Jason Ernst

Also affiliated with Samueli Institute, Broad Center

Biochemistry, Genetics and Molecular Biology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 1%percentile

53.5Author DataRank

Indexed papers

19in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 19 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

Integrative analysis of 111 reference human epigenomes

Nature(2015)10.1038/nature14248

Top 1%

10.0DataRank

Top 1%7189 citations

Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen +93 more

Papers

Driven by 64 papers — median percentile 73. Top paper: “Integrative analysis of 111 reference human epigenomes”.

Integrative analysis of 111 reference human epigenomes

Nature(2015)10.1038/nature14248

Top 1%

10.0DataRank

Top 1%7189 citations

Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen +93 more

Comprehensive analysis of the chromatin landscape in Drosophila melanogaster

Nature(2010)10.1038/nature09725

Top 2%

8.1DataRank

Top 2%911 citations

Sebastian Will, Yuri B. Schwartz, Aki Minoda, Nicole C. Riddle, Jason Ernst +28 more

Integrative annotation of chromatin elements from ENCODE data

Nucleic Acids Research(2012)10.1093/nar/gks1284

Top 2%

7.9DataRank

Top 2%628 citations

Jason Ernst, Steven P. Wilder, Anshul Kundaje, Robert S. Harris, Max Libbrecht +10 more

A high-resolution map of human evolutionary constraint using 29 mammals

Nature(2011)10.1038/nature10530

Top 2%

7.6DataRank

Top 2%1227 citations

Genome Institute at Washington University, Manuel Garber, Or Zuk, Alireza Heravi-Moussavi, Wouter Meuleman +49 more

Large-scale imputation of epigenomic datasets for systematic annotation of diverse human tissues

Nature Biotechnology(2015)10.1038/nbt.3157

Top 3%

6.7DataRank

Top 3%440 citations

Sharon L. R. Kardia, Jason Ernst

Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions

Nature Biotechnology(2016)10.1038/nbt.3678

N/A

6.0DataRank · unranked

187 citations

Alexandre Melnikov, Xiaolan Zhang, Li Wang, Peter Rogov, Tarjei S. Mikkelsen +2 more

Interplay between chromatin state, regulator binding, and regulatory motifs in six human cell types

Genome Research(2013)10.1101/gr.144840.112

Top 5%

4.2DataRank

Top 5%102 citations

Sharon L. R. Kardia, Jason Ernst

Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries

Nature Communications(2018)10.1038/s41467-018-04668-w

N/A

3.7DataRank · unranked

109 citations

Sanni Ruotsalainen, Robert E. Handsaker, Maris Alver, Jonathan M. Bloom, Timothy Poterba +442 more

Universal annotation of the human genome through integration of over a thousand epigenomic datasets

Genome biology(2022)10.1186/s13059-021-02572-z

Top 8%

2.7DataRank

Top 8%148 citations

Jason Ernst, Ha Vu

Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE

Science(2010)10.1126/science.1198374

Top 9%

2.4DataRank

Top 9%1089 citations

Sushmita Roy, Jason Ernst, Peter V. Kharchenko, Yanxiao Zhang, Richard S. Sandstrom +172 more

Evidence of reduced recombination rate in human regulatory domains

Genome Biology(2017)10.1186/s13059-017-1308-x

N/A

2.1DataRank · unranked

61 citations

Abhishek Sarkar, Yanxiao Zhang, Jason Ernst, Sharon L. R. Kardia, Yaping Liu

Distinct and Predictive Histone Lysine Acetylation Patterns at Promoters, Enhancers, and Gene Bodies

G3 Genes|Genomes|Genetics(2014)10.1534/g3.114.013565

N/A

1.8DataRank · unranked

46 citations

Jason Ernst, Roberto Salgado, Jie Wu, Robert A. Waterland, Sharon L. R. Kardia +3 more

ChromHMM: automating chromatin-state discovery and characterization

Nature Methods(2012)10.1038/nmeth.1906

N/A

1.2DataRank · unranked

2372 citations

Sharon L. R. Kardia, Jason Ernst

Discovery and Characterization of Chromatin States for Systematic Annotation of the Human Genome

Lecture Notes in Computer Science(2011)10.1007/978-3-642-20036-6_6

N/A

1.1DataRank · unranked

29 citations

Sharon L. R. Kardia, Jason Ernst

Chromatin-state discovery and genome annotation with ChromHMM

Nature Protocols(2017)10.1038/nprot.2017.124

N/A

1.0DataRank · unranked

1039 citations

Sharon L. R. Kardia, Jason Ernst

Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci

Nature Neuroscience(2014)10.1038/nn.3786

N/A

1.0DataRank · unranked

999 citations

Gyan Srivastava, Katie Lunnon, Jeremy Burgess, Leonard C. Schalkwyk, Lei Yu +27 more

Universal chromatin state annotation of the mouse genome

Genome biology(2023)10.1186/s13059-023-02994-x

Top 22%

0.919DataRank

Top 22%30 citations

Jason Ernst, Ha Vu

Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay

Genome Research(2013)10.1101/gr.144899.112

N/A

0.885DataRank · unranked

363 citations

Jason Ernst, Alexandre Melnikov, Peter Rogov, Li Wang, Xiaolan Zhang +5 more

Combinatorial Patterning of Chromatin Regulators Uncovered by Genome-wide Location Analysis in Human Cells

Cell(2011)10.1016/j.cell.2011.09.057

N/A

0.872DataRank · unranked

334 citations

Alon Goren, Ido Amit, Noam Shoresh, Nir Yosef, Jason Ernst +12 more

Common Variants at 9p21 and 8q22 Are Associated with Increased Susceptibility to Optic Nerve Degeneration in Glaucoma

PLoS Genetics(2012)10.1371/journal.pgen.1002654

N/A

0.863DataRank · unranked

314 citations

Brian L. Yaspan, Michael A. Hauser, Jae H. Kang, R. Rand Allingham, Lana M. Olson +52 more

RFECS: A Random-Forest Based Algorithm for Enhancer Identification from Chromatin State

PLoS Computational Biology(2013)10.1371/journal.pcbi.1002968

N/A

0.826DataRank · unranked

245 citations

Wei Xie, Yan Li, Uli Wagner, Wei Wang, Momoe Kato +5 more

A mammalian methylation array for profiling methylation levels at conserved sequences

Nature Communications(2022)10.1038/s41467-022-28355-z

N/A

0.809DataRank · unranked

219 citations

Amin Haghani, Michael J. Thompson, Matteo Pellegrini, Soo Bin Kwon, Ha Vu +13 more

Epigenetic clock and methylation studies in vervet monkeys

GeroScience(2021)10.1007/s11357-021-00466-3

Top 27%

0.734DataRank

Top 27%30 citations

Amin Haghani, Joseph A. Zoller, Caesar Z. Li, A Arneson, Jason Ernst +13 more

A mammalian methylation array for profiling methylation levels at conserved sequences

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.01.07.425637

N/A

0.659DataRank · unranked

80 citations

Amin Haghani, Michael J. Thompson, Matteo Pellegrini, Soo Bin Kwon, Ha Vu +10 more

Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of stem cell maintenance and neuronal differentiation

Cell stem cell(2024)10.1016/j.stem.2024.04.001

N/A

0.524DataRank · unranked

32 citations

Chia-Ho Lin, An‐Chieh Feng, Wen Xiao, Kyu‐Hyeon Yeom, Mulin Li +8 more

Chromosome conformation elucidates regulatory relationships in developing human brain

UNC Libraries(2020)10.17615/993s-hg48

N/A

0.489DataRank · unranked

25 citations

Gavin J. Sutton, Irina Voineagu, Michael J. Gandal, Eleazar Eskin, Daniel H. Geschwind +10 more

Single-nucleotide conservation state annotation of the SARS-CoV-2 genome

Communications Biology(2021)10.1038/s42003-021-02231-w

Top 43%

0.439DataRank

Top 43%6 citations

Jason Ernst, Soo Bin Kwon

Pan-primate DNA methylation clocks

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.29.402891

N/A

0.406DataRank · unranked

14 citations

Amin Haghani, Joseph A. Zoller, Ake T. Lu, Jason Ernst, Matteo Pellegrini +14 more

Epigenetic clock and methylation studies in vervet monkeys

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.09.289801

Top 47%

0.387DataRank

Top 47%10 citations

Amin Haghani, Joseph A. Zoller, Caesar Z. Li, A Arneson, Jason Ernst +13 more

Perspective on recent developments and challenges in regulatory and systems genomics

Bioinformatics Advances(2024)10.1093/bioadv/vbaf106

N/A

0.373DataRank · unranked

11 citations

Sushmita Roy, Ferhat Ay, Anthony Mathelier, Alejandra Medina-Rivera, Shaun Mahony +3 more

ConsHMM Atlas: conservation state annotations for major genomes and human genetic variation

NAR Genomics and Bioinformatics(2020)10.1093/nargab/lqaa104

Top 49%

0.361DataRank

Top 49%7 citations

Brooke Felsheim, Jennifer Chien, Jason Ernst, A Arneson

A framework for group-wise summarization and comparison of chromatin state annotations

Bioinformatics(2022)10.1093/bioinformatics/btac722

N/A

0.345DataRank · unranked

9 citations

Zane Koch, Petko Fiziev, Jason Ernst, Ha Vu

Single-cell methylation analysis of brain tissue prioritizes mutations that alter transcription

Cell Genomics(2023)10.1016/j.xgen.2023.100454

N/A

0.320DataRank · unranked

6 citations

Matthew G. Heffel, Zeyuan Chen, Joel Mefford, Emilie Marcus, Patrick B. Chen +3 more

Complementation testing identifies genes mediating effects at quantitative trait loci underlying fear-related behavior

Cell Genomics(2024)10.1016/j.xgen.2024.100545

N/A

0.312DataRank · unranked

7 citations

Rachel X. Chen, Nathan LaPierre, Zeyuan Chen, Joel Mefford, Emilie Marcus +6 more

Publisher Correction: Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries

Nature Communications(2020)10.1038/s41467-020-15236-6

Top 57%

0.275DataRank

Top 57%2 citations

Sanni Ruotsalainen, Robert E. Handsaker, Maris Alver, Jonathan M. Bloom, Timothy Poterba +442 more

Cross-species and tissue imputation of species-level DNA methylation samples across mammalian species

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.26.568769

Top 58%

0.273DataRank

Top 58%4 citations

Steve Horvath, Jason Ernst, Emily Maciejewski

The landscape of fitness effects of putatively functional noncoding mutations in humans

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.05.14.654124

N/A

0.241DataRank · unranked

4 citations

Swetha Ramesh, Jason Ernst, Kirk E. Lohmueller, Chenlu Di

ChromActivity: integrative epigenomic and functional characterization assay based annotation of regulatory activity across diverse human cell types

Genome biology(2025)10.1186/s13059-025-03579-6

Top 62%

0.232DataRank

Top 62%3 citations

Jason Ernst, Tevfik Umut Dincer

Genome-wide regulatory model from MPRA data predicts functional regions, eQTLs, and GWAS hits

bioRxiv (Cold Spring Harbor Laboratory)(2017)10.1101/110171

N/A

0.198DataRank · unranked

2 citations

Ryan Tewhey, Pardis C. Sabeti, Jason Ernst, Sharon L. R. Kardia, Alvin Shi +1 more

Single-nucleotide conservation state annotation of the SARS-CoV-2 genome

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.13.201277

Top 70%

0.146DataRank

Top 70%1 citations

Jason Ernst, Soo Bin Kwon

map3C: a computational tool for processing multiomic single-cell Hi-C data

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.10.681728

N/A

0DataRank · unranked

0 citations

Ye Wang, Frank Alber, Jason Ernst, Chongyuan Luo, Joseph Galasso

MissenseHMM: state-based annotations for missense variants through joint modeling of pathogenicity scores

bioRxiv (Cold Spring Harbor Laboratory)(2026)10.64898/2026.01.31.703062

N/A

0DataRank · unranked

0 citations

Jason Ernst, Jason B. Ernst, Runjia Li

Additional file 3: Table S1. of Evidence of reduced recombination rate in human regulatory domains

Figshare(2017)10.6084/m9.figshare.c.3911476_d3

Top 100%

0DataRank

Top 100%0 citations

Abhishek Sarkar, Yanxiao Zhang, Jason Ernst, Sharon L. R. Kardia, Yaping Liu

Additional file 1: Figure S1. of Evidence of reduced recombination rate in human regulatory domains

Figshare(2017)10.6084/m9.figshare.c.3911476_d1

N/A

0DataRank · unranked

0 citations

Abhishek Sarkar, Yanxiao Zhang, Jason Ernst, Sharon L. R. Kardia, Yaping Liu

Identification and characterization of constrained non-exonic bases lacking predictive epigenomic and transcription factor binding annotations

Nature Communications(2020)10.1038/s41467-020-19962-9

N/A

0DataRank · unranked

4 citations

Tanya N. Phung, Soo Bin Kwon, A Arneson, Yu‐Ju Lee, Kirk E. Lohmueller +2 more

Epigenetic clock and methylation studies in the rhesus macaque

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.21.307108

N/A

0DataRank · unranked

16 citations

Joseph A. Zoller, Amin Haghani, Anna J. Jasinska, Ken Raj, Charles E. Breeze +3 more

Learning a genome-wide score of human-mouse conservation at the functional genomics level

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.08.288092

N/A

0DataRank · unranked

1 citations

Jason Ernst, Soo Bin Kwon

Learning a genome-wide score of human–mouse conservation at the functional genomics level

Nature Communications(2021)10.1038/s41467-021-22653-8

N/A

0DataRank · unranked

32 citations

Jason Ernst, Soo Bin Kwon

Genome-wide DNA methylation and multi-omics study of human chondrocyte ontogeny and an epigenetic clock analysis of adult chondrocytes

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.08.02.454544

N/A

0DataRank · unranked

0 citations

Siyoung Lee, Ruzanna Shkhyan, Nancy Q. Liu, Ben Van Handel, Jenny Magallanes +7 more

Chromatin state modeling across individuals reveals global patterns of histone modifications

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.02.502571

N/A

0DataRank · unranked

1 citations

Jason Ernst, Jennifer Zou

ChromGene: Gene-Based Modeling of Epigenomic Data

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.05.24.493345

N/A

0DataRank · unranked

0 citations

Jason Ernst, Artur Jaroszewicz

STAT3 promotes a youthful epigenetic state in articular chondrocytes

Aging Cell(2023)10.1111/acel.13773

N/A

0DataRank · unranked

40 citations

Nancy Q. Liu, Jenny Magallanes, Jade Tassey, Siyoung Lee, Ruzanna Shkhyan +12 more

Pan-primate studies of age and sex

GeroScience(2023)10.1007/s11357-023-00878-3

N/A

0DataRank · unranked

24 citations

Amin Haghani, Joseph A. Zoller, Ake T. Lu, Jason Ernst, Matteo Pellegrini +14 more

ChromGene: gene-based modeling of epigenomic data

Genome biology(2023)10.1186/s13059-023-03041-5

N/A

0DataRank · unranked

7 citations

Jason Ernst, Artur Jaroszewicz

Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of stem cell maintenance and neuronal differentiation

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.10.556946

N/A

0DataRank · unranked

1 citations

Chia-Ho Lin, An‐Chieh Feng, Kyu‐Hyeon Yeom, Mulin Li, Allison E. Daly +7 more

Integrative epigenomic and functional characterization assay based annotation of regulatory activity across diverse human cell types

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.14.549056

Top 100%

0DataRank

Top 100%0 citations

Jason Ernst, Tevfik Umut Dincer

Complementation testing identifies causal genes at quantitative trait loci underlying fear related behavior

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.03.574060

N/A

0DataRank · unranked

0 citations

Rachel Chen, Nathan LaPierre, Zeyuan Chen, Joel Mefford, Emilie Marcus +6 more

Identifying associations of de novo noncoding variants with autism through integration of gene expression, sequence and sex information

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.20.585624

N/A

0DataRank · unranked

0 citations

Jason Ernst, Runjia Li

Transcriptional analysis of cystic fibrosis airways at single-cell resolution reveals altered epithelial cell states and composition

UNC Libraries(2024)10.17615/st1d-jm14

N/A

0DataRank · unranked

0 citations

David W. Shia, B.R Stripp, Abhishek Purkayastha, Bhavana Konda, J.E. Mahoney +24 more

Perspective on recent developments and challenges in regulatory and systems genomics

arXiv (Cornell University)(2024)10.48550/arxiv.2411.04363

N/A

0DataRank · unranked

0 citations

Sushmita Roy, Ferhat Ay, Anthony Mathelier, Alejandra Medina-Rivera, Shaun Mahony +3 more

Distinct mismatch-repair complex genes set neuronal CAG-repeat expansion rate to drive selective pathogenesis in HD mice

Cell(2025)10.1016/j.cell.2025.01.031

N/A

0DataRank · unranked

54 citations

Shasha Zhang, Peter Langfelder, Lalini Ramanathan, Fuying Gao, Mary Plascencia +14 more

CMImpute: cross-species and tissue imputation of species-level DNA methylation samples across mammalian species

Genome biology(2025)10.1186/s13059-025-03561-2

N/A

0DataRank · unranked

3 citations

Steve Horvath, Jason Ernst, Emily Maciejewski

Identifying associations of de novo noncoding variants with autism through integration of gene expression, sequence, and sex information

Genome biology(2025)10.1186/s13059-025-03619-1

N/A

0DataRank · unranked

0 citations

Jason Ernst, Runjia Li

Genome-wide identification and analysis of recurring patterns of epigenetic variation across individuals

Communications Biology(2025)10.1038/s42003-025-08179-5

N/A

0DataRank · unranked

0 citations

Emily Maciejewski, Jason Ernst, Jennifer Zou

Jason Ernst

Indexed papers

Top data-sharing exemplar

Papers