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Editor-in-Chief
Melissa Norton, MD Biology Editor
Penelope Webb, PhD In-house Editor
Matthew Kaiser PhD
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Volume 9 Suppl 2
Research
Boston, MA, USA. 14 17 October 2007
Volume 9 Suppl 1
Research
Las Vegas, NV, USA. 25-28 June 2007
more supplements 
Database
 
OxyGene: an innovative platform for investigating oxidative-response genes in whole prokaryotic genomes
David Thybert, St phane Avner, Cline Lucchetti-Miganeh, Anglique Chron, Frdrique Barloy-Hubler
BMC Genomics 2008, 9:637 (31December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Software
OpenADAM: an open source genome-wide association data management system for Affymetrix SNP arrays
J MY Yeung, P C Sham, A SW Chan, S S Cherny
BMC Genomics 2008, 9:636 (31December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Mismatch oligonucleotides in human and yeast: guidelines for probe design on tiling microarrays
Michael Seringhaus, Joel Rozowsky, Thomas Royce, Ugrappa Nagalakshmi, Justin Jee, Michael Snyder, Mark Gerstein
BMC Genomics 2008, 9:635 (31December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Biomphalaria glabrata transcriptome: cDNA microarray profiling identifies resistant- and susceptible-specific gene expression in haemocytes from snail strains exposed to Schistosoma mansoni
Anne E Lockyer, Jenny Spinks, Richard A Kane, Karl F Hoffmann, Jennifer M Fitzpatrick, David Rollinson, Leslie R Noble, Catherine S Jones
BMC Genomics 2008, 9:634 (29December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
A comprehensive collection of experimentally validated primers for Polymerase Chain Reaction quantitation of murine transcript abundance
Athanasia Spandidos, Xiaowei Wang, Huajun Wang, Stefan Dragnev, Tara Thurber, Brian Seed
BMC Genomics 2008, 9:633 (24December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
The GC-heterogeneity of teleost fishes
Christelle Melodelima, Christian Gautier
BMC Genomics 2008, 9:632 (24December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
A first generation whole genome RH map of the river buffalo with comparison to domestic cattle
M Elisabete J Amaral, Jason R Grant, Penny K Riggs, Nedenia B Stafuzza, Edson A Rodrigues Filho, Tom Goldammer, Rosemarie Weikard, Ronald M Brunner, Kelli J Kochan, Anthony J Greco, Jooha Jeong, Zhipeng Cai, Guohui Lin, Aparna Prasad, Satish Kumar, G Pardha Saradhi, Boby Mathew, M Aravind Kumar, Melissa N Miziara, Paola Mariani, Alexandre R Caetano, Stephan R Galv o, Madhu S Tantia, Ramesh K Vijh, Bina Mishra, ST Bharani Kumar, Vanderlei A Pelai, Andre M Santana, Larissa C Fornitano, Brittany C Jones, Humberto Tonhati, Stephen Moore, Paul Stothard, James E Womack
BMC Genomics 2008, 9:631 (24December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Meta-analysis of expression signatures of muscle atrophy: gene interaction networks in early and late stages
Enrica Calura, Stefano Cagnin, Anna Raffaello, Paolo Laveder, Gerolamo Lanfranchi, Chiara Romualdi
BMC Genomics 2008, 9:630 (23December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
An evolutionary and structural characterization of mammalian protein complex organization
Philip Wong, Sonja Althammer, Andrea Hildebrand, Andreas Kirschner, Philipp Pagel, Bernd Geissler, Pawel Smialowski, Florian Bl chl, Matthias Oesterheld, Thorsten Schmidt, Normann Strack, Fabian J Theis, Andreas Ruepp, Dmitrij Frishman
BMC Genomics 2008, 9:629 (23December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Human and mouse switch-like genes share common transcriptional regulatory mechanisms for bimodality
Adam Ertel, Aydin Tozeren
BMC Genomics 2008, 9:628 (23December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Comparison of the transcriptomic "stress response" evoked by antimycin A and oxygen deprivation in saccharomyces cerevisiae
Liang-Chuan Lai, Matthew T Kissinger, Patricia V Burke, Kurt E Kwast
BMC Genomics 2008, 9:627 (23December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Sequence divergence of Mus spretus and Mus musculus across a skin cancer susceptibility locus
Kimberly L Mahler, Jessica L Fleming, Amy M Dworkin, Nicholas Gladman, Hee-Yeon Cho, Jian-Hua Mao, Allan Balmain, Amanda Ewart Toland
BMC Genomics 2008, 9:626 (23December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Comparative kinomics of human and chimpanzee reveal unique kinship and functional diversity generated by new domain combinations
Krishanpal Anamika, Juliette Martin, Narayanaswamy Srinivasan
BMC Genomics 2008, 9:625 (23December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Microarray-based approach identifies microRNAs and their target functional patterns in polycystic kidney disease
Priyanka Pandey, Benedikt Brors, Prashant K Srivastava, Andrea Bott, Susanne NE Boehn, Herrmann-Josef Groene, Norbert Gretz
BMC Genomics 2008, 9:624 (23December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Conservation and implications of eukaryote transcriptional regulatory regions across multiple species
Lin Wan, Dayong Li, Donglei Zhang, Xue Liu, Wenjiang J Fu, Lihuang Zhu, Minghua Deng, Fengzhu Sun, Minping Qian
BMC Genomics 2008, 9:623 (20December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Database
DDESC: Dragon database for exploration of sodium channels in human
Sunil Sagar, Mandeep Kaur, Adam Dawe, Sundararajan Vijayaraghava Seshadri, Alan Christoffels, Ulf Schaefer, Aleksandar Radovanovic, Vladimir B Bajic
BMC Genomics 2008, 9:622 (20December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains
William Nelson, Meizhong Luo, Jianxin Ma, Matt Estep, James Estill, Ruifeng He, Jayson Talag, Nicholas Sisneros, David Kudrna, HyeRan Kim, Jetty SS Ammiraju, Kristi Collura, Arvind K Bharti, Joachim Messing, Rod A Wing, Phillip SanMiguel, Jeffrey L Bennetzen, Carol Soderlund
BMC Genomics 2008, 9:621 (19December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Use of genome sequence data in the design and testing of SSR markers for Phytophthora species
Leonardo Schena, Linda Cardle, David EL Cooke
BMC Genomics 2008, 9:620 (19December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Transgenic increases in seed oil content are associated with the differential expression of novel Brassica-specific transcripts
Nirmala Sharma, Maureen Anderson, Arvind Kumar, Yan Zhang, E Michael Giblin, Suzanne R Abrams, L Irina Zaharia, David C Taylor, Pierre R Fobert
BMC Genomics 2008, 9:619 (19December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Isolation and characterization of microsatellite markers from the olive fly, Bactrocera oleae, and their cross-species amplification in the Tephritidae family
Antonios A Augustinos, Elias E Stratikopoulos, Eleni Drosopoulou, Evdoxia G Kakani, Penelope Mavragani-Tsipidou, Antigone Zacharopoulou, Kostas D Mathiopoulos
BMC Genomics 2008, 9:618 (19December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Phylogenetic distribution and membrane topology of the LytR-CpsA-Psr protein family
Judith H bscher, Lucas Lthy, Brigitte Berger-B chi, Patricia Stutzmann Meier
BMC Genomics 2008, 9:617 (19December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay
Erik Hjerde, Marit Sjo Lorentzen, Matthew TG Holden, Kathy Seeger, Steinar Paulsen, Nathalie Bason, Carol Churcher, David Harris, Halina Norbertczak, Michael A Quail, Suzanne Sanders, Scott Thurston, Julian Parkhill, Nils Peder Willassen, Nicholas R Thomson
BMC Genomics 2008, 9:616 (19December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Genomic sequence and activity of KS10, a transposable phage of the Burkholderia cepacia complex
Amanda D Goudie, Karlene H Lynch, Kimberley D Seed, Paul Stothard, Savita Shrivastava, David S Wishart, Jonathan J Dennis
BMC Genomics 2008, 9:615 (18December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Software
Automated paleontology of repetitive DNA with REANNOTATE
Vini Pereira
BMC Genomics 2008, 9:614 (18December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
G-spots cause incorrect expression measurement in Affymetrix microarrays
Graham JG Upton, William B Langdon, Andrew P Harrison
BMC Genomics 2008, 9:613 (18December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites
Robert Kofler, Christian Schltterer, Evita Luschtzky, Tamas Lelley
BMC Genomics 2008, 9:612 (17December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Transcriptome profiling of the feeding-to-fasting transition in chicken liver
Colette Dsert, Michel J Duclos, Pierre Blavy, Frdric Lecerf, Fran ois Moreews, Christophe Klopp, Marc Aubry, Frdric Herault, Pascale Le Roy, Ccile Berri, Madeleine Douaire, Christian Diot, Sandrine Lagarrigue
BMC Genomics 2008, 9:611 (17December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Comparative and phylogenomic studies on the mitochondrial genomes of Pentatomomorpha (Insecta: Hemiptera: Heteroptera)
Jimeng Hua, Ming Li, Pengzhi Dong, Ying Cui, Qiang Xie, Wenjun Bu
BMC Genomics 2008, 9:610 (17December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Buffering by gene duplicates: an analysis of molecular correlates and evolutionary conservation
Kevin Hannay, Edward M Marcotte, Christine Vogel
BMC Genomics 2008, 9:609 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Lipopolysaccharide (LPS) potentiates hydrogen peroxide toxicity in T98G astrocytoma cells by suppression of anti-oxidative and growth factor gene expression
Gang Yue, Guanfang Shi, Marco A Azaro, Qifeng Yang, Guohong Hu, Minjie Luo, Kingsley Yin, Robert G Nagele, Daniel H Fine, Jin-Ming Yang, Honghua Li
BMC Genomics 2008, 9:608 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Global transcriptional profiling reveals Streptococcus agalactiae genes controlled by the MtaR transcription factor
Joshua D Bryan, Roxanne Liles, Urska Cvek, Marjan Trutschl, Daniel Shelver
BMC Genomics 2008, 9:607 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Differential RelA- and RelB-dependent gene transcription in LT R-stimulated mouse embryonic fibroblasts
Agnes Lovas, Drte Radke, Daniela Albrecht, Z Buket Yilmaz, Ulrich Mller, Andreas JR Habenicht, Falk Weih
BMC Genomics 2008, 9:606 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Microarray-based estimation of SNP allele-frequency in pooled DNA using the Langmuir kinetic model
Bin-Cheng Yin, Honghua Li, Bang-Ce Ye
BMC Genomics 2008, 9:605 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Acidic pH shock induces the expressions of a wide range of stress-response genes
Yoon Jung Kim, Myung Hee Moon, Jae Yang Song, Colin P Smith, Soon-Kwang Hong, Yong Keun Chang
BMC Genomics 2008, 9:604 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
High quality draft sequences for prokaryotic genomes using a mix of new sequencing technologies
Jean-Marc Aury, Corinne Cruaud, Valrie Barbe, Odile Rogier, Sophie Mangenot, Gaelle Samson, Julie Poulain, Vronique Anthouard, Claude Scarpelli, Franois Artiguenave, Patrick Wincker
BMC Genomics 2008, 9:603 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Correction
Genome-wide subcellular localization of putative outer membrane and extracellular proteins in Leptospira interrogansserovar Lai genome using bioinformatics approaches
Wasna Viratyosin, Supawadee Ingsriswang, Eakasit Pacharawongsakda, Prasit Palittapongarnpim
BMC Genomics 2008, 9:602 (16December2008)
[Abstract] [Full text] [PDF]
Research article
Combinatorial control of gene expression by the three yeast repressors Mig1, Mig2 and Mig3
Jakub Orzechowski Westholm, Niklas Nordberg, Eva Murn, Adam Ameur, Jan Komorowski, Hans Ronne
BMC Genomics 2008, 9:601 (16December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Biosynthesis of storage compounds by Rhodococcus jostii RHA1 and global identification of genes involved in their metabolism
Mart n A Hern ndez, William W Mohn, Eliana Martnez, Enrique Rost, Adrin F Alvarez, Hctor M Alvarez
BMC Genomics 2008, 9:600 (12December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
LRRCE: a leucine-rich repeat cysteine capping motif unique to the chordate lineage
Hosil Park, Julie Huxley-Jones, Ray P Boot-Handford, Paul N Bishop, Teresa K Attwood, Jordi Bella
BMC Genomics 2008, 9:599 (12December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Evaluating genome-wide DNA methylation changes in mice by Methylation Specific Digital Karyotyping
Kathy Boon, John K Tomfohr, Nathaniel W Bailey, Stavros Garantziotis, Zhuowei Li, David M Brass, Shuichiro Maruoka, John W Hollingsworth, David A Schwartz
BMC Genomics 2008, 9:598 (11December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Acidithiobacillus ferrooxidans metabolism: from genome sequence to industrial applications
Jorge Valds, Inti Pedroso, Raquel Quatrini, Robert J Dodson, Herve Tettelin, Robert Blake II, Jonathan A Eisen, David S Holmes
BMC Genomics 2008, 9:597 (11December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Mononucleotide repeats are asymmetrically distributed in fungal genes
Mark WJ van Passel, Leo H de Graaff
BMC Genomics 2008, 9:596 (11December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Genome wide survey, discovery and evolution of repetitive elements in three Entamoeba species
Hernan Lorenzi, Mathangi Thiagarajan, Brian Haas, Jennifer Wortman, Neil Hall, Elisabet Caler
BMC Genomics 2008, 9:595 (10December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Insights into the genome sequence of a free-living Kinetoplastid: Bodo saltans (Kinetoplastida: Euglenozoa)
Andrew P Jackson, Michael A Quail, Matthew Berriman
BMC Genomics 2008, 9:594 (9December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
High-throughput sequencing of Medicago truncatula short RNAs identifies eight new miRNA families
Gyorgy Szittya, Simon Moxon, Dulce M Santos, Runchun Jing, Manuel PS Fevereiro, Vincent Moulton, Tamas Dalmay
BMC Genomics 2008, 9:593 (9December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
EST analysis of male accessory glands from Heliconius butterflies with divergent mating systems
James R Walters, Richard G Harrison
BMC Genomics 2008, 9:592 (8December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Transcriptome analysis of mammary epithelial subpopulations identifies novel determinants of lineage commitment and cell fate
Howard Kendrick, Joseph L Regan, Fiona-Ann Magnay, Anita Grigoriadis, Costas Mitsopoulos, Marketa Zvelebil, Matthew J Smalley
BMC Genomics 2008, 9:591 (8December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Transcriptional activity around bacterial cell death reveals molecular biomarkers for cell viability
Remco Kort, Bart J Keijser, Martien PM Caspers, Frank H Schuren, Roy Montijn
BMC Genomics 2008, 9:590 (6December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
A cross-species transcriptomics approach to identify genes involved in leaf development
Nathaniel Robert Street, Andreas Sjdin, Max Bylesj, Petter Gustafsson, Johan Trygg, Stefan Jansson
BMC Genomics 2008, 9:589 (5December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Overcoming function annotation errors in the Gram-positive pathogen Streptococcus suis by a proteomics-driven approach
Manuel J Rodrguez-Ortega, Inmaculada Luque, Carmen Tarradas, Jos A Brcena
BMC Genomics 2008, 9:588 (5December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Macronuclear genome structure of the ciliate Nyctotherus ovalis: Single-gene chromosomes and tiny introns
Gunola Ricard, Rob M de Graaf, Bas E Dutilh, I Duarte, Theo A van Alen, Angela HAM van Hoek, Brigitte Boxma, Georg WM van der Staay, Seung Yeo Moon-van der Staay, Wei-Jen Chang, Laura F Landweber, Johannes HP Hackstein, Martijn A Huynen
BMC Genomics 2008, 9:587 (5December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Database
SNUGB: a versatile genome browser supporting comparative and functional fungal genomics
Kyongyong Jung, Jongsun Park, Jaeyoung Choi, Bongsoo Park, Seungill Kim, Kyohun Ahn, Jaehyuk Choi, Doil Choi, Seogchan Kang, Yong-Hwan Lee
BMC Genomics 2008, 9:586 (4December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Comparative genomics of vesicomyid clam (Bivalvia: Mollusca) chemosynthetic symbionts
Irene LG Newton, Peter R Girguis, Colleen M Cavanaugh
BMC Genomics 2008, 9:585 (4December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Optimised padlock probe ligation and microarray detection of multiple (non-authorised) GMOs in a single reaction
Theo W Prins, Jeroen P van Dijk, Henriek G Beenen, AM Angeline Van Hoef, Marleen M Voorhuijzen, Cor D Schoen, Henk JM Aarts, Esther J Kok
BMC Genomics 2008, 9:584 (4December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Chemical-genetic profile analysis in yeast suggests that a previously uncharacterized open reading frame, YBR261C, affects protein synthesis
Md Alamgir, Veronika Eroukova, Matthew Jessulat, Jianhua Xu, Ashkan Golshani
BMC Genomics 2008, 9:583 (3December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Properties of non-coding DNA and identification of putative cis-regulatory elements in Theileria parva
Xiang Guo, Joana C Silva
BMC Genomics 2008, 9:582 (3December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Comparative genomic analysis of carbon and nitrogen assimilation mechanisms in three indigenous bioleaching bacteria: predictions and validations
Gloria Levicn, Juan A Ugalde, Nicole Ehrenfeld, Alejandro Maass, Pilar Parada
BMC Genomics 2008, 9:581 (3December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Development and validation of a gene expression oligo microarray for the gilthead sea bream (Sparus aurata)
Serena Ferraresso, Nicola Vitulo, Alba N Mininni, Chiara Romualdi, Barbara Cardazzo, Enrico Negrisolo, Richard Reinhardt, Adelino VM Canario, Tomaso Patarnello, Luca Bargelloni
BMC Genomics 2008, 9:580 (3December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
MFS transportome of the human pathogenic yeast Candida albicans
Manisha Gaur, Nidhi Puri, Raman Manoharlal, Versha Rai, Gauranga Mukhopadhayay, Devapriya Choudhury, Rajendra Prasad
BMC Genomics 2008, 9:579 (3December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
A toolbox for epitope-tagging and genome-wide location analysis in Candida albicans
Hugo Lavoie, Adnane Sellam, Christopher Askew, Andr Nantel, Malcolm Whiteway
BMC Genomics 2008, 9:578 (2December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Resequencing microarray probe design for typing genetically diverse viruses: human rhinoviruses and enteroviruses
Zheng Wang, Anthony P Malanoski, Baochuan Lin, Carolyn Kidd, Nina C Long, Kate M Blaney, Dzung C Thach, Clark Tibbetts, David A Stenger
BMC Genomics 2008, 9:577 (1December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Use of pyrosequencing and DNA barcodes to monitor variations in Firmicutes and Bacteroidetes communities in the gut microbiota of obese humans
Fabrice Armougom, Didier Raoult
BMC Genomics 2008, 9:576 (1December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Differential expression profiling of components associated with exoskeletal hardening in crustaceans
Anna V Kuballa, Abigail Elizur
BMC Genomics 2008, 9:575 (1December2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Absolute quantification of the budding yeast transcriptome by means of competitive PCR between genomic and complementary DNAs
Fumihito Miura, Noriko Kawaguchi, Mikio Yoshida, Chihiro Uematsu, Keiji Kito, Yoshiyuki Sakaki, Takashi Ito
BMC Genomics 2008, 9:574 (29November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Software
ProSeeK: A web server for MLPA probe design
Lorena Pantano, Llus Armengol, Sergi Villatoro, Xavier Estivill
BMC Genomics 2008, 9:573 (28November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [1 comment]
Research article
A novel custom high density-comparative genomic hybridization array detects common rearrangements as well as deep intronic mutations in dystrophinopathies
Matteo Bovolenta, Marcella Neri, Sergio Fini, Marina Fabris, Cecilia Trabanelli, Anna Venturoli, Elena Martoni, Elena Bassi, Pietro Spitali, Simona Brioschi, Maria S Falzarano, Paola Rimessi, Roberto Ciccone, Emma Ashton, Joanne McCauley, Shu Yau, Stephen Abbs, Francesco Muntoni, Luciano Merlini, Francesca Gualandi, Alessandra Ferlini
BMC Genomics 2008, 9:572 (28November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Dissecting an alternative splicing analysis workflow for GeneChip Exon 1.0 ST Affymetrix arrays
Cristina Della Beffa, Francesca Cordero, Raffaele A Calogero
BMC Genomics 2008, 9:571 (28November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Genome plasticity of Vibrio parahaemolyticus: microevolution of the 'pandemic group'
Haihong Han, Hin-chung Wong, Biao Kan, Zhaobiao Guo, Xiaotao Zeng, Shengjun Yin, Xiumei Liu, Ruifu Yang, Dongsheng Zhou
BMC Genomics 2008, 9:570 (28November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Evolution of the mitochondrial genome in snakes: Gene rearrangements and phylogenetic relationships
Jie Yan, Hongdan Li, Kaiya Zhou
BMC Genomics 2008, 9:569 (28November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Genome-wide transcriptional response of an avian pathogenic Escherichia coli (APEC) pst mutant
Sbastien Crpin, Martin G Lamarche, Philippe Garneau, Julie Sguin, Julie Proulx, Charles M Dozois, Jose Harel
BMC Genomics 2008, 9:568 (28November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Recent CR1 non-LTR retrotransposon activity in coscoroba reveals an insertion site preference
Judy St John, Thomas W Quinn
BMC Genomics 2008, 9:567 (27November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Genomic islands from five strains of Burkholderia pseudomallei
Apichai Tuanyok, Benjamin R Leadem, Raymond K Auerbach, Stephen M Beckstrom-Sternberg, James S Beckstrom-Sternberg, Mark Mayo, Vanaporn Wuthiekanun, Thomas S Brettin, William C Nierman, Sharon J Peacock, Bart J Currie, David M Wagner, Paul Keim
BMC Genomics 2008, 9:566 (27November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
LTR retrotransposons reveal recent extensive inter-subspecies nonreciprocal recombination in Asian cultivated rice
Hao Wang, Zhao Xu, Hongjie Yu
BMC Genomics 2008, 9:565 (27November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Annotation of mammalian primary microRNAs
Harpreet K Saini, Anton J Enright, Sam Griffiths-Jones
BMC Genomics 2008, 9:564 (27November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
The UDP-glucosyltransferase multigene family in Bombyx mori
Fei-Fei Huang, Chun-Li Chai, Ze Zhang, Zeng-Hu Liu, Fang-Yin Dai, Cheng Lu, Zhong-Huai Xiang
BMC Genomics 2008, 9:563 (27November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Refined annotation and assembly of the Tetrahymena thermophila genome sequence through EST analysis, comparative genomic hybridization, and targeted gap closure
Robert S Coyne, Mathangi Thiagarajan, Kristie M Jones, Jennifer R Wortman, Luke J Tallon, Brian J Haas, Donna M Cassidy-Hanley, Emily A Wiley, Joshua J Smith, Kathleen Collins, Suzanne R Lee, Mary T Couvillion, Yifan Liu, Jyoti Garg, Ronald E Pearlman, Eileen P Hamilton, Eduardo Orias, Jonathan A Eisen, Barbara A Meth
BMC Genomics 2008, 9:562 (26November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Database
PlantPAN: Plant promoter analysis navigator, for identifying combinatorial cis-regulatory elements with distance constraint in plant gene groups
Wen-Chi Chang, Tzong-Yi Lee, Hsien-Da Huang, His-Yuan Huang, Rong-Long Pan
BMC Genomics 2008, 9:561 (26November2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Phylogenetic and genomic diversity of human bacteremic Escherichia coli strains
Franoise 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 (26November2008)
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Differential replication dynamics for large and small Vibrio chromosomes affect gene dosage, expression and location
Rikard Dryselius, Kaori Izutsu, Takeshi Honda, Tetsuya Iida
BMC Genomics 2008, 9:559 (26November2008)
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Evolutionary origin and genomic organisation of runt-domain containing genes in arthropods
Elizabeth J Duncan, Megan J Wilson, James M Smith, Peter K Dearden
BMC Genomics 2008, 9:558 (25November2008)
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Distribution of ancestral proto-Actinopterygian chromosome arms within the genomes of 4R-derivative salmonid fishes (Rainbow trout and Atlantic salmon)
Roy G Danzmann, Evelyn A Davidson, Moira M Ferguson, Karim Gharbi, Ben F Koop, Bjorn Hoyheim, Sigbjorn Lien, Krzysztof P Lubieniecki, Hooman K Moghadam, Jay Park, Ruth B Phillips, William S Davidson
BMC Genomics 2008, 9:557 (25November2008)
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Uncovering rate variation of lateral gene transfer during bacterial genome evolution
Weilong Hao, G Brian Golding
BMC Genomics 2008, 9:556 (25November2008)
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Research article
New insights into the origin of the B genome of hexaploid wheat: Evolutionary relationships at the SPA genomic region with the S genome of the diploid relative Aegilops speltoides
Jrome Salse, Vronique Chagu, Stphanie Bolot, Ghislaine Magdelenat, Ccile Huneau, Caroline Pont, Harry Belcram, Arnaud Couloux, Soazic Gardais, Aurlie Evrard, Batrice Segurens, Mathieu Charles, Catherine Ravel, Sylvie Samain, Gilles Charmet, Nathalie Boudet, Boulos Chalhoub
BMC Genomics 2008, 9:555 (25November2008)
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A genome-wide Asian genetic map and ethnic comparison: The GENDISCAN study
Young Seok Ju, Hansoo Park, Mi Kyeong Lee, Jong-Il Kim, Joohon Sung, Sung-Il Cho, Jeong-Sun Seo
BMC Genomics 2008, 9:554 (25November2008)
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SuperSAGE: the drought stress-responsive transcriptome of chickpea roots
Carlos Molina, Bjrn Rotter, Ralf Horres, Sripada M Udupa, Bert Besser, Luis Bellarmino, Michael Baum, Hideo Matsumura, Ryohei Terauchi, Gnter Kahl, Peter Winter
BMC Genomics 2008, 9:553 (24November2008)
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Exploring the mialome of ticks: an annotated catalogue of midgut transcripts from the hard tick, Dermacentor variabilis (Acari: Ixodidae)
Jennifer M Anderson, Daniel E Sonenshine, Jesus G Valenzuela
BMC Genomics 2008, 9:552 (20November2008)
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Prediction of alternatively skipped exons and splicing enhancers from exon junction arrays
Katerina Kechris, Yee Hwa Yang, Ru-Fang Yeh
BMC Genomics 2008, 9:551 (20November2008)
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Genome-wide and expression analysis of protein phosphatase 2C in rice and Arabidopsis
Tongtong Xue, Dong Wang, Shizhong Zhang, Juergen Ehlting, Fei Ni, Stephen Jakab, Chengchao Zheng, Yuan Zhong
BMC Genomics 2008, 9:550 (20November2008)
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Genome-wide survey of prokaryotic serine proteases: Analysis of distribution and domain architectures of five serine protease families in prokaryotes
Lokesh P Tripathi, R Sowdhamini
BMC Genomics 2008, 9:549 (19November2008)
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A genome survey of Moniliophthora perniciosa gives new insights into Witches' Broom Disease of cacao
Jorge MC Mondego, Marcelo F Carazzolle, Gustavo GL Costa, Eduardo F Formighieri, Lucas P Parizzi, Johana Rincones, Carolina Cotomacci, Dirce M Carraro, Anderson F Cunha, Helaine Carrer, Ramon O Vidal, Rassa C Estrela, Odalys Garca, Daniela PT Thomazella, Bruno V de Oliveira, Acssia BL Pires, Maria Carolina S Rio, Marcos Renato R Ara jo, Marcos H de Moraes, Luis AB Castro, Karina P Gramacho, Marilda S Gonalves, Jos P Moura Neto, Arist teles Ges Neto, Luciana V Barbosa, Mark J Guiltinan, Bryan A Bailey, Lyndel W Meinhardt, Julio CM Cascardo, Gonalo AG Pereira
BMC Genomics 2008, 9:548 (18November2008)
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Architecture of thermal adaptation in an Exiguobacterium sibiricum strain isolated from 3 million year old permafrost: A genome and transcriptome approach
Debora F Rodrigues, Natalia Ivanova, Zhili He, Marianne Huebner, Jizhong Zhou, James M Tiedje
BMC Genomics 2008, 9:547 (18November2008)
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Transcriptional response of rat frontal cortex following acute In Vivo exposure to the pyrethroid insecticides permethrin and deltamethrin
Joshua A Harrill, Zhen Li, Fred A Wright, Nicholas M Radio, William R Mundy, Rogelio Tornero-Velez, Kevin M Crofton
BMC Genomics 2008, 9:546 (18November2008)
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A salmonid EST genomic study: genes, duplications, phylogeny and microarrays
Ben F Koop, Kristian R von Schalburg, Jong Leong, Neil Walker, Ryan Lieph, Glenn A Cooper, Adrienne Robb, Marianne Beetz-Sargent, Robert A Holt, Richard Moore, Sonal Brahmbhatt, Jamie Rosner, Caird E Rexroad III, Colin R McGowan, William S Davidson
BMC Genomics 2008, 9:545 (17November2008)
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Application of dissociation curve analysis to radiation hybrid panel marker scoring: generation of a map of river buffalo (B. bubalis) chromosome 20
Kelli J Kochan, M Elisabete J Amaral, Richa Agarwala, Alejandro A Schffer, Penny K Riggs
BMC Genomics 2008, 9:544 (17November2008)
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Genomic characterization of putative allergen genes in peach/almond and their synteny with apple
Lin Chen, Shuiming Zhang, Eudald Illa, Lijuan Song, Shandong Wu, Werner Howad, Pere Ars, Eric van de Weg, Kunsong Chen, Zhongshan Gao
BMC Genomics 2008, 9:543 (17November2008)
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Analysis of the Pythium ultimum transcriptome using Sanger and Pyrosequencing approaches
Foo Cheung, Joe Win, Jillian M Lang, John Hamilton, Hue Vuong, Jan E Leach, Sophien Kamoun, C Andr Lvesque, Ned Tisserat, C Robin Buell
BMC Genomics 2008, 9:542 (15November2008)
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A new strategy for faster urinary biomarkers identification by Nano-LC-MALDI-TOF/TOF mass spectrometry
K Benkali, P Marquet, JP Rrolle, Y Le Meur, LN Gastinel
BMC Genomics 2008, 9:541 (14November2008)
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Microarray analysis identifies candidate genes for key roles in coral development
Lauretta C Grasso, John Maindonald, Stephen Rudd, David C Hayward, Robert Saint, David J Miller, Eldon E Ball
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Short-term genome evolution of Listeria monocytogenes in a non-controlled environment
Renato H Orsi, Mark L Borowsky, Peter Lauer, Sarah K Young, Chad Nusbaum, James E Galagan, Bruce W Birren, Reid A Ivy, Qi Sun, Lewis M Graves, Bala Swaminathan, Martin Wiedmann
BMC Genomics 2008, 9:539 (13November2008)
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Expression of the cytochrome P450s, CYP6P3 and CYP6M2 are significantly elevated in multiple pyrethroid resistant populations of Anopheles gambiae s.s. from Southern Benin and Nigeria
Rousseau F Djouaka, Adekunle A Bakare, Ousmane N Coulibaly, Martin C Akogbeto, Hilary Ranson, Janet Hemingway, Clare Strode
BMC Genomics 2008, 9:538 (13November2008)
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