Volume 6, issue 1, December 2005
182 articles in this issue
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Genome-wide localization of mobile elements: experimental, statistical and biological considerations
Authors (first, second and last of 4)
- Betsy M Martinez-Vaz
- Yang Xie
- Arkady B Khodursky
- Content type: Methodology article
- Open Access
- Published: 01 June 2005
- Article: 81
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Insights into a dinoflagellate genome through expressed sequence tag analysis
Authors (first, second and last of 7)
- Jeremiah D Hackett
- Todd E Scheetz
- Debashish Bhattacharya
- Content type: Research article
- Open Access
- Published: 29 May 2005
- Article: 80
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Bcipep: A database of B-cell epitopes
Authors
- Sudipto Saha
- Manoj Bhasin
- Gajendra PS Raghava
- Content type: Database
- Open Access
- Published: 29 May 2005
- Article: 79
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A new approach for the analysis of bacterial microarray-based Comparative Genomic Hybridization: insights from an empirical study
Authors (first, second and last of 5)
- Eduardo N Taboada
- Rey R Acedillo
- John HE Nash
- Content type: Research article
- Open Access
- Published: 27 May 2005
- Article: 78
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A generally applicable validation scheme for the assessment of factors involved in reproducibility and quality of DNA-microarray data
Authors (first, second and last of 10)
- Sacha AFT van Hijum
- Anne de Jong
- Oscar P Kuipers
- Content type: Methodology article
- Open Access
- Published: 20 May 2005
- Article: 77
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Identification, characterization and metagenome analysis of oocyte-specific genes organized in clusters in the mouse genome
Authors (first, second and last of 7)
- Amélie Paillisson
- Sébastien Dadé
- Philippe Monget
- Content type: Research article
- Open Access
- Published: 20 May 2005
- Article: 76
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Control of gene expression during T cell activation: alternate regulation of mRNA transcription and mRNA stability
Authors (first, second and last of 8)
- Chris Cheadle
- Jinshui Fan
- Kevin G Becker
- Content type: Research article
- Open Access
- Published: 20 May 2005
- Article: 75
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Linkage mapping bovine EST-based SNP
Authors (first, second and last of 7)
- Warren M Snelling
- Eduardo Casas
- Timothy PL Smith
- Content type: Research article
- Open Access
- Published: 19 May 2005
- Article: 74
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Software for optimization of SNP and PCR-RFLP genotyping to discriminate many genomes with the fewest assays
Authors
- Shea N Gardner
- Mark C Wagner
- Content type: Software
- Open Access
- Published: 16 May 2005
- Article: 73
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Hyperspectral microarray scanning: impact on the accuracy and reliability of gene expression data
Authors (first, second and last of 6)
- Jerilyn A Timlin
- David M Haaland
- Margaret Werner-Washburne
- Content type: Research article
- Open Access
- Published: 11 May 2005
- Article: 72
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A study of inter-lab and inter-platform agreement of DNA microarray data
Authors (first, second and last of 5)
- Huixia Wang
- Xuming He
- Lei Liu
- Content type: Research article
- Open Access
- Published: 11 May 2005
- Article: 71
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Pigs in sequence space: A 0.66X coverage pig genome survey based on shotgun sequencing
Authors (first, second and last of 23)
- Rasmus Wernersson
- Mikkel H Schierup
- Lars Bolund
- Content type: Research article
- Open Access
- Published: 10 May 2005
- Article: 70
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Changes in the transcriptional profile of transporters in the intestine along the anterior-posterior and crypt-villus axes
Authors (first, second and last of 9)
- Pascale Anderle
- Thierry Sengstag
- Matthew-Alan Roberts
- Content type: Research article
- Open Access
- Published: 10 May 2005
- Article: 69
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Predictive screening for regulators of conserved functional gene modules (gene batteries) in mammals
Authors (first, second and last of 8)
- Sven Nelander
- Erik Larsson
- Per Lindahl
- Content type: Research article
- Open Access
- Published: 09 May 2005
- Article: 68
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Comparison of array-based comparative genomic hybridization with gene expression-based regional expression biases to identify genetic abnormalities in hepatocellular carcinoma
Authors (first, second and last of 4)
- Kyle A Furge
- Karl J Dykema
- Xin Chen
- Content type: Methodology article
- Open Access
- Published: 09 May 2005
- Article: 67
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An analysis of the use of genomic DNA as a universal reference in two channel DNA microarrays
Authors (first, second and last of 5)
- Mugdha Gadgil
- Wei Lian
- Wei-Shou Hu
- Content type: Methodology article
- Open Access
- Published: 08 May 2005
- Article: 66
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A combined approach exploring gene function based on Worm-Human Orthology
Authors (first, second and last of 5)
- Ivica Tamas
- Emily Hodges
- Ana Vaz Gomes
- Content type: Research article
- Open Access
- Published: 06 May 2005
- Article: 65
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Gene expression profile of cervical tissue compared to exfoliated cells: Impact on biomarker discovery
Authors (first, second and last of 6)
- Martin Steinau
- Daisy R Lee
- Elizabeth R Unger
- Content type: Research article
- Open Access
- Published: 05 May 2005
- Article: 64
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Three microarray platforms: an analysis of their concordance in profiling gene expression
Authors (first, second and last of 15)
- David Petersen
- GVR Chandramouli
- Ernest S Kawasaki
- Content type: Research article
- Open Access
- Published: 05 May 2005
- Article: 63
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In vitro identification and in silico utilization of interspecies sequence similarities using GeneChip® technology
Authors (first, second and last of 6)
- Dmitry N Grigoryev
- Shwu-Fan Ma
- Joe GN Garcia
- Content type: Methodology article
- Open Access
- Published: 04 May 2005
- Article: 62
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Comparison of standard exponential and linear techniques to amplify small cDNA samples for microarrays
Authors (first, second and last of 7)
- Johan Wadenbäck
- David H Clapham
- Ulrika Egertsdotter
- Content type: Research article
- Open Access
- Published: 04 May 2005
- Article: 61
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PathwayVoyager: pathway mapping using the Kyoto Encyclopedia of Genes and Genomes (KEGG) database
Authors
- Eric Altermann
- Todd R Klaenhammer
- Content type: Software
- Open Access
- Published: 03 May 2005
- Article: 60
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Gene expression levels assessed by oligonucleotide microarray analysis and quantitative real-time RT-PCR – how well do they correlate?
Authors (first, second and last of 10)
- Peter B Dallas
- Nicholas G Gottardo
- Ursula R Kees
- Content type: Research article
- Open Access
- Published: 27 April 2005
- Article: 59
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Investigating hookworm genomes by comparative analysis of two Ancylostoma species
Authors (first, second and last of 13)
- Makedonka Mitreva
- James P McCarter
- Richard K Wilson
- Content type: Research article
- Open Access
- Published: 26 April 2005
- Article: 58
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Increased DNA microarray hybridization specificity using sscDNA targets
Authors (first, second and last of 6)
- Christopher S Barker
- Chandi Griffin
- David J Erle
- Content type: Methodology article
- Open Access
- Published: 22 April 2005
- Article: 57
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Type 1 Diabetes in the Spanish Population: additional factors to Class II HLA-DR3 and -DR4
Authors (first, second and last of 9)
- Elena Urcelay
- José L Santiago
- Emilio G de la Concha
- Content type: Research article
- Open Access
- Published: 20 April 2005
- Article: 56
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Expression analysis of secreted and cell surface genes of five transformed human cell lines and derivative xenograft tumors
Authors (first, second and last of 9)
- Robert A Stull
- Roya Tavassoli
- Daniel J Chin
- Content type: Research article
- Open Access
- Published: 18 April 2005
- Article: 55
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Comparative mapping of expressed sequence tags containing microsatellites in rainbow trout (Oncorhynchus mykiss)
Authors (first, second and last of 8)
- Caird E Rexroad III
- Maria F Rodriguez
- Yniv Palti
- Content type: Research article
- Open Access
- Published: 18 April 2005
- Article: 54
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Microarray karyotyping of commercial wine yeast strains reveals shared, as well as unique, genomic signatures
Authors
- Barbara Dunn
- R Paul Levine
- Gavin Sherlock
- Content type: Research article
- Open Access
- Published: 16 April 2005
- Article: 53
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Genotyping DNA pools on microarrays: Tackling the QTL problem of large samples and large numbers of SNPs
Authors (first, second and last of 9)
- Emma Meaburn
- Lee M Butcher
- Leonard C Schalkwyk
- Content type: Research article
- Open Access
- Published: 05 April 2005
- Article: 52
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Conversion of cDNA differential display results (DDRT-PCR) into quantitative transcription profiles
Authors (first, second and last of 4)
- Balakrishnan Venkatesh
- Ursula Hettwer
- Petr Karlovsky
- Content type: Methodology article
- Open Access
- Published: 05 April 2005
- Article: 51
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A highly redundant BAC library of Atlantic salmon (Salmo salar): an important tool for salmon projects
Authors (first, second and last of 8)
- Jim Thorsen
- Baoli Zhu
- Bjørn Høyheim
- Content type: Research article
- Open Access
- Published: 04 April 2005
- Article: 50
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How to find soluble proteins: a comprehensive analysis of alpha/beta hydrolases for recombinant expression in E. coli
Authors (first, second and last of 4)
- Markus Koschorreck
- Markus Fischer
- Jürgen Pleiss
- Content type: Research article
- Open Access
- Published: 02 April 2005
- Article: 49
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Identification and characterization of a novel mammalian Mg2+ transporter with channel-like properties
Authors
- Angela Goytain
- Gary A Quamme
- Content type: Research article
- Open Access
- Published: 01 April 2005
- Article: 48
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Transcription of the human and rodent SPAM1 / PH-20 genes initiates within an ancient endogenous retrovirus
Authors
- Catherine A Dunn
- Dixie L Mager
- Content type: Research article
- Open Access
- Published: 01 April 2005
- Article: 47
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Osteo-Promoter Database (OPD) – Promoter analysis in skeletal cells
Authors
- Inbal Grienberg
- Dafna Benayahu
- Content type: Research article
- Open Access
- Published: 25 March 2005
- Article: 46
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Genomic organization, annotation, and ligand-receptor inferences of chicken chemokines and chemokine receptor genes based on comparative genomics
Authors (first, second and last of 6)
- Jixin Wang
- David L Adelson
- James J Zhu
- Content type: Research article
- Open Access
- Published: 24 March 2005
- Article: 45
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Gene expression analysis reveals that histone deacetylation sites may serve as partitions of chromatin gene expression domains
Authors
- Liang Chen
- Hongyu Zhao
- Content type: Research article
- Open Access
- Published: 23 March 2005
- Article: 44
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Protein encoding genes in an ancient plant: analysis of codon usage, retained genes and splice sites in a moss, Physcomitrella patens
Authors (first, second and last of 4)
- Stefan A Rensing
- Dana Fritzowsky
- Ralf Reski
- Content type: Research article
- Open Access
- Published: 22 March 2005
- Article: 43
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A gene expression fingerprint of C. elegans embryonic motor neurons
Authors (first, second and last of 9)
- Rebecca M Fox
- Stephen E Von Stetina
- David M Miller III
- Content type: Methodology article
- Open Access
- Published: 21 March 2005
- Article: 42
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Chicken genome analysis reveals novel genes encoding biotin-binding proteins related to avidin family
Authors (first, second and last of 6)
- Einari A Niskanen
- Vesa P Hytönen
- Olli H Laitinen
- Content type: Research article
- Open Access
- Published: 18 March 2005
- Article: 41
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Comprehensive in silico functional specification of mouse retina transcripts
Authors (first, second and last of 8)
- Samuel Shao-Min Zhang
- Xuming Xu
- Xin-Yuan Fu
- Content type: Research article
- Open Access
- Published: 18 March 2005
- Article: 40
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A novel firmicute protein family related to the actinobacterial resuscitation-promoting factors by non-orthologous domain displacement
Authors
- Adriana Ravagnani
- Christopher L Finan
- Michael Young
- Content type: Research article
- Open Access
- Published: 17 March 2005
- Article: 39
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Sequence changes in predicted promoter elements of STK11/LKB1 are unlikely to contribute to Peutz-Jeghers syndrome
Authors (first, second and last of 16)
- Nicholas CM Hearle
- Ian Tomlinson
- Richard S Houlston
- Content type: Research article
- Open Access
- Published: 17 March 2005
- Article: 38
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Gene expression signature of estrogen receptor α status in breast cancer
Authors (first, second and last of 8)
- MartÃn C Abba
- Yuhui Hu
- C Marcelo Aldaz
- Content type: Research article
- Open Access
- Published: 11 March 2005
- Article: 37
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A qualitative assessment of direct-labeled cDNA products prior to microarray analysis
Authors
- Sherry F Grissom
- Edward K Lobenhofer
- Charles J Tucker
- Content type: Methodology article
- Open Access
- Published: 11 March 2005
- Article: 36
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Silhouette scores for assessment of SNP genotype clusters
Authors (first, second and last of 4)
- Lovisa Lovmar
- Annika Ahlford
- Ann-Christine Syvänen
- Content type: Methodology article
- Open Access
- Published: 10 March 2005
- Article: 35
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Marine Genomics: A clearing-house for genomic and transcriptomic data of marine organisms
Authors (first, second and last of 11)
- David J McKillen
- Yian A Chen
- Jonas S Almeida
- Content type: Database
- Open Access
- Published: 10 March 2005
- Article: 34
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Gene fusions and gene duplications: relevance to genomic annotation and functional analysis
Authors
- Margrethe H Serres
- Monica Riley
- Content type: Research article
- Open Access
- Published: 09 March 2005
- Article: 33