Literature DB >> 19060304

Data curation + process curation=data integration + science.

Carole Goble1, Robert Stevens, Duncan Hull, Katy Wolstencroft, Rodrigo Lopez.   

Abstract

In bioinformatics, we are familiar with the idea of curated data as a prerequisite for data integration. We neglect, often to our cost, the curation and cataloguing of the processes that we use to integrate and analyse our data. Programmatic access to services, for data and processes, means that compositions of services can be made that represent the in silico experiments or processes that bioinformaticians perform. Data integration through workflows depends on being able to know what services exist and where to find those services. The large number of services and the operations they perform, their arbitrary naming and lack of documentation, however, mean that they can be difficult to use. The workflows themselves are composite processes that could be pooled and reused but only if they too can be found and understood. Thus appropriate curation, including semantic mark-up, would enable processes to be found, maintained and consequently used more easily. This broader view on semantic annotation is vital for full data integration that is necessary for the modern scientific analyses in biology. This article will brief the community on the current state of the art and the current challenges for process curation, both within and without the Life Sciences.

Mesh:

Year:  2008        PMID: 19060304     DOI: 10.1093/bib/bbn034

Source DB:  PubMed          Journal:  Brief Bioinform        ISSN: 1467-5463            Impact factor:   11.622


  13 in total

1.  Exposing the cancer genome atlas as a SPARQL endpoint.

Authors:  Helena F Deus; Diogo F Veiga; Pablo R Freire; John N Weinstein; Gordon B Mills; Jonas S Almeida
Journal:  J Biomed Inform       Date:  2010-12       Impact factor: 6.317

2.  An active registry for bioinformatics web services.

Authors:  S Pettifer; D Thorne; P McDermott; T Attwood; J Baran; J C Bryne; T Hupponen; D Mowbray; G Vriend
Journal:  Bioinformatics       Date:  2009-05-21       Impact factor: 6.937

3.  BioCatalogue: a universal catalogue of web services for the life sciences.

Authors:  Jiten Bhagat; Franck Tanoh; Eric Nzuobontane; Thomas Laurent; Jerzy Orlowski; Marco Roos; Katy Wolstencroft; Sergejs Aleksejevs; Robert Stevens; Steve Pettifer; Rodrigo Lopez; Carole A Goble
Journal:  Nucleic Acids Res       Date:  2010-05-19       Impact factor: 16.971

4.  Towards the integration of mouse databases - definition and implementation of solutions to two use-cases in mouse functional genomics.

Authors:  Michael Gruenberger; Rudi Alberts; Damian Smedley; Morris Swertz; Paul Schofield; Klaus Schughart
Journal:  BMC Res Notes       Date:  2010-01-22

5.  PeptideMine--a webserver for the design of peptides for protein-peptide binding studies derived from protein-protein interactomes.

Authors:  Khader Shameer; Lalima L Madan; Shivamurthy Veeranna; Balasubramanian Gopal; Ramanathan Sowdhamini
Journal:  BMC Bioinformatics       Date:  2010-09-22       Impact factor: 3.169

6.  Aviator: a web service for monitoring the availability of web services.

Authors:  Tobias Fehlmann; Fabian Kern; Pascal Hirsch; Robin Steinhaus; Dominik Seelow; Andreas Keller
Journal:  Nucleic Acids Res       Date:  2021-07-02       Impact factor: 16.971

7.  Research resources: curating the new eagle-i discovery system.

Authors:  Nicole Vasilevsky; Tenille Johnson; Karen Corday; Carlo Torniai; Matthew Brush; Erik Segerdell; Melanie Wilson; Chris Shaffer; David Robinson; Melissa Haendel
Journal:  Database (Oxford)       Date:  2012-03-20       Impact factor: 3.451

8.  Dealing with data: a case study on information and data management literacy.

Authors:  Melissa A Haendel; Nicole A Vasilevsky; Jacqueline A Wirz
Journal:  PLoS Biol       Date:  2012-05-29       Impact factor: 8.029

9.  Open research practices: unintended consequences and suggestions for averting them. (Commentary on the Peer Reviewers' Openness Initiative).

Authors:  D V M Bishop
Journal:  R Soc Open Sci       Date:  2016-04-20       Impact factor: 2.963

10.  Structuring and extracting knowledge for the support of hypothesis generation in molecular biology.

Authors:  Marco Roos; M Scott Marshall; Andrew P Gibson; Martijn Schuemie; Edgar Meij; Sophia Katrenko; Willem Robert van Hage; Konstantinos Krommydas; Pieter W Adriaans
Journal:  BMC Bioinformatics       Date:  2009-10-01       Impact factor: 3.169

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.