chromVAR: Inferring transcription factor-associated accessibility from single-cell epigenomic data

por Schep, Alicia N., Wu, Beijing, Buenrostro, Jason D., Greenleaf, William J.
Publicado 2017

Inference and effects of barcode multiplets in droplet-based single-cell assays

por Lareau, Caleb A., Ma, Sai, Duarte, Fabiana M., Buenrostro, Jason D.
Publicado 2020

Deep learning-based enhancement of epigenomics data with AtacWorks

por Lal, Avantika, Chiang, Zachary D., Yakovenko, Nikolai, Duarte, Fabiana M., Israeli, Johnny, Buenrostro, Jason D.
Publicado 2021

Structured nucleosome fingerprints enable high-resolution mapping of chromatin architecture within regulatory regions

por Schep, Alicia N., Buenrostro, Jason D., Denny, Sarah K., Schwartz, Katja, Sherlock, Gavin, Greenleaf, William J.
Publicado 2015

Chromatin accessibility dynamics reveal novel functional enhancers in C. elegans

por Daugherty, Aaron C., Yeo, Robin W., Buenrostro, Jason D., Greenleaf, William J., Kundaje, Anshul, Brunet, Anne
Publicado 2017

Protocol for single-cell ATAC sequencing using combinatorial indexing in mouse lung adenocarcinoma

por Del Priore, Isabella, Ma, Sai, Strecker, Jonathan, Jacks, Tyler, LaFave, Lindsay M., Buenrostro, Jason D.
Publicado 2021

Quantitative analysis of RNA-protein interactions on a massively parallel array for mapping biophysical and evolutionary landscapes

por Buenrostro, Jason D., Chircus, Lauren M., Araya, Carlos L., Layton, Curtis J., Chang, Howard Y., Snyder, Michael P., Greenleaf, William J.
Publicado 2014

Single-cell epigenomic variability reveals functional cancer heterogeneity

por Litzenburger, Ulrike M., Buenrostro, Jason D., Wu, Beijing, Shen, Ying, Sheffield, Nathan C., Kathiria, Arwa, Greenleaf, William J., Chang, Howard Y.
Publicado 2017

Single-cell chromatin accessibility reveals principles of regulatory variation

por Buenrostro, Jason D., Wu, Beijing, Litzenburger, Ulrike M., Ruff, Dave, Gonzales, Michael L., Snyder, Michael P., Chang, Howard Y., Greenleaf, William J.
Publicado 2015

Rapid chromatin repression by Aire provides precise control of immune tolerance

por Koh, Andrew S., Miller, Erik L., Buenrostro, Jason D., Moskowitz, David M., Wang, Jing, Greenleaf, William J., Chang, Howard Y., Crabtree, Gerald R.
Publicado 2018

Assessment of computational methods for the analysis of single-cell ATAC-seq data

por Chen, Huidong, Lareau, Caleb, Andreani, Tommaso, Vinyard, Michael E., Garcia, Sara P., Clement, Kendell, Andrade-Navarro, Miguel A., Buenrostro, Jason D., Pinello, Luca
Publicado 2019

Sustained Activation of AMPK Enhances Differentiation of Human iPSC-Derived Cardiomyocytes via Sirtuin Activation

por Sarikhani, Mohsen, Garbern, Jessica C., Ma, Sai, Sereda, Rebecca, Conde, Jeffrey, Krähenbühl, Guido, Escalante, Gabriela O., Ahmed, Aishah, Buenrostro, Jason D., Lee, Richard T.
Publicado 2020

ELF3 activated by a superenhancer and an autoregulatory feedback loop is required for high-level HLA-C expression on extravillous trophoblasts

por Li, Qin, Meissner, Torsten B., Wang, Fang, Du, Ziming, Ma, Sai, Kshirsagar, Sarika, Tilburgs, Tamara, Buenrostro, Jason D., Uesugi, Motonari, Strominger, Jack L.
Publicado 2021

A Flexible Approach for Highly Multiplexed Candidate Gene Targeted Resequencing

por Natsoulis, Georges, Bell, John M., Xu, Hua, Buenrostro, Jason D., Ordonez, Heather, Grimes, Susan, Newburger, Daniel, Jensen, Michael, Zahn, Jacob M., Zhang, Nancy, Ji, Hanlee P.
Publicado 2011

Heritable transcriptional defects from aberrations of nuclear architecture

por Papathanasiou, Stamatis, Mynhier, Nikos A., Liu, Shiwei, Brunette, Gregory, Stokasimov, Ema, Jacob, Etai, Li, Lanting, Comenho, Caroline, van Steensel, Bas, Buenrostro, Jason D., Zhang, Cheng-Zhong, Pellman, David
Publicado 2023

Functional inference of gene regulation using single-cell multi-omics

por Kartha, Vinay K., Duarte, Fabiana M., Hu, Yan, Ma, Sai, Chew, Jennifer G., Lareau, Caleb A., Earl, Andrew, Burkett, Zach D., Kohlway, Andrew S., Lebofsky, Ronald, Buenrostro, Jason D.
Publicado 2022

TOP2 synergizes with BAF chromatin remodeling for both resolution and formation of facultative heterochromatin

por Miller, Erik L., Hargreaves, Diana C., Kadoch, Cigall, Chang, Chiung-Ying, Calarco, Joseph P., Hodges, Courtney, Buenrostro, Jason D., Cui, Kairong, Greenleaf, William J., Zhao, Keji, Crabtree, Gerald R.
Publicado 2017

Temporally divergent regulatory mechanisms govern neuronal diversification and maturation in the mouse and marmoset neocortex

por Yuan, Wen, Ma, Sai, Brown, Juliana R., Kim, Kwanho, Murek, Vanessa, Trastulla, Lucia, Meissner, Alexander, Lodato, Simona, Shetty, Ashwin S., Levin, Joshua Z., Buenrostro, Jason D., Ziller, Michael J., Arlotta, Paola
Publicado 2022

Transcriptional States and Chromatin Accessibility Underlying Human Erythropoiesis

por Ludwig, Leif S., Lareau, Caleb A., Bao, Erik L., Nandakumar, Satish K., Muus, Christoph, Ulirsch, Jacob C., Chowdhary, Kaitavjeet, Buenrostro, Jason D., Mohandas, Narla, An, Xiuli, Aryee, Martin J., Regev, Aviv, Sankaran, Vijay G.
Publicado 2019

Lineage-specific and single cell chromatin accessibility charts human hematopoiesis and leukemia evolution

por Corces, M. Ryan, Buenrostro, Jason D., Wu, Beijing, Greenside, Peyton G., Chan, Steven M., Koenig, Julie L., Snyder, Michael P., Pritchard, Jonathan K., Kundaje, Anshul, Greenleaf, William J., Majeti, Ravindra, Chang, Howard Y.
Publicado 2016