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Phd Candidate/Postdoctoral position in computational detection of RNA-DNA triple helices

The Bioinformatics Group RWTH Aachen University (www.costalab.org) performs research on computational methods for analysis of 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,

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Phd Candidate/Postdoctoral position in Single Cell Computational Epigenomics

Phd Candidate/Postdoctoral position in Single Cell Computational Epigenomics The Bioinformatics Group RWTH Aachen University (www.costalab.org) performs research on computational methods for analysis of epigenomics and transcriptomics data. Over the past years, we have developed methods for prediction of cell specific

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Project funded by DFG – Bioinformatics of Open Chromatin

The DFG has approved a “sachbeihilfe” project for the research on computational methods for analysis of open chromatin from single cell sequencing.

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Collaborative work published in Nature Communications, Genome Research and Gut

The Costa lab has participated in several collaborative works, which has been published in important journals in  the recent months. In Axelsson et al., Nature Communications, we have contributed on inference of gene expression based networks from type 2 diabetes patients. This

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Third Place at the ENCODE DREAM Challenge – Conference Round

The HINT team, which was formed by Eduardo Gusmao, Li Zhijian and Ivan G. Costa, obtained the third place in the conference round of the ENCODE DREAM Challengee . The challenge task was the prediction of transcription factor ChIP-Seq peaks. Our approach,

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Eduardo Gusmao has successfully defended his Ph.D. !

Congrats to Eduardo on his conclusion to his Ph.D. in Computer Science! Eduardo has started his Posdoc in Shirley Liu’s Lab at Dana Farber Institute / Harvard School of Public Health.

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Top Reading Papers 2016 at Recomb-RG

Our paper on computational detection of footprints from open chromatin data has been selected as one of the top 10 reading papers by the community of Recomb Regulatory Genomics. Check here the selection of papers.

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Computational prediction of HOTAIR binding to DNA

In Kalwa et al, 2016, we have applied for the first time the “Triplex Domain Finder” (TDF) to analyse DNA regions potentially regulated by HOTAIR, i.e. peaks of ChIRP-Seq experiments or regions with DNA methylation changes after siHOTAIR. TDF not

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Publication on differential peak caller THOR in NAR

The paper describing our differential peak caller supporting replicates have been published in Nucleic Acids Research. Allhoff, M., Sere K., Freitas, J., Zenke, M.,  Costa, I.G. (2016), Differential Peak Calling of ChIP-seq Signals with Replicates with THOR, Nucleic Acids Research,

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Congratulations to Manuel Allhoff for his Ph.D. defense!

Manuel Allhoff has successfully defended his Informatics Ph.D. Congrats Batmanu!          

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