news

Interview in KontakTUM

KontakTUM Interview - five impressive alumni share in an interview how their time at TUM has shaped them and what made them grow

New publication by Yana Bromberg

A paper came out in Human mutation, variation, informatics and desease, with collaborators Marco Carraro, Giovanni Minervini, Manuel Giollo, Emidio Capriotti, Rita Casadio, Roland Dunbrack, Lisa Elefanti, Pietro Fariselli, Carlo Ferrari, Julian Gough, Panagiotis Katsonis, Emanuela Leonardi, Olivier Lichtarge, Chiara Menin, Pier Luigi Martelli, Abhishek Niroula, Lipika R. Pal, Susanna Repo, Maria Chiara Scaini, Mauno Vihinen, Qiong Wei, Qifang Xu, Yuedong Yang, Yizhou Yin, Jan Zaucha, Huiying Zhao, Yaoqi Zhou, Steven E.

Dr. Yana Bromberg receives a Research Award

Welcome to the new BrombergLab website

TEDx Rutgers

Yana talked about the *The Big You* at the TEDx Rutgers Annual Conference

ISMB 2018 Chicago

We attended the ISMB 2018 conference of the ISCB (International Society of Computational Biology) from July 6 to July 10 at Chicago. Yannick gave a talk titled HFSP: High speed homology-driven function annotation of proteins. Chengsheng gave a talk titled mi-faser deciphers city subway microbiome functional fingerprints. Max gave a talk titled Identifying protein positions for variation driven functional tuning. Yanran gave a talk titled Identifying Crohn’s disease signal from variome analysis.

New publication by Yannick Mahlich and others

HFSP: high speed homology-driven function annotation of proteins Yannick Mahlich, Martin Steinegger, Burkhard Rost, Yana Bromberg Bioinformatics, Volume 34, Issue 13, 1 July 2018, Pages i304–i312 https://doi.org/10.1093/bioinformatics/bty262 The rapid drop in sequencing costs has produced many more (predicted) protein sequences than can feasibly be functionally annotated with wet-lab experiments. Thus, many computational methods have been developed for this purpose. Most of these methods employ homology-based inference, approximated via sequence alignments, to transfer functional annotations between proteins.

Congratulations to Max's graduation

Max has recently received his doctorate degree from Technical University of Munich! Congratulations!

Services updated

mi-faser: major update of web-service and standalone-version New in the public web-service: NMDS analysis between submitted samples Register user account for faster access to submissions / analyses faster submission processing (less then ~15min per 20GB reads) Batch submissions (up to 100 input files) Paired-end input processing Quality-Control pipeline for fastq input user-interface updates visit https://bromberglab.org/services/mifaser New in the standalone-version: threaded processing (split input files and process in parallel) built-in up/downgrade to diamond version of choice

New publication by Chengsheng Zhu and others

Functional sequencing read annotation for high precision microbiome analysis Chengsheng Zhu, Maximilian Miller, Srinayani Marpaka, Pavel Vaysberg, Malte C. Rühlemann, Guojun Wu Femke-Anouska Heinsen, Marie Tempel, Liping Zhao, Wolfgang Lieb Andre Franke, Yana Bromberg. Nucleic Acids Research, https://doi.org/10.1093/nar/gkx1209 The mi-faser microbiome analysis pipeline, combining faser with our manually curated reference database of protein functions, accurately annotates microbiome molecular functionality. mi-faser’s minutes-per-microbiome processing speed is significantly faster than that of other methods, allowing for large scale comparisons.

Fourth International Society for Computational Biology Latin America Bioinformatics Conference, Buenos Aires, Argentina

Dr. Yana Bromberg is chairing the Proteins session of the fourth International Society for Computational Biology Latin America Bioinformatics Conference (ISCB-LA) together with Dr. Diego U. Ferreiro (Laboratorio de Fisiología de Proteins, Dpto Química Biológica / IQUIBICEN-CONICET, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires). https://www.iscb.org/iscb-latinamerica2016