Timo Sachsenberg
University of Tübingen
59 Papers
217 Citations
Timo Sachsenberg is an academic researcher from University of Tübingen. The author has contributed to research in topics: Computer science & RNA. The author has an hindex of 20, co-authored 47 publications. Previous affiliations of Timo Sachsenberg include Northeastern University & Max Planck Society.
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Papers
The PRIDE database and related tools and resources in 2019: improving support for quantification data.
Yasset Perez-Riverol,Attila Csordas,Jingwen Bai,Manuel Bernal-Llinares,Suresh Hewapathirana,Deepti J. Kundu,Avinash Inuganti,Johannes Griss,Johannes Griss,Gerhard Mayer,Martin Eisenacher,Enrique Perez,Julian Uszkoreit,Julianus Pfeuffer,Timo Sachsenberg,Şule Yılmaz,Shivani Tiwary,Juergen Cox,Enrique Audain,Mathias Walzer,Andrew F. Jarnuczak,Tobias Ternent,Alvis Brazma,Juan Antonio Vizcaíno +23 more
TL;DR: Key statistics on the current data contents and volume of downloads are outlined, and how PRIDE data are starting to be disseminated to added-value resources including Ensembl, UniProt and Expression Atlas are outlined.
Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients.
André Kahles,Kjong-Van Lehmann,Nora C. Toussaint,Matthias Hüser,Stefan G. Stark,Timo Sachsenberg,Oliver Stegle,Oliver Kohlbacher,Chris Sander,Gunnar Rätsch +9 more
TL;DR: The authors' comprehensive analysis of alternative splicing across 32 The Cancer Genome Atlas cancer types from 8,705 patients detectsAlternative splicing events and tumor variants by reanalyzing RNA and whole-exome sequencing data.
817
OpenMS: a flexible open-source software platform for mass spectrometry data analysis
Hannes L. Röst,Hannes L. Röst,Timo Sachsenberg,Stephan Aiche,Chris Bielow,Hendrik Weisser,Fabian Aicheler,Sandro Andreotti,Hans-Christian Ehrlich,Petra Gutenbrunner,Erhan Kenar,Xiao Liang,Sven Nahnsen,Lars Nilse,Julianus Pfeuffer,George Rosenberger,Marc Rurik,Uwe Schmitt,Johannes Veit,Mathias Walzer,David Wojnar,Witold Wolski,Oliver Schilling,Jyoti S. Choudhary,Lars Malmström,Lars Malmström,Ruedi Aebersold,Ruedi Aebersold,Knut Reinert,Knut Reinert,Oliver Kohlbacher +30 more
TL;DR: OpenMS 2.0 is presented, a robust, open-source, cross-platform software specifically designed for the flexible and reproducible analysis of high-throughput MS data.
BioContainers: an open-source and community-driven framework for software standardization.
Felipe da Veiga Leprevost,Björn Grüning,Saulo Alves Aflitos,Hannes L. Röst,Julian Uszkoreit,Harald Barsnes,Marc Vaudel,Marc Vaudel,Pablo Moreno,Laurent Gatto,Jonas Weber,Mingze Bai,Rafael C. Jimenez,Timo Sachsenberg,Julianus Pfeuffer,Roberto Vera Alvarez,Johannes Griss,Johannes Griss,Alexey I. Nesvizhskii,Yasset Perez-Riverol +19 more
TL;DR: This paper presents BioContainers, an open-source and community-driven framework which provides platform independent executable environments for bioinformatics software, and provides infrastructure and basic guidelines to create, manage and distribute bioInformatics containers with a special focus on omics technologies.
Dual roles of the nuclear cap-binding complex and SERRATE in pre-mRNA splicing and microRNA processing in Arabidopsis thaliana
Sascha Laubinger,Timo Sachsenberg,Georg Zeller,Wolfgang Busch,Jan U. Lohmann,Gunnar Rätsch,Detlef Weigel +6 more
TL;DR: The results uncover dual roles in splicing and miRNA processing that distinguish SE and the cap-binding complex from specialized mi RNA processing factors such as DCL1 and HYL1.
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