Databases
Edited by:
Dr Miguel A Andrade-Navarro, Dr Carolina Perez-Iratxeta
In the accumulation of information, databases play a pivotal role for biomedical scientists. This topical series is a collection of descriptions of databases that provide a comprehensive compilation of data for research purposes.
Collection published: 20 April 2009
Last updated: 4 October 2010
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aeGEPUCI: a database of gene expression in the dengue vector mosquito, Aedes aegypti
Sumudu N Dissanayake, Jose MC Ribeiro, Mei-Hui Wang, William A Dunn, Guiyun Yan, Anthony A James, Osvaldo Marinotti BMC Research Notes 2010, 3:248 (4 October 2010)
Abstract | Full text | PDF | PubMed
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ISDB: Interaction Sentence Database
Michael A Bauer, Robert E Belford, Jing Ding, Daniel Berleant BMC Research Notes 2010, 3:122 (3 May 2010)
Abstract | Full text | PDF | PubMed
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Towards the integration of mouse databases - definition and implementation of solutions to two use-cases in mouse functional genomics
Michael Gruenberger, Rudi Alberts, Damian Smedley, Morris Swertz, Paul Schofield, The CASIMIR consortium, Klaus Schughart BMC Research Notes 2010, 3:16 (22 January 2010)
Abstract | Full text | PDF | PubMed
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Collection of Macaca fascicularis cDNAs derived from bone marrow, kidney, liver, pancreas, spleen, and thymus
Naoki Osada, Makoto Hirata, Reiko Tanuma, Yutaka Suzuki, Sumio Sugano, Keiji Terao, Jun Kusuda, Yosuke Kameoka, Katsuyuki Hashimoto, Ichiro Takahashi BMC Research Notes 2009, 2:199 (29 September 2009)
Abstract | Full text | PDF | PubMed
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A comprehensive resource for integrating and displaying protein post-translational modifications
Tzong-Yi Lee, Justin Hsu, Wen-Chi Chang, Ting-Yuan Wang, Po-Chiang Hsu, Hsien-Da Huang BMC Research Notes 2009, 2:111 (23 June 2009)
Abstract | Full text | PDF | PubMed
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Editor’s summary
The updated dbPTM 2.0 database offers an integrated interface to display both experimentally verified and predicted post-translational modifications on a protein's secondary or tertiary structure, and includes information on solvent accessibility, protein variation, and regions of intrinsic structural disorder.
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OxDBase: a database of oxygenases involved in biodegradation
Pankaj K Arora, Manish Kumar, Archana Chauhan, Gajendra PS Raghava, Rakesh K Jain BMC Research Notes 2009, 2:67 (30 April 2009)
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MHCBN 4.0: A database of MHC/TAP binding peptides and T-cell epitopes
Sneh Lata, Manoj Bhasin, Gajendra PS Raghava BMC Research Notes 2009, 2:61 (20 April 2009)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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Recent developments in StemBase: a tool to study gene expression in human and murine stem cells
Reatha Sandie, Gareth A Palidwor, Matthew R Huska, Christopher J Porter, Paul M Krzyzanowski, Enrique M Muro, Carolina Perez-Iratxeta, Miguel A Andrade-Navarro BMC Research Notes 2009, 2:39 (10 March 2009)
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Editor’s summary
StemBase, the comprehensive online repository developed by the Canadian Stem Cell Network, now supports the analysis of gene coexpression patterns in human and mouse stem cells, and the visualization of expression data by genomic regions.
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The Alternative Splicing Mutation Database: a hub for investigations of alternative splicing using mutational evidence
Jason M Bechtel, Preeti Rajesh, Irina Ilikchyan, Ying Deng, Pankaj K Mishra, Qi Wang, Xiaochun Wu, Kirill A Afonin, William E Grose, Ye Wang, Sadik Khuder, Alexei Fedorov BMC Research Notes 2008, 1:3 (26 February 2008)
Abstract | Full text | PDF | PubMed | Cited on BioMed Central
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