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Lincoln Stein

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TOP 3
Liya Wang; Lincoln D Stein
Modeling the evolution dynamics of exon-intron structure with a general random fragmentation process.
Liya Wang; Lincoln D Stein
Localizing triplet periodicity in DNA and cDNA sequences.
Nicolas Tsesmetzis; Matthew Couchman; Janet Higgins; Alison Smith; John Hugh doonan (JIC); Georg J Seifert; Esther Schmidt; Imre Vastrik; Ewan Birney; Guanming Wu; Peter D'Eustachio; Lincoln D Stein; Richard J Morris; Michael W Bevan; Sean V Walsh
Arabidopsis reactome: a foundation knowledgebase for plant systems biology.

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All Publications

2013: Liya Wang; Lincoln D Stein
Modeling the evolution dynamics of exon-intron structure with a general random fragmentation process.
BMC evolutionary biology 2013;13():57.
2010: Liya Wang; Lincoln D Stein
Localizing triplet periodicity in DNA and cDNA sequences.
BMC bioinformatics 2010;11():550.
2008: Nicolas Tsesmetzis; Matthew Couchman; Janet Higgins; Alison Smith; John Hugh doonan (JIC); Georg J Seifert; Esther Schmidt; Imre Vastrik; Ewan Birney; Guanming Wu; Peter D'Eustachio; Lincoln D Stein; Richard J Morris; Michael W Bevan; Sean V Walsh
Arabidopsis reactome: a foundation knowledgebase for plant systems biology.
The Plant cell 2008;20(6):1426-36.
2008: Brian D O'Connor; Allen Day; Scott Cain; Olivier Arnaiz; Linda Sperling; Lincoln D Stein
GMODWeb: a web framework for the Generic Model Organism Database.
Genome biology 2008;9(6):R102.
2008: Carl J Schmidt; Michael Romanov; Oliver Ryder; vincent magrini; Matthew Hickenbotham; Jarret Glasscock; Sean McGrath; Elaine R Mardis; Lincoln D Stein
Gallus GBrowse: a unified genomic database for the chicken.
Nucleic acids research 2008;36(Database issue):D719-23.
2007: Lincoln D Stein
X Window System survival guide.
Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.] 2007;Appendix 1():Appendix 1D.
2007: Katica Ilic; Elizabeth A Kellogg; Pankaj Jaiswal; Felipe Zapata; Peter F Stevens; Leszek P Vincent; Shulamit Avraham; Leonore Reiser; Anuradha Pujar; Martin M Sachs; Noah T Whitman; Susan R McCouch; Mary L Schaeffer; Doreen Ware; Lincoln D Stein; Seung-Yon Rhee
The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant.
Plant physiology 2007;143(2):587-99.
2007: Lincoln D Stein
Unix survival guide.
Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.] 2007;Appendix 1():Appendix 1C.
2007: Lisa R Girard; Tristan J Fiedler; Todd W Harris; Felicia Carvalho; Igor Antoshechkin; Michael Han; Paul W Sternberg; Lincoln D Stein; Martin Chalfie
WormBook: the online review of Caenorhabditis elegans biology.
Nucleic acids research 2007;35(Database issue):D472-5.
2006: Nansheng Chen; Lincoln D Stein
Conservation and functional significance of gene topology in the genome of Caenorhabditis elegans.
Genome research 2006;16(5):606-17.
2006: Nansheng Chen; Allan K Mah; Oliver E Blacque; Jeffrey Chu; Kiran Phgora; Mathieu Bakhoum; C Rebecca Hunt Newbury; Jaswinder Khattra; Susanna Chan; Anne Go; Evgeni Efimenko; Robert C Johnsen; Prasad Phirke; Peter Swoboda; Marco Marra; Donald G Moerman; Michel R Leroux; David Baillie; Lincoln D Stein
Identification of ciliary and ciliopathy genes in Caenorhabditis elegans through comparative genomics.
Genome biology 2006;7(12):R126.
2006: Todd W Harris; Lincoln D Stein
WormBase: methods for data mining and comparative genomics.
Methods in molecular biology (Clifton, N.J.) 2006;351():31-50.
2006: Erich M Schwarz; Igor Antoshechkin; Carol Bastiani; Tamberlyn Bieri; Darin Blasiar; Payan Canaran; Juancarlos Chan; Nansheng Chen; Wen J Chen; Paul Davis; Tristan J Fiedler; Lisa Girard; Todd W Harris; Eimear E Kenny; Ranjana Kishore; Daniel Lawson; Raymond Lee; Hans-Michael Müller; Cecilia Nakamura; Philip Ozersky; Andrei Petcherski; Anthony Rogers; Will Spooner; Mary Ann Tuli; Kimberly Van Auken; Daniel Wang; Richard Durbin; John Spieth; Lincoln D Stein; Paul W Sternberg
WormBase: better software, richer content.
Nucleic acids research 2006;34(Database issue):D475-8.
2005: Gudmundur A Thorisson; Albert Vernon Smith; Lalitha Krishnan; Lincoln D Stein
The International HapMap Project Web site.
Genome research 2005;15(11):1592-3.
2005: Nansheng Chen; Shraddha Pai; Zhongying Zhao; Allan K Mah; Rebecca Newbury; Robert C Johnsen; Zeynep Altun; Donald G Moerman; David Baillie; Lincoln D Stein
Identification of a nematode chemosensory gene family.
Proceedings of the National Academy of Sciences of the United States of America 2005;102(1):146-51.
2004: Lincoln D Stein
Human genome: end of the beginning.
Nature 2004;431(7011):915-6.
2004: Lincoln D Stein
Using the Reactome database.
Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.] 2004;Chapter 8():Unit 8.7.
2004: Nansheng Chen; Daniel Lawson; Keith Bradnam; Todd W Harris; Lincoln D Stein
WormBase as an integrated platform for the C. elegans ORFeome.
Genome research 2004;14(10B):2155-61.
2004: Todd W Harris; Nansheng Chen; Fiona Cunningham; Marcela Tello-Ruiz; Igor Antoshechkin; Carol Bastiani; Tamberlyn Bieri; Darin Blasiar; Keith Bradnam; Juancarlos Chan; Chao-Kung Chen; Wen J Chen; Paul Davis; Eimear E Kenny; Ranjana Kishore; Daniel Lawson; Raymond Lee; Hans-Michael Muller; Cecilia Nakamura; Philip Ozersky; Andrei Petcherski; Anthony Rogers; Aniko Sabo; Erich M Schwarz; Kimberly Van Auken; Qinghua Wang; Richard Durbin; John Spieth; Paul W Sternberg; Lincoln D Stein
WormBase: a multi-species resource for nematode biology and genomics.
Nucleic acids research 2004;32(Database issue):D411-7.
2003: Lincoln D Stein
Integrating biological databases.
Nature reviews. Genetics 2003;4(5):337-45.
2003: Todd W Harris; Raymond Lee; Erich Schwarz; Keith Bradnam; Daniel Lawson; Wen Chen; Darin Blasier; Eimear E Kenny; Fiona Cunningham; Ranjana Kishore; Juancarlos Chan; Hans-Michael Muller; Andrei Petcherski; Gudmundur A Thorisson; Allen Day; Tamberlyn Bieri; Anthony Rogers; Chao-Kung Chen; John Spieth; Paul Sternberg; Richard Durbin; Lincoln D Stein
WormBase: a cross-species database for comparative genomics.
Nucleic acids research 2003;31(1):133-7.
2003: Gudmundur A Thorisson; Lincoln D Stein
The SNP Consortium website: past, present and future.
Nucleic acids research 2003;31(1):124-7.
2002: Doreen Ware; Pankaj Jaiswal; Junjian Ni; Immanuel V Yap; Xioakang Pan; Ken Y Clark; Leonid Teytelman; Steven C Schmidt; Wei Zhao; Kuan Chang; Samuel Cartinhour; Lincoln D Stein; Susan R McCouch
Gramene, a tool for grass genomics.
Plant physiology 2002;130(4):1606-13.
2002: Jason E Stajich; David Block; Kris Boulez; Steven E Brenner; Steve Chervitz; Chris Dagdigian; Georg Fuellen; James G R Gilbert; Ian F Korf; Hilmar Lapp; Heikki Lehväslaiho; Chad Matsalla; Chris Mungall; Brian I Osborne; Matthew R Pocock; Peter Schattner; Martin Senger; Lincoln D Stein; Elia Stupka; Mark D Wilkinson; Ewan Birney
The Bioperl toolkit: Perl modules for the life sciences.
Genome research 2002;12(10):1611-8.
2002: Lincoln D Stein; Chris Mungall; ShengQiang Shu; Michael Caudy; Marco Mangone; Allen Day; Elizabeth Nickerson; Jason E Stajich; Todd W Harris; Adrian Arva; Suzanna Lewis
The generic genome browser: a building block for a model organism system database.
Genome research 2002;12(10):1599-610.
2001: Lincoln D Stein
Genetic analyses on DNA microarrays.
Current protocols in human genetics / editorial board, Jonathan L. Haines ... [et al.] 2001;Chapter 11():Unit 11.1.
2001: Lincoln D Stein
Using Perl to facilitate biological analysis.
Methods of biochemical analysis 2001;43():413-49.
1999: Lincoln D Stein
Internet access to the C. elegans genome.
Trends in genetics : TIG 1999;15(10):425-7.
1998: Lincoln D Stein; Jean Thierry-Mieg
Scriptable access to the Caenorhabditis elegans genome sequence and other ACEDB databases.
Genome research 1998;8(12):1308-15.
1998: Lincoln D Stein; Samuel Cartinhour; Danielle Thierry-Mieg; Jean Thierry-Mieg
JADE: an approach for interconnecting bioinformatics databases.
Gene 1998;209(1-2):GC39-GC43.
1998: Lincoln D Stein
Of mice and men: navigating public physical mapping databases.
Methods of biochemical analysis 1998;39():268-98.