Research Explorer

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Project

Statistical inference for differential analysis in single cell transcriptomics

Outputs and Outcomes

Publications

Trajectory inference across multiple conditions with condiments

Hector Roux de BézieuxKoen Van den BergeKelly StreetSandrine Dudoit

A1 Journal Article in NATURE COMMUNICATIONS

msqrob2PTM : differential abundance and differential usage analysis of MS-based proteomics data at the post-translational modification and peptidoform level

Nina DemeulemeesterMarie GébelinLucas Caldi GomesPaul LingorChristine CarapitoLennart MartensLieven Clement

A1 Journal Article in MOLECULAR & CELLULAR PROTEOMICS

Quality control for the target decoy approach for peptide identification

Elke DebrieMilan MalfaitRalf GabrielsArthur DeclercqAdriaan StickerLennart MartensLieven Clement

A1 Journal Article in JOURNAL OF PROTEOME RESEARCH

A guide to trajectory inference and RNA velocity

Philipp WeilerKoen Van den BergeKelly StreetSimone Tiberi

Bookchapter in Single cell transcriptomics : methods and protocols

Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects

Koen Van den BergeHsin-Jung ChouHector Roux de BézieuxKelly StreetDavide RissoJohn NgaiSandrine Dudoit

A2 Journal Article in CELL REPORTS METHODS

satuRn: Scalable analysis of differential transcript usage for bulk and single-cell RNA-sequencing applications

Jeroen GilisKristoffer Vitting-SeerupKoen Van den BergeLieven Clement

A2 Journal Article in F1000RESEARCH

Trajectory-based differential expression analysis for single-cell sequencing data

Koen Van den BergeHector Roux de BézieuxKelly StreetWouter SaelensRobrecht CannoodtYvan SaeysSandrine DudoitLieven Clement

A1 Journal Article in NATURE COMMUNICATIONS