Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellular contexts

por Nair, Surag, Kim, Daniel S, Perricone, Jacob, Kundaje, Anshul
Publicado 2019

Deciphering regulatory DNA sequences and noncoding genetic variants using neural network models of massively parallel reporter assays

por Movva, Rajiv, Greenside, Peyton, Marinov, Georgi K., Nair, Surag, Shrikumar, Avanti, Kundaje, Anshul
Publicado 2019

Single-cell multiome of the human retina and deep learning nominate causal variants in complex eye diseases

por Wang, Sean K., Nair, Surag, Li, Rui, Kraft, Katerina, Pampari, Anusri, Patel, Aman, Kang, Joyce B., Luong, Christy, Kundaje, Anshul, Chang, Howard Y.
Publicado 2022

Transcription factor stoichiometry, motif affinity and syntax regulate single-cell chromatin dynamics during fibroblast reprogramming to pluripotency

por Nair, Surag, Ameen, Mohamed, Sundaram, Laksshman, Pampari, Anusri, Schreiber, Jacob, Balsubramani, Akshay, Wang, Yu Xin, Burns, David, Blau, Helen M, Karakikes, Ioannis, Wang, Kevin C, Kundaje, Anshul
Publicado 2023

Chromatin accessibility dynamics of neurogenic niche cells reveal defects in neural stem cell adhesion and migration during aging

por Yeo, Robin W., Zhou, Olivia Y., Zhong, Brian L., Sun, Eric D., Navarro Negredo, Paloma, Nair, Surag, Sharmin, Mahfuza, Ruetz, Tyson J., Wilson, Mikaela, Kundaje, Anshul, Dunn, Alexander R., Brunet, Anne
Publicado 2023

GENCODE: reference annotation for the human and mouse genomes in 2023

por Frankish, Adam, Carbonell-Sala, Sílvia, Diekhans, Mark, Jungreis, Irwin, Loveland, Jane E, Mudge, Jonathan M, Sisu, Cristina, Wright, James C, Arnan, Carme, Barnes, If, Banerjee, Abhimanyu, Bennett, Ruth, Berry, Andrew, Bignell, Alexandra, Boix, Carles, Calvet, Ferriol, Cerdán-Vélez, Daniel, Cunningham, Fiona, Davidson, Claire, Donaldson, Sarah, Dursun, Cagatay, Fatima, Reham, Giorgetti, Stefano, Giron, Carlos Garcıa, Gonzalez, Jose Manuel, Hardy, Matthew, Harrison, Peter W, Hourlier, Thibaut, Hollis, Zoe, Hunt, Toby, James, Benjamin, Jiang, Yunzhe, Johnson, Rory, Kay, Mike, Lagarde, Julien, Martin, Fergal J, Gómez, Laura Martínez, Nair, Surag, Ni, Pengyu, Pozo, Fernando, Ramalingam, Vivek, Ruffier, Magali, Schmitt, Bianca M, Schreiber, Jacob M, Steed, Emily, Suner, Marie-Marthe, Sumathipala, Dulika, Sycheva, Irina, Uszczynska-Ratajczak, Barbara, Wass, Elizabeth, Yang, Yucheng T, Yates, Andrew, Zafrulla, Zahoor, Choudhary, Jyoti S, Gerstein, Mark, Guigo, Roderic, Hubbard, Tim J P, Kellis, Manolis, Kundaje, Anshul, Paten, Benedict, Tress, Michael L, Flicek, Paul
Publicado 2022