Software  

openBIS: a flexible framework for managing and analyzing complex data in biology research

Angela Bauch, Izabela Adamczyk, Piotr Buczek, Franz-Josef Elmer, Kaloyan Enimanev, Pawel Glyzewski, Manuel Kohler, Tomasz Pylak, Andreas Quandt, Chandrasekhar Ramakrishnan, Christian Beisel, Lars Malmström, Ruedi Aebersold, Bernd Rinn BMC Bioinformatics 2011, 12:468 (8 December 2011)

Abstract | Full text | PDF | PubMed

Research article  

Gene expression relationship between prostate cancer cells of Gleason 3, 4 and normal epithelial cells as revealed by cell type-specific transcriptomes

Laura E Pascal, Ricardo ZN Vêncio, Laura S Page, Emily S Liebeskind, Christina P Shadle, Pamela Troisch, Bruz Marzolf, Lawrence D True, Leroy E Hood, Alvin Y Liu BMC Cancer 2009, 9:452 (18 December 2009)

Abstract | Full text | PDF | PubMed

Software  

BASE - 2nd generation software for microarray data management and analysis

Johan Vallon-Christersson, Nicklas Nordborg, Martin Svensson, Jari Häkkinen BMC Bioinformatics 2009, 10:330 (12 October 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article  

Gene expression down-regulation in CD90⁺ prostate tumor-associated stromal cells involves potential organ-specific genes

Laura E Pascal, Young Goo, Ricardo ZN Vêncio, Laura S Page, Amber A Chambers, Emily S Liebeskind, Thomas K Takayama, Lawrence D True, Alvin Y Liu BMC Cancer 2009, 9:317 (8 September 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Database  

MIMAS 3.0 is a Multiomics Information Management and Annotation System

Alexandre Gattiker, Leandro Hermida, Robin Liechti, Ioannis Xenarios, Olivier Collin, Jacques Rougemont, Michael Primig BMC Bioinformatics 2009, 10:151 (18 May 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

Database  

MiMiR – an integrated platform for microarray data sharing, mining and analysis

Chris Tomlinson, Manjula Thimma, Stelios Alexandrakis, Tito Castillo, Jayne L Dennis, Anthony Brooks, Thomas Bradley, Carly Turnbull, Ekaterini Blaveri, Geraint Barton, Norie Chiba, Klio Maratou, Pat Soutter, Tim Aitman, Laurence Game BMC Bioinformatics 2008, 9:379 (18 September 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Methodology article  

Systems biology driven software design for the research enterprise

John Boyle, Christopher Cavnor, Sarah Killcoyne, Ilya Shmulevich BMC Bioinformatics 2008, 9:295 (25 June 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Database  

The urologic epithelial stem cell database (UESC) – a web tool for cell type-specific gene expression and immunohistochemistry images of the prostate and bladder

Laura E Pascal, Eric W Deutsch, David S Campbell, Martin Korb, Lawrence D True, Alvin Y Liu BMC Urology 2007, 7:19 (11 December 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central