Items where Year is 2024

A

Aghi, K, Anderson, BM, Castellano, BM, Cunningham, A, Delano, M, Dickinson, ES, von Diezmann, L, Forslund-Startceva, SK, Grijseels, DM, Groh, SS, Guthman, EM, Jayasinghe, I, Johnston, J, Long, S, McLaughlin, JF, McLaughlin, M, Miyagi, M, Rajaraman, B, Sancheznieto, F, Scheim, AI, Sun, SD, Titmuss, FD, Walsh, RJ, Weinberg, ZY (March 2024) Rigorous science demands support of transgender scientists. Cell, 187 (6). pp. 1327-1334. ISSN 0092-8674

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

Aguado, Brian A, Jeffries, Daniel L, Jordan-Young, Rebecca, Klein, Sabra L, Lett, Elle, Stachenfeld, Nina, Tollkuhn, Jessica, Xu, Xiaohong (March 2024) The future of sex and gender in research. Cell, 187 (6). pp. 1354-1357. ISSN 0092-8674

Aguzzoli Heberle, Bernardo, Brandon, J Anthony, Page, Madeline L, Nations, Kayla A, Dikobe, Ketsile I, White, Brendan J, Gordon, Lacey A, Fox, Grant A, Wadsworth, Mark E, Doyle, Patricia H, Williams, Brittney A, Fox, Edward J, Shantaraman, Anantharaman, Ryten, Mina, Goodwin, Sara, Ghiban, Elena, Wappel, Robert, Mavruk-Eskipehlivan, Senem, Miller, Justin B, Seyfried, Nicholas T, Nelson, Peter T, Fryer, John D, Ebbert, Mark TW (May 2024) Mapping medically relevant RNA isoform diversity in the aged human frontal cortex with deep long-read RNA-seq. Nature Biotechnology. ISSN 1087-0156 (Public Dataset)

Alewine, Christine, Harris, Curtis C, Maitra, Anirban, Pine, Sharon R, Tuveson, David (November 2024) Editorial: special issue on the latest advances and challenges in pancreas cancer research in memory of S. Perwez Hussain. Carcinogenesis, 45 (11). pp. 799-800. ISSN 0143-3334

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)

Amit, Moran, Anastasaki, Corina, Dantzer, Robert, Demir, Ihsan Ekin, Deneen, Benjamin, Dixon, Karen O, Egeblad, Mikala, Gibson, Erin M, Hervey-Jumper, Shawn L, Hondermarck, Hubert, Magnon, Claire, Monje, Michelle, Na'ara, Shorook, Pan, Yuan, Repasky, Elizabeth A, Scheff, Nicole N, Sloan, Erica K, Talbot, Sebastien, Tracey, Kevin J, Trotman, Lloyd C, Valiente, Manuel, Van Aelst, Linda, Venkataramani, Varun, Venkatesh, Humsa S, Vermeer, Paola D, Winkler, Frank, Wong, Richard J, Gutmann, David H, Borniger, Jeremy C (April 2024) Next Directions in the Neuroscience of Cancers Arising outside the CNS. Cancer Discovery, 14 (4). pp. 669-673. ISSN 2159-8274

Amor, Corina, Fernández-Maestre, Inés, Chowdhury, Saria, Ho, Yu-Jui, Nadella, Sandeep, Graham, Courtenay, Carrasco, Sebastian E, Nnuji-John, Emmanuella, Feucht, Judith, Hinterleitner, Clemens, Barthet, Valentin JA, Boyer, Jacob A, Mezzadra, Riccardo, Wereski, Matthew G, Tuveson, David A, Levine, Ross L, Jones, Lee W, Sadelain, Michel, Lowe, Scott W (January 2024) Prophylactic and long-lasting efficacy of senolytic CAR T cells against age-related metabolic dysfunction. Nature Aging. ISSN 2662-8465 (Public Dataset)

Anandan, Dhivyaa, Trousdell, Marygrace, Somasundara, Amritha Varshini Hanasoge, dos Santos, Camila (November 2024) Determining the immunologic basis of pregnancy-induced oncoprotection in BRCA1 hereditary breast cancer. In: Society of Gynecologic Oncology (SGO) 2024 Annual Meeting on Women’s Cancer and 2024 Winter Meeting.

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

Avissar-Whiting, Michele, Belliard, Frédérique, Bertozzi, Stefano M, Brand, Amy, Brown, Katherine, Clément-Stoneham, Géraldine, Dawson, Stephanie, Dey, Gautam, Ecer, Daniel, Edmunds, Scott C, Farley, Ashley, Fischer, Tara D, Franko, Maryrose, Fraser, James S, Funk, Kathryn, Ganier, Clarisse, Harrison, Melissa, Hatch, Anna, Hazlett, Haley, Hindle, Samantha, Hook, Daniel W, Hurst, Phil, Kamoun, Sophien, Kiley, Robert, Lacy, Michael M, LaFlamme, Marcel, Lawrence, Rebecca, Lemberger, Thomas, Leptin, Maria, Lumb, Elliott, MacCallum, Catriona J, Marcum, Christopher Steven, Marinello, Gabriele, Mendonça, Alex, Monaco, Sara, Neves, Kleber, Pattinson, Damian, Polka, Jessica K, Puebla, Iratxe, Rittman, Martyn, Royle, Stephen J, Saderi, Daniela, Sever, Richard, Shearer, Kathleen, Spiro, John E, Stern, Bodo, Taraborelli, Dario, Vale, Ron, Vasquez, Claudia G, Waltman, Ludo, Watt, Fiona M, Weinberg, Zara Y, Williams, Mark (February 2024) Recommendations for accelerating open preprint peer review to improve the culture of science. PLoS Biology, 22 (2). e3002502. ISSN 1544-9173

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Badger, Jonathan H, Giordano, Rosanna, Zimin, Aleksey, Wappel, Robert, Eskipehlivan, Senem M, Muller, Stephanie, Donthu, Ravikiran, Soto-Adames, Felipe, Vieira, Paulo, Zasada, Inga, Goodwin, Sara (February 2024) Direct sequencing of insect symbionts via nanopore adaptive sampling. Current Opinion in Insect Science, 61. p. 101135. ISSN 2214-5745

Banerjee, Amitava, Pattinson, David, Wincek, Cornelia, Bunk, Paul, Chapin, Sarah, Navlakha, Saket, Meyer, Hannah (May 2024) BATMAN: Improved T cell receptor cross-reactivity prediction benchmarked on a comprehensive mutational scan database. In: UNSPECIFIED.

Banerjee, Amitava, Pattinson, David J, Wincek, Cornelia L, Bunk, Paul, Chapin, Sarah R, Navlakha, Saket, Meyer, Hannah V (January 2024) BATMAN: Improved T cell receptor cross-reactivity prediction benchmarked on a comprehensive mutational scan database. bioRxiv. (Submitted)

Banerjee, Arkarup, Chen, Feng, Druckmann, Shaul, Long, Michael A (January 2024) Temporal scaling of motor cortical dynamics reveals hierarchical control of vocal production. Nature Neuroscience. ISSN 1097-6256

Banerjee, Arkarup, Isko, Emily, Harpole, Clifford, Zheng, Xiaoyue, Zhan, Huiqing, Davis, Martin, Zador, Anthony (September 2024) Selective expansion of motor cortical projections in the evolution of vocal novelty. bioRxiv. ISSN 2692-8205 (Submitted)

Barbi, Mali, Gorman, Megan, John, Veena S (September 2024) Navigating Hormone Therapy in Postmenopausal Women: Balancing Symptom Relief With Cancer Risk. Journal of Clinical Oncology. JCO2401352. ISSN 0732-183X

Barbi, Mali, Gowthaman, Divya, Katcher, Arielle, Gorman, Megan, Yueh, Brian, Nizam, Aaron, Chung, Charlie, Akyildiz, Erdogan Oguzhan, Frimer, Marina, Goldberg, Gary L, Beyaz, Semir (October 2024) Generation and Maintenance of Patient-Derived Endometrial Cancer Organoids. Bio-protocol, 14 (20). e5093. ISSN 2331-8325

Benitz, Simone, Steep, Alec, Nasser, Malak M, Preall, Jonathan, Mahajan, Ujjwal Mukund, McQuithey, Holly, Loveless, Ian, Davis, Erick T, Wen, Hui-Ju, Long, Daniel W, Metzler, Thomas, Zwernik, Samuel, Louw, Michaela, Rempinski, Donald, Salas-Escabillas, Daniel J, Brender, Sydney M, Song, Linghao, Huang, Ling, Theisen, Brian K, Zhang, Zhenyu, Steele, Nina G, Regel, Ivonne, Bednar, Filip, Crawford, Howard C (July 2024) ROR2 Regulates Cellular Plasticity in Pancreatic Neoplasia and Adenocarcinoma. Cancer Discovery. ISSN 2159-8274 (Public Dataset)

Bermejo-Rodriguez, Camino, Araos Henríquez, Joaquín, Caligiuri, Giuseppina, Pinto Teles, Sara, Park, Youngkyu, Evans, Anthony, Barrera, Lawrence N, Neesse, Albrecht, Grutzmann, Robert, Aust, Daniela, Rümmele, Petra, Knösel, Thomas, Narita, Masako, Narita, Masashi, Campbell, Fiona, Öhlund, Daniel, Pilarsky, Christian, Dow, Lukas E, Humbert, Patrick O, Biffi, Giulia, Tuveson, David A, Perez-Mancera, Pedro A (July 2024) Scribble Deficiency Promotes Pancreatic Ductal Adenocarcinoma Development and Metastasis. Cancer Research. ISSN 0008-5472 (Public Dataset)

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)

Biderman, Dan, Whiteway, Matthew R, Hurwitz, Cole, Greenspan, Nicholas, Lee, Robert S, Vishnubhotla, Ankit, Warren, Richard, Pedraja, Federico, Noone, Dillon, Schartner, Michael M, Huntenburg, Julia M, Khanal, Anup, Meijer, Guido T, Noel, Jean-Paul, Pan-Vazquez, Alejandro, Socha, Karolina Z, Urai, Anne E, International Brain Laboratory, Cunningham, John P, Sawtell, Nathaniel B, Paninski, Liam (July 2024) Lightning Pose: improved animal pose estimation via semi-supervised learning, Bayesian ensembling and cloud-native open-source tools. Nature Methods, 21 (7). pp. 1316-1328. ISSN 1548-7091

Boelaars, Kelly, Rodriguez, Ernesto, Huinen, Zowi R, Liu, Chang, Wang, Di, Springer, Babet O, Olesek, Katarzyna, Goossens-Kruijssen, Laura, van Ee, Thomas, Lindijer, Dimitri, Tak, Willemijn, de Haas, Aram, Wehry, Laetitia, Nugteren-Boogaard, Joline P, Mikula, Aleksandra, de Winde, Charlotte M, Mebius, Reina E, Tuveson, David A, Giovannetti, Elisa, Bijlsma, Maarten F, Wuhrer, Manfred, van Vliet, Sandra J, van Kooyk, Yvette (April 2024) Pancreatic cancer-associated fibroblasts modulate macrophage differentiation via sialic acid-Siglec interactions. Communications Biology, 7 (1). p. 430. ISSN 2399-3642 (Public Dataset)

Boire, Adrienne, Burke, Katy, Cox, Thomas R, Guise, Theresa, Jamal-Hanjani, Mariam, Janowitz, Tobias, Kaplan, Rosandra, Lee, Rebecca, Swanton, Charles, Vander Heiden, Matthew G, Sahai, Erik (June 2024) Why do patients with cancer die? Nature Reviews Cancer. ISSN 1474-175X

Bojmar, Linda, Zambirinis, Constantinos P, Hernandez, Jonathan M, Chakraborty, Jayasree, Shaashua, Lee, Kim, Junbum, Johnson, Kofi Ennu, Hanna, Samer, Askan, Gokce, Burman, Jonas, Ravichandran, Hiranmayi, Zheng, Jian, Jolissaint, Joshua S, Srouji, Rami, Song, Yi, Choubey, Ankur, Kim, Han Sang, Cioffi, Michele, van Beek, Elke, Sigel, Carlie, Jessurun, Jose, Velasco Riestra, Paulina, Blomstrand, Hakon, Jönsson, Carolin, Jönsson, Anette, Lauritzen, Pernille, Buehring, Weston, Ararso, Yonathan, Hernandez, Dylanne, Vinagolu-Baur, Jessica P, Friedman, Madison, Glidden, Caroline, Firmenich, Laetitia, Lieberman, Grace, Mejia, Dianna L, Nasar, Naaz, Mutvei, Anders P, Paul, Doru M, Bram, Yaron, Costa-Silva, Bruno, Basturk, Olca, Boudreau, Nancy, Zhang, Haiying, Matei, Irina R, Hoshino, Ayuko, Kelsen, David, Sagi, Irit, Scherz, Avigdor, Scherz-Shouval, Ruth, Yarden, Yosef, Oren, Moshe, Egeblad, Mikala, Lewis, Jason S, Keshari, Kayvan, Grandgenett, Paul M, Hollingsworth, Michael A, Rajasekhar, Vinagolu K, Healey, John H, Björnsson, Bergthor, Simeone, Diane M, Tuveson, David A, Iacobuzio-Donahue, Christine A, Bromberg, Jaqueline, Vincent, C Theresa, O'Reilly, Eileen M, DeMatteo, Ronald P, Balachandran, Vinod P, D'Angelica, Michael I, Kingham, T Peter, Allen, Peter J, Simpson, Amber L, Elemento, Olivier, Sandström, Per, Schwartz, Robert E, Jarnagin, William R, Lyden, David (June 2024) Multi-parametric atlas of the pre-metastatic liver for prediction of metastatic outcome in early-stage pancreatic cancer. Nature Medicine. ISSN 1078-8956 (Public Dataset)

Borniger, Jeremy C (October 2024) Cancer neuroscience at the brain-body interface. Genes & Development. ISSN 0890-9369

Boyer, Jacob A, Sharma, Malvika, Dorso, Madeline, Mai, Nicholas, Amor, Corina, Reiter, Jason M, Kannan, Ram, Gadal, Sunyana, Xu, Jianing, Miele, Matthew, Zhuoning, Li, Chen, Xiaoping, Chang, Qing, Pareja, Fresia, Worland, Stephan, Warner, Douglas, Sperry, Sam, Chiang, Gary G, Thompson, Peggy A, Yang, Guangli, Ouerfelli, Ouathek, De Stanchina, Elisa, Wendel, Hans G, Rosen, Ezra Y, Chandarlapaty, Sarat, Rosen, Neal (May 2024) eIF4A controls translation of estrogen receptor alpha and is a therapeutic target in advanced breast cancer. bioRxiv. (Submitted)

Bunk, Paul, Maher, Timothy, Beyaz, Semir (May 2024) PPAR delta promotes tumor-infiltrating Treg plasticity. In: UNSPECIFIED.

Burbridge, Timothy J, Ratliff, Jacob M, Dwivedi, Deepanjali, Vrudhula, Uma, Alvarado-Huerta, Francisco, Sjulson, Lucas, Ibrahim, Leena Ali, Cheadle, Lucas, Fishell, Gordon, Batista-Brito, Renata (April 2024) Disruption of Cholinergic Retinal Waves Alters Visual Cortex Development and Function. bioRxiv. (Public Dataset) (Submitted)

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Cahn, Jonathan, Lloyd, James PB, Karemaker, Ino D, Jansen, Pascal WTC, Pflueger, Jahnvi, Duncan, Owen, Petereit, Jakob, Bogdanovic, Ozren, Millar, A Harvey, Vermeulen, Michiel, Lister, Ryan (December 2024) Characterization of DNA methylation reader proteins of Arabidopsis thaliana. Genome Research. ISSN 1088-9051 (Public Dataset)

Carcy, Salomé (May 2024) How Human and Murine T Cells Meet Their Fate: Cross-Species Comparison of Conventional and Innate T Cells. PhD thesis, Cold Spring Harbor Laboratory.

Cassandri, Matteo, Porrazzo, Antonella, Pomella, Silvia, Noce, Beatrice, Zwergel, Clemens, Aiello, Francesca Antonella, Vulcano, Francesca, Milazzo, Luisa, Camero, Simona, Pajalunga, Deborah, Spada, Massimo, Manzi, Valeria, Gravina, Giovanni Luca, Codenotti, Silvia, Piccione, Michela, Tomaciello, Miriam, Signore, Michele, Barillari, Giovanni, Marchese, Cinzia, Fanzani, Alessandro, De Angelis, Biagio, Quintarelli, Concetta, Vakoc, Christopher R, Chen, Eleanor Y, Megiorni, Francesca, Locatelli, Franco, Valente, Sergio, Mai, Antonello, Rota, Rossella, Marampon, Francesco (August 2024) HDAC3 genetic and pharmacologic inhibition radiosensitizes fusion positive rhabdomyosarcoma by promoting DNA double-strand breaks. Cell Death Discovery, 10 (1). p. 351. ISSN 2058-7716 (Public Dataset)

Chen, Qian, Wang, Saisai, Zhang, Juqing, Xie, Min, Lu, Bin, He, Jie, Zhen, Zhuoran, Li, Jing, Zhu, Jiajun, Li, Rong, Li, Pilong, Wang, Haifeng, Vakoc, Christopher, Roeder, Robert G, Chen, Mo (October 2024) JMJD1C forms condensates to facilitate a RUNX1-dependent gene expression program shared by multiple types of AML cells. Protein and Cell. pwae059. ISSN 1674-800X (Public Dataset)

Chen, Wei-Chia, Zhou, Juannan, McCandlish, David M (October 2024) Density estimation for ordinal biological sequences and its applications. Physical Review E, 110 (4). ISSN 2470-0045

Chen, Xiaoyin, Fischer, Stephan, Rue, Mara CP, Zhang, Aixin, Mukherjee, Didhiti, Kanold, Patrick O, Gillis, Jesse, Zador, Anthony M (April 2024) Whole-cortex in situ sequencing reveals input-dependent area identity. Nature. ISSN 0028-0836

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, 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)

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.

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

Ciren, Danielle (February 2024) Decoding cis-regulatory control and evolution of conserved and divergent phenotypes in plants. PhD thesis, Cold Spring Harbor Laboratory.

Ciren, Danielle, Zebell, Sophia, Lippman, Zachary B (March 2024) Extreme restructuring of cis-regulatory regions controlling a deeply conserved plant stem cell regulator. PLoS Genetics, 20 (3). e1011174. ISSN 1553-7390

Cohen, Ashley B, Christensen, Lisa N, Weber, Felix, Yagudaeva, Milana, Lo, Evan, Henkes, Gregory A, McCormick, Michael L, Taylor, Gordon T (March 2024) Preserved particulate organic carbon is likely derived from the subsurface sulfidic photic zone of the Proterozoic Ocean: evidence from a modern, oxygen-deficient lake. Geobiology, 22 (2). e12593. ISSN 1472-4677

Colonna, Marco, Konopka, Genevieve, Liddelow, Shane A, Nowakowski, Tomasz, Awatramani, Rajeshwar, Bateup, Helen S, Cadwell, Cathryn R, Caglayan, Emre, Chen, Jerry L, Gillis, Jesse, Kampmann, Martin, Krienen, Fenna, Marsh, Samuel E, Monje, Michelle, O'Dea, Michael R, Patani, Rickie, Pollen, Alex A, Quintana, Francisco J, Scavuzzo, Marissa, Schmitz, Matthew, Sloan, Steven A, Tesar, Paul J, Tollkuhn, Jessica, Tosches, Maria Antonietta, Urbanek, Madeleine E, Werner, Jonathan M, Bayraktar, Omer A, Gokce, Ozgun, Habib, Naomi (December 2024) Implementation and validation of single-cell genomics experiments in neuroscience. Nature Neuroscience, 27 (12). pp. 2310-2325. ISSN 1097-6256

Colucci, Manuel, Zumerle, Sara, Bressan, Silvia, Gianfanti, Federico, Troiani, Martina, Valdata, Aurora, D'Ambrosio, Mariantonietta, Pasquini, Emiliano, Varesi, Angelica, Cogo, Francesca, Mosole, Simone, Dongilli, Cristina, Desbats, Maria Andrea, Contu, Liliana, Revankdar, Ajinkya, Chen, Jingjing, Kalathur, Madhuri, Perciato, Maria Luna, Basilotta, Rossella, Endre, Laczko, Schauer, Stefan, Othman, Alaa, Guccini, Ilaria, Saponaro, Miriam, Maraccani, Luisa, Bancaro, Nicolò, Lai, Ping, Liu, Lei, Pernigoni, Nicolò, Mele, Federico, Merler, Sara, Trotman, Lloyd C, Guarda, Greta, Calì, Bianca, Montopoli, Monica, Alimonti, Andrea (February 2024) Retinoic acid receptor activation reprograms senescence response and enhances anti-tumor activity of natural killer cells. Cancer Cell. S1535-6108(24)00048. ISSN 1535-6108 (Public Dataset)

Comen, Elizabeth, Budhu, Sadna, Elhanati, Yuval, Page, David, Rasalan-Ho, Teresa, Ritter, Erika, Wong, Phillip, Plitas, George, Patil, Sujata, Brogi, Edi, Jochelson, Maxine, Bryce, Yolanda, Solomon, Stephen B, Norton, Larry, Merghoub, Taha, McArthur, Heather L (February 2024) Preoperative immune checkpoint inhibition and cryoablation in early-stage breast cancer. iScience, 27 (2). p. 108880. ISSN 2589-0042

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)

Cowley, Benjamin R, Calhoun, Adam J, Rangarajan, Nivedita, Ireland, Elise, Turner, Maxwell H, Pillow, Jonathan W, Murthy, Mala (May 2024) Mapping model units to visual neurons reveals population code for social behaviour. Nature. ISSN 0028-0836 (Public Dataset)

Critical Assessment of Genome Interpretation Consortium (February 2024) CAGI, the Critical Assessment of Genome Interpretation, establishes progress and prospects for computational genetic variant interpretation methods. Genome Biology, 25 (1). p. 53. ISSN 1474-7596

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Dai, Enyong, Chen, Xin, Linkermann, Andreas, Jiang, Xuejun, Kang, Rui, Kagan, Valerian E, Bayir, Hülya, Yang, Wan Seok, Garcia-Saez, Ana J, Ioannou, Maria S, Janowitz, Tobias, Ran, Qitao, Gu, Wei, Gan, Boyi, Krysko, Dmitri V, Zhu, Xiaofeng, Wang, Jiayi, Krautwald, Stefan, Toyokuni, Shinya, Xie, Yangchun, Greten, Florian R, Yi, Qing, Schick, Joel, Liu, Jiao, Gabrilovich, Dmitry I, Liu, Jinbao, Zeh, Herbert J, Zhang, Donna D, Yang, Minghua, Iovanna, Juan, Kopf, Manfred, Adolph, Timon E, Chi, Jen-Tsan, Li, Changfeng, Ichijo, Hidenori, Karin, Michael, Sankaran, Vijay G, Zou, Weiping, Galluzzi, Lorenzo, Bush, Ashley I, Li, Binghui, Melino, Gerry, Baehrecke, Eric H, Lotze, Michael T, Klionsky, Daniel J, Stockwell, Brent R, Kroemer, Guido, Tang, Daolin (February 2024) A guideline on the molecular ecosystem regulating ferroptosis. Nature Cell Biology. ISSN 1465-7392

Dale, Savanah Marie, Tomaszewski, Elise, Lippman, Zachary, Van Eck, Joyce (July 2024) Engineering the future of Physalis grisea: A focus on agricultural challenges, model species status, and applied improvements. Plants People Planet. ISSN 2572-2611

Damoci, Chris B, Merrill, Joseph R, Sun, Yanping, Lyons, Scott K, Olive, Kenneth P (March 2024) Addressing Biological Questions with Preclinical Cancer Imaging. Cold Spring Harbor Perspectives in Medicine. a041378-a041378. ISSN 2157-1422

Daruwalla, Kyle, Lipasti, Mikko (May 2024) Information bottleneck-based Hebbian learning rule naturally ties working memory and synaptic updates. Frontiers in Computational Neuroscience, 18. p. 1240348. ISSN 1662-5188

Daruwalla, Kyle, Martin, Irene Nozal, Frankel, Andrew, Naglic, Diana, Ahmad, Zainab, Hou, Xun Helen (May 2024) A 3D whole-face movement analysis system to uncover underlying physiology in mice. bioRxiv. (Submitted)

Dasgupta, Sanjoy, Meirovitch, Yaron, Zheng, Xingyu, Bush, Inle, Lichtman, Jeff W, Navlakha, Saket (September 2024) A neural algorithm for computing bipartite matchings. Proceedings of the National Academy of Sciences of the United States of America, 121 (37). e2321032121. ISSN 0027-8424 (Public Dataset)

Dumontier, Dimitri, Liebman, Samuel A, Le, Viet-Hang, George, Shanu, Valdemar, Deasia, Van Aelst, Linda, Pouchelon, Gabrielle (September 2024) Restoring transient connectivity during development improves dysfunctions in fragile X mice. bioRxiv. ISSN 2692-8205 (Submitted)

Duplaquet, Leslie, So, Kevin, Ying, Alexander W, Pal Choudhuri, Shreoshi, Li, Xinyue, Xu, Grace D, Li, Yixiang, Qiu, Xintao, Li, Rong, Singh, Shilpa, Wu, Xiaoli S, Hamilton, Seth, Chien, Victor D, Liu, Qi, Qi, Jun, Somerville, Tim DD, Heiling, Hillary M, Mazzola, Emanuele, Lee, Yenarae, Zoller, Thomas, Vakoc, Christopher R, Doench, John G, Forrester, William C, Abrams, Tinya, Long, Henry W, Niederst, Matthew J, Drapkin, Benjamin J, Kadoch, Cigall, Oser, Matthew G (July 2024) Mammalian SWI/SNF complex activity regulates POU2F3 and constitutes a targetable dependency in small cell lung cancer. Cancer Cell. S1535-6108(24)00237. ISSN 1535-6108 (Public Dataset)

Dussauze, Marie (February 2024) Sensorimotor neural representations in the olfactory cortex. PhD thesis, Cold Spring Harbor Laboratory.

Dwivedi, Deepanjali, Dumontier, Dimitri, Sherer, Mia, Lin, Sherry, Mirow, Andrea MC, Qiu, Yanjie, Xu, Qing, Liebman, Samuel A, Joseph, Djeckby, Datta, Sandeep R, Fishell, Gord, Pouchelon, Gabrielle (June 2024) Metabotropic signaling within somatostatin interneurons controls transient thalamocortical inputs during development. Nature Communications, 15 (1). p. 5421. ISSN 2041-1723 (Public Dataset)

Dzien, Piotr, Raffo Iraolagoitia, Ximena, May, Stephanie, Stevenson, David, McGarry, Lynn, Soloviev, Dmitry, Brown, Gavin, Nixon, Colin, Kapeni, Chrysa, De La Roche, Maike, Blyth, Karen, Lyons, Scott, Bird, Thomas, Strathdee, Douglas, Fruhwirth, Gilbert, Carlin, Leo, Lewis, David (April 2024) Multi-scale in vivo imaging of tumour development using a germline conditional triple-reporter system. Res Sq.

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

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Ecker, DJ, Aiello, CD, Arron, JR, Bennett, CF, Bernard, A, Breakefield, XO, Broderick, TJ, Callier, SL, Canton, B, Chen, JS, Fishburn, CS, Garrett, B, Hecht, SM, Janowitz, T, Kliegman, M, Krainer, A, Louis, CU, Lowe, C, Sehgal, A, Tozan, Y, Tracey, KJ, Urnov, F, Wattendorf, D, Williams, TW, Zhao, X, Hayden, MR (February 2024) Opportunities and challenges for innovative and equitable healthcare. Nature Reviews Drug Discovery. ISSN 1474-1776

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)

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Satterlee, James W, Alonso, David, Gramazio, Pietro, Jenike, Katharine M, He, Jia, Arrones, Andrea, Villanueva, Gloria, Plazas, Mariola, Ramakrishnan, Srividya, Benoit, Matthias, Gentile, Iacopo, Hendelman, Anat, Shohat, Hagai, Fitzgerald, Blaine, Robitaille, Gina M, Green, Yumi, Swartwood, Kerry, Passalacqua, Michael J, Gagnon, Edeline, Hilgenhof, Rebecca, Huggins, Trevis D, Eizenga, Georgia C, Gur, Amit, Rutten, Twan, Stein, Nils, Yao, Shengrui, Poncet, Adrien, Bellot, Clement, Frary, Amy, Knapp, Sandra, Bendahmane, Mohammed, Särkinen, Tiina, Gillis, Jesse, Van Eck, Joyce, Schatz, Michael C, Eshed, Yuval, Prohens, Jaime, Vilanova, Santiago, Lippman, Zachary B (August 2024) Convergent evolution of plant prickles by repeated gene co-option over deep time. Science, 385 (6708). eado1663. ISSN 0036-8075 (Public Dataset)

Schmidt, Michael J, Naghdloo, Amin, Prabakar, Rishvanth K, Kamal, Mohamed, Cadaneanu, Radu, Garraway, Isla P, Lewis, Michael, Aparicio, Ana, Zurita-Saavedra, Amado, Corn, Paul, Kuhn, Peter, Pienta, Kenneth J, Amend, Sarah R, Hicks, James (November 2024) Polyploid cancer cells reveal signatures of chemotherapy resistance. Oncogene. ISSN 0950-9232 (Public Dataset)

Schumaker, Brooklyn, Mortensen, Lauren, Klein, Robert R, Mandal, Sabyasachi, Dykes, Linda, Gladman, Nicholas, Rooney, William L, Burson, Byron, Klein, Patricia E (October 2024) UV-induced reactive oxygen species and transcriptional control of 3-deoxyanthocyanidin biosynthesis in black sorghum pericarp. Frontiers in Plant Science, 15. p. 1451215. ISSN 1664-462X (Public Dataset)

Segovia, D, Tepes, PS (May 2024) p160 nuclear receptor coactivator family members and their role in rare fusion‑driven neoplasms (Review). Oncology Letters, 27 (5). ISSN 1792-1074 (In Press)

Segovia, Danilo, Adams, Dexter W, Hoffman, Nickolas, Safaric Tepes, Polona, Wee, Tse-Luen, Cifani, Paolo, Joshua-Tor, Leemor, Krainer, Adrian R (May 2024) SRSF1 interactome determined by proximity labeling reveals direct interaction with spliceosomal RNA helicase DDX23. Proceedings of the National Academy of Sciences of the United States of America, 121 (21). e2322974121. ISSN 0027-8424 (Public Dataset)

Segovia, Danilo, Adams, Dexter W, Hoffman, Nickolas, Tepes, Polona Safaric, Wee, Tse-Luen, Cifani, Paolo, Joshua-Tor, Leemor, Krainer, Adrian R (2024) SRSF1 interactome determined by proximity labeling reveals direct interaction with spliceosomal RNA helicase DDX23 (correction). Proceedings of the National Academy of Sciences of the United States of America, 121 (30). ISSN 0027-8424

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Seo, Myeong-Gyun, Lim, Yoonseo, Hendelman, Anat, Robitaille, Gina, Beak, Hong Kwan, Hong, Woo-Jong, Park, Soon Ju, Lippman, Zachary B, Park, Young-Joon, Kwon, Choon-Tak (June 2024) Evolutionary conservation of receptor compensation for stem cell homeostasis in Solanaceae plants. Horticulture Research, 11 (6). uhae126. ISSN 2662-6810 (Public Dataset)

Serio, Ryan N, Scheben, Armin, Lu, Billy, Gargiulo, Domenic V, Patruno, Lucrezia, Buckholtz, Caroline L, Chaffee, Ryan J, Jibilian, Megan C, Persaud, Steven G, Staklinski, Stephen J, Hassett, Rebecca, Brault, Lise M, Ramazzotti, Daniele, Barbieri, Christopher E, Siepel, Adam C, Nowak, Dawid G (July 2024) Clonal Lineage Tracing with Somatic Delivery of Recordable Barcodes Reveals Migration Histories of Metastatic Prostate Cancer. Cancer Discovery. ISSN 2159-8274

Shen, Xiaomeng, Liu, Lei, Tran, Thu, Ning, Qiang, Li, Manfei, Huang, Liangliang, Zhao, Ran, Li, Yunfu, Qing, Xiangyu, Jackson, David, Bai, Yan, Song, Weibin, Lai, Jinsheng, Zhang, Zuxin, Zhao, Haiming (September 2024) KRN5b regulates maize kernel row number through mediating phosphoinositol signalling. Plant Biotechnology Journal. ISSN 1467-7652 (Public Dataset)

Shimada, Atsushi, Cahn, Jonathan, Ernst, Evan, Lynn, Jason, Grimanelli, Daniel, Henderson, Ian, Kakutani, Tetsuji, Martienssen, Robert A (September 2024) Retrotransposon addiction promotes centromere function via epigenetically activated small RNAs. Nature Plants. ISSN 2055-0278 (Public Dataset)

Shuvaev, Sergey, Lachi, Divyansha, Koulakov, Alexei, Zador, Anthony (September 2024) Encoding innate ability through a genomic bottleneck. Proceedings of the National Academy of Sciences of the United States of America, 121 (38). e2409160121. ISSN 0027-8424

Sokirniy, Ivan, Inam, Haider, Tomaszkiewicz, Marta, Reynolds, Joshua, McCandlish, David, Pritchard, Justin (September 2024) A side-by-side comparison of variant function measurements using deep mutational scanning and base editing. bioRxiv. ISSN 2692-8205 (Submitted)

Song, Dongyan, Cen, Yuxin, Qian, Zhe, Wu, Xiaoli S, Rivera, Keith, Wee, Tse-Luen, Demerdash, Osama E, Chang, Kenneth, Pappin, Darryl, Vakoc, Christopher R, Tonks, Nicholas K (November 2024) PTPN23-dependent ESCRT machinery functions as a cell death checkpoint. Nature Communications, 15 (1). p. 10364. ISSN 2041-1723 (Public Dataset)

Soula, Mariluz, Unlu, Gokhan, Welch, Rachel, Chudnovskiy, Aleksey, Uygur, Beste, Shah, Vyom, Alwaseem, Hanan, Bunk, Paul, Subramanyam, Vishvak, Yeh, Hsi-Wen, Khan, Artem, Heissel, Søren, Goodarzi, Hani, Victora, Gabriel D, Beyaz, Semir, Birsoy, Kıvanç (August 2024) Glycosphingolipid synthesis mediates immune evasion in KRAS-driven cancer. Nature. ISSN 0028-0836 (Public Dataset)

Stern, Shani, Zhang, Lei, Wang, Meiyan, Wright, Rebecca, Rosh, Idan, Hussein, Yara, Stern, Tchelet, Choudhary, Ashwani, Tripathi, Utkarsh, Reed, Patrick, Sadis, Hagit, Nayak, Ritu, Shemen, Aviram, Agarwal, Karishma, Cordeiro, Diogo, Peles, David, Hang, Yuqing, Mendes, Ana PD, Baul, Tithi D, Roth, Julien G, Coorapati, Shashank, Boks, Marco P, McCombie, W Richard, Hulshoff Pol, Hilleke, Brennand, Kristen J, Réthelyi, János M, Kahn, René S, Marchetto, Maria C, Gage, Fred H (May 2024) Monozygotic twins discordant for schizophrenia differ in maturation and synaptic transmission. Molecular Psychiatry. ISSN 1359-4184 (Public Dataset)

Stillman, Bruce (June 2024) Establishing a biochemical understanding of the initiation of chromosome replication in bacteria. Proceedings of the National Academy of Sciences of the United States of America, 121 (23). e2400667121. ISSN 0027-8424

Stillman, Bruce, Ouyang, Meng, Zali, Narges, Hane, Kimberly, Hossain, Manzar (March 2024) Biochemical Investigation and Evolutionary Comparison of the Mechanism of the Initiation of DNA Replication in Eukaryotic Cells. In: UNSPECIFIED.

Sun, Mengyi, Stoltzfus, Arlin, McCandlish, David M (October 2024) A fitness distribution law for amino-acid replacements. bioRxiv. ISSN 2692-8205 (Public Dataset) (Submitted)

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Sun, Xueqin Sherine, Mills, Alea (2024) CHROMATIN REMODELING REPROGRAMS THE TRANSCRIPTION NETWORK IN GLIOBLASTOMA. In: 2024 Society For Neuro-Oncology’s 29th Annual Meeting and Education Day.

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Sussillo, David, Kaifosh, Patrick, Reardon, Thomas (February 2024) A generic noninvasive neuromotor interface for human-computer interaction. bioRxiv. (Submitted)

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Swentowsky, Kyle W (March 2024) Spud Buds: StAST1 antagonizes potato tuber development by suppressing the alternative Tuberization Activation Complex (aTAC). Plant Physiology. kiae180. ISSN 0032-0889

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Zador, Anthony (February 2024) The origins of COSYNE: Building a community. The Transmitter. ISSN 2770-0976

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