The work on open chromatin estimation and transcription factor activity in single cell ATAC-seq has been selected for a short talk at the keystone meeting: Single Cell Biology: Pushing New Frontiers in the Life Sciences https://www.keystonesymposia.org/ks/Online/Events/2020F1/Details.aspx?EventKey=2020F We are looking forward…
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Postdoc on Medical Single Cell Bioinformatics
We are looking for an experienced bioinformatician for helping the creation a spatial map of fibrosis. The candidate will develop bioinformatic methods for tracking temporal changes of single cells and integrative analysis of scRNA-seq, scATAC-seq and spatial information. This position…
Funding of the BMBF Consortia / Spatial Map of Fibrosis
The Federal Ministry of Education and Research (BMBF) is funding the research project „Spatial Mapping of Single Cells in Fibrotic Disease“, FibroMap for short, of the Uniklinik RWTH Aachen with 3.3 million euros. The Aachen scientists Prof. Dr. med. Dr.…
Imputation and footprinting for single cell ATAC-seq. New manuscript & software release!
Imputation and footprinting for single cell ATAC-seq. New manuscript & software release! scOpen deals with massive sparsity and dropout events of single cell ATAC-seq. Use of scOpen improves clustering, inference of regulators and chromatin conformation. scHINT dissect regulatory & temporal…
Congrats to Joseph Kuo for his successful Ph.D. defense!
Joseph having a hard time in keeping his new hat in the head!
Influence of western diet in immune cells with single cell sequencing
Collaborative work with Krenkel and Tacke dissect changes in immune cells of mice subjected to high fat / high sugar diets.
Footprinting in ATAC-seq published in Genome Biology
Our paper on HINT-ATAC is finally out in Genome Biology!
Decoding the function of lncRNAs – New computational metohd & sequencing protocols for detection of RNA-DNA Triple Helices
A paper describing TDF- a framework for detection of triple helix forming RNAs – is finally out in NAR! Moreover with Grummt Lab, we have performed computational analysis of TripleRNA-seq and TriplexDNA-seq; two novel protocols for returning DNA/RNA molecules forming…
Open positions
We perform research on computational methods for analysis of epigenomics and transcriptomics data. Over the past years, we have developed methods for prediction of cell specific binding sites from open chromatin data (Gusmao et al., Bioinformatics, 2015; Nature Methods, 2016),…
Decoding the function of lncRNAs – Paper in Cell Stem Cell
Together with Kurian lab, we have delineated bionformatics framework to uncover novel antisense lncRNAs during cardiomyocite differentiation. These were particularly positioned up-stream of transcription factors, and showed a high positive correlation with these anti-sense partners.In this paper, Frank and colleagues…
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