Benutzer:GWRo0106/Mark B. Gerstein

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Vorlage:Infobox scientist Mark Bender Gerstein is an American scientist working in bioinformatics. Vorlage:As of, he is co-director of the Yale Computational Biology and Bioinformatics program, and Albert L. Williams Professor of Biomedical Informatics, Professor of Molecular Biophysics & Biochemistry and Professor of Computer Science at Yale University.[1]

Education

After graduating from Harvard College summa cum laude with a Bachelor of Arts in Physics in 1989, Gerstein did a PhD co-supervised by Ruth Lynden-Bell[2] at the University of Cambridge and Cyrus Chothia at the Laboratory of Molecular Biology on conformational change in proteins, graduating in 1993.[3] He then went on to postdoctoral research in bioinformatics at Stanford University from 1993-1996 supervised by Nobel-laureate Michael Levitt.

Research

Gerstein does research in the field of bioinformatics.[4][5][6] This involves applying a range of computational approaches to problems in molecular biology, including data mining and machine learning, molecular simulation, and database design. His research group has a number of foci including annotating the human genome,[7] personal genomics, cancer genomics, building tools in support of genome technologies (such as next-generation sequencing), analyzing molecular networks, and simulating macromolecular motions. Notable databases and tools that the group has developed include the Database of Macromolecular Motions,[8][9] which categorizes macromolecular conformational change; tYNA,[10] which helps analyze molecular networks; PubNet,[11] which analyzes publication networks; PeakSeq,[12] which identifies regions in the genome bound by particular transcription factors; and CNVnator,[13] which categorizes block variants in the genome. Gerstein has also written extensively on how general issues in data science impact on genomics—in particular, in relation to privacy[14] and to structuring scientific communication.[15]

Gerstein's work has been published in peer reviewed scientific journals[16][17][18] and non-scientific publications in more popular forums.[19] His work has been highly cited, with an H greater than 100.[4] He serves on a number of editorial and advisory boards, including those of PLoS Computational Biology, Genome Research, Genome Biology, and Molecular Systems Biology. He has been quoted in the New York Times,[20][21][22] including on the front page,[7] and in other major newspapers.[23]

Awards and honors

In addition to a W. M. Keck Foundation Distinguished Young Scholars award, Gerstein has received awards from the US Navy, IBM, Pharmaceutical Research and Manufacturers of America, and the Donaghue Foundation.Vorlage:Citation needed He is a Fellow of the AAAS.[24] Other awards include a Herchel-Smith Scholarship supporting his doctoral work at Emmanuel College, Cambridge and a Damon Runyon Cancer Research Foundation Postdoctoral Fellowship. He is a contributor to a number of scientific consortia including ENCODE,[25] modENCODE,[26][27][28] 1000 Genomes Project, Brainspan,Vorlage:Citation needed and DOE Kbase.Vorlage:Citation needed He was made a Fellow of the International Society for Computational Biology in 2015.[29]

References

Vorlage:Reflist

External links

Vorlage:Scholia

Vorlage:ISCB Fellows


[[Category:21st-century American biologists]] [[Category:American bioinformaticians]] [[Category:Harvard University alumni]] [[Category:Stanford University alumni]] [[Category:Year of birth missing (living people)]] [[Category:Living people]] [[Category:Yale University faculty]] [[Category:Fellows of the International Society for Computational Biology]] [[Category:Fellows of the American Association for the Advancement of Science]] [[Category:Alumni of Emmanuel College, Cambridge]] [[Category:Yale Department of Molecular Biophysics & Biochemistry faculty]]

  1. ↑ Vorlage:Scopus
  2. ↑ Vorlage:MathGenealogy
  3. ↑ Vorlage:Cite thesis
  4. ↑ a b Vorlage:GoogleScholar
  5. ↑ R. M. Durbin, G. R. Abecasis, R. M. Altshuler, G. A. R. Auton, D. R. Brooks, A. Durbin, A. G. Gibbs, F. S. Hurles, F. M. McVean, P. Donnelly, M. Egholm, P. Flicek, S. B. Gabriel, R. A. Gibbs, B. M. Knoppers, E. S. Lander, H. Lehrach, E. R. Mardis, G. A. McVean, D. A. Nickerson, L. Peltonen, A. J. Schafer, S. T. Sherry, J. Wang, R. K. Wilson, R. A. Gibbs, D. Deiros, M. Metzker, D. Muzny, J. Reid: A map of human genome variation from population-scale sequencing. In: Nature. 467, Nr. 7319, 2010, S. 1061–1073. bibcode:2010Natur.467.1061T. doi:10.1038/nature09534. PMID 20981092. PMC 3042601 (freier Volltext).
  6. ↑ Z. Wang, M. Gerstein, M. Snyder: RNA-Seq: A revolutionary tool for transcriptomics. In: Nature Reviews Genetics. 10, Nr. 1, 2009, S. 57–63. doi:10.1038/nrg2484. PMID 19015660. PMC 2949280 (freier Volltext).
  7. ↑ a b Gina Kolata, (Sept. 5, 2012) 'Bits of Mystery DNA, Far From Junk, Play Crucial Role,' NY Times
  8. ↑ Referenzfehler: Ungültiges <ref>-Tag; kein Text angegeben für Einzelnachweis mit dem Namen krebsphd.
  9. ↑ Referenzfehler: Ungültiges <ref>-Tag; kein Text angegeben für Einzelnachweis mit dem Namen molmovdb.
  10. ↑ K. Y. Yip, H Yu, P. M. Kim, M Schultz, M Gerstein: The tYNA platform for comparative interactomics: A web tool for managing, comparing and mining multiple networks. In: Bioinformatics. 22, Nr. 23, 2006, S. 2968–70. doi:10.1093/bioinformatics/btl488. PMID 17021160.
  11. ↑ S. M. Douglas, G. T. Montelione, M. Gerstein: PubNet: A flexible system for visualizing literature derived networks. In: Genome Biology. 6, Nr. 9, 2005, S. R80. doi:10.1186/gb-2005-6-9-r80. PMID 16168087. PMC 1242215 (freier Volltext).
  12. ↑ J Rozowsky, G Euskirchen, R. K. Auerbach, Z. D. Zhang, T Gibson, R Bjornson, N Carriero, M Snyder, M. B. Gerstein: Peak Seq enables systematic scoring of ChIP-seq experiments relative to controls. In: Nature Biotechnology. 27, Nr. 1, 2009, S. 66–75. doi:10.1038/nbt.1518. PMID 19122651. PMC 2924752 (freier Volltext).
  13. ↑ A Abyzov, A. E. Urban, M Snyder, M Gerstein: CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing. In: Genome Research. 21, Nr. 6, 2011, S. 974–84. doi:10.1101/gr.114876.110. PMID 21324876. PMC 3106330 (freier Volltext).
  14. ↑ D Greenbaum, A Sboner, X. J. Mu, M Gerstein: Genomics and privacy: Implications of the new reality of closed data for the field. In: PLoS Computational Biology. 7, Nr. 12, 2011, S. e1002278. bibcode:2011PLSCB...7E2278G. doi:10.1371/journal.pcbi.1002278. PMID 22144881. PMC 3228779 (freier Volltext).
  15. ↑ M Gerstein, M Seringhaus, S Fields: Structured digital abstract makes text mining easy. In: Nature. 447, Nr. 7141, 2007, S. 142. bibcode:2007Natur.447..142G. doi:10.1038/447142a. PMID 17495904.
  16. ↑ Publikationsliste von {{{1}}} {{{2}}} im DBLP
  17. ↑ Vorlage:AcademicSearch
  18. ↑ G. Giaever, A. M. Chu, L. Ni, C. Connelly, L. Riles, S. Véronneau, S. Dow, A. Lucau-Danila, K. Anderson, B. André, A. P. Arkin, A. Astromoff, M. El-Bakkoury, R. Bangham, R. Benito, S. Brachat, S. Campanaro, M. Curtiss, K. Davis, A. Deutschbauer, K. D. Entian, P. Flaherty, F. Foury, D. J. Garfinkel, M. Gerstein, D. Gotte, U. Güldener, J. H. Hegemann, S. Hempel, Z. Herman: Functional profiling of the Saccharomyces cerevisiae genome. In: Nature. 418, Nr. 6896, 2002, S. 387–391. bibcode:2002Natur.418..387G. doi:10.1038/nature00935. PMID 12140549.
  19. ↑ List of Non-technical Writing by Mark Gerstein. gersteinlab.org. Archiviert vom Original am 17. Oktober 2013.
  20. ↑ Gina Kolata: Poking Holes in Genetic Privacy. In: The New York Times, 16. Juni 2013. Abgerufen am 18. Januar 2016. 
  21. ↑ Carl Zimmer: Tiny, Vast Windows Into Human DNA. In: The New York Times, 1. September 2014. Abgerufen am 18. Januar 2016. 
  22. ↑ Thoughts on Genes. In: The New York Times, 10. November 2008. Abgerufen am 18. Januar 2016. 
  23. ↑ Scientists Unveil New Blueprint Of How The Human Genome Works. In: courant.com . Abgerufen am 18. Januar 2016.
  24. ↑ Referenzfehler: Ungültiges <ref>-Tag; kein Text angegeben für Einzelnachweis mit dem Namen aaas.
  25. ↑ ENCODE Project Consortium, Birney E, Stamatoyannopoulos JA, Dutta A, Guigó R, Gingeras TR, Margulies EH, Weng Z, Snyder M, Dermitzakis ET: Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. In: Nature. 447, Nr. 7146, 2007, S. 799–816. bibcode:2007Natur.447..799B. doi:10.1038/nature05874. PMID 17571346. PMC 2212820 (freier Volltext).
  26. ↑ S. G. Landt, G. K. Marinov, A. Kundaje, P. Kheradpour, F. Pauli, S. Batzoglou, B. E. Bernstein, P. Bickel, J. B. Brown, P. Cayting, Y. Chen, G. Desalvo, C. Epstein, K. I. Fisher-Aylor, G. Euskirchen, M. Gerstein, J. Gertz, A. J. Hartemink, M. M. Hoffman, V. R. Iyer, Y. L. Jung, S. Karmakar, M. Kellis, P. V. Kharchenko, Q. Li, T. Liu, X. S. Liu, L. Ma, A. Milosavljevic, R. M. Myers: ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. In: Genome Research. 22, Nr. 9, 2012, S. 1813–1831. doi:10.1101/gr.136184.111. PMID 22955991. PMC 3431496 (freier Volltext).
  27. ↑ C. Cheng, K. K. Yan, K. Y. Yip, J. Rozowsky, R. Alexander, C. Shou, M. Gerstein: A statistical framework for modeling gene expression using chromatin features and application to modENCODE datasets. In: Genome Biology. 12, Nr. 2, 2011, S. R15. doi:10.1186/gb-2011-12-2-r15. PMID 21324173. PMC 3188797 (freier Volltext).
  28. ↑ Integrative Analysis of the Caenorhabditis elegans Genome by the modENCODE Project. In: Science. 330, Nr. 6012, 2010, S. 1775–1787. bibcode:2010Sci...330.1775G. doi:10.1126/science.1196914. PMID 21177976. PMC 3142569 (freier Volltext).
  29. ↑ Meet the ISCB Fellows Class of 2015. International Society for Computational Biology. Archiviert vom Original am 20. Februar 2015.
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