Burkhard Rost

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Burkhard Rost
ISMBECCB13-139 (9416047455).jpg
Burkhard Rost speaking at the Intelligent Systems for Molecular Biology (ISMB / ECCB) conference in Berlin
Born (1961-07-11) July 11, 1961 (age 53)
Germany
Fields Machine learning
Evolution
Protein prediction
Protein sequence analysis
Bioinformatics[1][2][3][4]
Institutions TUM - Technische Universität München
Columbia University
University of Heidelberg
European Molecular Biology Laboratory
Alma mater University of Heidelberg
Thesis Neuronale Netzwerke und evolutionäre Information : verbesserte Vorhersage der Sekundärstruktur von Proteinen (1994)
Doctoral advisor Chris Sander
Doctoral students Yana Bromberg
Jinfeng Liu
Yana Ofran
Avner Schlessinger[citation needed]
Known for International Society for Computational Biology President
CASP organiser
Predictprotein[4]
Notable awards Alexander von Humboldt Professor
Spouse Karima Djabali[citation needed]
Website
www.rostlab.org

Burkhard Rost is a scientist currently heading the Unit for Computational Biology & Bioinformatics at the Department of Informatics of the Technical University of Munich (TUM).[5] Rost chairs the Study Section Bioinformatics Munich involving the TUM and the Ludwig Maximilian University of Munich (LMU) in Munich. Since 2007 Rost has been the President of the International Society for Computational Biology (ISCB).[6][1][7][8][9][10]

Career[edit]

Rost originally started his scientific career as theoretical physicist. After studying physics at the University of Giessen and physics, history, philosophy, and psychology at the University of Heidelberg, Rost received his doctorate at the University Heidelberg for his work at the European Molecular Biology Laboratory (EMBL) in 1994. Following research internships at EMBL and the European Bioinformatics Institute in Cambridge (UK), in 1998, he became assistant a professor at the Department of Biochemistry and Molecular Biophysics in the College of Surgeons and Physicians of the CU Medical Center of Columbia University in the City of New York. In 2000, he became associate professor at Columbia University and in 2009 he accepted an appointment to the Chair of Bioinformatics at the Technical University of Munich. He is a member of the New York Academy of Sciences and has been President of ISCB, the International Society for Computational Biology from 2007-2014. He has authored over 200 scientific publications with an ISI Hirsch index of 52 (2011).

Contributions to computational biology[edit]

Rost research has focused on combining Machine Learning and evolutionary information to predict aspects of critical importance to advance our understanding of evolution, protein structure and protein function. Examples of research carried out in his lab includes the prediction of enzymatic activity (ECGO), interaction partners (ISIS, DISIS, PiNAT), subcellular localization (LOCtree, LOCnet, PredictNLS), functional effects of point mutations/SNPs (SNAP), disordered regions (MD, NORSnet, Ucon), membrane spanning segments (PROF/PHDhtm), secondary structure (PROF/PHD, RePROF, DSSPcont),[11] solvent accessibility (PROF/PHD, RePROF), internal residue-residue contacts (PROFcon) and the clustering of proteins into families (CHOP).

The his current focus is on predicting the effects of individual mutations mostly on the level of non-synonymous changes in coding regions, i.e. single nucleotide changes (or Single Nucleotide Polymorphisms that alter the amino acid sequence.

His group has been dedicated to making their tools available online as demonstrated through the first internet server for protein structure prediction and sequence analysis,[12] Predictprotein,[4] that was launched in 1992, and has been continuously in service ever since.

Organizational work[edit]

ISCB[edit]

Rost has been President of the professional international organization in computational biology and bioinformatics , the International Society for Computational Biology (ISCB) since 2007. He will continue to serve until 2014.

Conferences[edit]

Rost has co-chaired the largest annual meeting in computational biology ISMB, Intelligent Systems for Molecular Biology, in 2007 (Vienna), 2008 (Toronto), 2011 (Vienna), 2012 (Long Beach).[13] He has initiated and been involved in the organization of several series of international conferences outside the usual northern hemisphere, namely the ISCB Africa (2010: Bamako, Mali; 2011: Cape Town, South Africa; 2013: Tunis, Tunisia) in cooperation with the [www.asbcb.org African Society for Computational Biology and Bioinformatics ASBCB], the ISCB Latin America (2010: Montevideo, Uruguay; 2012: Santiago de Chile, Chile; 2014: Rio de Janeiro, Brazil), and most recently the ISCB Asia (2011: Kuala Lumpur, Malaysia; 2012: Shen Zhen, China).[citation needed]

Rost has also been a co-organizer of the Critical Assessment of protein Structure Prediction (CASP) meetings from 2002-2008 (CASP4-CASP8).

Awards and honors[edit]

Rost was awarded the Professorship of the Alexander von Humboldt Foundation in 2009.

References[edit]

  1. ^ a b List of publications from Google Scholar
  2. ^ Rost, B.; Sander, C. (1994). "Combining evolutionary information and neural networks to predict protein secondary structure". Proteins: Structure, Function, and Genetics 19 (1): 55–72. doi:10.1002/prot.340190108. PMID 8066087.  edit
  3. ^ Rost, B.; Sander, C. (1993). "Prediction of Protein Secondary Structure at Better than 70% Accuracy". Journal of Molecular Biology 232 (2): 584–599. doi:10.1006/jmbi.1993.1413. PMID 8345525.  edit
  4. ^ a b c Rost, B.; Yachdav, G.; Liu, J. (2004). "The PredictProtein server". Nucleic Acids Research 32 (Web Server issue): W321–W326. doi:10.1093/nar/gkh377. PMC 441515. PMID 15215403.  edit
  5. ^ http://www.rostlab.org Rostlab web page
  6. ^ List of publications from the DBLP Bibliography Server
  7. ^ List of publications from Microsoft Academic Search
  8. ^ Burkhard Rost from the Scopus bibliographic database.
  9. ^ Rost, B. (1999). "Twilight zone of protein sequence alignments". Protein engineering 12 (2): 85–94. doi:10.1093/protein/12.2.85. PMID 10195279.  edit
  10. ^ Protein Prediction 1 - Protein Structure - Burkhard Rost — video at SciVee.
  11. ^ Rost, B. (1996). "PHD: Predicting one-dimensional protein structure by profile-based neural networks". Methods in enzymology 266: 525–539. doi:10.1016/s0076-6879(96)66033-9. PMID 8743704.  edit
  12. ^ Negoiţă, S. (1976). "Care of patients with acute cranio-cerebral trauma". Viata medicala; revista de informare profesionala si stiintifica a cadrelor medii sanitare 24 (1): 1–3. PMID 821213.  edit
  13. ^ Linial, M.; Mesirov, J. P.; Morrison Mckay, B. J.; Rost, B. (2008). "ISMB 2008 Toronto". PLoS Computational Biology 4 (6): e1000094. doi:10.1371/journal.pcbi.1000094. PMC 2427177. PMID 18584023.  edit


Columbia University faculty