Volume 7, issue 1, December 2006
544 articles in this issue
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SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms
Authors (first, second and last of 8)
- Tim Van den Bulcke
- Koenraad Van Leemput
- Kathleen Marchal
- Content type: Methodology article
- Open Access
- Published: 26 January 2006
- Article: 43
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MassSorter: a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid sequences
Authors
- Harald Barsnes
- Svein-Ole Mikalsen
- Ingvar Eidhammer
- Content type: Software
- Open Access
- Published: 26 January 2006
- Article: 42
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Discovering semantic features in the literature: a foundation for building functional associations
Authors (first, second and last of 5)
- Monica Chagoyen
- Pedro Carmona-Saez
- Alberto Pascual-Montano
- Content type: Methodology article
- Open Access
- Published: 26 January 2006
- Article: 41
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Protein structure similarity from principle component correlation analysis
Authors
- Xiaobo Zhou
- James Chou
- Stephen TC Wong
- Content type: Methodology article
- Open Access
- Published: 25 January 2006
- Article: 40
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GPNN: Power studies and applications of a neural network method for detecting gene-gene interactions in studies of human disease
Authors (first, second and last of 4)
- Alison A Motsinger
- Stephen L Lee
- Marylyn D Ritchie
- Content type: Research article
- Open Access
- Published: 25 January 2006
- Article: 39
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A reinforced merging methodology for mapping unique peptide motifs in members of protein families
Authors (first, second and last of 9)
- Hao-Teng Chang
- Tun-Wen Pai
- Margaret Dah-Tsyr Chang
- Content type: Methodology article
- Open Access
- Published: 25 January 2006
- Article: 38
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CoSMoS: Conserved Sequence Motif Search in the proteome
Authors (first, second and last of 4)
- Xiao I Liu
- Neeraj Korde
- Lars I Leichert
- Content type: Database
- Open Access
- Published: 24 January 2006
- Article: 37
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MitoRes: a resource of nuclear-encoded mitochondrial genes and their products in Metazoa
Authors (first, second and last of 6)
- Domenico Catalano
- Flavio Licciulli
- Domenica D'Elia
- Content type: Database
- Open Access
- Published: 24 January 2006
- Article: 36
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A proposed metric for assessing the measurement quality of individual microarrays
Authors (first, second and last of 6)
- Kyoungmi Kim
- Grier P Page
- David B Allison
- Content type: Research article
- Open Access
- Published: 23 January 2006
- Article: 35
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A domain-oriented approach to the reduction of combinatorial complexity in signal transduction networks
Authors (first, second and last of 5)
- Holger Conzelmann
- Julio Saez-Rodriguez
- Ernst D Gilles
- Content type: Research article
- Open Access
- Published: 23 January 2006
- Article: 34
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Djinn Lite: a tool for customised gene transcript modelling, annotation-data enrichment and exploration
Authors (first, second and last of 7)
- Erdahl T Teber
- Edward Crawford
- W Bret Church
- Content type: Software
- Open Access
- Published: 23 January 2006
- Article: 33
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Missing value estimation for DNA microarray gene expression data by Support Vector Regression imputation and orthogonal coding scheme
Authors (first, second and last of 4)
- Xian Wang
- Ao Li
- Huanqing Feng
- Content type: Methodology article
- Open Access
- Published: 22 January 2006
- Article: 32
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Similarity-based gene detection: using COGs to find evolutionarily-conserved ORFs
Authors
- Bradford C Powell
- Clyde A Hutchison III
- Content type: Methodology article
- Open Access
- Published: 19 January 2006
- Article: 31
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WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data
Authors (first, second and last of 5)
- Ming Yi
- Jay D Horton
- Robert M Stephens
- Content type: Software
- Open Access
- Published: 19 January 2006
- Article: 30
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Recrafting the neighbor-joining method
Authors (first, second and last of 5)
- Thomas Mailund
- Gerth S Brodal
- Derek Phillips
- Content type: Methodology article
- Open Access
- Published: 19 January 2006
- Article: 29
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A new pooling strategy for high-throughput screening: the Shifted Transversal Design
Authors
- Nicolas Thierry-Mieg
- Content type: Research article
- Open Access
- Published: 19 January 2006
- Article: 28
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NOXclass: prediction of protein-protein interaction types
Authors (first, second and last of 4)
- Hongbo Zhu
- Francisco S Domingues
- Thomas Lengauer
- Content type: Software
- Open Access
- Published: 19 January 2006
- Article: 27
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Discovery of time-delayed gene regulatory networks based on temporal gene expression profiling
Authors (first, second and last of 13)
- Xia Li
- Shaoqi Rao
- Qing K Wang
- Content type: Methodology article
- Open Access
- Published: 18 January 2006
- Article: 26
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Analysis and visualization of chromosomal abnormalities in SNP data with SNPscan
Authors (first, second and last of 5)
- Jason C Ting
- Ying Ye
- Jonathan Pevsner
- Content type: Methodology article
- Open Access
- Published: 18 January 2006
- Article: 25
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Metabolic pathways variability and sequence/networks comparisons
Authors (first, second and last of 4)
- Kyaw Tun
- Pawan K Dhar
- Alessandro Giuliani
- Content type: Methodology article
- Open Access
- Published: 18 January 2006
- Article: 24
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Evaluation of methods for oligonucleotide array data via quantitative real-time PCR
Authors (first, second and last of 6)
- Li-Xuan Qin
- Richard P Beyer
- Kathleen F Kerr
- Content type: Research article
- Open Access
- Published: 17 January 2006
- Article: 23
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preAssemble: a tool for automatic sequencer trace data processing
Authors
- Alexei A Adzhubei
- Jon K Laerdahl
- Anna V Vlasova
- Content type: Software
- Open Access
- Published: 17 January 2006
- Article: 22
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GenoLink: a graph-based querying and browsing system for investigating the function of genes and proteins
Authors (first, second and last of 7)
- Patrick Durand
- Laurent Labarre
- Jérôme Wojcik
- Content type: Software
- Open Access
- Published: 17 January 2006
- Article: 21
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Prediction of protein structural class with Rough Sets
Authors (first, second and last of 6)
- Youfang Cao
- Shi Liu
- Kexuan Tang
- Content type: Research article
- Open Access
- Published: 14 January 2006
- Article: 20
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OpWise: Operons aid the identification of differentially expressed genes in bacterial microarray experiments
Authors
- Morgan N Price
- Adam P Arkin
- Eric J Alm
- Content type: Software
- Open Access
- Published: 13 January 2006
- Article: 19
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In silico discovery of human natural antisense transcripts
Authors (first, second and last of 10)
- Yuan-Yuan Li
- Lei Qin
- Yi-Xue Li
- Content type: Research article
- Open Access
- Published: 13 January 2006
- Article: 18
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An approach for clustering gene expression data with error information
Authors
- Brian Tjaden
- Content type: Research article
- Open Access
- Published: 12 January 2006
- Article: 17
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Automatic discovery of cross-family sequence features associated with protein function
Authors (first, second and last of 4)
- Markus Brameier
- Josien Haan
- Robert M MacCallum
- Content type: Methodology article
- Open Access
- Published: 12 January 2006
- Article: 16
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An improved procedure for gene selection from microarray experiments using false discovery rate criterion
Authors
- James J Yang
- Mark CK Yang
- Content type: Research article
- Open Access
- Published: 11 January 2006
- Article: 15
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Local protein structure prediction using discriminative models
Authors
- Oliver Sander
- Ingolf Sommer
- Thomas Lengauer
- Content type: Methodology article
- Open Access
- Published: 11 January 2006
- Article: 14
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Construction of a nasopharyngeal carcinoma 2D/MS repository with Open Source XML Database – Xindice
Authors (first, second and last of 6)
- Feng Li
- Maoyu Li
- Zhuchu Chen
- Content type: Research article
- Open Access
- Published: 11 January 2006
- Article: 13
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Utilization of two sample t-test statistics from redundant probe sets to evaluate different probe set algorithms in GeneChip studies
Authors
- Zihua Hu
- Gail R Willsky
- Content type: Methodology article
- Open Access
- Published: 10 January 2006
- Article: 12
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SuperMimic – Fitting peptide mimetics into protein structures
Authors (first, second and last of 4)
- Andrean Goede
- Elke Michalsky
- Robert Preissner
- Content type: Software
- Open Access
- Published: 10 January 2006
- Article: 11
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A high level interface to SCOP and ASTRAL implemented in Python
Authors
- James A Casbon
- Gavin E Crooks
- Mansoor AS Saqi
- Content type: Software
- Open Access
- Published: 10 January 2006
- Article: 10
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ZCURVE_V: a new self-training system for recognizing protein-coding genes in viral and phage genomes
Authors
- Feng-Biao Guo
- Chun-Ting Zhang
- Content type: Software
- Open Access
- Published: 10 January 2006
- Article: 9
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Approximation properties of haplotype tagging
Authors
- Staal A Vinterbo
- Stephan Dreiseitl
- Lucila Ohno-Machado
- Content type: Methodology article
- Open Access
- Published: 09 January 2006
- Article: 8
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OligoSpawn: a software tool for the design of overgo probes from large unigene datasets
Authors (first, second and last of 6)
- Jie Zheng
- Jan T Svensson
- Stefano Lonardi
- Content type: Software
- Open Access
- Published: 09 January 2006
- Article: 7
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Finding biological process modifications in cancer tissues by mining gene expression correlations
Authors
- Giacomo Gamberoni
- Sergio Storari
- Stefano Volinia
- Content type: Methodology article
- Open Access
- Published: 09 January 2006
- Article: 6
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The comprehensive updated regulatory network of Escherichia coli K-12
Authors (first, second and last of 8)
- Heladia Salgado
- Alberto Santos-Zavaleta
- Julio Collado-Vides
- Content type: Commentary
- Open Access
- Published: 06 January 2006
- Article: 5
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Application of machine learning in SNP discovery
Authors (first, second and last of 6)
- Lakshmi K Matukumalli
- John J Grefenstette
- Curtis P Van Tassell
- Content type: Methodology article
- Open Access
- Published: 06 January 2006
- Article: 4
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Gene selection and classification of microarray data using random forest
Authors
- Ramón DÃaz-Uriarte
- Sara Alvarez de Andrés
- Content type: Methodology article
- Open Access
- Published: 06 January 2006
- Article: 3
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Cluster analysis of networks generated through homology: automatic identification of important protein communities involved in cancer metastasis
Authors (first, second and last of 4)
- Pall F Jonsson
- Tamara Cavanna
- Paul A Bates
- Content type: Methodology article
- Open Access
- Published: 06 January 2006
- Article: 2
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Fast-Find: A novel computational approach to analyzing combinatorial motifs
Authors (first, second and last of 4)
- Micah Hamady
- Erin Peden
- Ravinder Singh
- Content type: Software
- Open Access
- Published: 04 January 2006
- Article: 1