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Author: Julien Gagneur

Rankings

  • All-time downloads: 30,908 (rank: 1,538 (tie) out of 404,161)
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    • bioinformatics: 8,905 (rank: 683 out of 34,272)
    • genetics: 2,931 (rank: 5,543 out of 36,792)
    • genomics: 13,614 (rank: 933 out of 42,763)
    • molecular biology: 714 (rank: 5,891 (tie) out of 21,566)
    • systems biology: 4,744 (rank: 556 (tie) out of 11,761)

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Preprints

Base-resolution models of transcription factor binding reveal soft motif syntax

genomics more details view paper
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A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

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Kipoi: accelerating the community exchange and reuse of predictive models for genomics

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Accurate promoter and enhancer identification in 127 ENCODE and Roadmap Epigenomics cell types and tissues by GenoSTAN

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Genetic diagnosis of Mendelian disorders via RNA sequencing

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Cis-regulatory elements explain most of the mRNA stability variation across genes in yeast

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GenoGAM: Genome-wide generalized additive models for ChIP-seq analysis

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OUTRIDER: A statistical method for detecting aberrantly expressed genes in RNA sequencing data

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Modular modeling improves the predictions of genetic variant effects on splicing

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Detection of aberrant splicing events in RNA-seq data with FRASER

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OCR-Stats: Robust estimation and statistical testing of mitochondrial respiration activities using Seahorse XF Analyzer

bioinformatics more details view paper
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Quantification and discovery of sequence determinants of protein per mRNA amount in 29 human tissues

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Transient transcriptome sequencing: computational pipeline to quantify genome-wide RNA kinetic parameters and transcriptional enhancer activity

molecular biology more details view paper
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Determinants of RNA metabolism in the Schizosaccharomyces pombe genome

genomics more details view paper
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Meiotic interactors of a mitotic gene TAO3 revealed by functional analysis of its rare variant

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Modeling positional effects of regulatory sequences with spline transformations increases prediction accuracy of deep neural networks

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MTSplice predicts effects of genetic variants on tissue-specific splicing

genomics more details view paper
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GenoGAM 2.0: Scalable and efficient implementation of genome-wide generalized additive models for gigabase-scale genomes

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Predicting Mean Ribosome Load for 5'UTR of any length using Deep Learning

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