Matthew Stephens

Also affiliated with University of Chicago

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

26.0Author DataRank

Indexed papers

4in 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 4 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.

Genetic effects on gene expression across human tissues

Nature(2017)10.1038/nature24277

Top 1%

10.1DataRank

Top 1%4706 citations

Barbara E. Engelhardt, Stephen B. Montgomery, Sara Mostafavi, Ayellet V. Segrè, Hailei Zhang +227 more

Papers

Driven by 48 papers — median percentile 97. Top paper: “Correction: Corrigendum: Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases”.

Correction: Corrigendum: Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases

Scientific Reports(2016)10.1038/srep19384

N/A

10.4DataRank · unranked

722 citations

Tao Huang, Francesca Petralia, Quan Long, Bin Zhang, Carmen Argmann +129 more

Cell type–specific genetic regulation of gene expression across human tissues

Science(2020)10.1126/science.aaz8528

N/A

10.3DataRank · unranked

596 citations

François Aguet, Meritxell Oliva, Manuel Muñoz-Aguirre, Silva Kasela, Valentin Wucher +77 more

Genetic effects on gene expression across human tissues

Nature(2017)10.1038/nature24277

Top 1%

10.1DataRank

Top 1%4706 citations

Barbara E. Engelhardt, Stephen B. Montgomery, Sara Mostafavi, Ayellet V. Segrè, Hailei Zhang +227 more

The impact of sex on gene expression across human tissues

Science(2020)10.1126/science.aba3066

N/A

9.0DataRank · unranked

727 citations

Manuel Muñoz-Aguirre, Sarah Kim-Hellmuth, Valentin Wucher, Ariel DH Gewirtz, Daniel J. Cotter +72 more

Determinants of telomere length across human tissues

Science(2020)10.1126/science.aaz6876

N/A

8.6DataRank · unranked

501 citations

Farzana Jasmine, Lin Chen, Meytal Chernoff, Tong Lin, Dayana Delgado +90 more

The GTEx Consortium atlas of genetic regulatory effects across human tissues

Science(2020)10.1126/science.aaz1776

Top 2%

8.0DataRank

Top 2%5930 citations

Shankara Anand, Kristin G. Ardlie, Stacey Gabriel, Gad Getz, Aaron Graubert +95 more

A Quantitative Proteome Map of the Human Body

Cell(2020)10.1016/j.cell.2020.08.036

Top 4%

5.1DataRank

Top 4%487 citations

Meng Wang, Shin Lin, Ruiqi Jian, Xiao Li, Joanne Chan +95 more

Transcriptomic signatures across human tissues identify functional rare genetic variation

Science(2020)10.1126/science.aaz5900

N/A

5.0DataRank · unranked

166 citations

Benjamin J. Strober, Jonah Einson, Nathan S. Abell, François Aguet, Alvaro N. Barbeira +183 more

A vast resource of allelic expression data spanning human tissues

Genome Biology(2020)10.1186/s13059-020-02122-z

Top 8%

2.7DataRank

Top 8%147 citations

François Aguet, Pejman Mohammadi, Kristin G. Ardlie, Anthony Philippakis, Leanne Haggerty +159 more

Inference of Population Structure Using Multilocus Genotype Data

Genetics(2000)10.1093/genetics/155.2.945

N/A

1.6DataRank · unranked

34058 citations

Matthew Stephens, Peter Donnelly, Jonathan K. Pritchard

Inference of Population Structure Using Multilocus Genotype Data: Linked Loci and Correlated Allele Frequencies

Genetics(2003)10.1093/genetics/164.4.1567

N/A

1.3DataRank · unranked

8028 citations

Matthew Stephens, Jonathan K. Pritchard, Daniel Falush

A New Statistical Method for Haplotype Reconstruction from Population Data

The American Journal of Human Genetics(2001)10.1086/319501

N/A

1.3DataRank · unranked

7530 citations

Nicholas J. Smith, Peter Donnelly, Nicholas Smith, Matthew Stephens

Fast and accurate genotype imputation in genome-wide association studies through pre-phasing

Nature Genetics(2012)10.1038/ng.2354

N/A

1.1DataRank · unranked

1873 citations

Christian Fuchsberger, Matthew Stephens, Jonathan Marchini, Gonçalo R. Abecasis, Bryan Howie

A Simple New Approach to Variable Selection in Regression, with Application to Genetic Fine Mapping

Journal of the Royal Statistical Society Series B (Statistical Methodology)(2020)10.1111/rssb.12388

N/A

1.0DataRank · unranked

1088 citations

Abhishek Sarkar, Peter Carbonetto, Matthew Stephens, Gao Wang

DNase I sensitivity QTLs are a major determinant of human expression variation

Nature(2012)10.1038/nature10808

N/A

0.984DataRank · unranked

704 citations

Athma A. Pai, Roger Pique-Regi, Jean-Baptiste Veyrieras, Daniel J. Gaffney, Joseph K. Pickrell +10 more

Effect of predicted protein-truncating genetic variants on the human transcriptome

Science(2015)10.1126/science.1261877

N/A

0.877DataRank · unranked

345 citations

Matti Pirinen, Donald F. Conrad, Monkol Lek, Emily K. Tsang, Konrad J. Karczewski +206 more

Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases

Scientific Reports(2015)10.1038/srep15145

N/A

0.811DataRank · unranked

222 citations

Tao Huang, Francesca Petralia, Quan Long, Bin Zhang, Carmen Argmann +128 more

Population-scale tissue transcriptomics maps long non-coding RNAs to complex disease

Cell(2021)10.1016/j.cell.2021.03.050

N/A

0.804DataRank · unranked

212 citations

Daniel C. Nachun, Nicole M. Ferraro, Michael J. Gloudemans, Abhiram S. Rao, Craig Smail +168 more

Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis

Genome Research(2020)10.1101/gr.247759.118

N/A

0.697DataRank · unranked

103 citations

Po‐Yuan Tung, John Blischak, Jonathan E. Burnett, Kenneth Barr, Kushal K. Dey +3 more

Separating measurement and expression models clarifies confusion in single-cell RNA sequencing analysis

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.07.030007

N/A

0.542DataRank · unranked

36 citations

Matthew Stephens, Abhishek Sarkar

GoM DE: interpreting structure in sequence count data with differential expression analysis allowing for grades of membership

Genome biology(2023)10.1186/s13059-023-03067-9

N/A

0.477DataRank · unranked

23 citations

Kaixuan Luo, Abhishek Sarkar, Anthony Hung, Karl Tayeb, Sebastian Pott +2 more

Mammary intraepithelial lymphocytes and intestinal inputs shape T cell dynamics in lactogenesis

Nature Immunology(2025)10.1038/s41590-025-02218-3

N/A

0.432DataRank · unranked

11 citations

Eleni Phung, Xutong Gong, Pilar Baldominos, Silvia Galván-Peña, Ian Magill +93 more

Dynamic effects of genetic variation on gene expression revealed following hypoxic stress in cardiomyocytes

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.03.28.012823

N/A

0.373DataRank · unranked

11 citations

Nicholas E. Banovich, Abhishek Sarkar, Matthew Stephens, Yoav Gilad, Michelle C. Ward

A flexible empirical Bayes approach to multivariate multiple regression, and its improved accuracy in predicting multi-tissue gene expression from genotypes

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.11.22.517471

N/A

0.104DataRank · unranked

1 citations

Peter Carbonetto, Gao Wang, Yuxin Zou, Abhishek Sarkar, Matthew Stephens +1 more

Disease-associated loci share properties with response eQTLs under common environmental exposures

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.04.30.651602

N/A

0DataRank · unranked

0 citations

Mingyuan Li, Olivia Allen, Jonathan E. Burnett, Joshua M Popp, Matthew Stephens +3 more

Fast and flexible joint fine-mapping of multiple traits via the Sum of Single Effects model

Nature Genetics(2026)10.1038/s41588-025-02486-7

N/A

0DataRank · unranked

0 citations

Peter Carbonetto, Dongyue Xie, Gao Wang, Matthew Stephens, Wang Gao +1 more

Polymorphisms of the HNF1A Gene Encoding Hepatocyte Nuclear Factor-1α are Associated with C-Reactive Protein

UNC Libraries(2020)10.17615/w18n-ks35

N/A

0DataRank · unranked

0 citations

Matthew Stephens, Yongtao Guan, Gregory M. Cooper, J. Peter Durda, Joshua D. Smith +13 more

Separating measurement and expression models clarifies confusion in single-cell RNA sequencing analysis

Nature Genetics(2021)10.1038/s41588-021-00873-4

N/A

0DataRank · unranked

289 citations

Matthew Stephens, Abhishek Sarkar

Fine-mapping from summary data with the “Sum of Single Effects” model

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.03.467167

N/A

0DataRank · unranked

24 citations

Peter Carbonetto, Gao Wang, Matthew Stephens, Yuxin Zou

Fine-mapping from summary data with the “Sum of Single Effects” model

PLoS Genetics(2022)10.1371/journal.pgen.1010299

N/A

0DataRank · unranked

420 citations

Peter Carbonetto, Gao Wang, Matthew Stephens, Yuxin Zou

Fine-mapping studies distinguish genetic risks for childhood- and adult-onset asthma in the HLA region

Genome Medicine(2022)10.1186/s13073-022-01058-2

N/A

0DataRank · unranked

17 citations

Nathan Schoettler, Andrew M. Goldstein, Peter Carbonetto, Matthew Dapas, Matthew C. Altman +8 more

Discussion of “Confidence Intervals for Nonparametric Empirical Bayes Analysis”

Journal of the American Statistical Association(2022)10.1080/01621459.2022.2093727

N/A

0DataRank · unranked

3 citations

Matthew Stephens, Dongyue Xie

Socio-economic and psychosocial determinants of violent discipline among parents in Asia Pacific countries during COVID-19: Focus on disadvantaged populations

Child Abuse & Neglect(2023)10.1016/j.chiabu.2023.106059

N/A

0DataRank · unranked

14 citations

Darien Colson-Fearon, Myung‐Sun Kim, Soim Park, Matthew Stephens, Yunseop Kim +2 more

Unifying and generalizing methods for removing unwanted variation based on negative controls

Open MIND(2023)10.57912/23894760.v1

N/A

0DataRank · unranked

15 citations

Matthew Stephens, David Gerard

A flexible empirical Bayes approach to multivariate multiple regression, and its improved accuracy in predicting multi-tissue gene expression from genotypes

PLoS Genetics(2023)10.1371/journal.pgen.1010539

N/A

0DataRank · unranked

8 citations

Peter Carbonetto, Gao Wang, Yuxin Zou, Abhishek Sarkar, Matthew Stephens +1 more

Fast and flexible joint fine-mapping of multiple traits via the Sum of Single Effects model

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.04.14.536893

N/A

0DataRank · unranked

34 citations

Peter Carbonetto, Dongyue Xie, Gao Wang, Matthew Stephens, Yuxin Zou

GoM DE: interpreting structure in sequence count data with differential expression analysis allowing for grades of membership

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.03.531029

N/A

0DataRank · unranked

5 citations

Kaixuan Luo, Abhishek Sarkar, Anthony Hung, Karl Tayeb, Sebastian Pott +2 more

Dissecting tumor transcriptional heterogeneity from single-cell RNA-seq data by generalized binary covariance decomposition

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.15.553436

N/A

0DataRank · unranked

5 citations

Peter Carbonetto, Jason Willwerscheid, Scott A. Oakes, Kay F. Macleod, Matthew Stephens +1 more

A pairwise cytokine code explains the organism-wide response to sepsis

Nature Immunology(2024)10.1038/s41590-023-01722-8

N/A

0DataRank · unranked

79 citations

Ashwini Patil, Gabriella Richey, Denis Cipurko, Katherine Johnson, Peter Carbonetto +9 more

Adjusting for genetic confounders in transcriptome-wide association studies improves discovery of risk genes of complex traits

Nature Genetics(2024)10.1038/s41588-023-01648-9

N/A

0DataRank · unranked

77 citations

Wesley L. Crouse, Sheng Qian, Kaixuan Luo, Matthew Stephens, Xin He +1 more

Accelerated dimensionality reduction of single-cell RNA sequencing data with fastglmpca

Bioinformatics(2024)10.1093/bioinformatics/btae494

N/A

0DataRank · unranked

3 citations

Peter Carbonetto, Matthew Stephens, Eric Weine

Accelerated dimensionality reduction of single-cell RNA sequencing data with fastglmpca

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.23.586420

N/A

0DataRank · unranked

2 citations

Peter Carbonetto, Matthew Stephens, Eric Weine

Improved methods for empirical Bayes multivariate multiple testing and effect size estimation

arXiv (Cornell University)(2024)10.48550/arxiv.2406.08784

N/A

0DataRank · unranked

1 citations

Peter Carbonetto, David Gerard, Matthew Stephens, Yunqi Yang

Gradient-based optimization for variational empirical Bayes multiple regression

arXiv (Cornell University)(2024)10.48550/arxiv.2411.14570

N/A

0DataRank · unranked

0 citations

Peter Carbonetto, Matthew Stephens, Saikat Banerjee

Dissecting tumor transcriptional heterogeneity from single-cell RNA-seq data by generalized binary covariance decomposition

Nature Genetics(2025)10.1038/s41588-024-01997-z

N/A

0DataRank · unranked

12 citations

Peter Carbonetto, Jason Willwerscheid, Scott A. Oakes, Kay F. Macleod, Matthew Stephens +1 more

ebnm: An R Package for Solving the Empirical Bayes Normal Means Problem Using a Variety of Prior Families

Journal of Statistical Software(2025)10.18637/jss.v114.i03

N/A

0DataRank · unranked

1 citations

Peter Carbonetto, Matthew Stephens, Jason Willwerscheid

SuSiE 2.0: improved methods and implementations for genetic fine-mapping and phenotype prediction

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.11.25.690514

N/A

0DataRank · unranked

4 citations

Yanghyeon Cho, Ruixi Li, Daniel Nachun, Hao Gan, Peter Carbonetto +4 more

Disease-associated loci share properties with response eQTLs under common environmental exposures

Research Square(2025)10.21203/rs.3.rs-6561377/v1

N/A

0DataRank · unranked

1 citations

M Li, Olivia Allen, Jonathan E. Burnett, Josh Popp, Matthew Stephens +3 more

Matthew Stephens

Indexed papers

Top data-sharing exemplar

Papers