| | |  | Archive |
|
|
| | | | | | | |
Editor-in-Chief
Melissa Norton, MD Biology Editor
Penelope Webb, PhD In-house Editor
Erik Alexandersson
|
Methodology article
 
Array-CGH and multipoint FISH to decode complex chromosomal rearrangements
Eva Darai-Ramqvist, Teresita Diaz de St hl, Agneta Sandlund, Kiran Mantripragada, George Klein, Jan Dumanski, Stefan Imreh, Maria Kost-Alimova
BMC Genomics 2006, 7:330 (29December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Methodology article
A novel statistical method to estimate the effective SNP size in vertebrate genomes and categorized genomic regions
Daekwan Seo, Cizhong Jiang, Zhongming Zhao
BMC Genomics 2006, 7:329 (29December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Detection of transcriptional difference of porcine imprinted genes using different microarray platforms
Shengdar Tsai, Bashir Mir, Amy C Martin, Jose L Estrada, Steve R Bischoff, Wen-ping Hsieh, Joseph P Cassady, Bradley A Freking, Dan J Nonneman, Gary A Rohrer, Jorge A Piedrahita
BMC Genomics 2006, 7:328 (28December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis
Matthew A Campbell, Brian J Haas, John P Hamilton, Stephen M Mount, C Robin Buell
BMC Genomics 2006, 7:327 (28December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Linkage disequilibrium of evolutionarily conserved regions in the human genome
Mamoru Kato, Akihiro Sekine, Yozo Ohnishi, Todd A Johnson, Toshihiro Tanaka, Yusuke Nakamura, Tatsuhiko Tsunoda
BMC Genomics 2006, 7:326 (28December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Alternative splicing and differential gene expression in colon cancer detected by a whole genome exon array
Paul J Gardina, Tyson A Clark, Brian Shimada, Michelle K Staples, Qing Yang, James Veitch, Anthony Schweitzer, Tarif Awad, Charles Sugnet, Suzanne Dee, Christopher Davies, Alan Williams, Yaron Turpaz
BMC Genomics 2006, 7:325 (27December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
SIGMA: A System for Integrative Genomic Microarray Analysis of Cancer Genomes
Raj Chari, William W Lockwood, Bradley P Coe, Anna Chu, Devon Macey, Andrew Thomson, Jonathan J Davies, Calum MacAulay, Wan L Lam
BMC Genomics 2006, 7:324 (27December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Conservation of noncoding microsatellites in plants: implication for gene regulation
Lida Zhang, Kaijing Zuo, Fei Zhang, Youfang Cao, Jiang Wang, Yidong Zhang, Xiaofen Sun, Kexuan Tang
BMC Genomics 2006, 7:323 (25December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
The major histocompatibility complex (Mhc) class IIB region has greater genomic structural flexibility and diversity in the quail than the chicken
Kazuyoshi Hosomichi, Takashi Shiina, Shingo Suzuki, Masayuki Tanaka, Sayoko Shimizu, Shigehisa Iwamoto, Hiromi Hara, Yutaka Yoshida, Jerzy K Kulski, Hidetoshi Inoko, Kei Hanzawa
BMC Genomics 2006, 7:322 (21December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Quantitative analysis of cell-type specific gene expression in the green alga Volvox carteri
Ghazaleh Nematollahi, Arash Kianianmomeni, Armin Hallmann
BMC Genomics 2006, 7:321 (21December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [1 comment]
Research article
Changes in skeletal muscle gene expression following clenbuterol administration
Diane M Spurlock, Tara G McDaneld, Lauren M McIntyre
BMC Genomics 2006, 7:320 (20December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Methodology article
Systematic interpretation of microarray data using experiment annotations
Kurt Fellenberg, Christian H Busold, Olaf Witt, Andrea Bauer, Boris Beckmann, Nicole C Hauser, Marcus Frohme, Stefan Winter, J rgen Dippon, J rg D Hoheisel
BMC Genomics 2006, 7:319 (20December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Unsupervised clustering of gene expression data points at hypoxia as possible trigger for metabolic syndrome
Andrey Ptitsyn, Matthew Hulver, William Cefalu, David York, Steven R Smith
BMC Genomics 2006, 7:318 (19December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Database
RINGdb: An integrated database for G protein-coupled receptors and regulators of G protein signaling
Yu-Ching Fang, Wei-Hsin Sun, Li-Cheng Wu, Hsien-Da Huang, Hsueh-Fen Juan, Jorng-Tzong Horng
BMC Genomics 2006, 7:317 (16December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Directionality of point mutation and 5-methylcytosine deamination rates in the chimpanzee genome
Cizhong Jiang, Zhongming Zhao
BMC Genomics 2006, 7:316 (13December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
High precision multi-genome scale reannotation of enzyme function by EFICAz
Adrian K Arakaki, Weidong Tian, Jeffrey Skolnick
BMC Genomics 2006, 7:315 (13December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Systematic identification and integrative analysis of novel genes expressed specifically or predominantly in mouse epididymis
Jungsu Oh, Jiae Lee, Jong-Min Woo, Eunyoung Choi, Inju Park, Cecil Han, Namhoe Baek, Hoyong Lee, Do Han Kim, Chunghee Cho
BMC Genomics 2006, 7:314 (13December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
The DNA-damage signature in Saccharomyces cerevisiae is associated with single-strand breaks in DNA
Rebecca C Fry, Michael S DeMott, Joseph P Cosgrove, Thomas J Begley, Leona D Samson, Peter C Dedon
BMC Genomics 2006, 7:313 (12December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Large fragment Bst DNA polymerase for whole genome amplification of DNA from formalin-fixed paraffin-embedded tissues
Sarit Aviel-Ronen, Chang Qi Zhu, Bradley P Coe, Ni Liu, Spencer K Watson, Wan L Lam, Ming Sound Tsao
BMC Genomics 2006, 7:312 (12December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Compensatory relationship between splice sites and exonic splicing signals depending on the length of vertebrate introns
Colin N Dewey, Igor B Rogozin, Eugene V Koonin
BMC Genomics 2006, 7:311 (8December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Deep and comparative analysis of the mycelium and appressorium transcriptomes of Magnaporthe grisea using MPSS, RL-SAGE, and oligoarray methods
Malali Gowda, RC Venu, Mohan B Raghupathy, Kan Nobuta, Huameng Li, Rod Wing, Eric Stahlberg, Sean Couglan, Christian D Haudenschild, Ralph Dean, Baek-Hie Nahm, Blake C Meyers, Guo-Liang Wang
BMC Genomics 2006, 7:310 (8December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
The repertoire of olfactory C family G protein-coupled receptors in zebrafish: candidate chemosensory receptors for amino acids
Tyler S Alioto, John Ngai
BMC Genomics 2006, 7:309 (8December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Ethanol sensitivity: a central role for CREB transcription regulation in the cerebellum
George K Acquaah-Mensah, Vikas Misra, Shyam Biswal
BMC Genomics 2006, 7:308 (5December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Evolution of proteomes: fundamental signatures and global trends in amino acid compositions
Fredj Tekaia, Edouard Yeramian
BMC Genomics 2006, 7:307 (5December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Evolutionary anatomies of positions and types of disease-associated and neutral amino acid mutations in the human genome
Sankar Subramanian, Sudhir Kumar
BMC Genomics 2006, 7:306 (5December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Analyzing the dose-dependence of the Saccharomyces cerevisiae global transcriptional response to methyl methanesulfonate and ionizing radiation
Michael G Benton, Swetha Somasundaram, Jeremy D Glasner, Sean P Palecek
BMC Genomics 2006, 7:305 (1December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Novel porcine repetitive elements
Ralph T Wiedmann, Dan J Nonneman, John W Keele
BMC Genomics 2006, 7:304 (1December2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Genomewide identification of pheromone-targeted transcription in fission yeast
Yongtao Xue-Franz n, S ren Kj rulff, Christian Holmberg, Anthony Wright, Olaf Nielsen
BMC Genomics 2006, 7:303 (30November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
A Type I and Type II microsatellite linkage map of Rainbow trout (Oncorhynchus mykiss) with presumptive coverage of all chromosome arms
Ren Guyomard, Stphane Mauger, Kamila Tabet-Canale, Sylvain Martineau, Carine Genet, Francine Krieg, Edwige Quillet
BMC Genomics 2006, 7:302 (30November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Genome-wide sequence and functional analysis of early replicating DNA in normal human fibroblasts
Stephanie M Cohen, Terrence S Furey, Norman A Doggett, David G Kaufman
BMC Genomics 2006, 7:301 (29November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Database
Pfarao: a web application for protein family analysis customized for cytoskeletal and motor proteins (CyMoBase)
Florian Odronitz, Martin Kollmar
BMC Genomics 2006, 7:300 (29November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Genome-wide loss of heterozygosity and copy number alteration in esophageal squamous cell carcinoma using the Affymetrix GeneChip Mapping 10 K array
Nan Hu, Chaoyu Wang, Ying Hu, Howard H Yang, Li-Hui Kong, Ning Lu, Hua Su, Quan-Hong Wang, Alisa M Goldstein, Kenneth H Buetow, Michael R Emmert-Buck, Philip R Taylor, Maxwell P Lee
BMC Genomics 2006, 7:299 (29November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Establishment of a pipeline to analyse non-synonymous SNPs in Bos taurus
Michael A Lee, Orla M Keane, Belinda C Glass, Tim R Manley, Neil G Cullen, Ken G Dodds, Alan F McCulloch, Chris A Morris, Mark Schreiber, Jonathan Warren, Amonida Zadissa, Theresa Wilson, John C McEwan
BMC Genomics 2006, 7:298 (26November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Comparative analysis of dinoflagellate chloroplast genomes reveals rRNA and tRNA genes
Adrian C Barbrook, Nicole Santucci, Lindsey J Plenderleith, Roger G Hiller, Christopher J Howe
BMC Genomics 2006, 7:297 (23November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Exploring glycopeptide-resistance in Staphylococcus aureus: a combined proteomics and transcriptomics approach for the identification of resistance-related markers
Alexander Scherl, Patrice Fran ois, Yvan Charbonnier, Jacques M Deshusses, Thibaud Koessler, Antoine Huyghe, Manuela Bento, Jianru Stahl-Zeng, Adrien Fischer, Alexandre Masselot, Alireza Vaezzadeh, Francesca Gall, Adriana Renzoni, Pierre Vaudaux, Daniel Lew, Catherine G Zimmermann-Ivol, Pierre-Alain Binz, Jean-Charles Sanchez, Denis F Hochstrasser, Jacques Schrenzel
BMC Genomics 2006, 7:296 (22November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Simultaneous host and parasite expression profiling identifies tissue-specific transcriptional programs associated with susceptibility or resistance to experimental cerebral malaria
Fiona E Lovegrove, Lourdes Pe a-Castillo, Naveed Mohammad, W Conrad Liles, Timothy R Hughes, Kevin C Kain
BMC Genomics 2006, 7:295 (22November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Construction of a 7-fold BAC library and cytogenetic mapping of 10 genes in the giant panda (Ailuropoda melanoleuca)
Wei Liu, Yonghui Zhao, Zhaoliang Liu, Ying Zhang, Zhengxing Lian, Ning Li
BMC Genomics 2006, 7:294 (17November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
In silico and microarray-based genomic approaches to identifying potential vaccine candidates against Leptospira interrogans
Hong-Liang Yang, Yong-Zhang Zhu, Jin-Hong Qin, Ping He, Xu-Cheng Jiang, Guo-Ping Zhao, Xiao-Kui Guo
BMC Genomics 2006, 7:293 (16November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Hyaluronan- and RNA-binding deubiquitinating enzymes of USP17 family members associated with cell viability
Ju-Mi Shin, Kyong-Jai Yoo, Myung-Sun Kim, Dongku Kim, Kwang-Hyun Baek
BMC Genomics 2006, 7:292 (16November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Comparison of PrASE and Pyrosequencing for SNP Genotyping
Max K ller, Emilie Hultin, Kristina Holmberg, Marie-Louise Persson, Jacob Odeberg, Joakim Lundeberg, Afshin Ahmadian
BMC Genomics 2006, 7:291 (16November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Software
Tools for the identification of variable and potentially variable tandem repeats
Colm T O'Dushlaine, Denis C Shields
BMC Genomics 2006, 7:290 (15November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Gene expression patterns that predict sensitivity to epidermal growth factor receptor tyrosine kinase inhibitors in lung cancer cell lines and human lung tumors
Justin M Balko, Anil Potti, Christopher Saunders, Arnold Stromberg, Eric B Haura, Esther P Black
BMC Genomics 2006, 7:289 (10November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Huntingtin gene evolution in Chordata and its peculiar features in the ascidian Ciona genus
Carmela Gissi, Graziano Pesole, Elena Cattaneo, Marzia Tartari
BMC Genomics 2006, 7:288 (8November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Defining the gene expression signature of rhabdomyosarcoma by meta-analysis
Chiara Romualdi, Cristiano De Pitt , Lucia Tombolan, Stefania Bortoluzzi, Francesca Sartori, Angelo Rosolen, Gerolamo Lanfranchi
BMC Genomics 2006, 7:287 (7November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Novel subtractive transcription-based amplification of mRNA (STAR) method and its application in search of rare and differentially expressed genes in AD brains
Qing Yan Liu, Roy R Sooknanan, Lawrence T Malek, Maria Ribecco-Lutkiewicz, Joy X Lei, Hui Shen, Boleslaw Lach, P Roy Walker, Joel Martin, Marianna Sikorska
BMC Genomics 2006, 7:286 (7November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
SAGE detects microRNA precursors
Xijin Ge, Qingfa Wu, San Ming Wang
BMC Genomics 2006, 7:285 (7November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
The complete mitochondrial genome of the sea spider Nymphon gracile (Arthropoda: Pycnogonida)
Lars Podsiadlowski, Anke Braband
BMC Genomics 2006, 7:284 (6November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
A second generation radiation hybrid map to aid the assembly of the bovine genome sequence
Oliver C Jann, Jan Aerts, Michelle Jones, Nicola Hastings, Andy Law, Stephanie McKay, Elisa Marques, Aparna Prasad, Jody Yu, Stephen S Moore, Sandrine Floriot, Marie-Franoise Mah, Andr Eggen, Licia Silveri, Riccardo Negrini, Elisabetta Milanesi, Paolo Ajmone-Marsan, Alessio Valentini, Cinzia Marchitelli, Maria C Savarese, Michal Janitz, Ralf Herwig, Steffen Hennig, Chiara Gorni, Erin E Connor, Tad S Sonstegard, Timothy Smith, Cord Drgemller, John L Williams
BMC Genomics 2006, 7:283 (6November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
An analysis of mobile genetic elements in three Plasmodium species and their potential impact on the nucleotide composition of the P. falciparum genome
Pierre M Durand, Andries J Oelofse, Theresa L Coetzer
BMC Genomics 2006, 7:282 (4November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Evolution and comparative analysis of the MHC Class III inflammatory region
Janine E Deakin, Anthony T Papenfuss, Katherine Belov, Joseph GR Cross, Penny Coggill, Sophie Palmer, Sarah Sims, Terence P Speed, Stephan Beck, Jennifer A Marshall Graves
BMC Genomics 2006, 7:281 (2November2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Comprehensive analysis of gene expression patterns of hedgehog-related genes
Limin Hao, Robert Johnsen, Gilbert Lauter, David Baillie, Thomas R Brglin
BMC Genomics 2006, 7:280 (31October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Gene expression in TGFbeta-induced epithelial cell differentiation in a three-dimensional intestinal epithelial cell differentiation model
Kati M Juuti-Uusitalo, Katri Kaukinen, Markku Mki, Jarno Tuimala, Heikki Kainulainen
BMC Genomics 2006, 7:279 (31October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Converting a breast cancer microarray signature into a high-throughput diagnostic test
Annuska M Glas, Arno Floore, Leonie JMJ Delahaye, Anke T Witteveen, Rob CF Pover, Niels Bakx, Jaana ST Lahti-Domenici, Tako J Bruinsma, Marc O Warmoes, Ren Bernards, Lodewyk FA Wessels, Laura J Van 't Veer
BMC Genomics 2006, 7:278 (30October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central] [1 comment]
Research article
Mining housekeeping genes with a Naive Bayes classifier
Luna De Ferrari, Stuart Aitken
BMC Genomics 2006, 7:277 (30October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Genome-wide mapping of ORC and Mcm2p binding sites on tiling arrays and identification of essential ARS consensus sequences in S. cerevisiae
Weihong Xu, Jennifer G Aparicio, Oscar M Aparicio, Simon Tavar
BMC Genomics 2006, 7:276 (26October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
454 sequencing put to the test using the complex genome of barley
Thomas Wicker, Edith Schlagenhauf, Andreas Graner, Timothy J Close, Beat Keller, Nils Stein
BMC Genomics 2006, 7:275 (26October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
A genome scan for quantitative trait loci affecting growth-related traits in an F1 family of Asian seabass (Lates calcarifer)
Chun Ming Wang, Loong Chueng Lo, Ze Yuan Zhu, Gen Hua Yue
BMC Genomics 2006, 7:274 (26October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Assessing the number of ancestral alternatively spliced exons in the human genome
Rotem Sorek, Gideon Dror, Ron Shamir
BMC Genomics 2006, 7:273 (24October2006)
[Abstract] [Full text] [PDF] [PubMed] [Related articles] [Cited on BioMed Central]
Research article
Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology
Foo Cheung, Brian J Haas, Susanne MD Goldberg, Gregory D May, Yongli Xiao, Christopher D Town
BMC Genomics 2006, 7:272 (24October2006)
[Abstract] [ |
|
