Intestinal microbiota domination under extreme selective pressures characterized by metagenomic read cloud sequencing and assembly

por Kang, Joyce B., Siranosian, Benjamin A., Moss, Eli L., Banaei, Niaz, Andermann, Tessa M., Bhatt, Ami S.
Publicado 2019

Maximizing statistical power to detect differentially abundant cell states with scPOST

por Millard, Nghia, Korsunsky, Ilya, Weinand, Kathryn, Fonseka, Chamith Y., Nathan, Aparna, Kang, Joyce B., Raychaudhuri, Soumya
Publicado 2021

Efficient and precise single-cell reference atlas mapping with Symphony

por Kang, Joyce B., Nathan, Aparna, Weinand, Kathryn, Zhang, Fan, Millard, Nghia, Rumker, Laurie, Moody, D. Branch, Korsunsky, Ilya, Raychaudhuri, Soumya
Publicado 2021

Covarying neighborhood analysis identifies cell populations associated with phenotypes of interest from single-cell transcriptomics

por Reshef, Yakir, Rumker, Laurie, Kang, Joyce B., Nathan, Aparna, Korsunsky, Ilya, Asgari, Samira, Murray, Megan B., Moody, D. Branch, Raychaudhuri, Soumya
Publicado 2022

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

Repertoire analyses reveal T cell receptor sequence features that influence T cell fate

por Lagattuta, Kaitlyn A., Kang, Joyce B., Nathan, Aparna, Pauken, Kristen E., Jonsson, Anna Helena, Rao, Deepak A., Sharpe, Arlene H., Ishigaki, Kazuyoshi, Raychaudhuri, Soumya
Publicado 2022

Strain-resolved microbiome sequencing reveals mobile elements that drive bacterial competition on a clinical timescale

por Zlitni, Soumaya, Bishara, Alex, Moss, Eli L., Tkachenko, Ekaterina, Kang, Joyce B., Culver, Rebecca N., Andermann, Tessa M., Weng, Ziming, Wood, Christina, Handy, Christine, Ji, Hanlee P., Batzoglou, Serafim, Bhatt, Ami S.
Publicado 2020

Whole blood RNA sequencing reveals a unique transcriptomic profile in patients with ARDS following hematopoietic stem cell transplantation

por Englert, Joshua A., Cho, Michael H., Lamb, Andrew E., Shumyatcher, Maya, Barragan-Bradford, Diana, Basil, Maria C., Higuera, Angelica, Isabelle, Colleen, Vera, Mayra Pinilla, Dieffenbach, Paul B., Fredenburgh, Laura E., Kang, Joyce B., Bhatt, Ami S., Antin, Joseph H., Ho, Vincent T., Soiffer, Robert J., Howrylak, Judie A., Himes, Blanca E., Baron, Rebecca M.
Publicado 2019

Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution

por Kang, Joyce B., Shen, Amber Z., Sakaue, Saori, Luo, Yang, Gurajala, Saisriram, Nathan, Aparna, Rumker, Laurie, Aguiar, Vitor R. C., Valencia, Cristian, Lagattuta, Kaitlyn, Zhang, Fan, Jonsson, Anna Helena, Yazar, Seyhan, Alquicira-Hernandez, Jose, Khalili, Hamed, Ananthakrishnan, Ashwin N., Jagadeesh, Karthik, Dey, Kushal, Daly, Mark J., Xavier, Ramnik J., Donlin, Laura T., Anolik, Jennifer H., Powell, Joseph E., Rao, Deepak A., Brenner, Michael B., Gutierrez-Arcelus, Maria, Raychaudhuri, Soumya
Publicado 2023

Deconstruction of rheumatoid arthritis synovium defines inflammatory subtypes

por Zhang, Fan, Jonsson, Anna Helena, Nathan, Aparna, Millard, Nghia, Curtis, Michelle, Xiao, Qian, Gutierrez-Arcelus, Maria, Apruzzese, William, Watts, Gerald F. M., Weisenfeld, Dana, Nayar, Saba, Rangel-Moreno, Javier, Meednu, Nida, Marks, Kathryne E., Mantel, Ian, Kang, Joyce B., Rumker, Laurie, Mears, Joseph, Slowikowski, Kamil, Weinand, Kathryn, Orange, Dana E., Geraldino-Pardilla, Laura, Deane, Kevin D., Tabechian, Darren, Ceponis, Arnoldas, Firestein, Gary S., Maybury, Mark, Sahbudin, Ilfita, Ben-Artzi, Ami, Mandelin, Arthur M., Nerviani, Alessandra, Lewis, Myles J., Rivellese, Felice, Pitzalis, Costantino, Hughes, Laura B., Horowitz, Diane, DiCarlo, Edward, Gravallese, Ellen M., Boyce, Brendan F., Moreland, Larry W., Goodman, Susan M., Perlman, Harris, Holers, V. Michael, Liao, Katherine P., Filer, Andrew, Bykerk, Vivian P., Wei, Kevin, Rao, Deepak A., Donlin, Laura T., Anolik, Jennifer H., Brenner, Michael B., Raychaudhuri, Soumya
Publicado 2023