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Volume 8 (2007) - January 2007

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Research article   Open Access

Spatial and sex-specific dissection of the Anopheles gambiae midgut transcriptome

Emma Warr, Ruth Aguilar, Yuemei Dong, Vassiliki Mahairaki, George Dimopoulos BMC Genomics 2007, 8:37 (29 January 2007)

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

Research article   Open Access

Transcription profiling of a recently colonised pyrethroid resistant Anopheles gambiae strain from Ghana

Pie Müller, Martin J Donnelly, Hilary Ranson BMC Genomics 2007, 8:36 (29 January 2007)

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

Research article   Open Access

The small FNR regulon of Neisseria gonorrhoeae: comparison with the larger Escherichia coli FNR regulon and interaction with the NarQ-NarP regulon

Rebekah N Whitehead, Tim W Overton, Lori AS Snyder, Simon J McGowan, Harry Smith, Jeff A Cole, Nigel J Saunders BMC Genomics 2007, 8:35 (29 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Mapping a Quantitative Trait Locus (QTL) conferring pyrethroid resistance in the African malaria vector Anopheles funestus

Charles S Wondji, John Morgan, Maureen Coetzee, Richard H Hunt, Keith Steen, William C Black, Janet Hemingway, Hilary Ranson BMC Genomics 2007, 8:34 (29 January 2007)

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

Database   Open Access

TICdb: a collection of gene-mapped translocation breakpoints in cancer

Francisco J Novo, Iñigo de Mendíbil, José L Vizmanos BMC Genomics 2007, 8:33 (26 January 2007)

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

Research article   Open Access

Novel expressed sequences identified in a model of androgen independent prostate cancer

Steven N Quayle, Heidi Hare, Allen D Delaney, Martin Hirst, Dorothy Hwang, Jacqueline E Schein, Steven JM Jones, Marco A Marra, Marianne D Sadar BMC Genomics 2007, 8:32 (26 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Analysis of 13000 unique Citrus clusters associated with fruit quality, production and salinity tolerance

Javier Terol, Ana Conesa, Jose M Colmenero, Manuel Cercos, Francisco Tadeo, Javier Agustí, Enriqueta Alós, Fernando Andres, Guillermo Soler, Javier Brumos, Domingo J Iglesias, Stefan Götz, Francisco Legaz, Xavier Argout, Brigitte Courtois, Patrick Ollitrault, Carole Dossat, Patrick Wincker, Raphael Morillon, Manuel Talon BMC Genomics 2007, 8:31 (25 January 2007)

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

Software   Open Access

GO-2D: identifying 2-dimensional cellular-localized functional modules in Gene Ontology

Jing Zhu, Jing Wang, Zheng Guo, Min Zhang, Da Yang, Yanhui Li, Dong Wang, Guohua Xiao BMC Genomics 2007, 8:30 (24 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Identification of rat lung-specific microRNAs by microRNA microarray: valuable discoveries for the facilitation of lung research

Yang Wang, Tingting Weng, Deming Gou, Zhongming Chen, Narendranath Chintagari, Lin Liu BMC Genomics 2007, 8:29 (24 January 2007)

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

Research article   Open Access

High-density rhesus macaque oligonucleotide microarray design using early-stage rhesus genome sequence information and human genome annotations

James C Wallace, Marcus J Korth, Bryan Paeper, Sean C Proll, Matthew J Thomas, Charles L Magness, Shawn P Iadonato, Charles Nelson, Michael G Katze BMC Genomics 2007, 8:28 (23 January 2007)

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

Research article   Open Access

Insight into transcription factor gene duplication from Caenorhabditis elegans Promoterome-driven expression patterns

John S Reece-Hoyes, Jane Shingles, Denis Dupuy, Christian A Grove, Albertha JM Walhout, Marc Vidal, Ian A Hope BMC Genomics 2007, 8:27 (23 January 2007)

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

Research article   Open Access Highly Accessed

Pathways and genes differentially expressed in the motor cortex of patients with sporadic amyotrophic lateral sclerosis

Carsten W Lederer, Antonietta Torrisi, Maria Pantelidou, Niovi Santama, Sebastiano Cavallaro BMC Genomics 2007, 8:26 (23 January 2007)

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

Identification of genes misregulated in the motor cortex of people with amyotrophic lateral sclerosis (ALS) has uncovered novel aspects of ALS pathology and points to using existing medication to rapidly develop new symptomatic therapies.

Research article   Open Access Highly Accessed

Exploiting combinatorial cultivation conditions to infer transcriptional regulation

Theo A Knijnenburg, Johannes H de Winde, Jean-Marc Daran, Pascale Daran-Lapujade, Jack T Pronk, Marcel JT Reinders, Lodewyk FA Wessels BMC Genomics 2007, 8:25 (22 January 2007)

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

Database   Open Access Highly Accessed

Mouse SNP Miner: an annotated database of mouse functional single nucleotide polymorphisms

Eli Reuveni, Vasily E Ramensky, Cornelius Gross BMC Genomics 2007, 8:24 (21 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Widespread Alu repeat-driven expansion of consensus DR2 retinoic acid response elements during primate evolution

David Laperriere, Tian-Tian Wang, John H White, Sylvie Mader BMC Genomics 2007, 8:23 (19 January 2007)

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

Research article   Open Access

Identification of candidate genes associated with cell wall digestibility and eQTL (expression quantitative trait loci) analysis in a Flint × Flint maize recombinant inbred line population

Chun Shi, Anna Uzarowska, Milena Ouzunova, Matthias Landbeck, Gerhard Wenzel, Thomas Lübberstedt BMC Genomics 2007, 8:22 (18 January 2007)

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

Database   Open Access

EDGEdb: a transcription factor-DNA Interaction database for the analysis of C. elegans differential gene expression

M Inmaculada Barrasa, Philippe Vaglio, Fabien Cavasino, Laurent Jacotot, Albertha JM Walhout BMC Genomics 2007, 8:21 (18 January 2007)

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

Research article   Open Access

Conserved alternative and antisense transcripts at the programmed cell death 2 locus

Ondrej Mihola, Jiri Forejt, Zdenek Trachtulec BMC Genomics 2007, 8:20 (18 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access

The dystrotelin, dystrophin and dystrobrevin superfamily: new paralogues and old isoforms

Hong Jin, Sipin Tan, Jane Hermanowski, Sabrina Böhm, Sabrina Pacheco, Joanna M McCauley, Marc J Greener, Yaniv Hinits, Simon M Hughes, Paul T Sharpe, Roland G Roberts BMC Genomics 2007, 8:19 (17 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Experimental validation of novel genes predicted in the un-annotated regions of the Arabidopsis genome

William A Moskal, Hank C Wu, Beverly A Underwood, Wei Wang, Christopher D Town, Yongli Xiao BMC Genomics 2007, 8:18 (17 January 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | 1 comment

Research article   Open Access

Normalization of low-density microarray using external spike-in controls: analysis of macrophage cell lines expression profile

Paolo Fardin, Stefano Moretti, Barbara Biasotti, Annamaria Ricciardi, Stefano Bonassi, Luigi Varesio BMC Genomics 2007, 8:17 (17 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Comprehensive genetic and epigenetic analysis of sporadic meningioma for macro-mutations on 22q and micro-mutations within the NF2 locus

Caisa M Hansson, Patrick G Buckley, Giedre Grigelioniene, Arkadiusz Piotrowski, Anders R Hellström, Kiran Mantripragada, Caroline Jarbo, Tiit Mathiesen, Jan P Dumanski BMC Genomics 2007, 8:16 (12 January 2007)

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

Research article   Open Access

Phylogenetic distribution of translational GTPases in bacteria

Tõnu Margus, Maido Remm, Tanel Tenson BMC Genomics 2007, 8:15 (10 January 2007)

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

Research article   Open Access

Inter-population variability of DEFA3 gene absence: correlation with haplotype structure and population variability

Ester Ballana, Juan González, Nina Bosch, Xavier Estivill BMC Genomics 2007, 8:14 (10 January 2007)

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

Research article   Open Access Highly Accessed

Identification of putative cis-regulatory elements in Cryptosporidium parvum by de novo pattern finding

Nandita Mullapudi, Cheryl A Lancto, Mitchell S Abrahamsen, Jessica C Kissinger BMC Genomics 2007, 8:13 (9 January 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | F1000 Biology |  Editor’s summary

In the intracellular parasite Cryptosporidium parvum, an AIDS-related pathogen, functionally related genes are co-expressed during the life cycle of the parasite and appear to be co-regulated by conserved upstream motifs.

Research article   Open Access

A multi-treatment experimental system to examine photosynthetic differentiation in the maize leaf

Ruairidh JH Sawers, Peng Liu, Katya Anufrikova, JT Gene Hwang, Thomas P Brutnell BMC Genomics 2007, 8:12 (9 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Large-scale mapping of mutations affecting zebrafish development

Robert Geisler, Gerd-Jörg Rauch, Silke Geiger-Rudolph, Andrea Albrecht, Frauke van Bebber, Andrea Berger, Elisabeth Busch-Nentwich, Ralf Dahm, Marcus PS Dekens, Christopher Dooley, Alexandra F Elli, Ines Gehring, Horst Geiger, Maria Geisler, Stefanie Glaser, Scott Holley, Matthias Huber, Andy Kerr, Anette Kirn, Martina Knirsch, Martina Konantz, Axel M Küchler, Florian Maderspacher, Stephan C Neuhauss, Teresa Nicolson, Elke A Ober, Elke Praeg, Russell Ray, Brit Rentzsch, Jens M Rick et al. BMC Genomics 2007, 8:11 (9 January 2007)

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

Methodology article   Open Access

TAMGeS: a Three-Array Method for Genotyping of SNPs by a dual-colour approach

Arianna Cozza, Francesco Morandin, Silvia Galfrè, Veronica Mariotti, Roberto Marangoni, Silvia Pellegrini BMC Genomics 2007, 8:10 (9 January 2007)

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

Database   Open Access

Ashbya Genome Database 3.0: a cross-species genome and transcriptome browser for yeast biologists

Alexandre Gattiker, Riccarda Rischatsch, Philippe Demougin, Sylvia Voegeli, Fred S Dietrich, Peter Philippsen, Michael Primig BMC Genomics 2007, 8:9 (9 January 2007)

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

Research article   Open Access

A sequence based synteny map between soybean and Arabidopsis thaliana

Jeffry L Shultz, Jeffery D Ray, David A Lightfoot BMC Genomics 2007, 8:8 (8 January 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | F1000 Biology

Research article   Open Access

Growth of the protozoan parasite Entamoeba histolytica in 5-azacytidine has limited effects on parasite gene expression

Ibne Ali, Gretchen M Ehrenkaufer, Jason A Hackney, Upinder Singh BMC Genomics 2007, 8:7 (5 January 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central | F1000

Research article   Open Access Highly Accessed

An annotated catalogue of salivary gland transcripts in the adult female mosquito, Ædes ægypti*

José MC Ribeiro, Bruno Arcà, Fabrizio Lombardo, Eric Calvo, Van My Phan, Prafulla K Chandra, Stephen K Wikel BMC Genomics 2007, 8:6 (4 January 2007)

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

Research article   Open Access

Identification and analysis of Single Nucleotide Polymorphisms (SNPs) in the mosquito Anopheles funestus, malaria vector

Charles S Wondji, Janet Hemingway, Hilary Ranson BMC Genomics 2007, 8:5 (4 January 2007)

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

Research article   Open Access

The alternative sigma factor SigB of Corynebacterium glutamicum modulates global gene expression during transition from exponential growth to stationary phase

Christof Larisch, Diana Nakunst, Andrea T Hüser, Andreas Tauch, Jörn Kalinowski BMC Genomics 2007, 8:4 (4 January 2007)

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

Research article   Open Access

Yeast genomic expression patterns in response to low-shear modeled microgravity

Kathy B Sheehan, Kate McInnerney, Boloroo Purevdorj-Gage, Sara D Altenburg, Linda E Hyman BMC Genomics 2007, 8:3 (3 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access

In silico whole-genome screening for cancer-related single-nucleotide polymorphisms located in human mRNA untranslated regions

Abdel Aouacheria, Vincent Navratil, Ricardo López-Pérez, Norma C Gutiérrez, Alexander Churkin, Danny Barash, Dominique Mouchiroud, Christian Gautier BMC Genomics 2007, 8:2 (3 January 2007)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Comparative genomic analysis of prion genes

Marko Premzl, Vera Gamulin BMC Genomics 2007, 8:1 (2 January 2007)

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


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