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Gregor Rot

Zürich
As seen in: Nature, MDPI, BioRxiv, Cell Press
Bioinformatics + Software Engineering + Full Stack WebDev 🏡 grexor.github.io 📚 pubscan.org/0009-0001-7888-6687 ▶️ youtube.com/@grexorai
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Articles by Gregor Rot

The MicrobeAtlas database: Global trends and insights into Earth’s microbial ecosystems

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By Janko Tackmann, Lukas Malfertheiner, David Pätsch, Eugenio Perez-Molphe-Montoya, Nicolas Näpflin, Daniela Gaio, Gregor Rot, Mihai Danaila, Matteo Eustachio Peluso, Marija Dmitrijeva, Christian von Mering
| Cell Press Verified
Results We comprehensively screened the NCBI SRA database for microbial community sequencing samples and downloaded raw reads and metadata for 2,390,937 samples (52,950 studies). This screen was purposefully inclusive, selecting any sequencing projects with metadata keywords matching “metagen∗,” “microbi∗,” “bacteria,” or “archaea,” and thus covering microbial data from 16S, 18S, and metagenomic experiments across diverse technologies (e.g., amplicon and whole-genome shotgun [WGS]).
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The Arabidopsis U1 snRNP regulates mRNA 3′-end processing - Nature Plants

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By Anchilie F. Mangilet, Joachim E Weber, Sandra Schuler, Angie Herold, Monique Renneberg, Irina Droste-Borel, Thomas Schmutzer, Gregor Rot, Boris Macek
| Nature Verified
Abstract The removal of introns by the spliceosome is a key gene regulatory mechanism in eukaryotes, with the U1 snRNP subunit playing a crucial role in the early stages of splicing. Studies in metazoans show that the U1 snRNP also conducts splicing-independent functions, but the lack of genetic tools and knowledge about U1 snRNP-associated proteins have limited the study of such splicing-independent functions in plants.
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splicekit: a comprehensive toolkit for splicing analysis from short-read RNA-seq

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By Gregor Rot, Arne Wehling, Roland Schmucki, Nikolaos Berntenis
| BioRxiv
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Analysis of RNA Polyadenylation in Healthy and Osteoarthritic Human Articular Cartilage

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By Gregor Rot, Phaedra Winstanley-Zarach, Shweta Kuba, Aibek Smagul
| MDPI
This is an early access version, the complete PDF, HTML, and XML versions will be available soon. Open AccessArticle by Phaedra Winstanley-Zarach 1, Gregor Rot 2, Shweta Kuba 1,3, Aibek Smagul 1, Mandy J. Peffers 1 and Simon R.
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High-Resolution RNA Maps Suggest Common Principles of Splicing and Polyadenylation Regulation by TDP-43

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By Zhen J Wang, Ina Huppertz, Gregor Rot
| Cell Press Verified
Identification and Validation of Poly(A) Sites with expressRNA Classification and Identification of the Regulated Poly(A) Sites iCLIP and Motif Analysis Demonstrate a Direct Role of TDP-43 in APA Regulation RNAmotifs2 Allows Unbiased Discovery of the Regulatory RNA Maps Binding Site Swap Validates the Direct APA Regulation by TDP-43 or TIA1/L1 Motifs Known to Regulate Brain-Specific Processing Cluster next to UG-Rich Sequences To study how TDP-43 regulates APA, RNA was isolated from six...
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