Towards a cyberinfrastructure for the biological sciences: progress, visions and challenges

Nature Reviews. Genetics
Lincoln D Stein

Abstract

Biology is an information-driven science. Large-scale data sets from genomics, physiology, population genetics and imaging are driving research at a dizzying rate. Simultaneously, interdisciplinary collaborations among experimental biologists, theorists, statisticians and computer scientists have become the key to making effective use of these data sets. However, too many biologists have trouble accessing and using these electronic data sets and tools effectively. A 'cyberinfrastructure' is a combination of databases, network protocols and computational services that brings people, information and computational tools together to perform science in this information-driven world. This article reviews the components of a biological cyberinfrastructure, discusses current and pending implementations, and notes the many challenges that lie ahead.

References

Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Oct 23, 2001·BMC Bioinformatics·R D DowellL Stein
Apr 5, 2002·Genome Research·W James Kent
Jun 5, 2002·Genome Research·W James KentDavid Haussler
Oct 9, 2002·Genome Research·Lincoln D SteinSuzanna Lewis
Jan 4, 2003·Briefings in Bioinformatics·Mark D Wilkinson, Matthew Links
Jul 12, 2003·Bioinformatics·Robert D StevensCarole A Goble
Apr 29, 2004·Nature Neuroscience·Maryann E MartoneMark H Ellisman
May 17, 2005·Genome Biology·Karen EilbeckMichael Ashburner
Sep 20, 2005·Genome Research·Belinda GiardineAnton Nekrutenko
Apr 28, 2006·Nature Genetics·Michael ReichJill P Mesirov
Nov 4, 2006·IEEE Transactions on Visualization and Computer Graphics·Wei QiaoGerhard Klimeck
Dec 7, 2006·Nucleic Acids Research·Donna MaglottTatiana Tatusova
Jul 25, 2007·Bioinformatics·Christopher J MungallUNKNOWN FlyBase Consortium
Nov 15, 2007·Nucleic Acids Research·P FlicekS Searle
Nov 30, 2007·Nucleic Acids Research·UNKNOWN UniProt Consortium
Nov 30, 2007·Nucleic Acids Research·David L WheelerEugene Yaschenko
Dec 14, 2007·Nucleic Acids Research·Minoru KanehisaYoshihiro Yamanishi

❮ Previous
Next ❯

Citations

Dec 20, 2011·Applied Microbiology and Biotechnology·Aric WiestKevin McCluskey
Aug 4, 2009·Mammalian Genome : Official Journal of the International Mammalian Genome Society·John M HancockPaul N Schofield
Jul 4, 2012·Nature Reviews. Genetics·Yves Moreau, Léon-Charles Tranchevent
May 22, 2009·Briefings in Bioinformatics·Erick AntezanaVladimir Mironov
Mar 30, 2010·Briefings in Bioinformatics·Emanuela GadaletaClaude Chelala
Mar 23, 2011·Briefings in Bioinformatics·André KoschmiederUlf Leser
Oct 5, 2011·Briefings in Bioinformatics·Andrea SplendianiMarco Brandizi
Apr 12, 2012·Briefings in Bioinformatics·Huajun ChenJake Y Chen
May 8, 2009·Bioinformatics·Hagen BlankenburgMario Albrecht
Jul 16, 2010·Database : the Journal of Biological Databases and Curation·Damian SmedleyJohn M Hancock
Jun 9, 2009·Nucleic Acids Research·Hagen BlankenburgMario Albrecht
Oct 27, 2009·Nucleic Acids Research·Andrew BlakeAnn-Marie Mallon
Mar 3, 2010·Nucleic Acids Research·William J BlakeBrian M Baynes
May 6, 2009·Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences·Peter J HarrisS Randall Thomas
Oct 16, 2010·Science·Sabina Leonelli
Oct 7, 2009·BMC Bioinformatics·Erick AntezanaMartin Kuiper
Jan 19, 2011·BMC Bioinformatics·Morris A SwertzHelen Parkinson
May 3, 2011·Source Code for Biology and Medicine·Kazuki OshitaMasaru Tomita
Nov 1, 2008·PLoS Computational Biology·Duncan HullDouglas B Kell
May 10, 2012·PLoS Computational Biology·Christos A Ouzounis
Aug 4, 2009·PloS One·Thomas KelderBruce R Conklin
Mar 1, 2014·Database : the Journal of Biological Databases and Curation·Meghna SinghSridhar Sivasubbu
Dec 14, 2012·Briefings in Bioinformatics·James Christopher Bare, Nitin S Baliga
Jan 20, 2010·Journal of Molecular Neuroscience : MN·Manuela Barbosa Rodrigues de SouzaJoão Ricardo Mendes de Oliveira
Dec 31, 2011·ZooKeys·Anne E Thessen, David J Patterson
Aug 19, 2010·Nature Reviews. Genetics·Eric E SchadtGarry P Nolan
Mar 24, 2009·Human Mutation·Jim KaputUNKNOWN Contributors to the Human Variome Project Planning Meeting
Nov 16, 2010·Journal of Proteomics·Katarina M JørgensenBjørn Tore Gjertsen
Apr 13, 2010·Experimental Cell Research·John G Lock, Staffan Strömblad
Oct 24, 2009·Current Opinion in Biotechnology·Masanori Arita
Aug 25, 2009·Progress in Biophysics and Molecular Biology·G Rickey Welch
Jun 11, 2009·Drug Discovery Today·Kenneth H Buetow
Dec 15, 2015·Evolutionary Anthropology·Denné ReedZeresenay Alemseged
Oct 29, 2015·Ambio·Koen ArtsWilliam M Adams
Nov 26, 2009·The Biochemical Journal·Teresa K AttwoodDavid Thorne
Jun 12, 2012·Advances in Bioinformatics·Anne E ThessenDmitry Mozzherin
Mar 3, 2015·Perspectives on Science : Historical, Philosophical, Social·Sabina Leonelli
Sep 14, 2010·Systematic Biology·David M Kidd
Aug 19, 2009·Nature Reviews. Genetics·Matthias Gstaiger, Ruedi Aebersold

❮ Previous
Next ❯

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