Volume 7, issue 1, December 2006
544 articles in this issue
-
-
GOLEM: an interactive graph-based gene-ontology navigation and analysis tool
Authors (first, second and last of 5)
- Rachel SG Sealfon
- Matthew A Hibbs
- Olga G Troyanskaya
- Content type: Software
- Open Access
- Published: 10 October 2006
- Article: 443
-
A simple method to combine multiple molecular biomarkers for dichotomous diagnostic classification
Authors (first, second and last of 7)
- Manju R Mamtani
- Tushar P Thakre
- Hemant Kulkarni
- Content type: Methodology article
- Open Access
- Published: 10 October 2006
- Article: 442
-
Exhaustive assignment of compositional bias reveals universally prevalent biased regions: analysis of functional associations in human and Drosophila
Authors
- Paul M Harrison
- Content type: Research article
- Open Access
- Published: 10 October 2006
- Article: 441
-
A graph-search framework for associating gene identifiers with documents
Authors
- William W Cohen
- Einat Minkov
- Content type: Methodology article
- Open Access
- Published: 10 October 2006
- Article: 440
-
TreeDyn: towards dynamic graphics and annotations for analyses of trees
Authors (first, second and last of 5)
- François Chevenet
- Christine Brun
- Richard Christen
- Content type: Software
- Open Access
- Published: 10 October 2006
- Article: 439
-
QualitySNP: a pipeline for detecting single nucleotide polymorphisms and insertions/deletions in EST data from diploid and polyploid species
Authors (first, second and last of 5)
- Jifeng Tang
- Ben Vosman
- Jack AM Leunissen
- Content type: Software
- Open Access
- Published: 09 October 2006
- Article: 438
-
STAR: predicting recombination sites from amino acid sequence
Authors (first, second and last of 4)
- Denis C Bauer
- Mikael Bodén
- Elizabeth M Gillam
- Content type: Software
- Open Access
- Published: 08 October 2006
- Article: 437
-
ORENZA: a web resource for studying ORphan ENZyme activities
Authors
- Olivier Lespinet
- Bernard Labedan
- Content type: Database
- Open Access
- Published: 06 October 2006
- Article: 436
-
Coloring the Mu transpososome
Authors (first, second and last of 10)
- Isabel K Darcy
- Jeff Chang
- Travis Thompson
- Content type: Methodology article
- Open Access
- Published: 05 October 2006
- Article: 435
-
Rank-statistics based enrichment-site prediction algorithm developed for chromatin immunoprecipitation on chip experiments
Authors (first, second and last of 5)
- Srinka Ghosh
- Heather A Hirsch
- Thomas R Gingeras
- Content type: Methodology article
- Open Access
- Published: 05 October 2006
- Article: 434
-
M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species
Authors
- Todd J Treangen
- Xavier Messeguer
- Content type: Software
- Open Access
- Published: 05 October 2006
- Article: 433
-
Feature selection using Haar wavelet power spectrum
Authors
- Prabakaran Subramani
- Rajendra Sahu
- Shekhar Verma
- Content type: Research article
- Open Access
- Published: 05 October 2006
- Article: 432
-
The BiSearch web server
Authors (first, second and last of 4)
- Tamás Arányi
- András Váradi
- Gábor E Tusnády
- Content type: Software
- Open Access
- Published: 05 October 2006
- Article: 431
-
Development of an open source laboratory information management system for 2-D gel electrophoresis-based proteomics workflow
Authors
- Hiraku Morisawa
- Mikako Hirota
- Tosifusa Toda
- Content type: Software
- Open Access
- Published: 04 October 2006
- Article: 430
-
Design of a combinatorial DNA microarray for protein-DNA interaction studies
Authors
- Julian Mintseris
- Michael B Eisen
- Content type: Methodology article
- Open Access
- Published: 03 October 2006
- Article: 429
-
XRate: a fast prototyping, training and annotation tool for phylo-grammars
Authors (first, second and last of 8)
- Peter S Klosterman
- Andrew V Uzilov
- Ian Holmes
- Content type: Software
- Open Access
- Published: 03 October 2006
- Article: 428
-
MICA: desktop software for comprehensive searching of DNA databases
Authors
- William A Stokes
- Benjamin S Glick
- Content type: Software
- Open Access
- Published: 03 October 2006
- Article: 427
-
Grouping Gene Ontology terms to improve the assessment of gene set enrichment in microarray data
Authors
- Alex Lewin
- Ian C Grieve
- Content type: Methodology article
- Open Access
- Published: 03 October 2006
- Article: 426
-
Predicting residue-wise contact orders in proteins by support vector regression
Authors
- Jiangning Song
- Kevin Burrage
- Content type: Research article
- Open Access
- Published: 03 October 2006
- Article: 425
-
PubFocus: semantic MEDLINE/PubMed citations analytics through integration of controlled biomedical dictionaries and ranking algorithm
Authors
- Maksim V Plikus
- Zina Zhang
- Cheng-Ming Chuong
- Content type: Software
- Open Access
- Published: 02 October 2006
- Article: 424
-
Detection of prokaryotic promoters from the genomic distribution of hexanucleotide pairs
Authors (first, second and last of 5)
- Pierre-Étienne Jacques
- Sébastien Rodrigue
- Ryszard Brzezinski
- Content type: Research article
- Open Access
- Published: 02 October 2006
- Article: 423
-
Analysis with respect to instrumental variables for the exploration of microarray data structures
Authors (first, second and last of 5)
- Florent Baty
- Michaël Facompré
- Martin H Brutsche
- Content type: Methodology article
- Open Access
- Published: 29 September 2006
- Article: 422
-
Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle
Authors
- Wei-Sheng Wu
- Wen-Hsiung Li
- Bor-Sen Chen
- Content type: Research article
- Open Access
- Published: 29 September 2006
- Article: 421
-
Comparative assessment of performance and genome dependence among phylogenetic profiling methods
Authors (first, second and last of 5)
- Evan S Snitkin
- Adam M Gustafson
- Charles DeLisi
- Content type: Research article
- Open Access
- Published: 27 September 2006
- Article: 420
-
A machine learning strategy to identify candidate binding sites in human protein-coding sequence
Authors
- Thomas Down
- Bernard Leong
- Tim JP Hubbard
- Content type: Research article
- Open Access
- Published: 26 September 2006
- Article: 419
-
CROPPER: a metagene creator resource for cross-platform and cross-species compendium studies
Authors
- Jussi Paananen
- Markus Storvik
- Garry Wong
- Content type: Software
- Open Access
- Published: 22 September 2006
- Article: 418
-
Searching for interpretable rules for disease mutations: a simulated annealing bump hunting strategy
Authors (first, second and last of 4)
- Rui Jiang
- Hua Yang
- Ting Chen
- Content type: Research article
- Open Access
- Published: 19 September 2006
- Article: 417
-
Genomes as geography: using GIS technology to build interactive genome feature maps
Authors (first, second and last of 4)
- Mary E Dolan
- Constance C Holden
- Carol J Bult
- Content type: Methodology article
- Open Access
- Published: 19 September 2006
- Article: 416
-
Quantification of the variation in percentage identity for protein sequence alignments
Authors
- GPS Raghava
- Geoffrey J Barton
- Content type: Correspondence
- Open Access
- Published: 19 September 2006
- Article: 415
-
Semi-supervised discovery of differential genes
Authors
- Shigeyuki Oba
- Shin lshii
- Content type: Methodology article
- Open Access
- Published: 18 September 2006
- Article: 414
-
Correlated fragile site expression allows the identification of candidate fragile genes involved in immunity and associated with carcinogenesis
Authors (first, second and last of 5)
- Angela Re
- Davide Cora
- Isabella Sbrana
- Content type: Research article
- Open Access
- Published: 18 September 2006
- Article: 413
-
Detecting recombination in evolving nucleotide sequences
Authors
- Cheong Xin Chan
- Robert G Beiko
- Mark A Ragan
- Content type: Research article
- Open Access
- Published: 18 September 2006
- Article: 412
-
miTarget: microRNA target gene prediction using a support vector machine
Authors (first, second and last of 5)
- Sung-Kyu Kim
- Jin-Wu Nam
- Byoung-Tak Zhang
- Content type: Software
- Open Access
- Published: 18 September 2006
- Article: 411
-
Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction
Authors
- Eric D Scheeff
- Philip E Bourne
- Content type: Research article
- Open Access
- Published: 14 September 2006
- Article: 410
-
Genome-wide DNA polymorphism analyses using VariScan
Authors
- Stephan Hutter
- Albert J Vilella
- Julio Rozas
- Content type: Software
- Open Access
- Published: 12 September 2006
- Article: 409
-
Scanning sequences after Gibbs sampling to find multiple occurrences of functional elements
Authors (first, second and last of 5)
- Kannan Tharakaraman
- Leonardo Mariño-RamÃrez
- John L Spouge
- Content type: Software
- Open Access
- Published: 08 September 2006
- Article: 408
-
Identifying genes that contribute most to good classification in microarrays
Authors
- Stuart G Baker
- Barnett S Kramer
- Content type: Research article
- Open Access
- Published: 07 September 2006
- Article: 407
-
Erratum to: genetic algorithm learning as a robust approach to RNA editing site site prediction
Authors
- James Thompson
- Shuba Gopal
- Content type: Erratum
- Open Access
- Published: 06 September 2006
- Article: 406
-
Predicting the effect of missense mutations on protein function: analysis with Bayesian networks
Authors (first, second and last of 5)
- Chris J Needham
- James R Bradford
- David R Westhead
- Content type: Research article
- Open Access
- Published: 06 September 2006
- Article: 405
-
RDMAS: a web server for RNA deleterious mutation analysis
Authors (first, second and last of 6)
- Wenjie Shu
- Xiaochen Bo
- Shengqi Wang
- Content type: Software
- Open Access
- Published: 06 September 2006
- Article: 404
-
A database application for pre-processing, storage and comparison of mass spectra derived from patients and controls
Authors (first, second and last of 7)
- Mark K Titulaer
- Ivar Siccama
- Theo M Luider
- Content type: Software
- Open Access
- Published: 05 September 2006
- Article: 403
-
Distill: a suite of web servers for the prediction of one-, two- and three-dimensional structural features of proteins
Authors (first, second and last of 6)
- Davide Baú
- Alberto JM Martin
- Gianluca Pollastri
- Content type: Software
- Open Access
- Published: 05 September 2006
- Article: 402
-
CRNPRED: highly accurate prediction of one-dimensional protein structures by large-scale critical random networks
Authors
- Akira R Kinjo
- Ken Nishikawa
- Content type: Software
- Open Access
- Published: 05 September 2006
- Article: 401
-
Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints
Authors
- Robin D Dowell
- Sean R Eddy
- Content type: Methodology article
- Open Access
- Published: 04 September 2006
- Article: 400
-
Cancer diagnosis marker extraction for soft tissue sarcomas based on gene expression profiling data by using projective adaptive resonance theory (PART) filtering method
Authors (first, second and last of 5)
- Hiro Takahashi
- Takeshi Nemoto
- Tadashi Hasegawa
- Content type: Research article
- Open Access
- Published: 04 September 2006
- Article: 399
-
PhyloPat: phylogenetic pattern analysis of eukaryotic genes
Authors
- Tim Hulsen
- Jacob de Vlieg
- Peter MA Groenen
- Content type: Database
- Open Access
- Published: 01 September 2006
- Article: 398
-
Methods for evaluating clustering algorithms for gene expression data using a reference set of functional classes
Authors
- Susmita Datta
- Somnath Datta
- Content type: Methodology article
- Open Access
- Published: 31 August 2006
- Article: 397
-
Predicting transcription factor binding sites using local over-representation and comparative genomics
Authors
- Matthieu Defrance
- Hélène Touzet
- Content type: Software
- Open Access
- Published: 31 August 2006
- Article: 396
-
Probe set algorithms: is there a rational best bet?
Authors
- Jinwook Seo
- Eric P Hoffman
- Content type: Commentary
- Open Access
- Published: 30 August 2006
- Article: 395