Research article  

The CRE1 carbon catabolite repressor of the fungus Trichoderma reesei: a master regulator of carbon assimilation

Thomas Portnoy, Antoine Margeot, Rita Linke, Lea Atanasova, Erzsébet Fekete, Erzsébet Sándor, Lukas Hartl, Levente Karaffa, Irina S Druzhinina, Bernhard Seiboth, Stéphane Le Crom, Christian P Kubicek BMC Genomics 2011, 12:269 (27 May 2011)

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Research  

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

Chiara Balestrieri, Lilia Alberghina, Marco Vanoni, Ferdinando Chiaradonna BMC Bioinformatics 2009, 10(Suppl 12):S1-S17 (15 October 2009)

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Research article  

Phylogenetic and genomic diversity of human bacteremic Escherichia coli strains

Françoise Jaureguy, Luce Landraud, Virginie Passet, Laure Diancourt, Eric Frapy, Ghislaine Guigon, Etienne Carbonnelle, Olivier Lortholary, Olivier Clermont, Erick Denamur, Bertrand Picard, Xavier Nassif, Sylvain Brisse BMC Genomics 2008, 9:560 (26 November 2008)

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Research article  

Discovery of dominant and dormant genes from expression data using a novel generalization of SNR for multi-class problems

Yu-Shuen Tsai, Chin-Teng Lin, George C Tseng, I-Fang Chung, Nikhil Pal BMC Bioinformatics 2008, 9:425 (9 October 2008)

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Research  

A weighted average difference method for detecting differentially expressed genes from microarray data

Koji Kadota, Yuji Nakai, Kentaro Shimizu Algorithms for Molecular Biology 2008, 3:8 (26 June 2008)

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Research article  

Exon and junction microarrays detect widespread mouse strain- and sex-bias expression differences

Wan-Lin Su, Barmak Modrek, Debraj GuhaThakurta, Stephen Edwards, Jyoti K Shah, Amit V Kulkarni, Archie Russell, Eric E Schadt, Jason M Johnson, John C Castle BMC Genomics 2008, 9:273 (4 June 2008)

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Method  

Quantitative methods for genome-scale analysis of in situ hybridization and correlation with microarray data

Chang-Kyu Lee, Susan M Sunkin, Chihchau Kuan, Carol L Thompson, Sayan Pathak, Lydia Ng, Chris Lau, Shanna Fischer, Marty Mortrud, Cliff Slaughterbeck, Allan Jones, Ed Lein, Michael Hawrylycz Genome Biology 2008, 9:R23 (30 January 2008)

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Methodology article  

Post hoc pattern matching: assigning significance to statistically defined expression patterns in single channel microarray data

Randall Hulshizer, Eric M Blalock BMC Bioinformatics 2007, 8:240 (5 July 2007)

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Research article  

Gene expression profiles in rat brain disclose CNS signature genes and regional patterns of functional specialisation

Christine Stansberg, Audun Vik-Mo, Rita Holdhus, Harald Breilid, Boleslaw Srebro, Kjell Petersen, Hugo A Jørgensen, Inge Jonassen, Vidar M Steen BMC Genomics 2007, 8:94 (4 April 2007)

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Research article  

Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data

Ian B Jeffery, Desmond G Higgins, Aedín C Culhane BMC Bioinformatics 2006, 7:359 (26 July 2006)

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Research article  

Gene expression profiling in the striatum of inbred mouse strains with distinct opioid-related phenotypes

Michal Korostynski, Dorota Kaminska-Chowaniec, Marcin Piechota, Ryszard Przewlocki BMC Genomics 2006, 7:146 (13 June 2006)

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Research article  

ROKU: a novel method for identification of tissue-specific genes

Koji Kadota, Jiazhen Ye, Yuji Nakai, Tohru Terada, Kentaro Shimizu BMC Bioinformatics 2006, 7:294 (12 June 2006)

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Database  

An online database for brain disease research

Brandon W Higgs, Michael Elashoff, Sam Richman, Beata Barci BMC Genomics 2006, 7:70 (4 April 2006)

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Methodology article  

Vector analysis as a fast and easy method to compare gene expression responses between different experimental backgrounds

Rainer Breitling, Patrick Armengaud, Anna Amtmann BMC Bioinformatics 2005, 6:181 (19 July 2005)

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Research article  

Gene expression variation between mouse inbred strains

Rolf Turk, Peter AC 't Hoen, Ellen Sterrenburg, Renée X de Menezes, Emile J de Meijer, Judith M Boer, Gert-Jan B van Ommen, Johan T den Dunnen BMC Genomics 2004, 5:57 (18 August 2004)

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Deposited research article  

Microarray data analysis: a practical approach for selecting differentially expressed genes

David M Mutch, Alvin Berger, Robert Mansourian, Andreas Rytz, Matthew-Alan Roberts Genome Biology 2001, 2:preprint0009-preprint0009.29 (16 November 2001)

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