Volume 7, issue 1, December 2006
544 articles in this issue
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Multivariate curve resolution of time course microarray data
Authors (first, second and last of 6)
- Peter D Wentzell
- Tobias K Karakach
- Margaret Werner-Washburne
- Content type: Methodology article
- Open Access
- Published: 13 July 2006
- Article: 343
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EMD: an ensemble algorithm for discovering regulatory motifs in DNA sequences
Authors
- Jianjun Hu
- Yifeng D Yang
- Daisuke Kihara
- Content type: Research article
- Open Access
- Published: 13 July 2006
- Article: 342
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Curation of complex, context-dependent immunological data
Authors (first, second and last of 19)
- Randi Vita
- Kerrie Vaughan
- Alessandro Sette
- Content type: Database
- Open Access
- Published: 12 July 2006
- Article: 341
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Quaternary structure predictions of transmembrane proteins starting from the monomer: a docking-based approach
Authors
- D Casciari
- M Seeber
- F Fanelli
- Content type: Methodology article
- Open Access
- Published: 12 July 2006
- Article: 340
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Tools for integrated sequence-structure analysis with UCSF Chimera
Authors (first, second and last of 5)
- Elaine C Meng
- Eric F Pettersen
- Thomas E Ferrin
- Content type: Software
- Open Access
- Published: 12 July 2006
- Article: 339
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Cluster analysis of protein array results via similarity of Gene Ontology annotation
Authors
- Cheryl Wolting
- C Jane McGlade
- David Tritchler
- Content type: Methodology article
- Open Access
- Published: 12 July 2006
- Article: 338
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HeatMapper: powerful combined visualization of gene expression profile correlations, genotypes, phenotypes and sample characteristics
Authors (first, second and last of 9)
- Roel GW Verhaak
- Mathijs A Sanders
- Peter JM Valk
- Content type: Software
- Open Access
- Published: 12 July 2006
- Article: 337
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ProtRepeatsDB: a database of amino acid repeats in genomes
Authors (first, second and last of 5)
- Mridul K Kalita
- Gowthaman Ramasamy
- Dinesh Gupta
- Content type: Database
- Open Access
- Published: 07 July 2006
- Article: 336
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AMDA: an R package for the automated microarray data analysis
Authors (first, second and last of 4)
- Mattia Pelizzola
- Norman Pavelka
- Paola Ricciardi-Castagnoli
- Content type: Software
- Open Access
- Published: 06 July 2006
- Article: 335
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Machine learning and word sense disambiguation in the biomedical domain: design and evaluation issues
Authors (first, second and last of 5)
- Hua Xu
- Marianthi Markatou
- Carol Friedman
- Content type: Research article
- Open Access
- Published: 05 July 2006
- Article: 334
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A methodology for global validation of microarray experiments
Authors (first, second and last of 6)
- Mathieu Miron
- Owen Z Woody
- Robert Nadon
- Content type: Methodology article
- Open Access
- Published: 05 July 2006
- Article: 333
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A joint model of regulatory and metabolic networks
Authors
- Chen-Hsiang Yeang
- Martin Vingron
- Content type: Research article
- Open Access
- Published: 04 July 2006
- Article: 332
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PROMPT: a protein mapping and comparison tool
Authors
- Thorsten Schmidt
- Dmitrij Frishman
- Content type: Software
- Open Access
- Published: 04 July 2006
- Article: 331
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Genome-wide prediction of transcriptional regulatory elements of human promoters using gene expression and promoter analysis data
Authors
- Seon-Young Kim
- YongSung Kim
- Content type: Methodology article
- Open Access
- Published: 04 July 2006
- Article: 330
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An interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution matrices
Authors
- Blazej Bulka
- Marie desJardins
- Stephen J Freeland
- Content type: Software
- Open Access
- Published: 03 July 2006
- Article: 329
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Computational expression deconvolution in a complex mammalian organ
Authors
- Min Wang
- Stephen R Master
- Lewis A Chodosh
- Content type: Research article
- Open Access
- Published: 03 July 2006
- Article: 328
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Using ESTs to improve the accuracy of de novo gene prediction
Authors
- Chaochun Wei
- Michael R Brent
- Content type: Research article
- Open Access
- Published: 03 July 2006
- Article: 327
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A maximum likelihood framework for protein design
Authors (first, second and last of 5)
- Claudia L Kleinman
- Nicolas Rodrigue
- Nicolas Lartillot
- Content type: Methodology article
- Open Access
- Published: 29 June 2006
- Article: 326
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The Autoimmune Disease Database: a dynamically compiled literature-derived database
Authors (first, second and last of 4)
- Thomas Karopka
- Juliane Fluck
- Änne Glass
- Content type: Database
- Open Access
- Published: 27 June 2006
- Article: 325
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Novel knowledge-based mean force potential at the profile level
Authors
- Qiwen Dong
- Xiaolong Wang
- Lei Lin
- Content type: Research article
- Open Access
- Published: 27 June 2006
- Article: 324
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Identification of putative domain linkers by a neural network – application to a large sequence database
Authors
- Satoshi Miyazaki
- Yutaka Kuroda
- Shigeyuki Yokoyama
- Content type: Research article
- Open Access
- Published: 27 June 2006
- Article: 323
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SPODOBASE : an EST database for the lepidopteran crop pest Spodoptera
Authors (first, second and last of 15)
- Vincent Nègre
- Thierry Hôtelier
- Philippe Fournier
- Content type: Database
- Open Access
- Published: 23 June 2006
- Article: 322
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Bacterial genotyping by 16S rRNA mass cataloging
Authors (first, second and last of 4)
- George W Jackson
- Roger J McNichols
- Richard C Willson
- Content type: Research article
- Open Access
- Published: 23 June 2006
- Article: 321
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Differential prioritization between relevance and redundancy in correlation-based feature selection techniques for multiclass gene expression data
Authors
- Chia Huey Ooi
- Madhu Chetty
- Shyh Wei Teng
- Content type: Methodology article
- Open Access
- Published: 23 June 2006
- Article: 320
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Protein disorder prediction by condensed PSSM considering propensity for order or disorder
Authors
- Chung-Tsai Su
- Chien-Yu Chen
- Yu-Yen Ou
- Content type: Research article
- Open Access
- Published: 23 June 2006
- Article: 319
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MACSIMS : multiple alignment of complete sequences information management system
Authors (first, second and last of 7)
- Julie D Thompson
- Arnaud Muller
- Olivier Poch
- Content type: Software
- Open Access
- Published: 23 June 2006
- Article: 318
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PSMIX: an R package for population structure inference via maximum likelihood method
Authors
- Baolin Wu
- Nianjun Liu
- Hongyu Zhao
- Content type: Software
- Open Access
- Published: 22 June 2006
- Article: 317
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CAVER: a new tool to explore routes from protein clefts, pockets and cavities
Authors (first, second and last of 6)
- Martin Petřek
- Michal Otyepka
- Jiřà Damborský
- Content type: Software
- Open Access
- Published: 22 June 2006
- Article: 316
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PHY·FI: fast and easy online creation and manipulation of phylogeny color figures
Authors
- Jakob Fredslund
- Content type: Software
- Open Access
- Published: 22 June 2006
- Article: 315
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AgdbNet – antigen sequence database software for bacterial typing
Authors
- Keith A Jolley
- Martin CJ Maiden
- Content type: Software
- Open Access
- Published: 21 June 2006
- Article: 314
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Subfamily logos: visualization of sequence deviations at alignment positions with high information content
Authors
- Eric Beitz
- Content type: Software
- Open Access
- Published: 21 June 2006
- Article: 313
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Prediction of catalytic residues using Support Vector Machine with selected protein sequence and structural properties
Authors
- Natalia V Petrova
- Cathy H Wu
- Content type: Research article
- Open Access
- Published: 21 June 2006
- Article: 312
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Web-based analysis of the mouse transcriptome using Genevestigator
Authors (first, second and last of 5)
- Oliver Laule
- Matthias Hirsch-Hoffmann
- Philip Zimmermann
- Content type: Database
- Open Access
- Published: 21 June 2006
- Article: 311
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Docking protein domains in contact space
Authors
- Stefano Lise
- Alice Walker-Taylor
- David T Jones
- Content type: Methodology article
- Open Access
- Published: 21 June 2006
- Article: 310
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In silico identification of putative promoter motifs of White Spot Syndrome Virus
Authors (first, second and last of 5)
- Hendrik Marks
- Xin-Ying Ren
- Just M Vlak
- Content type: Research article
- Open Access
- Published: 19 June 2006
- Article: 309
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Identification of QTLs controlling gene expression networks defined a priori
Authors (first, second and last of 6)
- Daniel J Kliebenstein
- Marilyn AL West
- Dina A St Clair
- Content type: Research article
- Open Access
- Published: 16 June 2006
- Article: 308
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Array2BIO: from microarray expression data to functional annotation of co-regulated genes
Authors (first, second and last of 6)
- Gabriela G Loots
- Patrick SG Chain
- Ivan Ovcharenko
- Content type: Software
- Open Access
- Published: 16 June 2006
- Article: 307
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Improving missing value imputation of microarray data by using spot quality weights
Authors
- Peter Johansson
- Jari Häkkinen
- Content type: Research article
- Open Access
- Published: 16 June 2006
- Article: 306
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Taking U out, with two nucleases?
Authors
- I Saira Mian
- Elizabeth A Worthey
- Reza Salavati
- Content type: Research article
- Open Access
- Published: 16 June 2006
- Article: 305
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Association algorithm to mine the rules that govern enzyme definition and to classify protein sequences
Authors (first, second and last of 4)
- Shih-Hau Chiu
- Chien-Chi Chen
- Thy-Hou Lin
- Content type: Research article
- Open Access
- Published: 15 June 2006
- Article: 304
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A model-based approach to selection of tag SNPs
Authors
- Pierre Nicolas
- Fengzhu Sun
- Lei M Li
- Content type: Methodology article
- Open Access
- Published: 15 June 2006
- Article: 303
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A new measure for functional similarity of gene products based on Gene Ontology
Authors (first, second and last of 4)
- Andreas Schlicker
- Francisco S Domingues
- Thomas Lengauer
- Content type: Methodology article
- Open Access
- Published: 15 June 2006
- Article: 302
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Improving the accuracy of protein secondary structure prediction using structural alignment
Authors (first, second and last of 4)
- Scott Montgomerie
- Shan Sundararaj
- David S Wishart
- Content type: Software
- Open Access
- Published: 14 June 2006
- Article: 301
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Evaluation of microarray data normalization procedures using spike-in experiments
Authors (first, second and last of 7)
- Patrik Rydén
- Henrik Andersson
- Anders Sjöstedt
- Content type: Research article
- Open Access
- Published: 14 June 2006
- Article: 300
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Kernel-based distance metric learning for microarray data classification
Authors
- Huilin Xiong
- Xue-wen Chen
- Content type: Research article
- Open Access
- Published: 14 June 2006
- Article: 299
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Predicting protein subcellular locations using hierarchical ensemble of Bayesian classifiers based on Markov chains
Authors
- Alla Bulashevska
- Roland Eils
- Content type: Methodology article
- Open Access
- Published: 14 June 2006
- Article: 298
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Impact of RNA structure on the prediction of donor and acceptor splice sites
Authors (first, second and last of 4)
- Sayed-Amir Marashi
- Changiz Eslahchi
- Mehdi Sadeghi
- Content type: Research article
- Open Access
- Published: 13 June 2006
- Article: 297
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Accelerating the reconstruction of genome-scale metabolic networks
Authors (first, second and last of 5)
- Richard A Notebaart
- Frank HJ van Enckevort
- Bas Teusink
- Content type: Research article
- Open Access
- Published: 13 June 2006
- Article: 296
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Analysis of circular genome rearrangement by fusions, fissions and block-interchanges
Authors (first, second and last of 4)
- Chin Lung Lu
- Yen Lin Huang
- Hsien-Tai Chiu
- Content type: Research article
- Open Access
- Published: 12 June 2006
- Article: 295