Genome-wide Chromatin State Transitions Associated with Developmental and Environmental Cues von Zhu, Jiang, Adli, Mazhar, Zou, James Y., Verstappen, Griet, Coyne, Michael, Zhang, Xiaolan, Durham, Timothy, Miri, Mohammad, Deshpande, Vikram, De Jager, Philip L., Bennett, David A., Houmard, Joseph A., Muoio, Deborah M., Onder, Tamer T., Camahort, Ray, Cowan, Chad A., Meissner, Alexander, Epstein, Charles B., Shoresh, Noam, Bernstein, Bradley E.

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Deep learning interpretation of echocardiograms von Ghorbani, Amirata, Ouyang, David, Abid, Abubakar, He, Bryan, Chen, Jonathan H., Harrington, Robert A., Liang, David H., Ashley, Euan A., Zou, James Y.

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Protein structure generation via folding diffusion von Wu, Kevin E., Yang, Kevin K., van den Berg, Rianne, Alamdari, Sarah, Zou, James Y., Lu, Alex X., Amini, Ava P.

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Deep learning evaluation of biomarkers from echocardiogram videos von Hughes, J Weston, Yuan, Neal, He, Bryan, Ouyang, Jiahong, Ebinger, Joseph, Botting, Patrick, Lee, Jasper, Theurer, John, Tooley, James E., Nieman, Koen, Lungren, Matthew P., Liang, David H., Schnittger, Ingela, Chen, Jonathan H., Ashley, Euan A., Cheng, Susan, Ouyang, David, Zou, James Y.

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Genetic and socioeconomic study of mate choice in Latinos reveals novel assortment patterns von Zou, James Y., Park, Danny S., Burchard, Esteban G., Torgerson, Dara G., Pino-Yanes, Maria, Song, Yun S., Sankararaman, Sriram, Halperin, Eran, Zaitlen, Noah

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Beyond Importance Scores: Interpreting Tabular ML by Visualizing Feature Semantics von Ghorbani, Amirata, Berenbaum, Dina, Ivgi, Maor, Dafna, Yuval, Zou, James Y.

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Video-based AI for beat-to-beat assessment of cardiac function von Ouyang, David, He, Bryan, Ghorbani, Amirata, Yuan, Neal, Ebinger, Joseph, Langlotz, Curtis P., Heidenreich, Paul A., Harrington, Robert A., Liang, David H., Ashley, Euan A., Zou, James Y.

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How to evaluate deep learning for cancer diagnostics – factors and recommendations von Daneshjou, Roxana, He, Bryan, Ouyang, David, Zou, James Y

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Classification and clustering of RNA crosslink-ligation data reveal complex structures and homodimers von Zhang, Minjie, Hwang, Irena T, Li, Kongpan, Bai, Jianhui, Chen, Jian-Fu, Weissman, Tsachy, Zou, James Y, Lu, Zhipeng

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A clinically applicable AI system for diagnosis of congenital heart diseases based on computed tomography images von Xu, Xiaowei, Jia, Qianjun, Yuan, Haiyun, Qiu, Hailong, Dong, Yuhao, Xie, Wen, Yao, Zeyang, Zhang, Jiawei, Nie, Zhiqaing, Li, Xiaomeng, Shi, Yiyu, Zou, James Y., Huang, Meiping, Zhuang, Jian

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Clinical Genetics Lacks Standard Definitions and Protocols for the Collection and Use of Diversity Measures von Popejoy, Alice B., Crooks, Kristy R., Fullerton, Stephanie M., Hindorff, Lucia A., Hooker, Gillian W., Koenig, Barbara A., Pino, Natalie, Ramos, Erin M., Ritter, Deborah I., Wand, Hannah, Wright, Matt W., Yudell, Michael, Zou, James Y., Plon, Sharon E., Bustamante, Carlos D., Ormond, Kelly E.

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Inferring parental genomic ancestries using pooled semi-Markov processes von Zou, James Y, Halperin, Eran, Burchard, Esteban, Sankararaman, Sriram

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Canonical NF-κB Activation Is Essential for Epstein-Barr Virus Latent Membrane Protein 1 TES2/CTAR2 Gene Regulation von Gewurz, Benjamin E., Mar, Jessica C., Padi, Megha, Zhao, Bo, Shinners, Nicholas P., Takasaki, Kaoru, Bedoya, Edward, Zou, James Y., Cahir-Mcfarland, Ellen, Quackenbush, John, Kieff, Elliott

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Locus-specific editing of histone modifications at endogenous enhancers using programmable TALE-LSD1 fusions von Mendenhall, Eric M., Williamson, Kaylyn E., Reyon, Deepak, Zou, James Y., Ram, Oren, Joung, J. Keith, Bernstein, Bradley E.

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Canonical NF-{kappa}B Activation Is Essential for Epstein-Barr Virus Latent Membrane Protein 1 TES2/CTAR2 Gene Regulation von Gewurz, Benjamin E, Mar, Jessica C, Padi, Megha, Zhao, Bo, Shinners, Nicholas P, Takasaki, Kaoru, Bedoya, Edward, Zou, James Y, Cahir-Mcfarland, Ellen, Quackenbush, John

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Genome-wide Chromatin State Transitions Associated with Developmental and Environmental Cues von Zhu, Jiang, Adli, Mazhar, Zou, James Y, Verstappen, Griet, Coyne, Michael J, Zhang, Xiaolan, Durham, Timothy, Miri, Mohammad, Deshpande, Vikram, De Jager, Philip L, Bennett, David A, Houmard, Joseph A, Muoio, Deborah M, Onder, Tamer T, Camahort, Raymond, Cowan, Chad A, Meissner, Alexander, Epstein, Charles B, Shoresh, Noam, Bernstein, Bradley E

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Canonical NF-κ Activation Is Essential for Epstein-Barr Virus Latent Membrane Protein 1 TES2/CTAR2 Gene Regulation von GEWURZ, Benjamin E, MAR, Jessica C, KIEFF, Elliott, PADI, Megha, BO ZHAO, SHINNERS, Nicholas P, TAKASAKI, Kaoru, BEDOYA, Edward, ZOU, James Y, CAHIR-MCFARLAND, Ellen, QUACKENBUSH, John

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Monitoring AI-Modified Content at Scale: A Case Study on the Impact of ChatGPT on AI Conference Peer Reviews von Liang, Weixin, Izzo, Zachary, Zhang, Yaohui, Lepp, Haley, Cao, Hancheng, Zhao, Xuandong, Chen, Lingjiao, Ye, Haotian, Liu, Sheng, Huang, Zhi, McFarland, Daniel A, Zou, James Y

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Mapping the Increasing Use of LLMs in Scientific Papers von Liang, Weixin, Zhang, Yaohui, Wu, Zhengxuan, Lepp, Haley, Ji, Wenlong, Zhao, Xuandong, Cao, Hancheng, Liu, Sheng, He, Siyu, Huang, Zhi, Yang, Diyi, Potts, Christopher, Manning, Christopher D, Zou, James Y

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FoldingDiff CATH S40 training dataset von Kevin E. Wu, Kevin K. Yang, Rianne van den Berg, Sarah Alamdari, James Y. Zou, Alex X. Lu, Ava P. Amini

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