Bioinformatics

ORIGINAL PAPERS:

GENOME ANALYSIS:

Get checked abstract Suresh B. Mudunuri and Hampapathalu A. Nagarajaram

IMEx: Imperfect Microsatellite Extractor
Bioinformatics Advance Access published on March 22, 2007
Bioinformatics 2007 23: 1181-1187; doi:10.1093/bioinformatics/btm097 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS:

Get checked abstract Leping Li, Yu Liang, and Robert L. Bass

GAPWM: a genetic algorithm method for optimizing a position weight matrix
Bioinformatics Advance Access published on March 6, 2007
Bioinformatics 2007 23: 1188-1194; doi:10.1093/bioinformatics/btm080 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Shengzhong Feng and Elisabeth R.M. Tillier

A fast and flexible approach to oligonucleotide probe design for genomes and gene families
Bioinformatics Advance Access published on March 28, 2007
Bioinformatics 2007 23: 1195-1202; doi:10.1093/bioinformatics/btm114 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Get checked abstract Jan E. Gewehr, Volker Hintermair, and Ralf Zimmer

AutoSCOP: automated prediction of SCOP classifications using unique pattern-class mappings
Bioinformatics Advance Access published on March 22, 2007
Bioinformatics 2007 23: 1203-1210; doi:10.1093/bioinformatics/btm089 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Yoshihiro Yamanishi, Francis Bach, and Jean-Philippe Vert

Glycan classification with tree kernels
Bioinformatics Advance Access published on March 7, 2007
Bioinformatics 2007 23: 1211-1216; doi:10.1093/bioinformatics/btm090 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Get checked abstract Wuyan Zhang, Alicia Carriquiry, Dan Nettleton, and Jack C.M. Dekkers

Pooling mRNA in microarray experiments and its effect on power
Bioinformatics Advance Access published on March 7, 2007
Bioinformatics 2007 23: 1217-1224; doi:10.1093/bioinformatics/btm081 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Alicia Oshlack, Adrien E. Chabot, Gordon K. Smyth, and Yoav Gilad

Using DNA microarrays to study gene expression in closely related species
Bioinformatics Advance Access published on March 23, 2007
Bioinformatics 2007 23: 1235-1242; doi:10.1093/bioinformatics/btm111 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Yinglei Lai, Bao-ling Adam, Robert Podolsky, and Jin-Xiong She

A mixture model approach to the tests of concordance and discordance between two large-scale experiments with two-sample groups
Bioinformatics Advance Access published on March 23, 2007
Bioinformatics 2007 23: 1243-1250; doi:10.1093/bioinformatics/btm103 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Get checked abstract Min Lin, Hongying Li, Wei Hou, Julie A. Johnson, and Rongling Wu

Modeling sequence–sequence interactions for drug response
Bioinformatics Advance Access published on March 28, 2007
Bioinformatics 2007 23: 1251-1257; doi:10.1093/bioinformatics/btm110 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Get checked abstract Ross P. Carlson

Metabolic systems cost-benefit analysis for interpreting network structure and regulation
Bioinformatics Advance Access published on March 7, 2007
Bioinformatics 2007 23: 1258-1264; doi:10.1093/bioinformatics/btm082 [Abstract] [Full Text] [Print PDF] [Supplementary data] [Request Permissions]  

Get checked abstract Yufei Xiao and Edward R. Dougherty

The impact of function perturbations in Boolean networks
Bioinformatics Advance Access published on March 22, 2007
Bioinformatics 2007 23: 1265-1273; doi:10.1093/bioinformatics/btm093 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATA AND TEXT MINING:

Get checked abstract James Z. Wang, Zhidian Du, Rapeeporn Payattakool, Philip S. Yu, and Chin-Fu Chen

A new method to measure the semantic similarity of GO terms
Bioinformatics Advance Access published on March 7, 2007
Bioinformatics 2007 23: 1274-1281; doi:10.1093/bioinformatics/btm087 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES:

APPLICATIONS NOTES:

SEQUENCE ANALYSIS:

STRUCTURAL BIOINFORMATICS:

Get checked abstract Liang-Tsung Huang, M. Michael Gromiha, and Shinn-Ying Ho

iPTREE-STAB: interpretable decision tree based method for predicting protein stability changes upon mutations
Bioinformatics Advance Access published on March 22, 2007
Bioinformatics 2007 23: 1292-1293; doi:10.1093/bioinformatics/btm100 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Get checked abstract Yurii S. Aulchenko, Stephan Ripke, Aaron Isaacs, and Cornelia M. van Duijn

GenABEL: an R library for genome-wide association analysis
Bioinformatics Advance Access published on March 23, 2007
Bioinformatics 2007 23: 1294-1296; doi:10.1093/bioinformatics/btm108 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Get checked abstract Hening Schmidt, Gunnar Drews, Julio Vera, and Olaf Wolkenhauer

SBML export interface for the systems biology toolbox for MATLAB
Bioinformatics Advance Access published on March 23, 2007
Bioinformatics 2007 23: 1297-1298; doi:10.1093/bioinformatics/btm105 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract François Le Fèvre, Serge Smidtas, and Vincent Schächter

Cyclone: java-based querying and computing with Pathway/Genome databases
Bioinformatics Advance Access published on March 28, 2007
Bioinformatics 2007 23: 1299-1300; doi:10.1093/bioinformatics/btm107 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES:

Get checked abstract Sarah Cohen-Boulakia, Olivier Biton, Susan Davidson, and Christine Froidevaux

BioGuideSRS: querying multiple sources with a user-centric perspective
Bioinformatics Advance Access published on March 7, 2007
Bioinformatics 2007 23: 1301-1303; doi:10.1093/bioinformatics/btm088 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Qi-Hui Zhu, An-Yuan Guo, Ge Gao, Ying-Fu Zhong, Meng Xu, Minren Huang, and Jinchu Luo

DPTF: a database of poplar transcription factors
Bioinformatics Advance Access published on March 28, 2007
Bioinformatics 2007 23: 1307-1308; doi:10.1093/bioinformatics/btm113 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

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