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Author: Oliver Stegle

Rankings

  • All-time downloads: 116,737 (rank: 242 out of 393,183)
  • Categories:
    • biochemistry: 329 (rank: 10,382 (tie) out of 18,360)
    • bioinformatics: 26,761 (rank: 86 out of 33,444)
    • cancer biology: 1,996 (rank: 1,717 (tie) out of 27,295)
    • cell biology: 999 (rank: 5,306 (tie) out of 29,452)
    • developmental biology: 8,371 (rank: 49 out of 15,300)
    • genetics: 14,444 (rank: 788 out of 36,123)
    • genomics: 59,804 (rank: 110 out of 41,862)
    • neuroscience: 290 (rank: 46,196 (tie) out of 65,758)
    • systems biology: 3,743 (rank: 693 out of 11,532)

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Preprints

Benchmarking Single-Cell RNA Sequencing Protocols for Cell Atlas Projects

genomics more details view paper
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Unraveling the polygenic architecture of complex traits using blood eQTL meta-analysis

genomics more details view paper
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Accurate prediction of single-cell DNA methylation states using deep learning

bioinformatics more details view paper
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LIMIX: genetic analysis of multiple traits

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Single cell multi-omics profiling reveals a hierarchical epigenetic landscape during mammalian germ layer specification

developmental biology more details view paper
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Germline determinants of the somatic mutation landscape in 2,642 cancer genomes

genomics more details view paper
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Multi-Omics factor analysis - a framework for unsupervised integration of multi-omic data sets

bioinformatics more details view paper
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scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells

genomics more details view paper
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Cardelino: Integrating whole exomes and single-cell transcriptomes to reveal phenotypic impact of somatic variants

genomics more details view paper
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Genomic basis for RNA alterations revealed by whole-genome analyses of 27 cancer types

genomics more details view paper
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    • In genomics: 243 out of 5,809
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Kipoi: accelerating the community exchange and reuse of predictive models for genomics

bioinformatics more details view paper
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    • In bioinformatics: 251 out of 8,633
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Modelling cell-cell interactions from spatial molecular data with spatial variance component analysis

bioinformatics more details view paper
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    • In bioinformatics: 258 out of 8,633
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SpatialDE - Identification of spatially variable genes

genomics more details view paper
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    • In genomics: 395 out of 5,809
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Scalable latent-factor models applied to single-cell RNA-seq data separate biological drivers from confounding effects

bioinformatics more details view paper
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    • In bioinformatics: 364 out of 8,633
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Temporal mixture modelling of single-cell RNA-seq data resolves a CD4+ T cell fate bifurcation

systems biology more details view paper
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    • In systems biology: 52 out of 2,358
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Common genetic variation drives molecular heterogeneity in human iPSCs

genomics more details view paper
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A single-cell transcriptomics CRISPR-activation screen identifies new epigenetic regulators of zygotic genome activation

developmental biology more details view paper
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Single-cell RNA-seq of differentiating iPS cells reveals dynamic genetic effects on gene expression

genomics more details view paper
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    • In genomics: 524 out of 5,809
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A Pan-Cancer Transcriptome Analysis Reveals Pervasive Regulation through Tumor-Associated Alternative Promoters

genomics more details view paper
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A linear mixed model approach to study multivariate gene-environment interactions

genetics more details view paper
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    • In genetics: 234 out of 4,729
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    • Site-wide: 26,780 out of 92,020

MOFA+: a probabilistic framework for comprehensive integration of structured single-cell data

bioinformatics more details view paper
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    • In bioinformatics: 564 out of 8,633
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Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation

genetics more details view paper
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    • In genetics: 301 out of 4,729
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Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference

bioinformatics more details view paper
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Assessing the Gene Regulatory Landscape in 1,188 Human Tumors

cancer biology more details view paper
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    • In cancer biology: 193 out of 3,257
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Screening for genes that accelerate the epigenetic ageing clock in humans reveals a role for the H3K36 methyltransferase NSD1

genomics more details view paper
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Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

bioinformatics more details view paper
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    • In bioinformatics: 1,344 out of 8,633
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Dissecting the mechanisms underlying indirect genetic effects on biomedical phenotypes: a study of 170 behavioural, physiological and morphological phenotypes measured in adult laboratory mice

genetics more details view paper
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LiMMBo: a simple, scalable approach for linear mixed models in high-dimensional genetic association studies

genomics more details view paper
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    • In genomics: 1,328 out of 5,809
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Population-scale proteome variation in human induced pluripotent stem cells

genomics more details view paper
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    • In genomics: 1,367 out of 5,809
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Systematic assessment of regulatory effects of human disease variants in pluripotent cells

genomics more details view paper
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    • Site-wide: 7,201 out of 92,020

Robustness and applicability of functional genomics tools on scRNA-seq data

bioinformatics more details view paper
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    • In bioinformatics: 1,761 out of 8,633
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    • Site-wide: 55,710 out of 92,020

Genome-wide Analysis of Differential Transcriptional and Epigenetic Variability Across Human Immune Cell Types

genomics more details view paper
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Genome-scale oscillations in DNA methylation during exit from pluripotency

genomics more details view paper
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Identifying extrinsic versus intrinsic drivers of variation in cell behaviour in human iPS cell lines from healthy donors

cell biology more details view paper
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Genetic associations at regulatory phenotypes improve fine-mapping of causal variants for twelve immune-mediated diseases

genomics more details view paper
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Joint genetic analysis using variant sets reveals polygenic gene-context interactions

genetics more details view paper
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Genomic determinants of protein abundance variation in colorectal cancer cells

systems biology more details view paper
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Genomic Rearrangements Considered as Quantitative Traits

genetics more details view paper
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Century-scale methylome stability in a recently diverged Arabidopsis thaliana lineage

genomics more details view paper
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Tandem duplications lead to loss of fitness effects in CRISPR-Cas9 data

genomics more details view paper
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Integrative Genome-wide Analysis of the Determinants of RNA Splicing in Kidney Renal Clear Cell Carcinoma

cancer biology more details view paper
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Genomic properties of structural variants and short tandem repeats that impact gene expression and complex traits in humans

genomics more details view paper
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    • Site-wide: 46,531 out of 92,020

Multi-Tissue DNA Methylation Age Predictor In Mouse

genomics more details view paper
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Discovery and Quality Analysis of a Comprehensive Set of Structural Variants and Short Tandem Repeats

genomics more details view paper
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    • Site-wide: 80,775 out of 92,020

Interactions between genetic variation and cellular environment in skeletal muscle gene expression

genetics more details view paper
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Genetic Analyses of Blood Cell Structure for Biological and Pharmacological Inference

genetics more details view paper
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Multi-omics characterization of interaction-mediated control of human protein abundance levels

genomics more details view paper
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Systematic genetic analysis of the MHC region reveals mechanistic underpinnings of HLA type associations with disease

genomics more details view paper
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Erosion of human X chromosome inactivation causes major remodelling of the iPSC proteome

biochemistry more details view paper
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Genome-wide scale analyses identify novel BMI genotype-environment interactions using a conditional false discovery rate

genetics more details view paper
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Using the past to estimate sensory uncertainty

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