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Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 67,039 bioRxiv papers from 295,099 authors.

Author: Matthew Stephens

  • ORCiD: http://orcid.org/0000-0001-5397-9257
  • Most recently observed institution: Department of Human Genetics, University of Chicago; Department of Statistics , University of Chicago

Rankings

  • All-time downloads: 51,113 (rank: 282 out of 295,108)
  • Categories:
    • bioinformatics: 10,509 (rank: 294 out of 25,697)
    • evolutionary biology: 1,321 (rank: 2,330 (tie) out of 16,094)
    • genetics: 22,761 (rank: 206 out of 29,445)
    • genomics: 16,522 (rank: 422 out of 33,600)

Downloads per author, site-wide

Preprints

Variational Inference of Population Structure in Large SNP Datasets

genetics more details view paper
  • Downloaded 6,030 times
  • Download rankings, all-time:
    • Site-wide: 318 out of 67,042
    • In genetics: 37 out of 3,773
  • Year to date:
    • Site-wide: 7,280 out of 67,042
  • Since beginning of last month:
    • Site-wide: 6,899 out of 67,042

The GTEx Consortium atlas of genetic regulatory effects across human tissues

genetics more details view paper
  • Downloaded 3,487 times
  • Download rankings, all-time:
    • Site-wide: 882 out of 67,042
    • In genetics: 83 out of 3,773
  • Year to date:
    • Site-wide: 179 out of 67,042
  • Since beginning of last month:
    • Site-wide: 174 out of 67,042

Visualizing the Structure of RNA-seq Expression Data using Grade of Membership Models

genetics more details view paper
  • Downloaded 3,213 times
  • Download rankings, all-time:
    • Site-wide: 1,034 out of 67,042
    • In genetics: 92 out of 3,773
  • Year to date:
    • Site-wide: 24,763 out of 67,042
  • Since beginning of last month:
    • Site-wide: 33,100 out of 67,042

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

genomics more details view paper
  • Downloaded 3,078 times
  • Download rankings, all-time:
    • Site-wide: 1,123 out of 67,042
    • In genomics: 264 out of 4,558
  • Year to date:
    • Site-wide: 229 out of 67,042
  • Since beginning of last month:
    • Site-wide: 834 out of 67,042

Bayesian large-scale multiple regression with summary statistics from genome-wide association studies

genetics more details view paper
  • Downloaded 2,863 times
  • Download rankings, all-time:
    • Site-wide: 1,284 out of 67,042
    • In genetics: 119 out of 3,773
  • Year to date:
    • Site-wide: 29,349 out of 67,042
  • Since beginning of last month:
    • Site-wide: 35,983 out of 67,042

False Discovery Rates: A New Deal.

bioinformatics more details view paper
  • Downloaded 2,850 times
  • Download rankings, all-time:
    • Site-wide: 1,293 out of 67,042
    • In bioinformatics: 260 out of 6,613
  • Year to date:
    • Site-wide: 32,807 out of 67,042
  • Since beginning of last month:
    • Site-wide: 38,959 out of 67,042

A simple new approach to variable selection in regression, with application to genetic fine-mapping

bioinformatics more details view paper
  • Downloaded 2,685 times
  • Download rankings, all-time:
    • Site-wide: 1,426 out of 67,042
    • In bioinformatics: 279 out of 6,613
  • Year to date:
    • Site-wide: 413 out of 67,042
  • Since beginning of last month:
    • Site-wide: 381 out of 67,042

Visualizing spatial population structure with estimated effective migration surfaces

genetics more details view paper
  • Downloaded 2,530 times
  • Download rankings, all-time:
    • Site-wide: 1,585 out of 67,042
    • In genetics: 150 out of 3,773
  • Year to date:
    • Site-wide: 33,675 out of 67,042
  • Since beginning of last month:
    • Site-wide: 32,258 out of 67,042

Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling

genomics more details view paper
  • Downloaded 2,459 times
  • Download rankings, all-time:
    • Site-wide: 1,675 out of 67,042
    • In genomics: 374 out of 4,558
  • Year to date:
    • Site-wide: 52,639 out of 67,042
  • Since beginning of last month:
    • Site-wide: 47,980 out of 67,042

Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions

genomics more details view paper
  • Downloaded 2,336 times
  • Download rankings, all-time:
    • Site-wide: 1,853 out of 67,042
    • In genomics: 409 out of 4,558
  • Year to date:
    • Site-wide: 11,438 out of 67,042
  • Since beginning of last month:
    • Site-wide: 22,819 out of 67,042

A large-scale genome-wide enrichment analysis identifies new trait-associated genes, pathways and tissues across 31 human phenotypes

genomics more details view paper
  • Downloaded 2,195 times
  • Download rankings, all-time:
    • Site-wide: 2,063 out of 67,042
    • In genomics: 445 out of 4,558
  • Year to date:
    • Site-wide: 20,432 out of 67,042
  • Since beginning of last month:
    • Site-wide: 34,816 out of 67,042

A simple model-based approach to inferring and visualizing cancer mutation signatures

bioinformatics more details view paper
  • Downloaded 1,839 times
  • Download rankings, all-time:
    • Site-wide: 2,786 out of 67,042
    • In bioinformatics: 558 out of 6,613
  • Year to date:
    • Site-wide: 51,527 out of 67,042
  • Since beginning of last month:
    • Site-wide: 40,527 out of 67,042

Estimating time to the common ancestor for a beneficial allele

evolutionary biology more details view paper
  • Downloaded 1,321 times
  • Download rankings, all-time:
    • Site-wide: 4,866 out of 67,042
    • In evolutionary biology: 260 out of 4,461
  • Year to date:
    • Site-wide: 53,762 out of 67,042
  • Since beginning of last month:
    • Site-wide: 50,981 out of 67,042

Mendelian randomization accounting for correlated and uncorrelated pleiotropic effects using genome-wide summary statistics.

genetics more details view paper
  • Downloaded 1,219 times
  • Download rankings, all-time:
    • Site-wide: 5,553 out of 67,042
    • In genetics: 444 out of 3,773
  • Year to date:
    • Site-wide: 1,362 out of 67,042
  • Since beginning of last month:
    • Site-wide: 2,819 out of 67,042

A new sequence logo plot to highlight enrichment and depletion

genetics more details view paper
  • Downloaded 1,214 times
  • Download rankings, all-time:
    • Site-wide: 5,596 out of 67,042
    • In genetics: 449 out of 3,773
  • Year to date:
    • Site-wide: 27,092 out of 67,042
  • Since beginning of last month:
    • Site-wide: 44,438 out of 67,042

msCentipede: Modeling heterogeneity across genomic sites improves accuracy in the inference of transcription factor binding

genomics more details view paper
  • Downloaded 1,090 times
  • Download rankings, all-time:
    • Site-wide: 6,715 out of 67,042
    • In genomics: 1,099 out of 4,558
  • Year to date:
    • Site-wide: 65,161 out of 67,042
  • Since beginning of last month:
    • Site-wide: 55,592 out of 67,042

Bayesian multivariate reanalysis of large genetic studies identifies many new associations

genomics more details view paper
  • Downloaded 1,047 times
  • Download rankings, all-time:
    • Site-wide: 7,156 out of 67,042
    • In genomics: 1,156 out of 4,558
  • Year to date:
    • Site-wide: 1,760 out of 67,042
  • Since beginning of last month:
    • Site-wide: 12,718 out of 67,042

Inference and visualization of DNA damage patterns using a grade of membership model

bioinformatics more details view paper
  • Downloaded 933 times
  • Download rankings, all-time:
    • Site-wide: 8,634 out of 67,042
    • In bioinformatics: 1,509 out of 6,613
  • Year to date:
    • Site-wide: 35,948 out of 67,042
  • Since beginning of last month:
    • Site-wide: 51,733 out of 67,042

CorShrink : Empirical Bayes shrinkage estimation of correlations, with applications

genetics more details view paper
  • Downloaded 925 times
  • Download rankings, all-time:
    • Site-wide: 8,741 out of 67,042
    • In genetics: 652 out of 3,773
  • Year to date:
    • Site-wide: 11,125 out of 67,042
  • Since beginning of last month:
    • Site-wide: 20,177 out of 67,042

Widespread dose-dependent effects of RNA expression and splicing on complex diseases and traits

genetics more details view paper
  • Downloaded 858 times
  • Download rankings, all-time:
    • Site-wide: 9,818 out of 67,042
    • In genetics: 717 out of 3,773
  • Year to date:
    • Site-wide: 2,498 out of 67,042
  • Since beginning of last month:
    • Site-wide: 392 out of 67,042

Cell type specific genetic regulation of gene expression across human tissues

genomics more details view paper
  • Downloaded 857 times
  • Download rankings, all-time:
    • Site-wide: 9,837 out of 67,042
    • In genomics: 1,467 out of 4,558
  • Year to date:
    • Site-wide: 2,500 out of 67,042
  • Since beginning of last month:
    • Site-wide: 866 out of 67,042

Model-based analysis of positive selection significantly expands the list of cancer driver genes, including RNA methyltransferases

genomics more details view paper
  • Downloaded 821 times
  • Download rankings, all-time:
    • Site-wide: 10,520 out of 67,042
    • In genomics: 1,540 out of 4,558
  • Year to date:
    • Site-wide: 13,753 out of 67,042
  • Since beginning of last month:
    • Site-wide: 38,095 out of 67,042

Estimating recent migration and population size surfaces

bioinformatics more details view paper
  • Downloaded 813 times
  • Download rankings, all-time:
    • Site-wide: 10,674 out of 67,042
    • In bioinformatics: 1,815 out of 6,613
  • Year to date:
    • Site-wide: 35,781 out of 67,042
  • Since beginning of last month:
    • Site-wide: 13,747 out of 67,042

Genotyping Polyploids from Messy Sequencing Data

bioinformatics more details view paper
  • Downloaded 760 times
  • Download rankings, all-time:
    • Site-wide: 11,790 out of 67,042
    • In bioinformatics: 1,962 out of 6,613
  • Year to date:
    • Site-wide: 20,530 out of 67,042
  • Since beginning of last month:
    • Site-wide: 34,482 out of 67,042

Discovery and characterization of variance QTLs in human induced pluripotent stem cells

genomics more details view paper
  • Downloaded 750 times
  • Download rankings, all-time:
    • Site-wide: 12,041 out of 67,042
    • In genomics: 1,698 out of 4,558
  • Year to date:
    • Site-wide: 14,595 out of 67,042
  • Since beginning of last month:
    • Site-wide: 60,483 out of 67,042

Silencing Of Transposable Elements May Not Be A Major Driver Of Regulatory Evolution In Primate Induced Pluripotent Stem Cells

genomics more details view paper
  • Downloaded 673 times
  • Download rankings, all-time:
    • Site-wide: 14,052 out of 67,042
    • In genomics: 1,877 out of 4,558
  • Year to date:
    • Site-wide: 57,968 out of 67,042
  • Since beginning of last month:
    • Site-wide: 55,559 out of 67,042

Epigenetic Modifications are Associated with Inter-species Gene Expression Variation in Primates

genomics more details view paper
  • Downloaded 640 times
  • Download rankings, all-time:
    • Site-wide: 15,089 out of 67,042
    • In genomics: 1,958 out of 4,558
  • Year to date:
    • Site-wide: 61,214 out of 67,042
  • Since beginning of last month:
    • Site-wide: 56,127 out of 67,042

Variance Adaptive Shrinkage (vash): Flexible Empirical Bayes estimation of variances

bioinformatics more details view paper
  • Downloaded 629 times
  • Download rankings, all-time:
    • Site-wide: 15,463 out of 67,042
    • In bioinformatics: 2,416 out of 6,613
  • Year to date:
    • Site-wide: 61,812 out of 67,042
  • Since beginning of last month:
    • Site-wide: 65,094 out of 67,042

The Genetic Architecture of Gene Expression Levels in Wild Baboons

genomics more details view paper
  • Downloaded 576 times
  • Download rankings, all-time:
    • Site-wide: 17,452 out of 67,042
    • In genomics: 2,142 out of 4,558
  • Year to date:
    • Site-wide: 63,833 out of 67,042
  • Since beginning of last month:
    • Site-wide: 64,122 out of 67,042

A multivariate genome-wide association analysis of 10 LDL subfractions, and their response to statin treatment, in 1868 Caucasians

genetics more details view paper
  • Downloaded 422 times
  • Download rankings, all-time:
    • Site-wide: 25,591 out of 67,042
    • In genetics: 1,672 out of 3,773
  • Year to date:
    • Site-wide: 65,401 out of 67,042
  • Since beginning of last month:
    • Site-wide: 60,835 out of 67,042

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