Literature DB >> 17324940

Enabling high-throughput data management for systems biology: the Bioinformatics Resource Manager.

Anuj R Shah1, Mudita Singhal, Kyle R Klicker, Eric G Stephan, H Steven Wiley, Katrina M Waters.   

Abstract

UNLABELLED: The Bioinformatics Resource Manager (BRM) is a software environment that provides the user with data management, retrieval and integration capabilities. Designed in collaboration with biologists, BRM simplifies mundane analysis tasks of merging microarray and proteomic data across platforms, facilitates integration of users' data with functional annotation and interaction data from public sources and provides connectivity to visual analytic tools through reformatting of the data for easy import or dynamic launching capability. BRM is developed using Java and other open-source technologies for free distribution. AVAILABILITY: BRM, sample data sets and a user manual can be downloaded from http://www.sysbio.org/dataresources/brm.stm.

Entities:  

Mesh:

Year:  2007        PMID: 17324940     DOI: 10.1093/bioinformatics/btm031

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  22 in total

1.  Integration and visualization of systems biology data in context of the genome.

Authors:  J Christopher Bare; Tie Koide; David J Reiss; Dan Tenenbaum; Nitin S Baliga
Journal:  BMC Bioinformatics       Date:  2010-07-19       Impact factor: 3.169

2.  Flexible informatics for linking experimental data to mathematical models via DataRail.

Authors:  Julio Saez-Rodriguez; Arthur Goldsipe; Jeremy Muhlich; Leonidas G Alexopoulos; Bjorn Millard; Douglas A Lauffenburger; Peter K Sorger
Journal:  Bioinformatics       Date:  2008-01-24       Impact factor: 6.937

3.  The influences of parental diet and vitamin E intake on the embryonic zebrafish transcriptome.

Authors:  Galen W Miller; Lisa Truong; Carrie L Barton; Edwin M Labut; Katie M Lebold; Maret G Traber; Robert L Tanguay
Journal:  Comp Biochem Physiol Part D Genomics Proteomics       Date:  2014-03-01       Impact factor: 2.674

4.  GProX, a user-friendly platform for bioinformatics analysis and visualization of quantitative proteomics data.

Authors:  Kristoffer T G Rigbolt; Jens T Vanselow; Blagoy Blagoev
Journal:  Mol Cell Proteomics       Date:  2011-05-20       Impact factor: 5.911

5.  Developmental alterations in Huntington's disease neural cells and pharmacological rescue in cells and mice.

Authors: 
Journal:  Nat Neurosci       Date:  2017-03-20       Impact factor: 24.884

6.  Aging enhances the production of reactive oxygen species and bactericidal activity in peritoneal macrophages by upregulating classical activation pathways.

Authors:  Heather S Smallwood; Daniel López-Ferrer; Thomas C Squier
Journal:  Biochemistry       Date:  2011-10-19       Impact factor: 3.162

7.  Polycyclic aromatic hydrocarbons as skin carcinogens: comparison of benzo[a]pyrene, dibenzo[def,p]chrysene and three environmental mixtures in the FVB/N mouse.

Authors:  Lisbeth K Siddens; Andrew Larkin; Sharon K Krueger; Christopher A Bradfield; Katrina M Waters; Susan C Tilton; Cliff B Pereira; Christiane V Löhr; Volker M Arlt; David H Phillips; David E Williams; William M Baird
Journal:  Toxicol Appl Pharmacol       Date:  2012-08-23       Impact factor: 4.219

8.  Comparative proteomics and pulmonary toxicity of instilled single-walled carbon nanotubes, crocidolite asbestos, and ultrafine carbon black in mice.

Authors:  Justin G Teeguarden; Bobbie-Jo Webb-Robertson; Katrina M Waters; Ashley R Murray; Elena R Kisin; Susan M Varnum; Jon M Jacobs; Joel G Pounds; Richard C Zanger; Anna A Shvedova
Journal:  Toxicol Sci       Date:  2010-12-06       Impact factor: 4.849

9.  Macaque proteome response to highly pathogenic avian influenza and 1918 reassortant influenza virus infections.

Authors:  Joseph N Brown; Robert E Palermo; Carole R Baskin; Marina Gritsenko; Patrick J Sabourin; James P Long; Carol L Sabourin; Helle Bielefeldt-Ohmann; Adolfo García-Sastre; Randy Albrecht; Terrence M Tumpey; Jon M Jacobs; Richard D Smith; Michael G Katze
Journal:  J Virol       Date:  2010-09-15       Impact factor: 5.103

10.  Global gene expression analysis reveals pathway differences between teratogenic and non-teratogenic exposure concentrations of bisphenol A and 17β-estradiol in embryonic zebrafish.

Authors:  Katerine S Saili; Susan C Tilton; Katrina M Waters; Robert L Tanguay
Journal:  Reprod Toxicol       Date:  2013-04-01       Impact factor: 3.143

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