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Maria Chikina
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A temporal switch in the germinal center determines differential output of memory B and plasma cells
FJ Weisel, GV Zuccarino-Catania, M Chikina, MJ Shlomchik
Immunity 44 (1), 116-130, 2016
5122016
Interferon-γ drives Treg fragility to promote anti-tumor immunity
AE Overacre-Delgoffe, M Chikina, RE Dadey, H Yano, EA Brunazzi, ...
Cell 169 (6), 1130-1141. e11, 2017
4962017
Adaptive plasticity of IL-10+ and IL-35+ Treg cells cooperatively promotes tumor T cell exhaustion
DV Sawant, H Yano, M Chikina, Q Zhang, M Liao, C Liu, DJ Callahan, ...
Nature immunology 20 (6), 724-735, 2019
3392019
Individual variation in susceptibility or exposure to SARS-CoV-2 lowers the herd immunity threshold
MGM Gomes, MU Ferreira, RM Corder, JG King, C Souto-Maior, ...
Journal of theoretical biology 540, 111063, 2022
2842022
Treg cells promote the SREBP1-dependent metabolic fitness of tumor-promoting macrophages via repression of CD8+ T cell-derived interferon-γ
C Liu, M Chikina, R Deshpande, AV Menk, T Wang, T Tabib, EA Brunazzi, ...
Immunity 51 (2), 381-397. e6, 2019
2052019
Germinal center B cells selectively oxidize fatty acids for energy while conducting minimal glycolysis
FJ Weisel, SJ Mullett, RA Elsner, AV Menk, N Trivedi, W Luo, ...
Nature immunology 21 (3), 331-342, 2020
1882020
Hundreds of genes experienced convergent shifts in selective pressure in marine mammals
M Chikina, JD Robinson, NL Clark
Molecular biology and evolution 33 (9), 2182-2192, 2016
1502016
LAG3 limits regulatory T cell proliferation and function in autoimmune diabetes
Q Zhang, M Chikina, AL Szymczak-Workman, W Horne, JK Kolls, ...
Science immunology 2 (9), eaah4569, 2017
1332017
Subterranean mammals show convergent regression in ocular genes and enhancers, along with adaptation to tunneling
R Partha, BK Chauhan, Z Ferreira, JD Robinson, K Lathrop, KK Nischal, ...
Elife 6, e25884, 2017
1312017
Assessing significance in a Markov chain without mixing
M Chikina, A Frieze, W Pegden
Proceedings of the National Academy of Sciences 114 (11), 2860-2864, 2017
1162017
Global Prediction of Tissue-Specific Gene Expression and Context-Dependent Gene Networks in Caenorhabditis elegans
MD Chikina, C Huttenhower, CT Murphy, OG Troyanskaya
PLoS computational biology 5 (6), e1000417, 2009
1162009
CellCODE: a robust latent variable approach to differential expression analysis for heterogeneous cell populations
M Chikina, E Zaslavsky, SC Sealfon
Bioinformatics 31 (10), 1584-1591, 2015
1112015
Kidney-infiltrating T cells in murine lupus nephritis are metabolically and functionally exhausted
JS Tilstra, L Avery, AV Menk, RA Gordon, S Smita, LP Kane, M Chikina, ...
The Journal of clinical investigation 128 (11), 4884-4897, 2018
1102018
Modeling a human hepatocellular carcinoma subset in mice through coexpression of met and point‐mutant β‐catenin
J Tao, E Xu, Y Zhao, S Singh, X Li, G Couchy, X Chen, J Zucman‐Rossi, ...
Hepatology 64 (5), 1587-1605, 2016
1092016
The Sleipnir library for computational functional genomics
C Huttenhower, M Schroeder, MD Chikina, OG Troyanskaya
Bioinformatics 24 (13), 1559-1561, 2008
872008
Wnt signaling regulates hepatobiliary repair following cholestatic liver injury in mice
H Okabe, J Yang, K Sylakowski, M Yovchev, Y Miyagawa, S Nagarajan, ...
Hepatology 64 (5), 1652-1666, 2016
822016
Pathway-level information extractor (PLIER) for gene expression data
W Mao, E Zaslavsky, BM Hartmann, SC Sealfon, M Chikina
Nature methods 16 (7), 607-610, 2019
792019
RERconverge: an R package for associating evolutionary rates with convergent traits
A Kowalczyk, WK Meyer, R Partha, W Mao, NL Clark, M Chikina
Bioinformatics 35 (22), 4815-4817, 2019
762019
Ancient convergent losses of Paraoxonase 1 yield potential risks for modern marine mammals
WK Meyer, J Jamison, R Richter, SE Woods, R Partha, A Kowalczyk, ...
Science 361 (6402), 591-594, 2018
752018
A benchmark for evaluation of algorithms for identification of cellular correlates of clinical outcomes
N Aghaeepour, P Chattopadhyay, M Chikina, T Dhaene, S Van Gassen, ...
Cytometry Part A 89 (1), 16-21, 2016
652016
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