Items where Community is "DNA Sequencing Service"

Paper

Bergmann, J. H., Li, J., Eckersley-Maslin, M. A., Rigo, F., Freier, S. M., Spector, D. L. (September 2015) Regulation of the ESC transcriptome by nuclear long non-coding RNAs. Genome Res, 25 (9). pp. 1336-1346. ISSN 1549-5469 (Electronic)1088-9051 (Linking)

Pendleton, M., Sebra, R., Pang, A. W., Ummat, A., Franzen, O., Rausch, T., Stutz, A. M., Stedman, W., Anantharaman, T., Hastie, A., Dai, H., Fritz, M. H., Cao, H., Cohain, A., Deikus, G., Durrett, R. E., Blanchard, S. C., Altman, R., Chin, C. S., Guo, Y., Paxinos, E. E., Korbel, J. O., Darnell, R. B., McCombie, W. R., Kwok, P. Y., Mason, C. E., Schadt, E. E., Bashir, A. (August 2015) Assembly and diploid architecture of an individual human genome via single-molecule technologies. Nat Methods, 12 (8). pp. 780-786. ISSN 1548-7105 (Electronic)1548-7091 (Linking)

Roe, Jae-Seok, Mercan, Fatih, Rivera, Keith, Pappin, Darryl J, Vakoc, Christopher R (June 2015) BET Bromodomain Inhibition Suppresses the Function of Hematopoietic Transcription Factors in Acute Myeloid Leukemia. Molecular Cell, 58 (6). pp. 1028-1036. ISSN 1097-2765

Wang, X., Yu, X., Zhu, W., McCombie, W. R., Antoniou, E., Powers, R. S., Davidson, N. O., Li, E., Williams, J. (June 2015) A trimming-and-retrieving alignment scheme for reduced representation bisulfite sequencing. Bioinformatics, 31 (12). pp. 2040-2042. ISSN 1367-4803

Shi, J., Wang, E., Milazzo, J. P., Wang, Z., Kinney, J. B., Vakoc, C. R. (June 2015) Discovery of cancer drug targets by CRISPR-Cas9 screening of protein domains. Nat Biotechnol, 33 (6). pp. 661-67. ISSN 1546-1696 (Electronic)1087-0156 (Linking)

Trotman, L. C., Nowak, D. G., Cho, H., Herzka, T., Watrud, K., DeMarco, D. V., Wang, V. M., Senturk, S., Fellmann, C., Ding, D., Beinortas, T., Kleinman, D., Chen, M., Sordella, R., Wilkinson, J. E., Castillo-Martin, M., Cordon-Cardo, C., Robinson, B. D. (June 2015) Myc drives Pten/trp53-deficient proliferation and metastasis due to Il6-secretion and Akt-suppression via Phlpp2. Cancer Discovery, 5 (6). pp. 636-651. ISSN 21598274

Baslan, T., Kendall, J., Ward, B., Cox, H., Leotta, A., Rodgers, L., Riggs, M., D'Italia, S., Sun, G., Yong, M., Miskimen, K., Gilmore, H., Saborowski, M., Dimitrova, N., Krasnitz, A., Harris, L., Wigler, M., Hicks, J. (May 2015) Optimizing sparse sequencing of single cells for highly multiplex copy number profiling. Genome Research, 25 (5). pp. 714-724. ISSN 1088-9051

Wang, E., Kawaoka, S., Roe, J. S., Shi, J., Hohmann, A. F., Xu, Y., Bhagwat, A. S., Suzuki, Y., Kinney, J. B., Vakoc, C. R. (April 2015) The transcriptional cofactor TRIM33 prevents apoptosis in B lymphoblastic leukemia by deactivating a single enhancer. Elife, 4. ISSN 2050-084X (Electronic)2050-084X (Linking)

Naguib, Adam, Bencze, Gyula, Cho, Hyejin, Zheng, Wu, Tocilj, Ante, Elkayam, Elad, Faehnle, Christopher R, Jaber, Nadia, Pratt, Christopher P, Chen, Muhan, Zong, Wei-Xing, Marks, Michael S, Joshua-Tor, Leemor, Pappin, Darryl J, Trotman, Lloyd C (April 2015) PTEN Functions by Recruitment to Cytoplasmic Vesicles. Molecular Cell, 58 (2). pp. 255-268. ISSN 1097-2765

Wagenblast, E., Soto, M., Gutierrez-Angel, S., Hartl, C. A., Gable, A. L., Maceli, A. R., Erard, N., Williams, A. M., Kim, S. Y., Dickopf, S., Harrell, J. C., Smith, A. D., Perou, C. M., Wilkinson, J. E., Hannon, G. J., Knott, S. R. (April 2015) A model of breast cancer heterogeneity reveals vascular mimicry as a driver of metastasis. Nature, 520 (7547). pp. 358-362. ISSN 0028-0836

Hogan, Megan S, Parfitt, David-Emlyn, Zepeda-Mendoza, Cinthya J, Shen, Michael M, Spector, David L (March 2015) Transient Pairing of Homologous Oct4 Alleles Accompanies the Onset of Embryonic Stem Cell Differentiation. Cell Stem Cell, 16 (3). pp. 275-288. ISSN 1934-5909

Stein, P., Rozhkov, N. V., Li, F., Cardenas, F. L., Davydenk, O., Vandivier, L. E., Gregory, B. D., Hannon, G. J., Schultz, R. M. (February 2015) Essential Role for Endogenous siRNAs during Meiosis in Mouse Oocytes. PLoS Genetics, 11 (2). e1005013. ISSN 1553-7390

Yu, J. R., Tai, Y., Jin, Y., Hammell, M. C., Wilkinson, J. E., Roe, J. S., Vakoc, C. R., Van Aelst, L. (February 2015) TGF-beta/Smad signaling through DOCK4 facilitates lung adenocarcinoma metastasis. Genes Dev, 29 (3). pp. 250-61. ISSN 0890-9369

Boj, Sylvia F, Hwang, Chang-Il, Baker, Lindsey A, Chio, Iok In Christine, Engle, Dannielle D, Corbo, Vincenzo, Jager, Myrthe, Ponz-Sarvise, Mariano, Tiriac, Hervé, Spector, Mona S, Gracanin, Ana, Oni, Tobiloba, Yu, Kenneth H, van Boxtel, Ruben, Huch, Meritxell, Rivera, Keith D, Wilson, John P, Feigin, Michael E, Öhlund, Daniel, Handly-Santana, Abram, Ardito-Abraham, Christine M, Ludwig, Michael, Elyada, Ela, Alagesan, Brinda, Biffi, Giulia, Yordanov, Georgi N, Delcuze, Bethany, Creighton, Brianna, Wright, Kevin, Park, Youngkyu, Morsink, Folkert H M., Molenaar, I.  Quintus, Borel Rinkes, Inne H, Cuppen, Edwin, Hao, Yuan, Jin, Ying, Nijman, Isaac J, Iacobuzio-Donahue, Christine, Leach, Steven D, Pappin, Darryl J, Hammell, Molly, Klimstra, David S, Basturk, Olca, Hruban, Ralph H, Offerhaus, George Johan, Vries, Robert G J., Clevers, Hans, Tuveson, David A (January 2015) Organoid Models of Human and Mouse Ductal Pancreatic Cancer. Cell, 160 (1-2). pp. 324-338. ISSN 0092-8674

Naguib, A., Bencze, G., Engle, D. D., Chio, II, Herzka, T., Watrud, K., Bencze, S., Tuveson, D. A., Pappin, D. J., Trotman, L. C. (December 2014) P53 Mutations Change Phosphatidylinositol Acyl Chain Composition. Cell Reports, 10 (1). pp. 8-19. ISSN 2211-1247

Knott, S. R., Maceli, A. R., Erard, N., Chang, K., Marran, K., Zhou, X., Gordon, A., El Demerdash, O., Wagenblast, E., Kim, S., Fellmann, C., Hannon, G. J. (December 2014) A Computational Algorithm to Predict shRNA Potency. Mol Cell, 56 (6). pp. 796-807. ISSN 1097-2765

Lin, S., Lin, Y., Nery, J. R., Urich, M. A., Breschi, A., Davis, C. A., Dobin, A., Zaleski, C., Beer, M. A., Chapman, W. C., Gingeras, T. R., Ecker, J. R., Snyder, M. P. (November 2014) Comparison of the transcriptional landscapes between human and mouse tissues. Proceedings of the National Academy of Sciences of the United States of America, 111 (48). pp. 17224-17229. ISSN 0027-8424

Yue, F., Cheng, Y., Breschi, A., Vierstra, J., Wu, W., Ryba, T., Sandstrom, R., Ma, Z., Davis, C., Pope, B. D., Shen, Y., Pervouchine, D. D., Djebali, S., Thurman, R. E., Kaul, R., Rynes, E., Kirilusha, A., Marinov, G. K., Williams, B. A., Trout, D., Amrhein, H., Fisher-Aylor, K., Antoshechkin, I., DeSalvo, G., See, L. H., Fastuca, M., Drenkow, J., Zaleski, C., Dobin, A., Prieto, P., Lagarde, J., Bussotti, G., Tanzer, A., Denas, O., Li, K., Bender, M. A., Zhang, M., Byron, R., Groudine, M. T., McCleary, D., Pham, L., Ye, Z., Kuan, S., Edsall, L., Wu, Y. C., Rasmussen, M. D., Bansal, M. S., Kellis, M., Keller, C. A., Morrissey, C. S., Mishra, T., Jain, D., Dogan, N., Harris, R. S., Cayting, P., Kawli, T., Boyle, A. P., Euskirchen, G., Kundaje, A., Lin, S., Lin, Y., Jansen, C., Malladi, V. S., Cline, M. S., Erickson, D. T., Kirkup, V. M., Learned, K., Sloan, C. A., Rosenbloom, K. R., Lacerda de Sousa, B., Beal, K., Pignatelli, M., Flicek, P., Lian, J., Kahveci, T., Lee, D., Kent, W. J., Ramalho Santos, M., Herrero, J., Notredame, C., Johnson, A., Vong, S., Lee, K., Bates, D., Neri, F., Diegel, M., Canfield, T., Sabo, P. J., Wilken, M. S., Reh, T. A., Giste, E., Shafer, A., Kutyavin, T., Haugen, E., Dunn, D., Reynolds, A. P., Neph, S., Humbert, R., Hansen, R. S., De Bruijn, M. (November 2014) A comparative encyclopedia of DNA elements in the mouse genome. Nature, 515 (7527). pp. 355-64. ISSN 0028-0836

Pratt, E. D., Stepansky, A., Hicks, J., Kirby, B. J. (November 2014) Single-cell copy number analysis of prostate cancer cells captured with geometrically enhanced differential immunocapture microdevices. Analytical Chemistry, 86 (22). pp. 11013-7. ISSN 0003-2700

Deng, L., Shang, L., Bai, S., Chen, J., He, X., Trevino, R. M., Chen, S., Li, X., Meng, X., Yu, B., Wang, X., Liu, Y., McDermott, S. P., Ariazi, A. E., Ginestier, C., Ibarra, I., Ke, J., Luther, T. K., Clouthier, S. G., Xu, L., Shan, G., Song, E., Yao, H., Hannon, G. J., Weiss, S. J., Wicha, M. S., Liu, S. (September 2014) microRNA100 inhibits self-renewal of breast cancer stem-like cells and breast tumor development. Cancer Res, 74 (22). pp. 6648-6660. ISSN 0008-5472

Narzisi, G., O'Rawe, Jason, Iossifov, I., Fang, Han, Lee, Y. H., Wang, Zihua, Wu, Yiyang, Lyon, Gholson J., Wigler, M. H., Schatz, M. C. (August 2014) Accurate de novo and transmitted indel detection in exome-capture data using microassembly. Nature Methods, 11 (10). pp. 1033-1036.

Dago, A. E., Stepansky, A., Carlsson, A., Luttgen, M., Kendall, J., Baslan, T., Kolatkar, A., Wigler, M., Bethel, K., Gross, M. E., Hicks, J., Kuhn, P. (August 2014) Rapid phenotypic and genomic change in response to therapeutic pressure in prostate cancer inferred by high content analysis of single circulating tumor cells. PLoS One, 9 (8). e101777. ISSN 1932-6203

Molaro, A., Falciatori, I., Hodges, E., Aravin, A. A., Marran, K., Rafii, S., McCombie, W. R., Smith, A. D., Hannon, G. J. (July 2014) Two waves of de novo methylation during mouse germ cell development. Genes and Development, 28 (14). pp. 1544-9. ISSN 08909369 (ISSN)

Perales, R., King, D. M., Aguirre-Chen, C., Hammell, C. M. (July 2014) LIN-42, the Caenorhabditis elegans PERIOD homolog, Negatively Regulates MicroRNA Transcription. PLoS Genetics, 10 (7). e1004486. ISSN 15537390 (ISSN)

Li, W., Wu, J., Kim, S. Y., Zhao, M., Hearn, S. A., Zhang, M. Q., Meistrich, M. L., Mills, A. A. (May 2014) Chd5 orchestrates chromatin remodelling during sperm development. Nature Communications, 5. p. 3812. ISSN 20411723

Zinovyeva, A. Y., Bouasker, S., Simard, M. J., Hammell, C. M., Ambros, V. (April 2014) Mutations in Conserved Residues of the C. elegans microRNA Argonaute ALG-1 Identify Separable Functions in ALG-1 miRISC Loading and Target Repression. PLoS Genetics, 10 (4). e1004286. ISSN 1553-7404 (Electronic)1553-7390 (Linking)

Razo-Mejia, M., Boedicker, J. Q., Jones, D., Deluna, A., Kinney, J. B., Phillips, R. (April 2014) Comparison of the theoretical and real-world evolutionary potential of a genetic circuit. Physical Biology, 11 (2). ISSN 14783975

Sheu, Y. J., Kinney, J. B., Lengronne, A., Pasero, P., Stillman, B. (April 2014) Domain within the helicase subunit Mcm4 integrates multiple kinase signals to control DNA replication initiation and fork progression. Proceedings of the National Academy of Sciences of the United States of America, 111 (18). E1899-1908. ISSN 0027-8424

Kellis, M., Wold, B., Snyder, M. P., Bernstein, B. E., Kundaje, A., Marinov, G. K., Ward, L. D., Birney, E., Crawford, G. E., Dekker, J., Dunham, I., Elnitski, L. L., Farnham, P. J., Feingold, E. A., Gerstein, M., Giddings, M. C., Gilbert, D. M., Gingeras, T. R., Green, E. D., Guigo, R., Hubbard, T., Kent, J., Lieb, J. D., Myers, R. M., Pazin, M. J., Ren, B., Stamatoyannopoulos, J. A., Weng, Z. P., White, K. P., Hardison, R. C. (April 2014) Defining functional DNA elements in the human genome. Proceedings of the National Academy of Sciences of the United States of America, 111 (17). pp. 6131-6138. ISSN 0027-8424

Goh, W. S. S., Seah, J. W. E., Harrison, E. J., Chen, C., Hammell, C. M., Hannon, G. J. (April 2014) A genome-wide RNAi screen identifies factors required for distinct stages of C-elegans piRNA biogenesis. Genes & Development, 28 (7). pp. 797-807. ISSN 0890-9369

Forest, A. R. R., Kawaji, H., Rehli, M., Baillie, J. K., De Hoon, M. J. L., Haberle, V., Lassmann, T., Kulakovskiy, I. V., Lizio, M., Itoh, M., Andersson, R., Mungall, C. J., Meehan, T. F., Schmeier, S., Bertin, N., Jørgensen, M., Dimont, E., Arner, E., Schmidl, C., Schaefer, U., Medvedeva, Y. A., Plessy, C., Vitezic, M., Severin, J., Semple, C. A., Ishizu, Y., Young, R. S., Francescatto, M., Altschuler, I. A., Albanese, D., Altschule, G. M., Arakawa, T., Archer, J. A. C., Arner, P., Babina, M., Rennie, S., Balwierz, P. J., Beckhouse, A. G., Pradhan-Bhatt, S., Blake, J. A., Blumenthal, A., Bodega, B., Bonetti, A., Briggs, J., Brombacher, F., Burroughs, A. M., Califano, A., Cannistraci, C. V., Carbajo, D., Chen, Y., Chierici, M., Ciani, Y., Clevers, H. C., Dalla, E., Davis, C. A., Detmar, M., Diehl, A. D., Dohi, T., Drabløs, F., Edge, A. S. B., Edinger, M., Ekwall, K., Endoh, M., Enomoto, H., Fagiolini, M., Fairbairn, L., Fang, H., Farach-Carson, M. C., Faulkner, G. J., Favorov, A. V., Fisher, M. E., Frith, M. C., Fujita, R., Fukuda, S., Furlanello, C., Furuno, M., Furusawa, J. I., Geijtenbeek, T. B., Gibson, A. P., Gingeras, T., Goldowitz, D., Gough, J., Guhl, S., Guler, R., Gustincich, S., Ha, T. J., Hamaguchi, M., Hara, M., Harbers, M., Harshbarger, J., Hasegawa, A., Hasegawa, Y., Hashimoto, T., Herlyn, M., Hitchens, K. J., Sui, S. J. H., Hofmann, O. M., Hoof, I., Hori, F., Huminiecki, L. (March 2014) A promoter-level mammalian expression atlas. Nature, 507 (7493). pp. 462-470. ISSN 14764687

Murray, D. W., Didier, S., Chan, A., Paulino, V., Van Aelst, L., Ruggieri, R., Tran, N. L., Byrne, A. T., Symons, M. (February 2014) Guanine nucleotide exchange factor Dock7 mediates HGF-induced glioblastoma cell invasion via Rac activation. British Journal of Cancer, 110 (5). pp. 1307-1315. ISSN 0007-0920

Tai, Y., Janas, J. A., Wang, C. L., Van Aelst, L. (January 2014) Regulation of Chandelier Cell Cartridge and Bouton Development via DOCK7-Mediated ErbB4 Activation. Cell Reports, 6 (2). pp. 254-63. ISSN 22111247 (ISSN)

Cho, H., Herzka, T., Zheng, W., Qi, J., Wilkinson, J. E., Bradner, J. E., Robinson, B. D., Castillo-Martin, M., Cordon-Cardo, C., Trotman, L. C. (January 2014) RapidCaP, a novel GEM model for analysis and therapy of metastatic prostate cancer, reveals Myc as a driver of Pten-mutant metastasis. Cancer Discovery, 4 (3). pp. 318-33. ISSN 21598274

Streppel, M. M., Lata, S., Delabastide, M., Montgomery, E. A., Wang, J. S., Canto, M. I., Macgregor-Das, A. M., Pai, S., Morsink, F. H., Offerhaus, G. J., Antoniou, E., Maitra, A., McCombie, W. R. (January 2014) Next-generation sequencing of endoscopic biopsies identifies ARID1A as a tumor-suppressor gene in Barrett's esophagus. Oncogene, 33 (3). pp. 347-57. ISSN 0950-9232

Jensen, M. A., Wilkinson, J. E., Krainer, A. R. (January 2014) Splicing factor SRSF6 promotes hyperplasia of sensitized skin. Nature Structural and Molecular Biology, 21. pp. 189-197. ISSN 15459993 (ISSN)

Shi, J., Whyte, W. A., Zepeda-Mendoza, C. J., Milazzo, J. P., Shen, C., Roe, J. S., Minder, J. L., Mercan, F., Wang, E., Eckersley-Maslin, M. A., Campbell, A. E., Kawaoka, S., Shareef, S., Zhu, Z., Kendall, J., Muhar, M., Haslinger, C., Yu, M., Roeder, R. G., Wigler, M. A., Blobel, G. A., Zuber, J., Spector, D. L., Young, R. A., Vakoc, C. R. (November 2013) Role of SWI/SNF in acute leukemia maintenance and enhancer-mediated Myc regulation. Genes and Development, 27 (24). pp. 264-273. ISSN 08909369 (ISSN)

Xu, X., Zhang, Y., Williams, J., Antoniou, E., McCombie, W. R., Wu, S., Zhu, W., Davidson, N. O., Denoya, P., Li, E. (June 2013) Parallel comparison of Illumina RNA-Seq and Affymetrix microarray platforms on transcriptomic profiles generated from 5-aza-deoxy-cytidine treated HT-29 colon cancer cells and simulated datasets. BMC Bioinformatics, 14 Sup. S1. ISSN 1471-2105 (Electronic)1471-2105 (Linking)

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)

Krishnan, N., Bencze, G., Cohen, P., Tonks, N. K. (April 2013) The anti-inflammatory compound BAY 11-7082 is a potent inhibitor of Protein Tyrosine Phosphatases. FEBS Journal, 280 (12). pp. 2830-2841. ISSN 1742-464X

Fregoso, O. I., Das, S., Akerman, M., Krainer, A. R. (March 2013) Splicing-Factor Oncoprotein SRSF1 Stabilizes p53 via RPL5 and Induces Cellular Senescence. Molecular Cell, 50 (1). pp. 56-66. ISSN 1097-2765

Wang, E., Kawaoka, S., Yu, M., Shi, J., Ni, T., Yang, W., Zhu, J., Roeder, R. G., Vakoc, C. R. (March 2013) Histone H2B ubiquitin ligase RNF20 is required for MLL-rearranged leukemia. Proceedings of the National Academy of Sciences of the United States of America, 110 (10). pp. 3901-6. ISSN 1091-6490 (Electronic)0027-8424 (Linking)

Sehgal, P., Chaturvedi, P., Kumaran, R. I., Kumar, S., Parnaik, V. K. (February 2013) Lamin A/C Haploinsufficiency Modulates the Differentiation Potential of Mouse Embryonic Stem Cells. PLoS ONE, 8 (2). ISSN 1932-6203 (Electronic)

Rozhkov, N. V., Hammell, M., Hannon, G. J. (February 2013) Multiple roles for Piwi in silencing Drosophila transposons. Genes and Development, 27 (4). pp. 400-412. ISSN 08909369 (ISSN)

Paul, S., Kuo, A., Schalch, T., Vogel, H., Joshua-Tor, L., McCombie, W. R., Gozani, O., Hammell, M., Mills, A. A. (January 2013) Chd5 Requires PHD-Mediated Histone 3 Binding for Tumor Suppression. Cell Reports, 3 (1). pp. 92-102. ISSN 2211-1247 (Public Dataset)

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)

Donnenberg, A. D., Hicks, J. B., Wigler, M., Donnenberg, V. S. (January 2013) The Cancer Stem Cell: Cell Type or Cell State? Cytometry Part A, 83A (SI 1). pp. 5-7. ISSN 1552-4922

Berger, A. H., Chen, M., Morotti, A., Janas, J. A., Niki, M., Bronson, R. T., Taylor, B. S., Ladanyi, M., Van Aelst, L., Politi, K., Varmus, H. E., Pandolfi, P. P. (2013) DOK2 inhibits EGFR-mutated lung adenocarcinoma. PLoS One, 8 (11). e79526. ISSN 1932-6203

Shi, J., Wang, E., Zuber, J., Rappaport, A., Taylor, M., Johns, C., Lowe, S. W., Vakoc, C. R. (2013) The Polycomb complex PRC2 supports aberrant self-renewal in a mouse model of MLL-AF9;Nras(G12D) acute myeloid leukemia. Oncogene, 32 (7). pp. 930-938. ISSN 1476-5594 (Electronic)0950-9232 (Linking)

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

Wigler, M. (October 2012) Broad applications of single-cell nucleic acid analysis in biomedical research. Genome Med, 4 (10). p. 79. ISSN 1756-994X (Electronic)

Yu, M., Lin, G., Arshadi, N., Kalatskaya, I., Xue, B., Haider, S., Nguyen, F., Boutros, P. C., Elson, A., Muthuswamy, L. B., Tonks, N. K., Muthuswamy, S. K. (October 2012) Expression profiling during mammary epithelial cell 3D morphogenesis identifies PTPRO as a novel regulator of morphogenesis and ErbB2 mediated transformation. Mol Cell Biol, 32 (19). pp. 3913-3924. ISSN 1098-5549 (Electronic)0270-7306 (Linking)

Wang, Z., Jeon, H. Y., Rigo, F., Bennett, C. F., Krainer, A. R. (October 2012) Manipulation of PK-M mutually exclusive alternative splicing by antisense oligonucleotides. Open Biol, 2 (10). p. 120133. ISSN 2046-2441 (Electronic)2046-2441 (Linking)

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

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

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Okunola, H. L., Krainer, A. R. (October 2009) Cooperative-binding and splicing-repressive properties of hnRNP A1. Mol Cell Biol, 29 (20). pp. 5620-5631.

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Nakano-Kobayashi, A., Nadif Kasri, N., Newey, S. E., Van Aelst, L. (July 2009) The Rho-Linked Mental Retardation Protein OPHN1 Controls Synaptic Vesicle Endocytosis via Endophilin A1. Curr Biol, 19 (13). 1133-1139 .

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