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Centre for Integrative Biological Signalling Studies – CIBSS Projekt D1 Determination of transcriptional and post-transcriptiponal regulatory modules from sets of single-cell RNA-seq data

Projektbeschreibung:
Single-Cell RNA-seq (scRNA-seq) investigates the transcriptional profile of several hundreds to a few thousand of cells and is capable of providing a genome-wide transcriptome of each single cell. scRNA-seq allows to identify cell identities, where state-of-the-art approaches for cell type classification use clustering to identify subpopulations of cells that share similar transcriptional profiles. Another task is to determine differentiation pathways and associated regulatory network. We have recently introduced GraphDPP an informed, force-based layout approach that uses a given clustering as prior information to determine differentiation pathways, thus solving both problems in parallel. Associated gene regulatory networks can be found by determining coexpression modules, however, this requires the combination of several scRNA-seq data sets. Combination can be done by aligning cells ordered by pseudotime, which, however, ignores cell type information determined from the clustering

Ansprechpartner: Prof. Dr.Rolf Backofen
Tel: +49 (0)761 203 7461
Email: backofen@informatik.uni-freiburg.de
Projektlaufzeit:
Projektbeginn: 01.01.2019
Projektende: 30.06.2022
Projektleitung:
Prof.Dr. Rolf Backofen

Albert-Ludwigs-Universität Freiburg
Bioinformatik
Prof. Dr. Rolf Backofen
Georges-Köhler-Allee 106
79110 Freiburg

Telefon: +49 (0) 761-203-7461
Fax: +49 (0) 761-203-7462
Email: backofen@informatik.uni-freiburg.de
http://www.bioinf.uni-freiburg.de
Finanzierung:

  • CIBSS - EXC 2189, DFG

Schlagworte:

    CIBSS

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