Bibliography 2.0: A citeulike case study from the Wellcome Trust Genome Campus

Bibliography 2.0: A case study from the Wellcome Trust Genome Campus Dr. Duncan Hull http://twitter.com/dullhunk European Bioinformatics Institute, EBI.ac.uk e-Science workshop: The influence and impact of Web 2.0 on various applications 11th-12th May 2010, Edinburgh

Overview ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10

Wellcome to the Genome Campus ,[object Object],[object Object],[object Object],[object Object]

EBI: a data hub for bioinformatics in Europe Literature ebi.ac.uk/citexplore DNA +RNA sequences ebi.ac.uk/ena Genomes: ensembl.org Transcriptomes e.g. ArrayExpress Protein structure ebi.ac.uk/pdbe Protein domains, families ebi.ac.uk/interpro Pathways reactome.org Systems biomodels.net Small molecules ebi.ac.uk/chebi and ebi.ac.uk/chembl Protein sequence uniprot.org Protein protein interactions ebi.ac.uk/intact ~400 staff (research/services), publishing data on the web

21.05.10 e.g. Chemical Entities of Biological Interest (ChEBI) Free database /ontology of 500,000 small molecules (many drugs)

The Wellcome Trust Sanger Institute 21.05.10 Alex Bateman ~900 Sanger staff (total)

Shared Library 21.05.10 Annual Journal subscription budget £500,000 (modest compared to multi million pound journal budgets of university libraries) More later

[object Object],21.05.10 “ People respond to incentives, although not necessarily in ways that are predictable and manifest. Therefore, one of the most powerful laws in the universe is the law of unintended consequences. This applies to schoolteachers and Realtors and crack dealers as well as expectant mothers, sumo wrestlers, bible salesman, and the Ku Klux Klan…” … and scientists too…

Unintended consequences, an example ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10

[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10 Why bury it [data] first and then mine it again? Barend Mons, Wikiproteins http://proteins.wikiprofessional.org Which gene did you mean? BMC Bioinformatics. 2005 Jun 7;6:142 DOI:10.1186/1471-2105-6-142

Identity crisis: Mark Baker ,[object Object],[object Object],[object Object],21.05.10 Until we have unique author identifiers, it is difficult or impossible to reliably find the papers published by a particular person Open Researcher and Contributor ID http://orcid.org “ Tell me whenever Mark Baker publishes a paper”

Social information (need identity for this) ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10

A solution, citeulike.org? ,[object Object],[object Object],[object Object],[object Object],21.05.10

Click Post to Citeulike 21.05.10

Tag it (optional) e.g. author tags 21.05.10

Journal picks is a group of 40+ invited users on campus, who select interesting papers 21.05.10

21.05.10 2,016 unique articles in journal picks (less than one year) 3,880,055 unique articles total

Citeulike + ZeitGeist = CiteGeist http://www.citeulike.org/citegeist 21.05.10

Citeulike incentives ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10

Citeulike disincentives ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10

And the rest… 21.05.10 www.mendeley.com www.zotero.org www.connotea.org www.mekentosj.com www.hubmed.org www.refworks.com “ iTunes for PDF files” “ Last.fm of research”

Giant corporate commercial competitors ,[object Object],[object Object],[object Object],21.05.10

Conclusions ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10

Acknowledgements ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],21.05.10

Bibliography 2.0: A citeulike case study from the Wellcome Trust Genome Campus

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Bibliography 2.0: A citeulike case study from the Wellcome Trust Genome Campus