Guiding the design of well-powered Hi-C experiments to detect differential loops

por Parker, Sarah M, Davis, Eric S., Phanstiel, Douglas H.
Publicado 2023

Guiding the design of well-powered Hi-C experiments to detect differential loops

por Parker, Sarah M, Davis, Eric S, Phanstiel, Douglas H
Publicado 2023

Topological organization and dynamic regulation of human tRNA genes during macrophage differentiation

por Van Bortle, Kevin, Phanstiel, Douglas H., Snyder, Michael P.
Publicado 2017

Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures

por Phanstiel, Douglas H., Boyle, Alan P., Araya, Carlos L., Snyder, Michael P.
Publicado 2014

bootRanges: flexible generation of null sets of genomic ranges for hypothesis testing

por Mu, Wancen, Davis, Eric S, Lee, Stuart, Dozmorov, Mikhail G, Phanstiel, Douglas H, Love, Michael I
Publicado 2023

matchRanges: generating null hypothesis genomic ranges via covariate-matched sampling

por Davis, Eric S, Mu, Wancen, Lee, Stuart, Dozmorov, Mikhail G, Love, Michael I, Phanstiel, Douglas H
Publicado 2023

CTCF: an R/bioconductor data package of human and mouse CTCF binding sites

por Dozmorov, Mikhail G, Mu, Wancen, Davis, Eric S, Lee, Stuart, Triche, Timothy J, Phanstiel, Douglas H, Love, Michael I
Publicado 2022

Genome-wide map of regulatory interactions in the human genome

por Heidari, Nastaran, Phanstiel, Douglas H., He, Chao, Grubert, Fabian, Jahanbani, Fereshteh, Kasowski, Maya, Zhang, Michael Q., Snyder, Michael P.
Publicado 2014

Gas-phase purification enables accurate, large-scale, multiplexed proteome quantification with isobaric tagging

por Wenger, Craig D, Lee, M Violet, Hebert, Alexander S, McAlister, Graeme C, Phanstiel, Douglas H, Westphall, Michael S, Coon, Joshua J
Publicado 2011

excluderanges: exclusion sets for T2T-CHM13, GRCm39, and other genome assemblies

por Ogata, Jonathan D, Mu, Wancen, Davis, Eric S, Xue, Bingjie, Harrell, J Chuck, Sheffield, Nathan C, Phanstiel, Douglas H, Love, Michael I, Dozmorov, Mikhail G
Publicado 2023

A multi-omic dissection of super-enhancer driven oncogenic gene expression programs in ovarian cancer

por Kelly, Michael R., Wisniewska, Kamila, Regner, Matthew J., Lewis, Michael W., Perreault, Andrea A., Davis, Eric S., Phanstiel, Douglas H., Parker, Joel S., Franco, Hector L.
Publicado 2022

Proximity-dependent recruitment of Polycomb repressive complexes by the lncRNA Airn

por Braceros, Aki K., Schertzer, Megan D., Omer, Arina, Trotman, Jackson B., Davis, Eric S., Dowen, Jill M., Phanstiel, Douglas H., Aiden, Erez Lieberman, Calabrese, J. Mauro
Publicado 2023

Temporal analysis suggests a reciprocal relationship between 3D chromatin structure and transcription

por Reed, Kathleen S.M., Davis, Eric S., Bond, Marielle L., Cabrera, Alan, Thulson, Eliza, Yoseli Quiroga, Ivana, Cassel, Shannon, Woolery, Kamisha T., Hilton, Isaac, Won, Hyejung, Love, Michael I., Phanstiel, Douglas H.
Publicado 2022

Systematic investigation of allelic regulatory activity of schizophrenia-associated common variants

por McAfee, Jessica C., Lee, Sool, Lee, Jiseok, Bell, Jessica L., Krupa, Oleh, Davis, Jessica, Insigne, Kimberly, Bond, Marielle L., Zhao, Nanxiang, Boyle, Alan P., Phanstiel, Douglas H., Love, Michael I., Stein, Jason L., Ruzicka, W. Brad, Davila-Velderrain, Jose, Kosuri, Sriram, Won, Hyejung
Publicado 2023

Mitigation of off-target toxicity in CRISPR-Cas9 screens for essential non-coding elements

por Tycko, Josh, Wainberg, Michael, Marinov, Georgi K., Ursu, Oana, Hess, Gaelen T., Ego, Braeden K., Aradhana, Li, Amy, Truong, Alisa, Trevino, Alexandro E., Spees, Kaitlyn, Yao, David, Kaplow, Irene M., Greenside, Peyton G., Morgens, David W., Phanstiel, Douglas H., Snyder, Michael P., Bintu, Lacramioara, Greenleaf, William J., Kundaje, Anshul, Bassik, Michael C.
Publicado 2019

Chromatin alternates between A and B compartments at kilobase scale for subgenic organization

por Harris, Hannah L., Gu, Huiya, Olshansky, Moshe, Wang, Ailun, Farabella, Irene, Eliaz, Yossi, Kalluchi, Achyuth, Krishna, Akshay, Jacobs, Mozes, Cauer, Gesine, Pham, Melanie, Rao, Suhas S. P., Dudchenko, Olga, Omer, Arina, Mohajeri, Kiana, Kim, Sungjae, Nichols, Michael H., Davis, Eric S., Gkountaroulis, Dimos, Udupa, Devika, Aiden, Aviva Presser, Corces, Victor G., Phanstiel, Douglas H., Noble, William Stafford, Nir, Guy, Di Pierro, Michele, Seo, Jeong-Sun, Talkowski, Michael E., Aiden, Erez Lieberman, Rowley, M. Jordan
Publicado 2023