.

Cibrian-Jaramillo, A., Martienssen, R. A. (2009) Darwin's "Abominable Mystery": the role of RNA interference in the evolution of flowering plants. Cold Spring Harbor Symposia on Quantitative Biology, 74. pp. 267-273. ISSN 00917451 (ISSN)

Ciccone, M. F., Trousdell, M. C., Dos Santos, C. O. (November 2020) Characterization of Organoid Cultures to Study the Effects of Pregnancy Hormones on the Epigenome and Transcriptional Output of Mammary Epithelial Cells. J Mammary Gland Biol Neoplasia, 25 (4). pp. 351-366. ISSN 1083-3021

Cifani, Paolo, Kentsis, Alex (October 2022) Quantitative Cell Proteomic Atlas: Pathway-Scale Targeted Mass Spectrometry for High-Resolution Functional Profiling of Cell Signaling. Journal of Proteome Research, 21 (10). pp. 2535-2544. ISSN 1535-3893

Ciren, Danielle, Zebell, Sophia, Lippman, Zachary B (December 2023) Extreme restructuring of cis-regulatory regions controlling a deeply conserved plant stem cell regulator. bioRxiv. (Submitted)

Cisse, Y. M., Borniger, J. C., Lemanski, E., Walker, W. H., Nelson, R. J. (January 2018) Time-Restricted Feeding Alters the Innate Immune Response to Bacterial Endotoxin. J Immunol, 200 (2). pp. 681-687. ISSN 1550-6606 (Electronic)0022-1767 (Linking)

Ciubotaru, Mihai, Ionita, Elena, Koo, Peter (2023) RAG DNA recombinase mechanism investigated by single molecule assays; novel reaction mechanism derived from thermodynamics and statistical analysis. In: 25th International Analytical Ultracentrifugation Conference, July 10-15, 2022, Lethbridge, AB, Canada.

Claeys, H., Vi, S. L., Xu, X., Satoh-Nagasawa, N., Eveland, A. L., Goldshmidt, A., Feil, R., Beggs, G. A., Sakai, H., Brennan, R. G., Lunn, J. E., Jackson, D. (April 2019) Control of meristem determinacy by trehalose 6-phosphate phosphatases is uncoupled from enzymatic activity. Nat Plants, 5 (4). pp. 352-357. ISSN 2055-0278

Clark, A. G., Eisen, M. B., Smith, D. R., Bergman, C. M., Oliver, B., Markow, T. A., Kaufman, T. C., Kellis, M., Gelbart, W., Iyer, V. N., Pollard, D. A., Sackton, T. B., Larracuente, A. M., Singh, N. D., Abad, J. P., Abt, D. N., Adryan, B., Aguade, M., Akashi, H., Anderson, W. W., Aquadro, C. F., Ardell, D. H., Arguello, R., Artieri, C. G., Barbash, D. A., Barker, D., Barsanti, P., Batterham, P., Batzoglou, S., Begun, D., Bhutkar, A., Blanco, E., Bosak, S. A., Bradley, R. K., Brand, A. D., Brent, M. R., Brooks, A. N., Brown, R. H., Butlin, R. K., Caggese, C., Calvi, B. R., Bernardo De Carvalho, A., Caspi, A., Castrezana, S., Celniker, S. E., Chang, J. L., Chapple, C., Chatterji, S., Chinwalla, A., Civetta, A., Clifton, S. W., Comeron, J. M., Costello, J. C., Coyne, J. A., Daub, J., David, R. G., Delcher, A. L., Delehaunty, K., Do, C. B., Ebling, H., Edwards, K., Eickbush, T., Evans, J. D., Filipski, A., Findeiß, S., Freyhult, E., Fulton, L., Fulton, R., Garcia, A. C. L., Gardiner, A., Garfield, D. A., Garvin, B. E., Gibson, G., Gilbert, D., Gnerre, S., Godfrey, J., Good, R., Gotea, V., Gravely, B., Greenberg, A. J., Griffiths-Jones, S., Gross, S., Guigo, R., Gustafson, E. A., Haerty, W., Hahn, M. W., Halligan, D. L., Halpern, A. L., Halter, G. M., Han, M. V., Heger, A., Hillier, L., Hinrichs, A. S., Holmes, I., Hoskins, R. A., Hubisz, M. J., Hultmark, D., Huntley, M. A., Jaffe, D. B., Jagadeeshan, S. (2007) Evolution of genes and genomes on the Drosophila phylogeny. Nature, 450 (7167). pp. 203-218. ISSN 00280836 (ISSN)

Clark, J. W., Camidge, D. R., Kwak, E. L., Maki, R. G., Shapiro, G. I., Chen, I., Tan, W., Randolph, S., Christensen, J. G., Ozeck, M., Tang, Y., Wilner, K. D., Salgia, R. (January 2020) Dose-escalation trial of the ALK, MET & ROS1 inhibitor, crizotinib, in patients with advanced cancer. Future Oncol, 16 (1). pp. 4289-4301. ISSN 1479-6694

Cleary, M. A., Herr, W. (April 1995) Mechanisms for flexibility in DNA sequence recognition and VP16-induced complex formation by the Oct-1 POU domain. Mol Cell Biol, 15 (4). pp. 2090-100. ISSN 0270-7306 (Print)

Cleary, M. A., Kilian, K., Wang, Y., Bradshaw, J., Cavet, G., Ge, W., Kulkarni, A., Paddison, P. J., Chang, K., Sheth, N., Leproust, E., Coffey, E. M., Burchard, J., McCombie, W. R., Linsley, P., Hannon, G. J. (December 2004) Production of complex nucleic acid libraries using highly parallel in situ oligonucleotide synthesis. Nat Methods, 1 (3). pp. 241-8.

Cleary, S. P., Jeck, W. R., Zhao, X. B., Chen, K., Selitsky, S. R., Savich, G. L., Tan, T. X., Wu, M. C., Getz, G., Lawrence, M. S., Parker, J. S., Li, J. Y., Powers, S., Kim, H., Fischer, S., Guindi, M., Ghanekar, A., Chiang, D. Y. (November 2013) Identification of Driver Genes in Hepatocellular Carcinoma by Exome Sequencing. Hepatology, 58 (5). pp. 1693-1702. ISSN 0270-9139

Cline, H. (December 2003) Sperry and Hebb: oil and vinegar? Trends in Neurosciences, 26 (12). pp. 655-661. ISSN 0166-2236

Cléry, A., Sinha, R., Anczuków, O., Corrionero, A., Moursy, A., Daubner, G. M., Valcárcel, J., Krainer, A. R., Allain, F. H. T. (July 2013) Isolated pseudo-RNA-recognition motifs of SR proteins can regulate splicing using a noncanonical mode of RNA recognition. Proceedings of the National Academy of Sciences of the United States of America, 110 (30). E2802-E2811. ISSN 00278424

Coghlan, V. M., Perrino, B. A., Howard, M., Langeberg, L. K., Hicks, J. B., Gallatin, W. M., Scott, J. D. (1995) Association of protein kinase A and protein phosphatase 2B with a common anchoring protein. Science, 267 (5195). pp. 108-111. ISSN 00368075 (ISSN)

Cole, C. N., Hammell, C. M. (1998) Nucleocytoplasmic transport: Driving and directing transport. Current Biology, 8 (11). R368-R372. ISSN 09609822 (ISSN)

Cole, Charles N., Heath, Catherine V., Hodge, Christine A., Hammell, Christopher M., Amberg, David C. (2002) Analysis of RNA export. In: Methods in Enzymology. Academic Press, pp. 568-587. ISBN 0076-6879

Collins, F. S., Watson, J. D. (October 2003) Genetic discrimination: Time to act. Science, 302 (5646). p. 745. ISSN 0036-8075

Collins, G. A., Lipford, J. R., Deshaies, R. J., Tansey, W. P. (October 2009) Gal4 turnover and transcription activation. Nature, 461 (7265). E7-E7.

Collins, K., Kobayashi, R., Greider, C. W. (June 1995) Purification of Tetrahymena telomerase and cloning of genes encoding the two protein components of the enzyme. Cell, 81 (5). pp. 677-86. ISSN 0092-8674 (Print)

Concepcion, Carla P, Ma, Sai, LaFave, Lindsay M, Bhutkar, Arjun, Liu, Manyuan, DeAngelo, Lydia P, Kim, Jonathan Y, Del Priore, Isabella, Schoenfeld, Adam J, Miller, Manon, Kartha, Vinay K, Westcott, Peter MK, Sánchez-Rivera, Francisco J, Meli, Kevin, Gupta, Manav, Bronson, Roderick T, Riely, Gregory J, Rekhtman, Natasha, Rudin, Charles M, Kim, Carla F, Regev, Aviv, Buenrostro, Jason D, Jacks, Tyler (February 2022) Smarca4 Inactivation Promotes Lineage-Specific Transformation and Early Metastatic Features in the Lung. Cancer Discovery, 12 (2). pp. 562-585. ISSN 0008-5472

Concia, L., Brooks, A. M., Wheeler, E., Zynda, G. J., Wear, E. E., LeBlanc, C., Song, J., Lee, T. J., Pascuzzi, P. E., Martienssen, R. A., Vaughn, M. W., Thompson, W. F., Hanley-Bowdoin, L. (March 2018) Genome-Wide Analysis of the Arabidopsis Replication Timing Program. Plant Physiol, 176 (3). pp. 2166-2185. ISSN 0032-0889

Conklin, D. S. (October 2003) RNA-interference-based silencing of mammalian gene expression. Chembiochem, 4 (10). pp. 1033-1039. ISSN 1439-4227

Conlon, E. G., Fagegaltier, D., Agius, P., Davis-Porada, J., Gregory, J., Hubbard, I., Kang, K., Kim, D., Phatnani, H., Shneider, N. A., Manley, J. L., Kwan, J., Sareen, D., Broach, J. R., Simmons, Z., Arcila-Londono, X., Lee, E. B., Van Deerlin, V. M., Fraenkel, E., Ostrow, L. W., Baas, F., Zaitlen, N., Berry, J. D., Malaspina, A., Fratta, P., Cox, G. A., Thompson, L. M., Finkbeiner, S., Dardiotis, E., Miller, T. M., Chandran, S., Pal, S., Hornstein, E., Macgowan, D. J., Heiman-Patterson, T., Hammell, M. G., Patsopoulos, N. A., Dubnau, J., Nath, A., Phatnani, H., Shneider, N. A., Manley, J. L. (July 2018) Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism. eLife, 7. ISSN 2050084X (ISSN)

Conn, A., Chandrasekhar, A., Rongen, M. V., Leyser, O., Chory, J., Navlakha, S. (September 2019) Network trade-offs and homeostasis in Arabidopsis shoot architectures. PLoS Comput Biol, 15 (9). e1007325. ISSN 1553-734x (Public Dataset)

Connelly, Carla J, Vidal-Cardenas, Sofia, Goldsmith, Stephanie, Greider, Carol W (November 2021) The Bur1 cyclin-dependent kinase regulates telomere length in Saccharomyces cerevisiae. Yeast. ISSN 0749-503X

Consortium, 1000 Genomes Project (September 2015) A global reference for human genetic variation. Nature, 526 (7571). pp. 68-74. ISSN 1476-4687 (Electronic)0028-0836 (Linking)

Copenhaver, G. P., Nickel, K., Kuromori, T., Benito, M. I., Kaul, S., Lin, X., Bevan, M., Murphy, G., Harris, B., Parnell, L. D., McCombie, W. R., Martienssen, R. A., Marra, M., Preuss, D. (1999) Genetic definition and sequence analysis of Arabidopsis centromeres. Science, 286 (5449). pp. 2468-2474. ISSN 00368075 (ISSN)

Copin, Richard, Baum, Alina, Wloga, Elzbieta, Pascal, Kristen E, Giordano, Stephanie, Fulton, Benjamin O, Zhou, Anbo, Negron, Nicole, Lanza, Kathryn, Chan, Newton, Coppola, Angel, Chiu, Joyce, Ni, Min, Wei, Yi, Atwal, Gurinder S, Hernandez, Annabel Romero, Saotome, Kei, Zhou, Yi, Franklin, Matthew C, Hooper, Andrea T, McCarthy, Shane, Hamon, Sara, Hamilton, Jennifer D, Staples, Hilary M, Alfson, Kendra, Carrion, Ricardo, Ali, Shazia, Norton, Thomas, Somersan-Karakaya, Selin, Sivapalasingam, Sumathi, Herman, Gary A, Weinreich, David M, Lipsich, Leah, Stahl, Neil, Murphy, Andrew J, Yancopoulos, George D, Kyratsous, Christos A (June 2021) The monoclonal antibody combination REGEN-COV protects against SARS-CoV-2 mutational escape in preclinical and human studies. Cell. ISSN 0092-8674

Corcoran, Emma Tung, LeBlanc, Chantal, Huang, Yi-Chun, Tsang, Mia Arias, Sarkiss, Anthony, Hu, Yuzhao, Pedmale, Ullas V, Jacob, Yannick (July 2022) Systematic histone H4 replacement in Arabidopsis thaliana reveals a role for H4R17 in regulating flowering time. The Plant Cell. koac211. ISSN 1040-4651

Cottarel, G. (September 1995) The Saccharomyces cerevisiae HIS3 and LYS2 genes complement the Schizosaccharomyces pombe his5-303 and lys1-131 mutations, respectively: new selectable markers and new multi-purpose multicopy shuttle vectors, pSP3 and pSP4. Curr Genet, 28 (4). pp. 380-3. ISSN 0172-8083 (Print)

Coté, Allison, O'Farrell, Aoife, Dardani, Ian, Dunagin, Margaret, Coté, Chris, Wan, Yihan, Bayatpour, Sareh, Drexler, Heather L, Alexander, Katherine A, Chen, Fei, Wassie, Asmamaw T, Patel, Rohan, Pham, Kenneth, Boyden, Edward S, Berger, Shelly, Phillips-Cremins, Jennifer, Churchman, L Stirling, Raj, Arjun (April 2024) Post-transcriptional splicing can occur in a slow-moving zone around the gene. eLife, 12. ISSN 2050-084X (Public Dataset)

Couvillion, M. T., Lee, S. R., Hogstad, B., Malone, C. D., Tonkin, L. A., Sachidanandam, R., Hannon, G. J., Collins, K. (2009) Sequence, biogenesis, and function of diverse small RNA classes bound to the Piwi family proteins of Tetrahymena thermophila. Genes and Development, 23 (17). pp. 2016-2032. ISSN 08909369 (ISSN)

Cox, B. (August 1994) Cytoplasmic inheritance. Prion-like factors in yeast. Curr Biol, 4 (8). pp. 744-8. ISSN 0960-9822 (Print)

Cranston, K. A., Hurwitz, B. L., Ware, D. H., Stein, L. D., Wing, R. A. (October 2009) Species Trees from Highly Incongruent Gene Trees in Rice. Systematic Biology, 58 (5). pp. 489-500. ISSN 1063-5157

Creighton, H. B., McClintock, B. (March 1935) The Correlation of Cytological and Genetical Crossing-Over in Zea Mays. A Corroboration. Proc Natl Acad Sci U S A, 21 (3). pp. 148-50. ISSN 0027-8424 (Print)0027-8424 (Linking)

Crow, M., Gillis, J. (August 2018) Co-expression in Single-Cell Analysis: Saving Grace or Original Sin? Trends Genet, 34 (11). pp. 823-831. ISSN 0168-9525 (Print)0168-9525

Crow, M., Lim, N., Ballouz, S., Pavlidis, P., Gillis, J. (March 2019) Predictability of human differential gene expression. Proc Natl Acad Sci U S A. ISSN 0027-8424

Crow, Megan, Suresh, Hamsini, Lee, John, Gillis, Jesse (April 2022) Coexpression reveals conserved gene programs that co-vary with cell type across kingdoms. Nucleic Acids Research. ISSN 0305-1048

Cuenot, Lucien Claude Marie Julien (November 1908) Etudes sur le cancer des souris. Y-a-t-il un rapport entre les differentes mutations connues chez les souris et la receptivite a la Greffe? Comptes rendus Academie Sciences Paris, 147.

Cullen, H., Schorn, A. J. (July 2020) Endogenous Retroviruses Walk a Fine Line between Priming and Silencing. Viruses, 12 (8). p. 792. ISSN 1999-4915

Curley, A. A., Eggan, S. M., Lazarus, M. S., Huang, Z. J., Volk, D. W., Lewis, D. A. (February 2013) Role of glutamic acid decarboxylase 67 in regulating cortical parvalbumin and GABA membrane transporter 1 expression: Implications for schizophrenia. Neurobiology of Disease, 50 (1). pp. 179-186. ISSN 0969-9961

Cuvier, O., Hart, C. M., Kas, E., Laemmli, U. K. (February 2002) Identification of a multicopy chromatin boundary element at the borders of silenced chromosomal domains. Chromosoma, 110 (8). pp. 519-531. ISSN 0009-5915

Cuvier, O., Hirano, T. (March 2003) A role of topoisomerase II in linking DNA replication to chromosome condensation. Journal of Cell Biology, 160 (5). pp. 645-655. ISSN 0021-9525

Czech, Benjamin, Preall, Jonathan B, McGinn, Jon, Hannon, Gregory J (2013) A Transcriptome-wide RNAi Screen in the Drosophila Ovary Reveals Factors of the Germline piRNA Pathway. Molecular Cell, 50 (5). pp. 749-761. ISSN 1097-2765

Czeisler, C. M., Silva, T. M., Fair, S. R., Liu, J., Tupal, S., Kaya, B., Cowgill, A., Mahajan, S., Silva, P. E., Wang, Y., Blissett, A. R., Goksel, M., Borniger, J. C., Zhang, N., Fernandes-Junior, S. A., Catacutan, F., Alves, M. J., Nelson, R. J., Sundaresean, V., Rekling, J., Takakura, A. C., Moreira, T. S., Otero, J. J. (April 2019) The role of PHOX2B-derived astrocytes in chemosensory control of breathing and sleep homeostasis. J Physiol, 597 (8). pp. 2225-2251. ISSN 1469-7793

D

D'Andrea, V., Nowak, D., Watrud, K., Ambrico, A., Casanova-Salas, I., Trotman, L. (July 2018) The Phlpp2 phosphatase protects Myc and is a target for the prevention of prostate cancer metastasis. Cancer Research, 78 (13 S). Abstract: 1097 . ISSN 0008-5472

Dachet, Fabien, Brown, James B, Valyi-Nagy, Tibor, Narayan, Kunwar D, Serafini, Anna, Boley, Nathan, Gingeras, Thomas R, Celniker, Susan E, Mohapatra, Gayatry, Loeb, Jeffrey A (March 2021) Selective time-dependent changes in activity and cell-specific gene expression in human postmortem brain. Scientific Reports, 11 (1). p. 6078. ISSN 2045-2322

Dampanaboina, L., Jiao, Y., Chen, J., Gladman, N., Chopra, R., Burow, G., Hayes, C., Christensen, S. A., Burke, J., Ware, D., Xin, Z. (October 2019) Sorghum MSD3 Encodes an omega-3 Fatty Acid Desaturase that Increases Grain Number by Reducing Jasmonic Acid Levels. Int J Mol Sci, 20 (21). ISSN 1422-0067 (Public Dataset)

Dancsok, A. R., Setsu, N., Gao, D., Blay, J. Y., Thomas, D., Maki, R. G., Nielsen, T. O., Demicco, E. G. (July 2019) Expression of lymphocyte immunoregulatory biomarkers in bone and soft-tissue sarcomas. Mod Pathol, 32 (12). pp. 1662-1785. ISSN 0893-3952

Danko, C. G., Choate, L. A., Marks, B. A., Rice, E. J., Wang, Z., Chu, T., Martins, A. L., Dukler, N., Coonrod, S. A., Tait Wojno, E. D., Lis, J. T., Kraus, W. L., Siepel, A. (January 2018) Dynamic evolution of regulatory element ensembles in primate CD4(+) T cells. Nat Ecol Evol. pp. 1-12. ISSN 2397-334x

Darrow, S. M., Hirschtritt, M. E., Davis, L. K., Illmann, C., Osiecki, L., Grados, M., Sandor, P., Dion, Y., King, R., Pauls, D., Budman, C. L., Cath, D. C., Greenberg, E., Lyon, G. J., Yu, D., McGrath, L. M., McMahon, W. M., Lee, P. C., Delucchi, K. L., Scharf, J. M., Mathews, C. A. (April 2017) Identification of Two Heritable Cross-Disorder Endophenotypes for Tourette Syndrome. Am J Psychiatry, 174 (4). pp. 387-396. ISSN 1535-7228 (Electronic)0002-953X (Linking)

Das, P. P., Shao, Z., Beyaz, S., Apostolou, E., Pinello, L., Angeles, A. L., O'Brien, K., Atsma, J. M., Fujiwara, Y., Nguyen, M., Ljuboja, D., Guo, G., Woo, A., Yuan, G. C., Onder, T., Daley, G., Hochedlinger, K., Kim, J., Orkin, S. H. (January 2014) Distinct and combinatorial functions of Jmjd2b/Kdm4b and Jmjd2c/Kdm4c in mouse embryonic stem cell identity. Mol Cell, 53 (1). pp. 32-48. ISSN 1097-4164 (Electronic)1097-2765 (Linking)

Das, S., Anczuków, O., Akerman, M., Krainer, A. R (2012) Oncogenic Splicing Factor SRSF1 Is a Critical Transcriptional Target of MYC. Cell Reports, 1 (2). pp. 110-117. ISSN 2211-1247

Daulny, A., Tansey, W. P. (April 2009) Damage control: DNA repair, transcription, and the ubiquitin-proteasome system. DNA Repair, 8 (4). pp. 444-448.

Davenport, Charles Benedict (January 1904) Color inheritance in mice. Science, 19 (472). pp. 110-114.

Davis, L. E., Bolejack, V., Ryan, C. W., Ganjoo, K. N., Loggers, E. T., Chawla, S., Agulnik, M., Livingston, M. B., Reed, D., Keedy, V., Rushing, D., Okuno, S., Reinke, D. K., Riedel, R. F., Attia, S., Mascarenhas, L., Maki, R. G. (June 2019) Randomized Double-Blind Phase II Study of Regorafenib in Patients With Metastatic Osteosarcoma. J Clin Oncol, 37 (16). pp. 1424-1431. ISSN 0732-183x

De Araújo, M. M., Bonnal, S., Hastings, M. L., Krainer, A. R., Valcárcel, J. (April 2009) Differential 3′ splice site recognition of SMN1 and SMN2 transcripts by U2AF and U2 snRNP. RNA, 15 (4). pp. 515-523.

Deck, Courtney A., McKay, Sheldon J., Fiedler, Tristan J., LeMoine, Christophe M. R., Kajimura, Makiko, Nawata, C. Michele, Wood, Chris M., Walsh, Patrick J. (October 2013) Transcriptome responses in the rectal gland of fed and fasted spiny dogfish shark (Squalus acanthias) determined by suppression subtractive hybridization. Comparative Biochemistry and Physiology Part D: Genomics and Proteomics. ISSN 1744-117X

Degroat, Thomas J, Wiersielis, Kimberly, Denney, Katherine, Kodali, Sowmya, Daisey, Sierra, Tollkuhn, Jessica, Samuels, Benjamin A, Roepke, Troy A (December 2023) Chronic stress and its effects on behavior, RNA expression of the bed nucleus of the stria terminalis, and the M-current of NPY neurons. Psychoneuroendocrinology, 161. p. 106920. ISSN 0306-4530

Degtyareva, N. P., Greenwell, P., Hofmann, E. R., Hengartner, M. O., Zhang, L., Culotti, J. G., Petes, T. D. (February 2002) Caenorhabditis elegans DNA mismatch repair gene msh-2 is required for microsatellite stability and maintenance of genome integrity. Proceedings of the National Academy of Sciences of the United States of America, 99 (4). pp. 2158-2163. ISSN 0027-8424

Delas, M. J., Jackson, B. T., Kovacevic, T., Vangelisti, S., Munera Maravilla, E., Wild, S. A., Stork, E. M., Erard, N., Knott, S. R. V., Hannon, G. J. (April 2019) lncRNA Spehd Regulates Hematopoietic Stem and Progenitor Cells and Is Required for Multilineage Differentiation. Cell Rep, 27 (3). 719-729.e6.

Demerec, Milislav, Kaufmann, Berwind Petersen, Sutton, Eileen (January 1942) Genetic effects produced by neutrons in Drosophila melanogaster. Genetics, 27 (1). p. 140.

Demerec, Milislav, Witkin, Evelyn Maisel, Beckhorn, Edward J., Visconti, Niccolo, Flint, J., Cahn, Elise, Coon, R. C., Dollinger, E. J., Powell, B., Schwartz, M. (1951) Bacterial Genetics. In: Annual Report of the Director of the Department of Genetics, Carnegie Institution of Washington Year Book No. 50, 1950-1951. Carnegie Institution of Washington, Washington, D.C., pp. 181-195.

Demerec, Milislav, Witkin, Evelyn Maisel, Labrum, Edgar L., Galinsky, I., Hanson, J. Flint, Monsees, H., Fetherston, T. H. (1952) Bacterial Genetics. In: Annual Report of the Director of the Department of Genetics, Carnegie Institution of Washington Year Book No. 51, 1951-1952. Carnegie Institution of Washington, Washington, D.C., pp. 193-205.

Demicco, E. G., Wani, K., Ingram, D., Wagner, M., Maki, R. G., Rizzo, A., Meeker, A., Lazar, A. J., Wang, W. L. (November 2018) TERT Promoter Mutations in Solitary Fibrous Tumor. Histopathology, 73 (5). pp. 843-851. ISSN 0309-0167

Deng, Hanfei, Xiao, Xiong, Yang, Tao, Ritola, Kimberly, Hantman, Adam, Li, Yulong, Huang, Z Josh, Li, Bo (December 2021) A genetically defined insula-brainstem circuit selectively controls motivational vigor. Cell. ISSN 0092-8674

Denli, A. M., Hannon, G. J. (2003) RNAi: An ever-growing puzzle. Trends in Biochemical Sciences, 28 (4). pp. 196-201. ISSN 09680004 (ISSN)

Dennenmoser, S., Sedlazeck, F. J., Schatz, M. C., Altmuller, J., Zytnicki, M., Nolte, A. W. (December 2018) Genome-wide patterns of transposon proliferation in an evolutionary young hybrid fish. Mol Ecol, 28 (6). pp. 1491-1505. ISSN 0962-1083

Denney, Katherine, Wu, Melody, Sun, Simón E, Moon, Soyoun, Tollkuhn, Jessica (2023) Comparative analysis of gonadal hormone receptor expression in the house mouse, meadow vole, and prairie vole brain. (Submitted)

Denney, Katherine A, Wu, Melody V, Sun, Simón ED, Moon, Soyoun, Tollkuhn, Jessica (November 2023) Comparative analysis of gonadal hormone receptor expression in the postnatal house mouse, meadow vole, and prairie vole brain. Hormones and Behavior, 158. p. 105463. ISSN 0018-506X

Dent, P., Booth, L., Roberts, J. L., Liu, J., Poklepovic, A., Lalani, A. S., Tuveson, D., Martinez, J., Hancock, J. F. (June 2019) Neratinib inhibits Hippo/YAP signaling, reduces mutant K-RAS expression, and kills pancreatic and blood cancer cells. Oncogene. ISSN 0950-9232

Dergai, O., Cousin, P., Gouge, J., Satia, K., Praz, V., Kuhlman, T., Lhote, P., Vannini, A., Hernandez, N. (May 2018) Mechanism of selective recruitment of RNA polymerases II and III to snRNA gene promoters. Genes Dev, 32 (9-10). pp. 711-722. ISSN 0890-9369

Derkarabetian, S., Castillo, S., Koo, P. K., Ovchinnikov, S., Hedin, M. (October 2019) A demonstration of unsupervised machine learning in species delimitation. Mol Phylogenet Evol, 139. p. 106562. ISSN 1055-7903

Derrien, T., Johnson, R., Bussotti, G., Tanzer, A., Djebali, S., Tilgner, H., Guernec, G., Martin, D., Merkel, A., Knowles, D. G., Lagarde, J., Veeravalli, L., Ruan, X. A., Ruan, Y. J., Lassmann, T., Carninci, P., Brown, J. B., Lipovich, L., Gonzalez, J. M., Thomas, M., Davis, C. A., Shiekhattar, R., Gingeras, T. R., Hubbard, T. J., Notredame, C., Harrow, J., Guigo, R. (September 2012) The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression. Genome Research, 22 (9 Spe). pp. 1775-1789. ISSN 1088-9051

Desjardins, C. A., Gundersen-Rindal, D. E., Hostetler, J. B., Tallon, L. J., Fadrosh, D. W., Fuester, R. W., Pedroni, M. J., Haas, B. J., Schatz, M. C., Jones, K. M., Crabtree, J., Forberger, H., Nene, V. (2008) Comparative genomics of mutualistic viruses of Glyptapanteles parasitic wasps. Genome Biology, 9 (12). ISSN 14656914 (ISSN)

Desjardins, C. A., Gundersen-Rindal, D. E., Hostetler, J. B., Tallon, L. J., Fuester, R. W., Schatz, M. C., Pedroni, M. J., Fadrosh, D. W., Haas, B. J., Toms, B. S., Chen, D., Nene, V. (2007) Structure and evolution of a proviral locus of Glyptapanteles indiensis bracovirus. BMC Microbiology, 7. ISSN 14712180 (ISSN)

Deutsch, C. K., Malhotra, D., Krause, V., McCarthy, S. E., Krastoshevsky, O., Coleman, M., Francis, R. W., Bodkin, J. A., Boling, L., Cole, J., Gibbs, A., Johnson, F., Lerbinger, J., Mendell, N. R., Sebat, J., Levy, D. L. (March 2009) Rare Gene Copy Number Variations Are Associated with Specific Endophenotypes in Schizophrenia. Schizophrenia Bulletin, 35 (Suppl.). p. 117. ISSN 0586-7614

Devaraj, Anantharam, Singh, Manvendra, Narayanavari, Suneel A, Yong, Guo, Chen, Jiaxuan, Wang, Jichang, Becker, Mareike, Walisko, Oliver, Schorn, Andrea, Cseresznyés, Zoltán, Raskó, Tamás, Radscheit, Kathrin, Selbach, Matthias, Ivics, Zoltán, Izsvák, Zsuzsanna (April 2023) HMGXB4 Targets Sleeping Beauty Transposition to Germinal Stem Cells. International Journal of Molecular Sciences, 24 (8). p. 7283. ISSN 1661-6596

Devos, Katrien M, Qi, Peng, Bahri, Bochra A, Gimode, Davis M, Jenike, Katharine, Manthi, Samuel J, Lule, Dagnachew, Lux, Thomas, Martinez-Bello, Liliam, Pendergast, Thomas H, Plott, Chris, Saha, Dipnarayan, Sidhu, Gurjot S, Sreedasyam, Avinash, Wang, Xuewen, Wang, Hao, Wright, Hallie, Zhao, Jianxin, Deshpande, Santosh, de Villiers, Santie, Dida, Mathews M, Grimwood, Jane, Jenkins, Jerry, Lovell, John, Mayer, Klaus FX, Mneney, Emmarold E, Ojulong, Henry F, Schatz, Michael C, Schmutz, Jeremy, Song, Bo, Tesfaye, Kassahun, Odeny, Damaris A (June 2023) Genome analyses reveal population structure and a purple stigma color gene candidate in finger millet. Nature Communications, 14 (1). p. 3694. ISSN 2041-1723

Dewan, R, Chia, R, Ding, J, Hickman, RA, Stein, TD, Abramzon, Y, Ahmed, S, Sabir, MS, Portley, MK, Tucci, A, Ibáñez, K, Shankaracharya, FNU, Keagle, P, Rossi, G, Caroppo, P, Tagliavini, F, Waldo, ML, Johansson, PM, Nilsson, CF, Adeleye, A, Alba, C, Bacikova, D, Hupalo, DN, Martinez, EMG, Pollard, HB, Sukumar, G, Soltis, AR, Tuck, M, Zhang, X, Wilkerson, MD, Smith, BN, Ticozzi, N, Fallini, C, Gkazi, AS, Topp, SD, Kost, J, Scotter, EL, Kenna, KP, Miller, JW, Tiloca, C, Vance, C, Danielson, EW, Troakes, C, Colombrita, C, Al-Sarraj, S, Lewis, EA, King, A, Calini, D, Pensato, V, Castellotti, B, de Belleroche, J, Baas, F, ten Asbroek, ALMA, Sapp, PC, McKenna-Yasek, D, McLaughlin, RL, Polak, M, Asress, S, Esteban-Pérez, J, Muñoz-Blanco, JL, Stevic, Z, D'Alfonso, S, Mazzini, L, Comi, GP, Del Bo, R, Ceroni, M, Gagliardi, S, Querin, G, Bertolin, C, van Rheenen, W, Diekstra, FP, Rademakers, R, van Blitterswijk, M, Boylan, KB, Lauria, G, Duga, S, Corti, S, Cereda, C, Corrado, L, Sorarù, G, Williams, KL, Nicholson, GA, Blair, IP, Leblond-Manry, C, Rouleau, GA, Hardiman, O, Morrison, KE, Veldink, JH, van den Berg, LH, Al-Chalabi, A, Pall, H, Shaw, PJ, Turner, MR, Talbot, K, Taroni, F, García-Redondo, A, Wu, Z, Gellera, C, Ratti, A, Brown, RH (February 2021) Pathogenic Huntingtin Repeat Expansions in Patients with Frontotemporal Dementia and Amyotrophic Lateral Sclerosis. Neuron, 109 (3). 448-460.e4. ISSN 0896-6273

Dharmawardhana, P., Ren, L. Y., Amarasinghe, V., Monaco, M., Thomason, J., Ravenscroft, D., McCouch, S., Ware, D., Jaiswal, P. (May 2013) A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress. Rice, 6 (1). pp. 1-15. ISSN 1939-8425

Dimitrova, N., Chen, Y. C. M., Spector, D. L., de Lange, T. (November 2008) 53BP1 promotes non-homologous end joining of telomeres by increasing chromatin mobility. Nature, 456 (7221). pp. 524-528.

Ding, D., Zhang, L., Wang, H., Liu, Z., Zhang, Z., Zheng, Y. (January 2009) Differential expression of miRNAs in response to salt stress in maize roots. Ann Bot, 103 (1). pp. 29-38.

Ding, J. Z., Hayashi, M. K., Zhang, Y., Manche, L., Krainer, A. R., Xu, R. M. (May 1999) Crystal structure of the two-RRM domain of hnRNP A1 (UP1) complexed with single-stranded telomeric DNA. Genes & Development, 13 (9). pp. 1102-1115. ISSN 0890-9369

Diniz, A. L., da Silva, D. I. R., Lembke, C. G., Costa, M. D. L., Ten-Caten, F., Li, F., Vilela, R. D., Menossi, M., Ware, D., Endres, L., Souza, G. M. (November 2020) Amino Acid and Carbohydrate Metabolism Are Coordinated to Maintain Energetic Balance during Drought in Sugarcane. Int J Mol Sci, 21 (23). p. 9124. ISSN 1422-0067

Djebali, S., Davis, C. A., Merkel, A., Dobin, A., Lassmann, T., Mortazavi, A., Tanzer, A., Lagarde, J., Lin, W., Schlesinger, F., Xue, C., Marinov, G. K., Khatun, J., Williams, B. A., Zaleski, C., Rozowsky, J., Röder, M., Kokocinski, F., Abdelhamid, R. F., Alioto, T., Antoshechkin, I., Baer, M. T., Bar, N. S., Batut, P., Bell, K., Bell, I., Chakrabortty, S., Chen, X., Chrast, J., Curado, J., Derrien, T., Drenkow, J., Dumais, E., Dumais, J., Duttagupta, R., Falconnet, E., Fastuca, M., Fejes-Toth, K., Ferreira, P., Foissac, S., Fullwood, M. J., Gao, H., Gonzalez, D., Gordon, A., Gunawardena, H., Howald, C., Jha, S., Johnson, R., Kapranov, P., King, B., Kingswood, C., Luo, O. J., Park, E., Persaud, K., Preall, J. B., Ribeca, P., Risk, B., Robyr, D., Sammeth, M., Schaffer, L., See, L. H., Shahab, A., Skancke, J., Suzuki, A. M., Takahashi, H., Tilgner, H., Trout, D., Walters, N., Wang, H., Wrobel, J., Yu, Y., Ruan, X., Hayashizaki, Y., Harrow, J., Gerstein, M., Hubbard, T., Reymond, A., Antonarakis, S. E., Hannon, G., Giddings, M. C., Ruan, Y., Wold, B., Carninci, P., Guig, R., Gingeras, T. R. (September 2012) Landscape of transcription in human cells. Nature, 489 (7414). pp. 101-108. ISSN 0028-0836

Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., Gingeras, T. R. (January 2013) STAR: ultrafast universal RNA-seq aligner. Bioinformatics, 29 (1). pp. 15-21. ISSN 1367-4803

Dokshin, G. A., Davis, G. M., Sawle, A. D., Eldridge, M. D., Nicholls, P. K., Gourley, T. E., Romer, K. A., Molesworth, L. W., Tatnell, H. R., Ozturk, A. R., de Rooij, D. G., Hannon, G. J., Page, D. C., Mello, C. C., Carmell, M. A. (December 2019) GCNA Interacts with Spartan and Topoisomerase II to Regulate Genome Stability. Dev Cell. ISSN 1534-5807 (Public Dataset)

Domkin, V., Thelander, L., Chabes, A. (May 2002) Yeast DNA damage-inducible Rnr3 has a very low catalytic activity strongly stimulated after the formation of a cross-talking Rnr1/Rnr3 complex. Journal of Biological Chemistry, 277 (21). pp. 18574-18578. ISSN 0021-9258

Domsic, J. K., Wang, Y. B., Mayeda, A., Krainer, A. R., Stoltzfus, C. M. (December 2003) Human immunodeficiency virus type 1 hnRNP A/B-Dep endent exonic splicing silencer ESSV antagonizes binding of U2AF65 to viral polypyrimidine tracts. Molecular and Cellular Biology, 23 (23). pp. 8762-8772. ISSN 0270-7306

Dong, B. H., Horowitz, D. S., Kobayashi, R., Krainer, A. R. (August 1993) Purification and cDNA cloning of HeLa cell p54nrb, a nuclear protein with two RNA recognition motifs and extensive homology to human splicing factor PSF and Drosophila NONA/BJ6. Nucleic Acids Research, 21 (17). pp. 4085-4092. ISSN 0305-1048

Dong, O. X., Ao, K., Xu, F., Johnson, K. C. M., Wu, Y., Li, L., Xia, S., Liu, Y., Huang, Y., Rodriguez, E., Chen, X., Chen, S., Zhang, Y., Petersen, M., Li, X. (August 2018) Individual components of paired typical NLR immune receptors are regulated by distinct E3 ligases. Nat Plants, 4 (9). pp. 699-710. ISSN 2055-0278

Dong, X., Greven, M. C., Kundaje, A., Djebali, S., Brown, J. B., Cheng, C., Gingeras, T. R., Gerstein, M., Guigó, R., Birney, E., Weng, Z. (September 2012) Modeling gene expression using chromatin features in various cellular contexts. Genome Biology, 13 (9).

Doolittle, W. F., Fraser, P., Gerstein, M. B., Graveley, B. R., Henikoff, S., Huttenhower, C., Oshlack, A., Ponting, C. P., Rinn, J. L., Schatz, M. C., Ule, J., Weigel, D., Weinstock, G. M. (April 2013) Sixty years of genome biology. Genome Biology, 14 (4). ISSN 1474-7596

Dore, L. C., Vakoc, C. R., Blobel, G. A., Hardison, R. C., Bodine, D. M., Gallagher, P. G., Weiss, M. J. (November 2005) Genomic organization, chromatin structure, and transcriptional regulation of the murine Alpha Hemoglobin Stabilizing Protein (AHSP) gene. Blood, 106 (11). 1012A-1012A. ISSN 0006-4971

Dow, L. E., Premsrirut, P. K., Zuber, J., Fellmann, C., McJunkin, K., Miething, C., Park, Y., Dickins, R. A., Hannon, G. J., Lowe, S. W. (2012) A pipeline for the generation of shRNA transgenic mice. Nature Protocols, 7 (2). pp. 374-393. ISSN 17542189 (ISSN)

Dowen, Jill M., Bilodeau, Steve, Orlando, David A., Hübner, Michael R., Abraham, Brian J., Spector, David L., Young, Richard A. (October 2013) Multiple Structural Maintenance of Chromosome Complexes at Transcriptional Regulatory Elements. Stem Cell Reports, 1 (5). pp. 371-378. ISSN 2213-6711

Dreyer, Stephan B, Upstill-Goddard, Rosie, Paulus-Hock, Viola, Paris, Clara, Lampraki, Eirini-Maria, Dray, Eloise, Serrels, Bryan, Caligiuri, Giuseppina, Rebus, Selma, Plenker, Dennis, Galluzzo, Zachary, Brunton, Holly, Cunningham, Richard, Tesson, Mathias, Nourse, Craig, Bailey, Ulla-Maja, Jones, Marc, Moran-Jones, Kim, Wright, Derek W, Duthie, Fraser, Oien, Karin, Evers, Lisa, McKay, Colin J, McGregor, Grant A, Gulati, Aditi, Brough, Rachel, Bajrami, Ilirjana, Pettitt, Stephan, Dziubinski, Michele L, Candido, Juliana, Balkwill, Frances, Barry, Simon T, Grützmann, Robert, Rahib, Lola, Glasgow Precision Oncology Laboratory,, Australian Pancreatic Cancer Genome Initiative, Johns, Amber, Pajic, Marina, Froeling, Fieke EM, Beer, Phillip, Musgrove, Elizabeth A, Petersen, Gloria M, Ashworth, Alan, Frame, Margaret C, Crawford, Howard C, Simeone, Diane M, Lord, Chris, Mukhopadhyay, Debabrata, Pilarsky, Christian, Tuveson, David A, Cooke, Susanna L, Jamieson, Nigel B, Morton, Jennifer P, Sansom, Owen J, Bailey, Peter J, Biankin, Andrew V, Chang, David K (January 2021) Targeting DNA Damage Response and Replication Stress in Pancreatic Cancer. Gastroenterology, 160 (1). 362-377.e13. ISSN 0016-5085

Du, Yanfang, Lunde, China, Li, Yunfu, Jackson, David, Hake, Sarah, Zhang, Zuxin (February 2021) Gene duplication at the Fascicled ear1 locus controls the fate of inflorescence meristem cells in maize. Proceedings of the National Academy of Sciences of USA, 118 (7). e2019218118-e2019218118. ISSN 0027-8424

Dubnau, J., Chiang, A. S. (2013) Systems memory consolidation in Drosophila. Current Opinion in Neurobiology, 23 (1). pp. 84-91. ISSN 0959-4388

Dubnau, J. T. (November 2012) Talk from Josh Dubnau at the Cold Spring Harbor Laboratory In-House Symposium (2012). [Video] (Unpublished)

Dugourd, Aurelien, Kuppe, Christoph, Sciacovelli, Marco, Gjerga, Enio, Gabor, Attila, Emdal, Kristina B, Vieira, Vitor, Bekker-Jensen, Dorte B, Kranz, Jennifer, Bindels, Eric MJ, Costa, Ana SH, Sousa, Abel, Beltrao, Pedro, Rocha, Miguel, Olsen, Jesper V, Frezza, Christian, Kramann, Rafael, Saez-Rodriguez, Julio (January 2021) Causal integration of multi-omics data with prior knowledge to generate mechanistic hypotheses. Molecular Systems Biology, 17 (1). e9730. ISSN 1744-4292

Dukler, N., Huang, Y-F., Siepel, A. (March 2020) Phylogenetic Modeling of Regulatory Element Turnover Based on Epigenomic Data. Mol Biol Evol, 37 (7). pp. 2137-2152. ISSN 0737-4038

Dukler, Noah, Mughal, Mehreen R, Ramani, Ritika, Huang, Yi-Fei, Siepel, Adam (July 2022) Extreme purifying selection against point mutations in the human genome. Nature Communications, 13 (1). p. 4312. ISSN 2041-1723

Dunham, I., Kundaje, A., Aldred, S. F., Collins, P. J., Davis, C., Doyle, F., Epstein, C. B., Frietze, S., Harrow, J., Kaul, R., Khatun, J., Lajoie, B. R., Landt, S. G., Lee, B. K., Pauli, F., Rosenbloom, K. R., Sabo, P., Safi, A., Sanyal, A., Shoresh, N., Simon, J. M., Song, L., Trinklein, N. D., Altshuler, R. C., Birney, E., Brown, J. B., Cheng, C., Djebali, S., Dong, X. J., Ernst, J., Furey, T. S., Gerstein, M., Giardine, B., Greven, M., Hardison, R. C., Harris, R. S., Herrero, J., Hoffman, M. M., Iyer, S., Kellis, M., Kheradpour, P., Lassmann, T., Li, Q. H., Lin, X., Marinov, G. K., Merkel, A., Mortazavi, A., Parker, S. C. J., Reddy, T. E., Rozowsky, J., Schlesinger, F., Thurman, R. E., Wang, J., Ward, L. D., Whitfield, T. W., Wilder, S. P., Wu, W., Xi, H. L. S., Yip, K. Y., Zhuang, J. L., Bernstein, B. E., Green, E. D., Gunter, C., Snyder, M., Pazin, M. J., Lowdon, R. F., Dillon, L. A. L., Adams, L. B., Kelly, C. J., Zhang, J., Wexler, J. R., Good, P. J., Feingold, E. A., Crawford, G. E., Dekker, J., Elnitski, L., Farnham, P. J., Giddings, M. C., Gingeras, T. R., Guigo, R., Hubbard, T. J., Kent, W. J., Lieb, J. D., Margulies, E. H., Myers, R. M., Stamatoyannopoulos, J. A., Tenenbaum, S. A., Weng, Z. P., White, K. P., Wold, B., Yu, Y., Wrobel, J., Risk, B. A., Gunawardena, H. P., Kuiper, H. C., Maier, C. W., Xie, L., Chen, X., Mikkelsen, T. S., Gillespie, S. (September 2012) An integrated encyclopedia of DNA elements in the human genome. Nature, 489 (7414). pp. 57-74. ISSN 0028-0836

Dunn, E. F., Hammell, C. M., Hodge, C. A., Cole, C. N. (2005) Yeast poly(A)-binding protein, Pab1, and PAN, a poly(A) nuclease complex recruited by Pab1, connect mRNA biogenesis to export. Genes and Development, 19 (1). pp. 90-103. ISSN 08909369 (ISSN)

Dutta, A., Din, S., Brill, S. J., Stillman, B. (1991) Phosphorylation of replication protein A: A role for cdc2 kinase in G1/S regulation. Cold Spring Harbor Symposia on Quantitative Biology, 56. pp. 315-324. ISSN 00917451 (ISSN)

Dvorkin, Roman, Shea, Stephen D (February 2022) Precise and pervasive phasic bursting in locus coeruleus during maternal behavior in mice. The Journal of Neuroscience. ISSN 0270-6474

da Fonseca, R. R., Kosiol, C., Vinar, T., Siepel, A., Nielsen, R. (February 2010) Positive selection on apoptosis related genes. FEBS Lett, 584 (3). pp. 469-76. ISSN 0014-5793

da Silva, Edaise M, Selenica, Pier, Vahdatinia, Mahsa, Pareja, Fresia, Da Cruz Paula, Arnaud, Ferrando, Lorenzo, Gazzo, Andrea M, Dopeso, Higinio, Ross, Dara S, Bakhteri, Ariya, Riaz, Nadeem, Chandarlapaty, Sarat, Razavi, Pedram, Norton, Larry, Wen, Hannah Y, Brogi, Edi, Weigelt, Britta, Zhang, Hong, Reis-Filho, Jorge S (April 2021) TERT promoter hotspot mutations and gene amplification in metaplastic breast cancer. npj Breast Cancer, 7 (1). p. 43. ISSN 2374-4677

de Oliveira, Beatriz Cristina Dias, Shiburah, Mark Ewusi, Assis, Luiz Henrique Castro, Fontes, Veronica Silva, Bisetegn, Habtye, de Oliveira Passos, Arthur, de Oliveira, Leilane S, de Santis Alves, Cristiane, Ernst, Evan, Martienssen, Rob, Gallo-Francisco, Pedro Henrique, Giorgio, Selma, Batista, Marcos Meuser, de Nazaré Correia Soeiro, Maria, Menna-Barreto, Rubem Figueiredo Sadok, Aoki, Juliana Ide, Coelho, Adriano Cappellazzo, Cano, Maria Isabel Nogueira (August 2024) Leishmania major telomerase RNA knockout: From altered cell proliferation to decreased parasite infectivity. International Journal of Biological Macromolecules. p. 135150. ISSN 0141-8130

E

Eakin, A. E., Mills, A. A., Harth, G., McKerrow, J. H., Craik, C. S. (1992) The sequence, organization, and expression of the major cysteine protease (cruzain) from Trypanosoma cruzi. Journal of Biological Chemistry, 267 (11). pp. 7411-7420. ISSN 00219258 (ISSN)

Ebbesen, Saya H. (April 2013) RNAi Mouse Models of Breast Cancer Tumor Suppressor Genes. PhD thesis, Cold Spring Harbor Laboratory.

Ebine, K., Kumar, K., Pham, T. N., Shields, M. A., Collier, K. A., Shang, M., DeCant, B. T., Urrutia, R., Hwang, R. F., Grimaldo, S., Principe, D. R., Grippo, P. J., Bentrem, D. J., Munshi, H. G. (September 2018) Interplay between interferon regulatory factor 1 and BRD4 in the regulation of PD-L1 in pancreatic stellate cells. Sci Rep, 8 (1). p. 13225. ISSN 2045-2322

Eckersley-Maslin, M. A., Bergmann, J. H., Lazar, Z., Spector, D. L. (January 2013) Lamin A/C is Expressed in Pluripotent Mouse Embryonic Stem Cells. Nucleus, 4 (1). pp. 53-60. ISSN 1949-1042 (Electronic)1949-1042 (Linking)

Egeblad, M., Kouros-Mehr, H., Welm, B. E., Ortega, N., Cunha, G. R., Werb, Z. (November 2002) MMP-9 in mouse mammary cancer. Molecular Biology of the Cell, 13. 209A-210A. ISSN 1059-1524

Egeblad, M., Shen, H. C. J., Behonick, D. J., Wilmes, L., Eichten, A., Korets, L. V., Kheradmand, F., Werb, Z., Coussens, L. M. (2007) Type I collagen is a genetic modifier of matrix metalloproteinase 2 in murine skeletal development. Developmental Dynamics, 236 (6). pp. 1683-1693. ISSN 10588388 (ISSN)

Egeblad, M., Werb, Z. (2002) New functions for the matrix metalloproteinases in cancer progression. Nature Reviews Cancer, 2 (3). pp. 161-174. ISSN 1474175X (ISSN)

Eguchi, J., Yan, Q. W., Schones, D. E., Karnal, M., Hsu, C. H., Zhang, M. Q., Crawford, G. E., Rosen, E. D. (2008) Interferon regulatory factors are transcriptional regulators of adipogenesis. Cell Metabolism, 7 (1). pp. 86-94. ISSN 1550-4131

Ehrenhofer-Wolfer, K., Puchner, T., Schwarz, C., Rippka, J., Blaha-Ostermann, S., Strobl, U., Hormann, A., Bader, G., Kornigg, S., Zahn, S., Sommergruber, W., Schweifer, N., Zichner, T., Schlattl, A., Neumuller, R. A., Shi, J., Vakoc, C. R., Kogl, M., Petronczki, M., Kraut, N., Pearson, M. A., Wohrle, S. (August 2019) SMARCA2-deficiency confers sensitivity to targeted inhibition of SMARCA4 in esophageal squamous cell carcinoma cell lines. Sci Rep, 9 (1). p. 11661. ISSN 2045-2322

Eide, T., Carlson, C., Tasken, K. A., Hirano, T., Tasken, K., Collas, P. (May 2002) Distinct but overlapping domains of AKAP95 are implicated in chromosome condensation and condensin targeting. Embo Reports, 3 (5). pp. 426-432. ISSN 1469-221X

Eifert, C., Powers, R. S. (June 2012) From cancer genomes to oncogenic drivers, tumour dependencies and therapeutic targets. Nat Rev Cancer, 12 (8). pp. 572-578. ISSN 1474-1768 (Electronic)1474-175X (Linking)

Eils, R., Gerlich, D., Tvarusko, W., Spector, D. L., Misteli, T. (2000) Quantitative imaging of pre-mRNA splicing factors in living cells. Molecular Biology of the Cell, 11 (2). pp. 413-418. ISSN 1059-1524

Einson, Jonah, Glinos, Dafni, Boerwinkle, Eric, Castaldi, Peter, Darbar, Dawood, de Andrade, Mariza, Ellinor, Patrick, Fornage, Myriam, Gabriel, Stacey, Germer, Soren, Gibbs, Richard, Hersh, Craig P, Johnsen, Jill, Kaplan, Robert, Konkle, Barbara A, Kooperberg, Charles, Nassir, Rami, Loos, Ruth JF, Meyers, Deborah A, Mitchell, Braxton D, Psaty, Bruce, Vasan, Ramachandran S, Rich, Stephen S, Rienstra, Michael, Rotter, Jerome I, Saferali, Aabida, Shoemaker, M Benjamin, Silverman, Edwin, Smith, Albert Vernon, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Mohammadi, Pejman, Castel, Stephane E, Iossifov, Ivan, Lappalainen, Tuuli (January 2023) Genetic control of mRNA splicing as a potential mechanism for incomplete penetrance of rare coding variants. bioRxiv. (Submitted)

Einson, Jonah, Glinos, Dafni, Boerwinkle, Eric, Castaldi, Peter, Darbar, Dawood, de Andrade, Mariza, Ellinor, Patrick, Fornage, Myriam, Gabriel, Stacey, Germer, Soren, Gibbs, Richard, Hersh, Craig P, Johnsen, Jill, Kaplan, Robert, Konkle, Barbara A, Kooperberg, Charles, Nassir, Rami, Loos, Ruth JF, Meyers, Deborah A, Mitchell, Braxton D, Psaty, Bruce, Vasan, Ramachandran S, Rich, Stephen S, Rienstra, Michael, Rotter, Jerome I, Saferali, Aabida, Shoemaker, Moore Benjamin, Silverman, Edwin, Smith, Albert Vernon, NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Mohammadi, Pejman, Castel, Stephane E, Iossifov, Ivan, Lappalainen, Tuuli (August 2023) Genetic control of mRNA splicing as a potential mechanism for incomplete penetrance of rare coding variants. Genetics, 224 (4). iyad115. ISSN 0016-6731

Elhussein, Ahmed, Baymuradov, Ulugbek, NYGC ALS Consortium, Elhadad, Noémie, Natarajan, Karthik, Gürsoy, Gamze (September 2024) A framework for sharing of clinical and genetic data for precision medicine applications. Nature Medicine. ISSN 1078-8956 (Public Dataset)

Elkayam, E., Kuhn, C. D., Tocilj, A., Haase, A. D., Greene, E. M., Hannon, G. J., Joshua-Tor, L. (2012) The structure of human argonaute-2 in complex with miR-20a. Cell, 150 (1). pp. 100-110. ISSN 00928674 (ISSN) (Public Dataset)

Elkin, Rena, Oh, Jung Hun, Dela Cruz, Filemon, Norton, Larry, Deasy, Joseph O, Kung, Andrew L, Tannenbaum, Allen R (January 2024) Dynamic network curvature analysis of gene expression reveals novel potential therapeutic targets in sarcoma. Scientific Reports, 14 (1). p. 488. ISSN 2045-2322 (Public Dataset)

Ellis, L., Bots, M., Lindemann, R. K., Bolden, J. E., Newbold, A., Cluse, L. A., Scott, C. L., Strasser, A., Atadja, P., Lowe, S. W., Johnstone, R. W. (July 2009) The histone deacetylase inhibitors LAQ824 and LBH589 do not require death receptor signaling or a functional apoptosome to mediate tumor cell death or therapeutic efficacy. Blood, 114 (2). pp. 380-393.

Ely, Zackery A, Mathey-Andrews, Nicolas, Naranjo, Santiago, Gould, Samuel I, Mercer, Kim L, Newby, Gregory A, Cabana, Christina M, Rideout, William M, Jaramillo, Grissel Cervantes, Khirallah, Jennifer M, Holland, Katie, Randolph, Peyton B, Freed-Pastor, William A, Davis, Jessie R, Kulstad, Zachary, Westcott, Peter MK, Lin, Lin, Anzalone, Andrew V, Horton, Brendan L, Pattada, Nimisha B, Shanahan, Sean-Luc, Ye, Zhongfeng, Spranger, Stefani, Xu, Qiaobing, Sánchez-Rivera, Francisco J, Liu, David R, Jacks, Tyler (May 2023) A prime editor mouse to model a broad spectrum of somatic mutations in vivo. Nature Biotechnology. ISSN 1087-0156 (Public Dataset)

Engström, P. G., Steijger, T., Sipos, B., Grant, G. R., Kahles, A., Rätsch, G., Goldman, N., Hubbard, T. J., Harrow, J., Guigó, R., Bertone, P., Alioto, T., Behr, J., Bohnert, R., Campagna, D., Davis, C. A., Dobin, A., Gingeras, T. R., Jean, G., Kosarev, P., Li, S., Liu, J., Mason, C. E., Molodtsov, V., Ning, Z., Ponstingl, H., Prins, J. F., Ribeca, P., Seledtsov, I., Solovyev, V., Valle, G., Vitulo, N., Wang, K., Wu, T. D., Zeller, G. (December 2013) Systematic evaluation of spliced alignment programs for RNA-seq data. Nature Methods, 10 (12). pp. 1185-1191. ISSN 15487091 (ISSN)

Enikolopov, G., Peunova, N. (March 1993) Nitric-oxide potentiates the effect of calcium on transcription in neuronal cells. Journal of Cellular Biochemistry, 53 (Suppl ). p. 254. ISSN 0730-2312

Eperon, I. C., Ireland, D. C., Smith, R. A., Mayeda, A., Krainer, A. R. (September 1993) Pathways for selection of 5' splice sites by U1 snRNPs and SF2/ASF. EMBO Journal, 12 (9). pp. 3607-3617. ISSN 0261-4189

Ernst, P., Vakoc, C. R. (May 2012) WRAD: enabler of the SET1-family of H3K4 methyltransferases. Briefings in Functional Genomics, 11 (3). pp. 217-226. ISSN 2041-2649

Escarceller, M., Hicks, J., Gudmundsson, G., Trump, G., Touati, D., Lovett, S., Foster, P. L., McEntee, K., Goodman, M. F. (1994) Involvement of Escherichia coli DNA polymerase II in response to oxidative damage and adaptive mutation. Journal of Bacteriology, 176 (20). pp. 6221-6228. ISSN 00219193 (ISSN)

Eshed, Y., Lippman, Z. B. (September 2019) Revolutions in agriculture chart a course for targeted breeding of old and new crops. Science, 366 (6466). ISSN 0036-8075

Esteban, J. A., Shi, S. H., Wilson, C., Nuriya, M., Huganir, R. L., Malinow, R. (February 2003) PKA phosphorylation of AMPA receptor subunits controls synaptic trafficking underlying plasticity. Nature Neuroscience, 6 (2). pp. 136-143. ISSN 1097-6256

Ewald, R. C., Cline, H. T. (September 2009) Cloning and Phylogenetic Analysis of NMDA Receptor Subunits NR1, NR2A and NR2B in Xenopus laevis Tadpoles. Front Mol Neurosci, 2. p. 4.

Ezhkova, E., Pasolli, H. A., Parker, J. S., Stokes, N., Su, I. H., Hannon, G. J., Tarakhovsky, A., Fuchs, E. (March 2009) Ezh2 Orchestrates Gene Expression for the Stepwise Differentiation of Tissue-Specific Stem Cells. Cell, 136 (6). pp. 1122-1135. ISSN 0092-8674

F

Fackenthal, J. D., Cartegni, L., Krainer, A. R., Olopade, O. I. (September 2002) BRCA2 T2722R is a deleterious allele that causes exon skipping. American Journal of Human Genetics, 71 (3). pp. 625-631. ISSN 0002-9297

Faehnle, Christopher R, Elkayam, Elad, Haase, Astrid D, Hannon, Gregory J, Joshua-Tor, Leemor (June 2013) The Making of a Slicer: Activation of Human Argonaute-1. Cell Reports, 3 (6). pp. 1901-1909. ISSN 2211-1247 (Public Dataset)

Fagegaltier, D., Bougé, A.-L., Berry, B., Poisot, É., Sismeiro, O., Coppée, J.-Y., Théodore, L., Voinnet, O., Antoniewski, C. (December 2009) The endogenous siRNA pathway is involved in heterochromatin formation in Drosophila. Proceedings of the National Academy of Sciences of the United States of America, 106 (50). pp. 21258-21263.

Fang, F., Hodges, E., Molaro, A., Dean, M., Hannon, G. J., Smith, A. D. (2012) Genomic landscape of human allele-specific DNA methylation. Proceedings of the National Academy of Sciences of the United States of America, 109 (19). pp. 7332-7337. ISSN 00278424 (ISSN)

Fang, Han, Huang, Yi-Fei, Radhakrishnan, Aditya, Siepel, Adam, Lyon, Gholson J., Schatz, Michael C. (February 2018) Scikit-ribo Enables Accurate Estimation and Robust Modeling of Translation Dynamics at Codon Resolution. Cell Systems, 6 (2). pp. 180-191. ISSN 2405-4712

Fang, Han (August 2013) Finding the sources of missing heritability in a yeast cross. Journal Club. (Unpublished)

Farmer, A. A., Loftus, T. M., Mills, A. A., Sato, K. Y., Neill, J. D., Tron, T., Yang, M., Trumpower, B. L., Stanbridge, E. J. (1994) Extreme evolutionary conservation of QM, a novel c-Jun associated transcription factor. Human Molecular Genetics, 3 (5). pp. 723-728. ISSN 09646906 (ISSN)

Farrell, Brian M, Gerth, Fabian, Yang, Cheng-Hao R, Yeh, Johannes T-H (September 2022) A synthetic KLHL20 ligand to validate CUL3KLHL20 as a potent E3 ligase for targeted protein degradation. Genes and Development, 36 (17-18). pp. 1031-1042. ISSN 0890-9369

Feigin, M. E. (August 2013) Harnessing the genome for characterization of G-protein coupled receptors in cancer pathogenesis. FEBS J, 280 (19). pp. 4729-38. ISSN 1742-4658 (Electronic)1742-464X (Linking)

Feigman, M.J., Moss, M.A., Chen, C., Cyrill, S.L., Cicone, M.F., Trousdell, M.C., Yang, S.-T., Frey, W.D., Wilkinson, J.E., Dos Santos, C. O. (May 2020) Pregnancy Reprograms the Epigenome of Mammary Epithelial Cells and Blocks the Development of Premalignant Lesions. Nat Commun, 11 (1). p. 2649. ISSN 2041-1723

Feike, D., Seung, D., Graf, A., Bischof, S., Ellick, T., Coiro, M., Soyk, S., Eicke, S., Mettler-Altmann, T., Lu, K. J., Trick, M., Zeeman, S. C., Smith, A. M. (June 2016) The Starch Granule-Associated Protein EARLY STARVATION1 Is Required for the Control of Starch Degradation in Arabidopsis thaliana Leaves. Plant Cell, 28 (6). pp. 1472-89. ISSN 1532-298X (Electronic)1040-4651 (Linking)

Fendler, B., Atwal, G. (2012) Systematic deciphering of cancer genome networks. Yale Journal of Biology and Medicine, 85 (3). pp. 339-45. ISSN 1551-4056 (Electronic)0044-0086 (Linking)

Feng, H., Bao, S., Rahman, M. A., Weyn-Vanhentenryck, S. M., Khan, A., Wong, J., Shah, A., Flynn, E. D., Krainer, A. R., Zhang, C. (June 2019) Modeling RNA-Binding Protein Specificity In Vivo by Precisely Registering Protein-RNA Crosslink Sites. Mol Cell, 74 (6). 1189-1204.e6. ISSN 1097-2765

Feng, Xiang, Noguchi, Yasunori, Barbon, Marta, Stillman, Bruce, Speck, Christian, Li, Huilin (June 2021) The structure of ORC–Cdc6 on an origin DNA reveals the mechanism of ORC activation by the replication initiator Cdc6. Nature Communications, 12 (1). ISSN 2041-1723

Ferbeyre, G., Bourdeau, V., Pageau, M., Miramontes, P., Cedergren, R. (July 2000) Distribution of hammerhead and hammerhead-like RNA motifs through the GenBank. Genome Research, 10 (7). pp. 1011-1019. ISSN 1088-9051

Ferrandiz, C., Gu, Q., Martienssen, R., Yanofsky, M. F. (February 2000) Redundant regulation of meristem identity and plant architecture by FRUITFULL, APETALA1 and CAULIFLOWER. Development, 127 (4). pp. 725-734. ISSN 0950-1991

Ferrero-Serrano, Ángel, Sylvia, Megan M, Forstmeier, Peter C, Olson, Andrew J, Ware, Doreen, Bevilacqua, Philip C, Assmann, Sarah M (April 2022) Experimental demonstration and pan-structurome prediction of climate-associated riboSNitches in Arabidopsis. Genome Biology, 23 (1). p. 101. ISSN 1474-7596

Finigan, P., Martienssen, R. A. (December 2008) Nucleolar dominance and DNA methylation directed by small interfering RNA. Molecular Cell, 32 (6). pp. 753-4. ISSN 1097-2765

Fischer, Kyle B, Collins, Hannah K, Pang, Yan, Roy, Dheeraj S, Zhang, Ying, Feng, Guoping, Li, Shu-Jing, Kepecs, Adam, Callaway, Edward M (2022) Monosynaptic restriction of the anterograde herpes simplex virus strain H129 for neural circuit tracing. Journal of Comparative Neurology. ISSN 0021-9967

Fischer, Stephan, Crow, Megan, Harris, Benjamin D, Gillis, Jesse (July 2021) Scaling up reproducible research for single-cell transcriptomics using MetaNeighbor. Nature Protocols. ISSN 1754-2189

Fishell, G., Kepecs, A. (July 2019) Interneuron Types as Attractors and Controllers. Annu Rev Neurosci. ISSN 0147-006x

Fisher, Matthew L, Balinth, Seamus, Hwangbo, Yon, Wu, Caizhi, Ballon, Carlos, Goldberg, Gary L, Mills, Alea A (August 2023) Cancer-associated fibroblasts promote cancer stemness by inducing expression of the chromatin-modifying protein CBX4 in squamous cell carcinoma. Carcinogenesis, 44 (6). pp. 485-496. ISSN 0143-3334

Fisher, M. L., Balinth, S., Mills, A. A. (September 2020) p63-related signaling at a glance. J Cell Sci, 133 (17). ISSN 0021-9533 (Print)0021-9533

Fisher, Matthew L, Balinth, Seamus, Hwangbo, Yon, Wu, Caizhi, Ballon, Carlos, Wilkinson, John E, Goldberg, Gary L, Mills, Alea A (October 2021) BRD4 REGULATES TRANSCRIPTION FACTOR ∆Np63αTO DRIVE A CANCER STEM CELL PHENOTYPE IN SQUAMOUS CELL CARCINOMAS. Cancer Research. canres.0707.2021-canres.0707.2021. ISSN 0008-5472