Our new article has been accepted in BMC Bioinformatics: Welzel M, Lange A, Heider D, Schwarz M, Freisleben B, Jensen M, Boenigk J, Beisser D: Natrix: a Snakemake-based workflow for processing, clustering, and taxonomically assigning amplicon sequencing reads. BMC Bioinformatics 2020, 21:526. (Link) Abstract Background Sequencing of marker genes amplified from environmental samples, known as…
Our project Impact of diffusible signals at human cell-microbe interfaces has just been granted by the Hessian Ministry of Science and the Arts (HMWK) as a new LOEWE research cluster. As the Hessian Ministry of Science and the Arts (HMWK) announced today, a total of about 4.8 million euros will be granted for the new…
Anne-Christin gave a talk on „Federated random forest for privacy-preserving machine learning in medicine“ at the 2nd Bioinformatics Workshop, EG-CompBio Empowering, Egypt EG-CompBio is a project for empowering computational biology research in Egypt and for communicating scientific advances. In cooperation with the BES team at MUST University, The executive team of the EG-CompBio project “Empowering…
Our new article has been accepted in PLoS Computational Biology: Hattab G, Rhyne TM, Heider D: Ten simple rules to colorize biological data visualization. PLoS Comput Biol. 2020, 16(10):e1008259. (Link) Methods for visualization of biological data continue to improve, but there is still a fundamental challenge in colorization of these visualizations (vis). Visual representation of…
Dominik gave a talk on „Machine Learning and Clinical Diagnosis“ at the Global Pregnancy CoLab Virtual Conference 2020 Using Artificial Intelligence (AI) and Innovative Strategies to Study Adverse Pregnancy Outcomes September 9 & 10, 2020
Our new article has been accepted in Cell iScience: Martin R, Löchel HF, Welzel M, Hattab G, Hauschild AC, Heider D: CORDITE: the curated CORona Drug InTERactions database for SARS-CoV-2. Cell iScience 2020 (Link) Abstract Since the outbreak in 2019, researchers are trying to find effective drugs against the SARS-CoV-2 virus based on de novo…
Our new article has been accepted in Scientific Reports: Sperlea T, Muth L, Martin R, Weigel C, Waldminghaus T, Heider D: gammaBOriS: Identification and Taxonomic Classification of Origins of Replication in Gammaproteobacteria using Motif- based Machine Learning. Scientific Reports 2020, 10:6727. (Link) Abstract The biology of bacterial cells is, in general, based on information encoded…
We created CORDITE (CORona Drug InTEractions database) an open database that collects and aggregates all available data from publications and preprints for SARS-CoV-2. Its focus is set on drug interactions. corona.mathematik.uni-marburg.decordite.mathematik.uni-marburg.de Please contribute to the open, curated database! UPDATES April 24, 2020CORDITE in numbers: 547 interactions (+17%), 423 drugs (+19%), 226 papers (+12%). NEW: GUI…
Our new article has been accepted in Scientific Reports: Löchel HF, Heider D: Comparative analyses of error handling strategies for next-generation sequencing in precision medicine. Scientific Reports 2020, 10:5750. (Link) Abstract Next-generation sequencing (NGS) offers the opportunity to sequence millions and billions of DNA sequences in a short period, leading to novel applications in personalized…
Our new article has been accepted in Bioinformatics: Schwarz M, Welzel M, Kabdullayeva T, Becker A, Freisleben B, Heider D: MESA: automated assessment of synthetic DNA fragments and simulation of DNA synthesis, storage, sequencing, and PCR errors. Bioinformatics 2020, in press. (Link) Abstract Summary The development of de novo DNA synthesis, PCR, DNA sequencing, and…
