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Previous Next 		Contents: Volume 25, Number 12, 15 June 2009   [Index by Author] 
Down ISMB/ECCB 2009 CONFERENCE PROCEEDINGS JUNE 27 TO JULY 2, 2009, STOCKHOLM, SWEDEN
     EDITORIAL
     ORIGINAL PAPERS
         BIOINFORMATICS OF DISEASE
         COMPARATIVE GENOMICS
         DATABASES AND ONTOLOGIES
         EVOLUTION AND PHYLOGENY
         GENE REGULATION AND TRANSCRIPTOMICS
         OTHER BIOINFORMATICS APPLICATIONS AND METHODS
         POPULATION GENOMICS
         PROTEIN INTERACTIONS AND MOLECULAR NETWORKS
         PROTEIN STRUCTURE AND FUNCTION
         SEQUENCE ANALYSIS AND ALIGNMENT
     AUTHOR INDEX
Down EDITORIAL
Down REVIEW
     GENE EXPRESSION
Down ORIGINAL PAPERS
     GENOME ANALYSIS
     SEQUENCE ANALYSIS
     STRUCTURAL BIOINFORMATICS
     SYSTEMS BIOLOGY
     DATA AND TEXT MINING
Down APPLICATIONS NOTE
     GENOME ANALYSIS
     SEQUENCE ANALYSIS
     PHYLOGENETICS
     STRUCTURAL BIOINFORMATICS
     GENETICS AND POPULATION ANALYSIS
     DATABASES AND ONTOLOGIES
Down ISCB NEWS
Down ERRATUM
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ISMB/ECCB 2009 CONFERENCE PROCEEDINGS JUNE 27 TO JULY 2, 2009, STOCKHOLM, SWEDEN Back

EDITORIAL Back

Dan Gusfield and Anna Tramontano
Editorial
Bioinformatics 2009 25: i1; doi:10.1093/bioinformatics/btp234 [Extract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

ISMB/ECCB 2009 Proceedings papers committee
Bioinformatics 2009 25: i2-i5; doi:10.1093/bioinformatics/btp260 [Extract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

ORIGINAL PAPERS Back

BIOINFORMATICS OF DISEASE Back

Ivan G. Costa, Alexander Schönhuth, Christoph Hafemeister, and Alexander Schliep
Constrained mixture estimation for analysis and robust classification of clinical time series
Bioinformatics 2009 25: i6-i14; doi:10.1093/bioinformatics/btp222 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Yang Huang, Stefan Wuchty, Michael T. Ferdig, and Teresa M. Przytycka
Graph theoretical approach to study eQTL: a case study of Plasmodium falciparum
Bioinformatics 2009 25: i15-i20; doi:10.1093/bioinformatics/btp189 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Marc A. Schaub, Irene M. Kaplow, Marina Sirota, Chuong B. Do, Atul J. Butte, and Serafim Batzoglou
A Classifier-based approach to identify genetic similarities between diseases
Bioinformatics 2009 25: i21-i29; doi:10.1093/bioinformatics/btp226 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Sohrab P. Shah, K-John Cheung, Jr, Nathalie A. Johnson, Guillaume Alain, Randy D. Gascoyne, Douglas E. Horsman, Raymond T. Ng, and Kevin P. Murphy
Model-based clustering of array CGH data
Bioinformatics 2009 25: i30-i38; doi:10.1093/bioinformatics/btp205 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Tal Vider-Shalit, Ronit Sarid, Kobi Maman, Lea Tsaban, Ran Levi, and Yoram Louzoun
Viruses selectively mutate their CD8+ T-cell epitopes—a large-scale immunomic analysis
Bioinformatics 2009 25: i39-i44; doi:10.1093/bioinformatics/btp221 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

COMPARATIVE GENOMICS Back

Jacob M. Joseph and Dannie Durand
Family classification without domain chaining
Bioinformatics 2009 25: i45-i53; doi:10.1093/bioinformatics/btp207 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Manuel Garber, Mitchell Guttman, Michele Clamp, Michael C. Zody, Nir Friedman, and Xiaohui Xie
Identifying novel constrained elements by exploiting biased substitution patterns
Bioinformatics 2009 25: i54-i62; doi:10.1093/bioinformatics/btp190 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

DATABASES AND ONTOLOGIES Back

Pan Du, Gang Feng, Jared Flatow, Jie Song, Michelle Holko, Warren A. Kibbe, and Simon M. Lin
From disease ontology to disease-ontology lite: statistical methods to adapt a general-purpose ontology for the test of gene-ontology associations
Bioinformatics 2009 25: i63-i68; doi:10.1093/bioinformatics/btp193 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Stefan Schulz, Elena Beisswanger, László van den Hoek, Olivier Bodenreider, and Erik M. van Mulligen
Alignment of the UMLS semantic network with BioTop: methodology and assessment
Bioinformatics 2009 25: i69-i76; doi:10.1093/bioinformatics/btp194 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Karin Verspoor, Daniel Dvorkin, K. Bretonnel Cohen, and Lawrence Hunter
Ontology quality assurance through analysis of term transformations
Bioinformatics 2009 25: i77-i84; doi:10.1093/bioinformatics/btp195 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

EVOLUTION AND PHYLOGENY Back

Daniel H. Huson, Regula Rupp, Vincent Berry, Philippe Gambette, and Christophe Paul
Computing galled networks from real data
Bioinformatics 2009 25: i85-i93; doi:10.1093/bioinformatics/btp217 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Timothy D. O'Connor and Nicholas I. Mundy
Genotype–phenotype associations: substitution models to detect evolutionary associations between phenotypic variables and genotypic evolutionary rate
Bioinformatics 2009 25: i94-i100; doi:10.1093/bioinformatics/btp231 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

GENE REGULATION AND TRANSCRIPTOMICS Back

Abhishek Garg, Kartik Mohanram, Alessandro Di Cara, Giovanni De Micheli, and Ioannis Xenarios
Modeling stochasticity and robustness in gene regulatory networks
Bioinformatics 2009 25: i101-i109; doi:10.1093/bioinformatics/btp214 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Aurélie C. Lozano, Naoki Abe, Yan Liu, and Saharon Rosset
Grouped graphical Granger modeling for gene expression regulatory networks discovery
Bioinformatics 2009 25: i110-i118; doi:10.1093/bioinformatics/btp199 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Adam A. Smith, Aaron Vollrath, Christopher A. Bradfield, and Mark Craven
Clustered alignments of gene-expression time series data
Bioinformatics 2009 25: i119-i1127; doi:10.1093/bioinformatics/btp206 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Le Song, Mladen Kolar, and Eric P. Xing
KELLER: estimating time-varying interactions between genes
Bioinformatics 2009 25: i128-i136; doi:10.1093/bioinformatics/btp192 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Duygu Ucar, Andreas Beyer, Srinivasan Parthasarathy, and Christopher T. Workman
Predicting functionality of protein–DNA interactions by integrating diverse evidence
Bioinformatics 2009 25: i137-i144; doi:10.1093/bioinformatics/btp213 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

OTHER BIOINFORMATICS APPLICATIONS AND METHODS Back

José Caldas, Nils Gehlenborg, Ali Faisal, Alvis Brazma, and Samuel Kaski
Probabilistic retrieval and visualization of biologically relevant microarray experiments
Bioinformatics 2009 25: i145-i153; doi:10.1093/bioinformatics/btp215 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Manfred Claassen, Ruedi Aebersold, and Joachim M. Buhmann
Proteome coverage prediction with infinite Markov models
Bioinformatics 2009 25: i154-i160; doi:10.1093/bioinformatics/btp233 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders, and Ilya Shmulevich
Fewer permutations, more accurate P-values
Bioinformatics 2009 25: i161-i168; doi:10.1093/bioinformatics/btp211 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Aurélien Rizk, Gregory Batt, François Fages, and Sylvain Soliman
A general computational method for robustness analysis with applications to synthetic gene networks
Bioinformatics 2009 25: i169-i178; doi:10.1093/bioinformatics/btp200 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Yoshihiro Yamanishi, Masahiro Hattori, Masaaki Kotera, Susumu Goto, and Minoru Kanehisa
E-zyme: predicting potential EC numbers from the chemical transformation pattern of substrate-product pairs
Bioinformatics 2009 25: i179-i186; doi:10.1093/bioinformatics/btp223 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

POPULATION GENOMICS Back

Anand Bhaskar and Yun S. Song
Multi-locus match probability in a finite population: a fundamental difference between the Moran and Wright–Fisher models
Bioinformatics 2009 25: i187-i195; doi:10.1093/bioinformatics/btp227 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Dan Geiger, Christopher Meek, and Ydo Wexler
Speeding up HMM algorithms for genetic linkage analysis via chain reductions of the state space
Bioinformatics 2009 25: i196-i203; doi:10.1093/bioinformatics/btp224 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Seyoung Kim, Kyung-Ah Sohn, and Eric P. Xing
A multivariate regression approach to association analysis of a quantitative trait network
Bioinformatics 2009 25: i204-i212; doi:10.1093/bioinformatics/btp218 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Bogdan Pasaniuc, Sriram Sankararaman, Gad Kimmel, and Eran Halperin
Inference of locus-specific ancestry in closely related populations
Bioinformatics 2009 25: i213-i221; doi:10.1093/bioinformatics/btp197 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Suzanne Sindi, Elena Helman, Ali Bashir, and Benjamin J. Raphael
A geometric approach for classification and comparison of structural variants
Bioinformatics 2009 25: i222-i230; doi:10.1093/bioinformatics/btp208 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Junming Yin, Michael I. Jordan, and Yun S. Song
Joint estimation of gene conversion rates and mean conversion tract lengths from population SNP data
Bioinformatics 2009 25: i231-i239; doi:10.1093/bioinformatics/btp229 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

PROTEIN INTERACTIONS AND MOLECULAR NETWORKS Back

Xin Guo and Alexander J. Hartemink
Domain-oriented edge-based alignment of protein interaction networks
Bioinformatics 2009 25: i240-1246; doi:10.1093/bioinformatics/btp202 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Shira Mintz-Oron, Asaph Aharoni, Eytan Ruppin, and Tomer Shlomi
Network-based prediction of metabolic enzymes' subcellular localization
Bioinformatics 2009 25: i247-i1252; doi:10.1093/bioinformatics/btp209 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Chung-Shou Liao, Kanghao Lu, Michael Baym, Rohit Singh, and Bonnie Berger
IsoRankN: spectral methods for global alignment of multiple protein networks
Bioinformatics 2009 25: i253-i258; doi:10.1093/bioinformatics/btp203 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Mikhail Zaslavskiy, Francis Bach, and Jean-Philippe Vert
Global alignment of protein–protein interaction networks by graph matching methods
Bioinformatics 2009 25: i259-1267; doi:10.1093/bioinformatics/btp196 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

PROTEIN STRUCTURE AND FUNCTION Back

Babak Alipanahi, Xin Gao, Emre Karakoc, Logan Donaldson, and Ming Li
PICKY: a novel SVD-based NMR spectra peak picking method
Bioinformatics 2009 25: i268-i275; doi:10.1093/bioinformatics/btp225 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Liya Fan, Fa Zhang, Gongming Wang, and Zhiyong Liu
A framework to refine particle clusters produced by EMAN
Bioinformatics 2009 25: i276-i280; doi:10.1093/bioinformatics/btp219 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Firas Khatib, Carol A. Rohl, and Kevin Karplus
Pokefind: a novel topological filter for use with protein structure prediction
Bioinformatics 2009 25: i281-i288; doi:10.1093/bioinformatics/btp198 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Luca Marsella, Francesco Sirocco, Antonio Trovato, Flavio Seno, and Silvio C.E. Tosatto
REPETITA: detection and discrimination of the periodicity of protein solenoid repeats by discrete Fourier transform
Bioinformatics 2009 25: i289-i295; doi:10.1093/bioinformatics/btp232 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Izhar Wallach and Ryan H. Lilien
Prediction of sub-cavity binding preferences using an adaptive physicochemical structure representation
Bioinformatics 2009 25: i296-i304; doi:10.1093/bioinformatics/btp204 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Lei Xie, Li Xie, and Philip E. Bourne
A unified statistical model to support local sequence order independent similarity searching for ligand-binding sites and its application to genome-based drug discovery
Bioinformatics 2009 25: i305-i312; doi:10.1093/bioinformatics/btp220 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

SEQUENCE ANALYSIS AND ALIGNMENT Back

Thomas Abeel, Yves Van de Peer, and Yvan Saeys
Toward a gold standard for promoter prediction evaluation
Bioinformatics 2009 25: i313-i320; doi:10.1093/bioinformatics/btp191 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Wenjie Fu, Pradipta Ray, and Eric P. Xing
DISCOVER: a feature-based discriminative method for motif search in complex genomes
Bioinformatics 2009 25: i321-i329; doi:10.1093/bioinformatics/btp230 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Michiaki Hamada, Kengo Sato, Hisanori Kiryu, Toutai Mituyama, and Kiyoshi Asai
Predictions of RNA secondary structure by combining homologous sequence information
Bioinformatics 2009 25: i330-i338; doi:10.1093/bioinformatics/btp228 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

John Hawkins, Charles Grant, William Stafford Noble, and Timothy L. Bailey
Assessing phylogenetic motif models for predicting transcription factor binding sites
Bioinformatics 2009 25: i339-i347; doi:10.1093/bioinformatics/btp201 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Shai Lubliner and Eran Segal
Modeling interactions between adjacent nucleosomes improves genome-wide predictions of nucleosome occupancy
Bioinformatics 2009 25: i348-i355; doi:10.1093/bioinformatics/btp216 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Tobias Marschall and Sven Rahmann
Efficient exact motif discovery
Bioinformatics 2009 25: i356-i364; doi:10.1093/bioinformatics/btp188 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Hamidreza Chitsaz, Raheleh Salari, S. Cenk Sahinalp, and Rolf Backofen
A partition function algorithm for interacting nucleic acid strands
Bioinformatics 2009 25: i365-i373; doi:10.1093/bioinformatics/btp212 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Oliver Stegle, Linda Payet, Jean-Louis Mergny, David J. C. MacKay, and Julian Leon Huppert
Predicting and understanding the stability of G-quadruplexes
Bioinformatics 2009 25: i374-i1382; doi:10.1093/bioinformatics/btp210 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

AUTHOR INDEX Back

Author Index
Bioinformatics 2009 25: i383-i384; doi:10.1093/bioinformatics/btp315 [Extract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

EDITORIAL Back

Alex Bateman and Matt Wood
Cloud computing
Bioinformatics Advance Access published on May 12, 2009
Bioinformatics 2009 25: 1475; doi:10.1093/bioinformatics/btp274 [Extract] [Full Text] [Print PDF] [Request Permissions]  

REVIEW Back

GENE EXPRESSION Back

Yong Lu, Peter Huggins, and Ziv Bar-Joseph
Cross species analysis of microarray expression data
Bioinformatics Advance Access published on April 8, 2009
Bioinformatics 2009 25: 1476-1483; doi:10.1093/bioinformatics/btp247 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

ORIGINAL PAPERS Back

GENOME ANALYSIS Back

Rasa Jurgelenaite, Tjeerd M. H. Dijkstra, Clemens H. M. Kocken, and Tom Heskes
Gene regulation in the intraerythrocytic cycle of Plasmodium falciparum
Bioinformatics Advance Access published on March 31, 2009
Bioinformatics 2009 25: 1484-1491; doi:10.1093/bioinformatics/btp179 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

SEQUENCE ANALYSIS Back

R. V. Spriggs, Y. Murakami, H. Nakamura, and S. Jones
Protein function annotation from sequence: prediction of residues interacting with RNA
Bioinformatics Advance Access published on April 23, 2009
Bioinformatics 2009 25: 1492-1497; doi:10.1093/bioinformatics/btp257 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Yasuo Tabei and Kiyoshi Asai
A local multiple alignment method for detection of non-coding RNA sequences
Bioinformatics Advance Access published on April 17, 2009
Bioinformatics 2009 25: 1498-1505; doi:10.1093/bioinformatics/btp261 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS Back

Oriol Fornes, Ramon Aragues, Jordi Espadaler, Marc A. Marti-Renom, Andrej Sali, and Baldo Oliva
ModLink+: improving fold recognition by using protein–protein interactions
Bioinformatics Advance Access published on April 8, 2009
Bioinformatics 2009 25: 1506-1512; doi:10.1093/bioinformatics/btp238 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Nurcan Tuncbag, Attila Gursoy, and Ozlem Keskin
Identification of computational hot spots in protein interfaces: combining solvent accessibility and inter-residue potentials improves the accuracy
Bioinformatics Advance Access published on April 8, 2009
Bioinformatics 2009 25: 1513-1520; doi:10.1093/bioinformatics/btp240 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

SYSTEMS BIOLOGY Back

Jia Meng, Shou-Jiang Gao, and Yufei Huang
Enrichment constrained time-dependent clustering analysis for finding meaningful temporal transcription modules
Bioinformatics Advance Access published on April 7, 2009
Bioinformatics 2009 25: 1521-1527; doi:10.1093/bioinformatics/btp235 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Aziz Mithani, Gail M. Preston, and Jotun Hein
A stochastic model for the evolution of metabolic networks with neighbor dependence
Bioinformatics Advance Access published on April 17, 2009
Bioinformatics 2009 25: 1528-1535; doi:10.1093/bioinformatics/btp262 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

DATA AND TEXT MINING Back

Rajesh Chowdhary, Jinfeng Zhang, and Jun S. Liu
Bayesian inference of protein–protein interactions from biological literature
Bioinformatics Advance Access published on April 15, 2009
Bioinformatics 2009 25: 1536-1542; doi:10.1093/bioinformatics/btp245 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Leon French, Suzanne Lane, Tamryn Law, Lydia Xu, and Paul Pavlidis
Application and evaluation of automated semantic annotation of gene expression experiments
Bioinformatics Advance Access published on April 17, 2009
Bioinformatics 2009 25: 1543-1549; doi:10.1093/bioinformatics/btp259 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

APPLICATIONS NOTE Back

GENOME ANALYSIS Back

Ram Podicheti, Rajesh Gollapudi, and Qunfeng Dong
WebGBrowse—a web server for GBrowse
Bioinformatics Advance Access published on April 8, 2009
Bioinformatics 2009 25: 1550-1551; doi:10.1093/bioinformatics/btp239 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Miguel Pignatelli, Florenci Serras, Andrés Moya, Roderic Guigó, and Montserrat Corominas
CROC: finding chromosomal clusters in eukaryotic genomes
Bioinformatics Advance Access published on April 23, 2009
Bioinformatics 2009 25: 1552-1553; doi:10.1093/bioinformatics/btp248 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS Back

Hua Bao, Hui Guo, Jinwei Wang, Renchao Zhou, Xuemei Lu, and Suhua Shi
MapView: visualization of short reads alignment on a desktop computer
Bioinformatics Advance Access published on April 15, 2009
Bioinformatics 2009 25: 1554-1555; doi:10.1093/bioinformatics/btp255 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

PHYLOGENETICS Back

Blaz Stres, James M. Tiedje, and Bostjan Murovec
BEsTRF: a tool for optimal resolution of terminal-restriction fragment length polymorphism analysis based on user-defined primer–enzyme–sequence databases
Bioinformatics Advance Access published on April 15, 2009
Bioinformatics 2009 25: 1556-1558; doi:10.1093/bioinformatics/btp254 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS Back

Semin Lee and Tom L Blundell
BIPA: a database for protein–nucleic acid interaction in 3D structures
Bioinformatics Advance Access published on April 8, 2009
Bioinformatics 2009 25: 1559-1560; doi:10.1093/bioinformatics/btp243 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS Back

Mark Abney
A graphical algorithm for fast computation of identity coefficients and generalized kinship coefficients
Bioinformatics Advance Access published on April 9, 2009
Bioinformatics 2009 25: 1561-1563; doi:10.1093/bioinformatics/btp185 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Brandon M. Hall, Chang-Xing Ma, Ping Liang, and Keshav K. Singh
Fluctuation AnaLysis CalculatOR: a web tool for the determination of mutation rate using Luria–Delbrück fluctuation analysis
Bioinformatics Advance Access published on April 15, 2009
Bioinformatics 2009 25: 1564-1565; doi:10.1093/bioinformatics/btp253 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES Back

Amanda M. White, James R. Collett, Shannon L. Seurynck-Servoss, Don S. Daly, and Richard C. Zangar
ELISA-BASE: an integrated bioinformatics tool for analyzing and tracking ELISA microarray data
Bioinformatics Advance Access published on April 3, 2009
Bioinformatics 2009 25: 1566-1567; doi:10.1093/bioinformatics/btp182 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Jayashree Ramana and Dinesh Gupta
ProtVirDB: a database of protozoan virulent proteins
Bioinformatics Advance Access published on April 15, 2009
Bioinformatics 2009 25: 1568-1569; doi:10.1093/bioinformatics/btp258 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

ISCB NEWS Back

Marie-France Sagot, B.J. Morrison McKay, and Gene Myers
ISMB/ECCB 2009 Stockholm
Bioinformatics Advance Access published on May 14, 2009
Bioinformatics 2009 25: 1570-1573; doi:10.1093/bioinformatics/btp280 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

ERRATUM Back

Zheng Guo, Yongjin Li, Xue Gong, Chen Yao, Wencai Ma, Dong Wang, Yanhui Li, Jing Zhu, Min Zhang, Da Yang, and Jing Wang
Edge-based scoring and searching method for identifying condition-responsive protein–protein interaction sub-network
Bioinformatics 2009 25: 1574; doi:10.1093/bioinformatics/btp308 [Extract] [Full Text] [Print PDF] [Request Permissions]  

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.