Raja Jothi
Title
Cited by
Cited by
Year
Genome-wide identification of in vivo protein–DNA binding sites from ChIP-Seq data
R Jothi, S Cuddapah, A Barski, K Cui, K Zhao
Nucleic acids research 36 (16), 5221, 2008
6462008
Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains
S Cuddapah, R Jothi, DE Schones, TY Roh, K Cui, K Zhao
Genome research 19 (1), 24-32, 2009
6322009
An embryonic stem cell chromatin remodeling complex, esBAF, is an essential component of the core pluripotency transcriptional network
L Ho, R Jothi, JL Ronan, K Cui, K Zhao, GR Crabtree
Proceedings of the National Academy of Sciences 106 (13), 5187-5191, 2009
4052009
Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types
G Wei, BJ Abraham, R Yagi, R Jothi, K Cui, S Sharma, L Narlikar, ...
Immunity 35 (2), 299-311, 2011
2662011
esBAF facilitates pluripotency by conditioning the genome for LIF/STAT3 signalling and by regulating polycomb function
L Ho, EL Miller, JL Ronan, WQ Ho, R Jothi, GR Crabtree
Nature cell biology 13 (8), 903-913, 2011
2262011
Global phosphoproteomic analysis of human skeletal muscle reveals a network of exercise-regulated kinases and AMPK substrates
NJ Hoffman, BL Parker, R Chaudhuri, KH Fisher-Wellman, M Kleinert, ...
Cell metabolism 22 (5), 922-935, 2015
2062015
Interplay between gene expression noise and regulatory network architecture
G Chalancon, CNJ Ravarani, S Balaji, A Martinez-Arias, L Aravind, ...
Trends in genetics 28 (5), 221-232, 2012
2012012
DOMINE: a comprehensive collection of known and predicted domain-domain interactions
S Yellaboina, A Tasneem, DV Zaykin, B Raghavachari, R Jothi
Nucleic acids research 39 (suppl_1), D730-D735, 2011
1792011
Chromatin poises miRNA-and protein-coding genes for expression
A Barski, R Jothi, S Cuddapah, K Cui, TY Roh, DE Schones, K Zhao
Genome research 19 (10), 1742-1751, 2009
1572009
DOMINE: a database of protein domain interactions
B Raghavachari, A Tasneem, TM Przytycka, R Jothi
Nucleic acids research 36 (suppl_1), D656-D661, 2008
1542008
Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture
R Jothi, S Balaji, A Wuster, JA Grochow, J Gsponer, TM Przytycka, ...
Molecular systems biology 5 (1), 294, 2009
1522009
Co-evolutionary analysis of domains in interacting proteins reveals insights into domain–domain interactions mediating protein–protein interactions
R Jothi, PF Cherukuri, A Tasneem, TM Przytycka
Journal of molecular biology 362 (4), 861-875, 2006
1512006
DNMT1 is essential for mammary and cancer stem cell maintenance and tumorigenesis
R Pathania, S Ramachandran, S Elangovan, R Padia, P Yang, S Cinghu, ...
Nature communications 6 (1), 1-11, 2015
1402015
INO80 facilitates pluripotency gene activation in embryonic stem cell self-renewal, reprogramming, and blastocyst development
L Wang, Y Du, JM Ward, T Shimbo, B Lackford, X Zheng, Y Miao, B Zhou, ...
Cell stem cell 14 (5), 575-591, 2014
1202014
Diverse stresses dramatically alter genome-wide p53 binding and transactivation landscape in human cancer cells
D Menendez, TA Nguyen, JM Freudenberg, VJ Mathew, CW Anderson, ...
Nucleic acids research 41 (15), 7286-7301, 2013
1182013
Predicting domain-domain interactions using a parsimony approach
KS Guimar„es, R Jothi, E Zotenko, TM Przytycka
Genome biology 7 (11), R104, 2006
1112006
Fip1 regulates mRNA alternative polyadenylation to promote stem cell self‐renewal
B Lackford, C Yao, GM Charles, L Weng, X Zheng, EA Choi, X Xie, J Wan, ...
The EMBO journal 33 (8), 878-889, 2014
1102014
Nuclear adaptor Ldb1 regulates a transcriptional program essential for the maintenance of hematopoietic stem cells
LQ Li, R Jothi, K Cui, JY Lee, T Cohen, M Gorivodsky, I Tzchori, Y Zhao, ...
Nature immunology 12 (2), 129, 2011
1092011
Histone-fold domain protein NF-Y promotes chromatin accessibility for cell type-specific master transcription factors
AJ Oldfield, P Yang, AE Conway, S Cinghu, JM Freudenberg, ...
Molecular cell 55 (5), 708-722, 2014
1042014
Acute depletion of Tet1-dependent 5-hydroxymethylcytosine levels impairs LIF/Stat3 signaling and results in loss of embryonic stem cell identity
JM Freudenberg, S Ghosh, BL Lackford, S Yellaboina, X Zheng, R Li, ...
Nucleic acids research 40 (8), 3364-3377, 2012
992012
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