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Previous Next 		Contents: Volume 23, Number 1, 1 January 2007   [Index by Author] 
       DISCOVERY NOTE
                GENOME ANALYSIS
       ORIGINAL PAPERS
                SEQUENCE ANALYSIS
                PHYLOGENETICS
                GENE EXPRESSION
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
                DATA AND TEXT MINING
       APPLICATIONS NOTE
                GENOME ANALYSIS
                PHYLOGENETICS
                GENETICS AND POPULATION ANALYSIS
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DISCOVERY NOTE:

GENOME ANALYSIS:

Passoupathy Rajendrakumar, Akshaya Kumar Biswal, Sena M. Balachandran, Kommoju Srinivasarao, and Raman M. Sundaram
Simple sequence repeats in organellar genomes of rice: frequency and distribution in genic and intergenic regions
Bioinformatics Advance Access published on October 31, 2006
Bioinformatics 2007 23: 1-4; doi:10.1093/bioinformatics/btl547 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

ORIGINAL PAPERS:

SEQUENCE ANALYSIS:

Waibhav Tembe, Nela Zavaljevski, Elizabeth Bode, Catherine Chase, Jeanne Geyer, Leonard Wasieloski, Gary Benson, and Jaques Reifman
Oligonucleotide fingerprint identification for microarray-based pathogen diagnostic assays
Bioinformatics Advance Access published on October 26, 2006
Bioinformatics 2007 23: 5-13; doi:10.1093/bioinformatics/btl549 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

PHYLOGENETICS:

Daniel Barker, Andrew Meade, and Mark Pagel
Constrained models of evolution lead to improved prediction of functional linkage from correlated gain and loss of genes
Bioinformatics Advance Access published on November 7, 2006
Bioinformatics 2007 23: 14-20; doi:10.1093/bioinformatics/btl558 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

GENE EXPRESSION:

M. Juanita Martinez, Andrew D. Smith, Bilan Li, Michael Q. Zhang, and Kevin S. Harrod
Computational prediction of novel components of lung transcriptional networks
Bioinformatics Advance Access published on October 18, 2006
Bioinformatics 2007 23: 21-29; doi:10.1093/bioinformatics/btl531 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Yijun Sun, Steve Goodison, Jian Li, Li Liu, and William Farmerie
Improved breast cancer prognosis through the combination of clinical and genetic markers
Bioinformatics Advance Access published on November 26, 2006
Bioinformatics 2007 23: 30-37; doi:10.1093/bioinformatics/btl543 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Hyuna Yang and Gary Churchill
Estimating p-values in small microarray experiments
Bioinformatics Advance Access published on October 30, 2006
Bioinformatics 2007 23: 38-43; doi:10.1093/bioinformatics/btl548 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Paul Fogel, S. Stanley Young, Douglas M. Hawkins, and Nathalie Ledirac
Inferential, robust non-negative matrix factorization analysis of microarray data
Bioinformatics Advance Access published on November 8, 2006
Bioinformatics 2007 23: 44-49; doi:10.1093/bioinformatics/btl550 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Xiaowen Liu and Lusheng Wang
Computing the maximum similarity bi-clusters of gene expression data
Bioinformatics Advance Access published on November 7, 2006
Bioinformatics 2007 23: 50-56; doi:10.1093/bioinformatics/btl560 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Jianping Hua, David W. Craig, Marcel Brun, Jennifer Webster, Victoria Zismann, Waibhav Tembe, Keta Joshipura, Matthew J. Huentelman, Edward R. Dougherty, and Dietrich A. Stephan
SNiPer-HD: improved genotype calling accuracy by an expectation-maximization algorithm for high-density SNP arrays
Bioinformatics Advance Access published on October 24, 2006
Bioinformatics 2007 23: 57-63; doi:10.1093/bioinformatics/btl536 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Johannes Dietter, Manuel Mattheisen, Robert Fürst, Franz Rüschendorf, Thomas F. Wienker, and Konstantin Strauch
Linkage analysis using sex-specific recombination fractions with GENEHUNTER-MODSCORE
Bioinformatics Advance Access published on October 23, 2006
Bioinformatics 2007 23: 64-70; doi:10.1093/bioinformatics/btl539 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Yujin Chung, Seung Yeoun Lee, Robert C. Elston, and Taesung Park
Odds ratio based multifactor-dimensionality reduction method for detecting gene–gene interactions
Bioinformatics Advance Access published on November 8, 2006
Bioinformatics 2007 23: 71-76; doi:10.1093/bioinformatics/btl557 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Jens Hollunder, Maik Friedel, Andreas Beyer, Christopher T. Workman, and Thomas Wilhelm
DASS: efficient discovery and p-value calculation of substructures in unordered data
Bioinformatics Advance Access published on October 10, 2006
Bioinformatics 2007 23: 77-83; doi:10.1093/bioinformatics/btl511 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Tianhai Tian, Songlin Xu, Junbin Gao, and Kevin Burrage
Simulated maximum likelihood method for estimating kinetic rates in gene expression
Bioinformatics Advance Access published on October 26, 2006
Bioinformatics 2007 23: 84-91; doi:10.1093/bioinformatics/btl552 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

John E. Beasley and Francisco J. Planes
Recovering metabolic pathways via optimization
Bioinformatics Advance Access published on October 26, 2006
Bioinformatics 2007 23: 92-98; doi:10.1093/bioinformatics/btl554 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

DATA AND TEXT MINING:

Ruhong Zhou, Laxmi Parida, Kush Kapila, and Sudhir Mudur
PROTERAN: animated terrain evolution for visual analysis of patterns in protein folding trajectory
Bioinformatics Advance Access published on October 24, 2006
Bioinformatics 2007 23: 99-106; doi:10.1093/bioinformatics/btl538 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Dae-Won Kim, Ki-Young Lee, Kwang H. Lee, and Doheon Lee
Towards clustering of incomplete microarray data without the use of imputation
Bioinformatics Advance Access published on October 31, 2006
Bioinformatics 2007 23: 107-113; doi:10.1093/bioinformatics/btl555 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Cheolhwan Oh, Stanislaw H. Zak, Hamid Mirzaei, Charles Buck, Fred E. Regnier, and Xiang Zhang
Neural network prediction of peptide separation in strong anion exchange chromatography
Bioinformatics Advance Access published on November 8, 2006
Bioinformatics 2007 23: 114-118; doi:10.1093/bioinformatics/btl561 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE:

GENOME ANALYSIS:

Guillaume Achaz, Frédéric Boyer, Eduardo P. C. Rocha, Alain Viari, and Eric Coissac
Repseek, a tool to retrieve approximate repeats from large DNA sequences
Bioinformatics Advance Access published on October 11, 2006
Bioinformatics 2007 23: 119-121; doi:10.1093/bioinformatics/btl519 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Gabriela Loots and Ivan Ovcharenko
ECRbase: database of evolutionary conserved regions, promoters, and transcription factor binding sites in vertebrate genomes
Bioinformatics Advance Access published on November 7, 2006
Bioinformatics 2007 23: 122-124; doi:10.1093/bioinformatics/btl546 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

C. T. Kuenne, R. Ghai, T. Chakraborty, and T. Hain
GECO–linear visualization for comparative genomics
Bioinformatics Advance Access published on October 31, 2006
Bioinformatics 2007 23: 125-126; doi:10.1093/bioinformatics/btl556 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

PHYLOGENETICS:

Ivica Letunic and Peer Bork
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
Bioinformatics Advance Access published on October 18, 2006
Bioinformatics 2007 23: 127-128; doi:10.1093/bioinformatics/btl529 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

P. C. Sham, S. I. Ao, J. S. H. Kwan, P. Kao, F. Cheung, P. Y. Fong, and M. K. Ng
Combining functional and linkage disequilibrium information in the selection of tag SNPs
Bioinformatics Advance Access published on October 23, 2006
Bioinformatics 2007 23: 129-131; doi:10.1093/bioinformatics/btl532 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

To see an article, click its [Full Text] link. To review many abstracts, check the boxes to the left of the titles you want, and click the 'Get All Checked Abstract(s)' button. To see one abstract at a time, click its [Abstract] link.