Lincoln Stein Explained

Lincoln Stein
Birth Name:Lincoln David Stein
Birth Date:[1]
Fields:Genome Informatics
Alma Mater:Harvard University (PhD)
Thesis Title:Cloning of developmentally regulated genes from Schistosoma mansoni
Thesis Url:http://id.lib.harvard.edu/aleph/002177646/catalog
Thesis Year:1989

Lincoln David Stein is a scientist and Professor in bioinformatics and computational biology at the Ontario Institute for Cancer Research.[2]

Education

Stein completed a Doctor of Medicine at Harvard Medical School and a PhD in Cell Biology at Harvard University both in 1989[3] via the MD-PhD program. His thesis investigated gene cloning in Schistosoma mansoni.[3]

Career

From 1992-1997 he was a director of informatics at the Massachusetts Institute of Technology (MIT) Genome Centre, Whitehead Institute of Biomedical Research. From 1998 to 2004 he was an associate professor at Cold Spring Harbor Laboratory. He has been working at the Ontario Institute for Cancer Research since 2007.

Research

Stein's current research projects include Reactome,[4] WormBase,[4] BioPerl,[5] Gramene,[6] ENCODE,[7] [8] [9] the Generic Model Organism Database,[10] the Sequence Ontology[11] and Cloud computing.[12]

Stein is also the original developer of CGI.pm and a contributor to mod_perl, both widely used in the Perl programming language for web applications, as well as many other Perl modules and associated books.[13] [14] [15] [16] [17]

Awards and honours

Stein was awarded the Benjamin Franklin Award (Bioinformatics) in 2004.[18] He was elected an ISCB Fellow in 2016 by the International Society for Computational Biology.[19]

Notes and References

  1. Web site: 116663444.
  2. Web site: The Ontario Institute for Cancer Research . dead . https://web.archive.org/web/20110422122548/http://www.oicr.on.ca/Research/stein.htm . 2011-04-22 .
  3. PhD . Lincoln David. Stein . Cloning of developmentally regulated genes from Schistosoma mansoni . Harvard University. 1989 . harvard.edu. Lincoln Stein. 23368773.
  4. Croft . D. . O'Kelly . G. . Wu . G. . Haw . R. . Gillespie . M. . Matthews . L. . Caudy . M. . Garapati . P. . Gopinath . G. . 10.1093/nar/gkq1018 . Jassal . B. . Jupe . S. . Kalatskaya . I. . Mahajan . S. . May . B. . Ndegwa . N. . Schmidt . E. . Shamovsky . V. . Yung . C. . Birney . E. . Hermjakob . H. . d'Eustachio . P. . Stein . L. . Reactome: A database of reactions, pathways and biological processes . Nucleic Acids Research . 39 . Database issue . D691–D697 . 2010 . 21067998 . 3013646 .
  5. Stajich . J. E. . Block . D. . Boulez . K. . Brenner . S.. Steven E. Brenner . Chervitz . S. . Dagdigian . C. . Fuellen . G. . Gilbert . J. . Korf . I. . Lapp . H. . Lehväslaiho . H. . Matsalla . C. . Mungall . C. J. . Osborne . B. I. . Pocock . M. R. . Schattner . P. . Senger . M. . Stein . L. D. . Lincoln Stein. Stupka . E. . Wilkinson . M. D. . Birney . E. . Ewan Birney. The BioPerl Toolkit: Perl Modules for the Life Sciences . 10.1101/gr.361602 . Genome Research . 12 . 10 . 1611–1618 . 2002 . 12368254 . 187536 .
  6. Ware . D. H. . Jaiswal . P. . Ni . J. . Yap . I. V. . Pan . X. . Clark . K. Y. . Teytelman . L. . Schmidt . S. C. . Zhao . W. . Chang . K. . Cartinhour . S. . Stein . L. D. . McCouch . S. R. . Susan McCouch. Gramene, a Tool for Grass Genomics . 10.1104/pp.015248 . Plant Physiology . 130 . 4 . 1606–1613 . 2002 . 12481044. 1540266 .
  7. Gerstein MB, Lu ZJ, Van Nostrand EL, Cheng C, Arshinoff BI, Liu T, Yip KY, Robilotto R, Rechtsteiner A. 10.1126/science.1196914 . Integrative Analysis of the Caenorhabditis elegans Genome by the modENCODE Project . Science . 330 . 6012 . 1775–1787 . 2010 . 21177976. 3142569. 2010Sci...330.1775G . etal.
  8. modENCODE Consortium, Roy S, Ernst J, Kharchenko PV, Kheradpour P, Negre N, Eaton ML, Landolin JM, Bristow CA, Ma L. 10.1126/science.1198374 . Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE . Science . 330 . 6012 . 1787–1797 . 2010 . 21177974. 3192495. 2010Sci...330.1787R . etal.
  9. Contrino . S. . Smith . R. N. . Butano . D. . Carr . A. . Hu . F. . Lyne . R. . Rutherford . K. . Kalderimis . A. . Sullivan . J. . 10.1093/nar/gkr921 . Carbon . S. . Kephart . E. T. . Lloyd . P. . Stinson . E. O. . Washington . N. L. . Perry . M. D. . Ruzanov . P. . Zha . Z. . Lewis . S. E. . Stein . L. D. . Micklem . G. . ModMine: Flexible access to modENCODE data . Nucleic Acids Research . 40 . Database issue . D1082–D1088 . 2011 . 22080565 . 3245176 .
  10. Stein . L. D. . Lincoln Stein. Mungall . C. . Shu . S. . Caudy . M. . Mangone . M. . Day . A. . Nickerson . E. . Stajich . J. E. . Harris . T. W. . Arva . A. . Lewis . S. . The Generic Genome Browser: A Building Block for a Model Organism System Database . 10.1101/gr.403602 . Genome Research . 12 . 10 . 1599–1610 . 2002 . 12368253 . 187535 .
  11. Eilbeck . K. . Lewis . S. E. . Suzanna Lewis. Mungall . C. J. . Yandell . M. . Stein . L. . Lincoln Stein. Durbin . R. . Richard M. Durbin. Ashburner . M. . Michael Ashburner. The Sequence Ontology: A tool for the unification of genome annotations . Genome Biology . 6 . 5 . R44 . 2005 . 10.1186/gb-2005-6-5-r44 . 15892872 . 1175956 . free .
  12. Stein . L. D. . The case for cloud computing in genome informatics . 10.1186/gb-2010-11-5-207 . Genome Biology . 11 . 5 . 207 . 2010 . 20441614. 2898083 . free .
  13. Book: Stein, Lincoln D. . Official guide to programming with CGI. pm: [the standard for building Web scripts] ]. Wiley . New York . 1998 . 978-0-471-24744-9 .
  14. Book: Doug MacEachern . Stein, Lincoln D. . Writing Apache Modules with Perl and C . O'Reilly . Sebastopol, CA . 1999 . 978-1-56592-567-0 .
  15. Book: Stein, Lincoln D. . Network programming with Perl . Addison-Wesley . Boston . 2001 . 978-0-201-61571-5 .
  16. Book: Stein, Lincoln D. . How to set up and maintain a Web site . Addison-Wesley . Boston . 1997 . 978-0-201-63462-4 .
  17. Book: Stein, Lincoln D. . Web security: a step-by-step reference guide . Addison-Wesley . Boston . 1998 . 978-0-201-63489-1 .
  18. http://www.bioinformatics.org/franklin/2004/ 2004 Benjamin Franklin Award Awarded to Lincoln D. Stein
  19. Web site: https://web.archive.org/web/20170320114530/https://www.iscb.org/iscb-fellows . 2017-03-20 . ISCB Fellows . iscb.org . . Anon . 2017 . dead .

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