Literature DB >> 16682980

Addressing the problems with life-science databases for traditional uses and systems biology.

Stephan Philippi1, Jacob Köhler.   

Abstract

A prerequisite to systems biology is the integration of heterogeneous experimental data, which are stored in numerous life-science databases. However, a wide range of obstacles that relate to access, handling and integration impede the efficient use of the contents of these databases. Addressing these issues will not only be essential for progress in systems biology, it will also be crucial for sustaining the more traditional uses of life-science databases.

Mesh:

Year:  2006        PMID: 16682980     DOI: 10.1038/nrg1872

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  29 in total

1.  SGDI: system for genomic data integration.

Authors:  V J Carey; J Gentry; R Sarkar; D Gentleman; S Ramaswamy
Journal:  Pac Symp Biocomput       Date:  2008

2.  Integrated analysis and reconstruction of microbial transcriptional gene regulatory networks using CoryneRegNet.

Authors:  Jan Baumbach; Tobias Wittkop; Christiane Katja Kleindt; Andreas Tauch
Journal:  Nat Protoc       Date:  2009       Impact factor: 13.491

3.  Towards the integrated analysis, visualization and reconstruction of microbial gene regulatory networks.

Authors:  Jan Baumbach; Andreas Tauch; Sven Rahmann
Journal:  Brief Bioinform       Date:  2008-12-12       Impact factor: 11.622

4.  Unraveling human complexity and disease with systems biology and personalized medicine.

Authors:  Stephen Naylor; Jake Y Chen
Journal:  Per Med       Date:  2010-05       Impact factor: 2.512

5.  Reconstruction and validation of RefRec: a global model for the yeast molecular interaction network.

Authors:  Tommi Aho; Henrikki Almusa; Jukka Matilainen; Antti Larjo; Pekka Ruusuvuori; Kaisa-Leena Aho; Thomas Wilhelm; Harri Lähdesmäki; Andreas Beyer; Manu Harju; Sharif Chowdhury; Kalle Leinonen; Christophe Roos; Olli Yli-Harja
Journal:  PLoS One       Date:  2010-05-14       Impact factor: 3.240

6.  Genephony: a knowledge management tool for genome-wide research.

Authors:  Angelo Nuzzo; Alberto Riva
Journal:  BMC Bioinformatics       Date:  2009-09-03       Impact factor: 3.169

7.  Data recovery and integration from public databases uncovers transformation-specific transcriptional downregulation of cAMP-PKA pathway-encoding genes.

Authors:  Chiara Balestrieri; Lilia Alberghina; Marco Vanoni; Ferdinando Chiaradonna
Journal:  BMC Bioinformatics       Date:  2009-10-15       Impact factor: 3.169

8.  Literature-curated protein interaction datasets.

Authors:  Michael E Cusick; Haiyuan Yu; Alex Smolyar; Kavitha Venkatesan; Anne-Ruxandra Carvunis; Nicolas Simonis; Jean-François Rual; Heather Borick; Pascal Braun; Matija Dreze; Jean Vandenhaute; Mary Galli; Junshi Yazaki; David E Hill; Joseph R Ecker; Frederick P Roth; Marc Vidal
Journal:  Nat Methods       Date:  2009-01       Impact factor: 28.547

9.  An XML transfer schema for exchange of genomic and genetic mapping data: implementation as a web service in a Taverna workflow.

Authors:  Trevor Paterson; Andy Law
Journal:  BMC Bioinformatics       Date:  2009-08-14       Impact factor: 3.169

Review 10.  Calling International Rescue: knowledge lost in literature and data landslide!

Authors:  Teresa K Attwood; Douglas B Kell; Philip McDermott; James Marsh; Steve R Pettifer; David Thorne
Journal:  Biochem J       Date:  2009-12-10       Impact factor: 3.857

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