Jason Ernst
Title
Cited by
Cited by
Year
An integrated encyclopedia of DNA elements in the human genome
ENCODE Project Consortium
Nature 489 (7414), 2012
119352012
Integrative analysis of 111 reference human epigenomes
A Kundaje, W Meuleman, J Ernst, M Bilenky, A Yen, A Heravi-Moussavi, ...
Nature 518 (7539), 317-330, 2015
39912015
Mapping and analysis of chromatin state dynamics in nine human cell types
J Ernst, P Kheradpour, TS Mikkelsen, N Shoresh, LD Ward, CB Epstein, ...
Nature 473 (7345), 43-49, 2011
27322011
ChromHMM: automating chromatin-state discovery and characterization
J Ernst, M Kellis
Nature Methods 9 (3), 215-216, 2012
16672012
A user's guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS biol 9 (4), e1001046, 2011
12312011
Discovery and characterization of chromatin states for systematic annotation of the human genome
J Ernst, M Kellis
Nature Biotechnology 28, 817-825, 2010
10612010
A high-resolution map of human evolutionary constraint using 29 mammals
K Lindblad-Toh, M Garber, O Zuk, MF Lin, BJ Parker, S Washietl, ...
Nature 478 (7370), 476-482, 2011
10292011
STEM: a tool for the analysis of short time series gene expression data
J Ernst, Z Bar-Joseph
BMC bioinformatics 7 (1), 1-11, 2006
9352006
Identification of functional elements and regulatory circuits by Drosophila modENCODE
S Roy, J Ernst, PV Kharchenko, P Kheradpour, N Negre, ML Eaton, ...
Science 330 (6012), 1787-1797, 2010
8972010
Comprehensive analysis of the chromatin landscape in Drosophila melanogaster
PV Kharchenko, AA Alekseyenko, YB Schwartz, A Minoda, NC Riddle, ...
Nature 471 (7339), 480-485, 2011
8482011
Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci
PL De Jager, G Srivastava, K Lunnon, J Burgess, LC Schalkwyk, L Yu, ...
Nature neuroscience 17 (9), 1156-1163, 2014
6122014
Integrative annotation of chromatin elements from ENCODE data
MM Hoffman, J Ernst, SP Wilder, A Kundaje, RS Harris, M Libbrecht, ...
Nucleic acids research, gks1284, 2013
5032013
Clustering short time series gene expression data
J Ernst, GJ Nau, Z Bar-Joseph
Bioinformatics 21 (suppl_1), i159-i168, 2005
4992005
Chromosome conformation elucidates regulatory relationships in developing human brain
H Won, L de La Torre-Ubieta, JL Stein, NN Parikshak, J Huang, ...
Nature 538 (7626), 523-527, 2016
3502016
Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells
O Ram, A Goren, I Amit, N Shoresh, N Yosef, J Ernst, M Kellis, M Gymrek, ...
Cell 147 (7), 1628-1639, 2011
3442011
Intracellular crowding defines the mode and sequence of substrate uptake by Escherichia coli and constrains its metabolic activity
QK Beg, A Vazquez, J Ernst, MA de Menezes, Z Bar-Joseph, AL Barabási, ...
Proceedings of the National Academy of Sciences 104 (31), 12663-12668, 2007
3082007
Large-scale imputation of epigenomic datasets for systematic annotation of diverse human tissues
J Ernst, M Kellis
Nature biotechnology 33 (4), 364-376, 2015
2882015
Cooperative binding of transcription factors orchestrates reprogramming
C Chronis, P Fiziev, B Papp, S Butz, G Bonora, S Sabri, J Ernst, K Plath
Cell 168 (3), 442-459. e20, 2017
2822017
Common Variants at 9p21 and 8q22 Are Associated with Increased Susceptibility to Optic Nerve Degeneration in Glaucoma
JL Wiggs, BL Yaspan, MA Hauser, JH Kang, RR Allingham, LM Olson, ...
PLoS Genetics 8 (4), e1002654, 2012
2622012
Chromatin-state discovery and genome annotation with ChromHMM
J Ernst, M Kellis
Nature protocols 12 (12), 2478, 2017
2362017
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