Articles
Volume 8 (2007) - June 2007
|
Database
Integrated olfactory receptor and microarray gene expression databases Nian Liu, Chiquito J Crasto, Minghong Ma BMC Bioinformatics 2007, 8:231 (30 June 2007) |
|
Research article
Shunpu Zhang BMC Bioinformatics 2007, 8:230 (29 June 2007) |
|
Methodology article
A constrained polynomial regression procedure for estimating the local False Discovery Rate Cyril Dalmasso, Avner Bar-Hen, Philippe Broët BMC Bioinformatics 2007, 8:229 (29 June 2007) |
|
Methodology article
Reuben Thomas, Carlos J Paredes, Sanjay Mehrotra, Vassily Hatzimanikatis, Eleftherios T Papoutsakis BMC Bioinformatics 2007, 8:228 (29 June 2007) |
|
Research article
Relationship between insertion/deletion (indel) frequency of proteins and essentiality Simon K Chan, Michael Hsing, Fereydoun Hormozdiari, Artem Cherkasov BMC Bioinformatics 2007, 8:227 (28 June 2007) |
|
Research article
Dror Tobi, Ivet Bahar BMC Bioinformatics 2007, 8:226 (28 June 2007) |
|
Research article
Mining prokaryotic genomes for unknown amino acids: a stop-codon-based approach Masashi Fujita, Hisaaki Mihara, Susumu Goto, Nobuyoshi Esaki, Minoru Kanehisa BMC Bioinformatics 2007, 8:225 (28 June 2007) As two rare amino acids are stop codon-encoded, a 23rd undiscovered amino acid might also be, but a systematic search for 'readthrough proteins’ in prokaryotes showed no trace of an additional stop codon-encoded amino acid.
|
|
Research article
Characterization of protein-interaction networks in tumors Alexander Platzer, Paul Perco, Arno Lukas, Bernd Mayer BMC Bioinformatics 2007, 8:224 (27 June 2007) |
|
Research article
High-throughput identification of interacting protein-protein binding sites Jo-Lan Chung, Wei Wang, Philip E Bourne BMC Bioinformatics 2007, 8:223 (27 June 2007) |
|
Research article
Constructing a meaningful evolutionary average at the phylogenetic center of mass Eric A Stone, Arend Sidow BMC Bioinformatics 2007, 8:222 (26 June 2007) |
|
Software
Ringo – an R/Bioconductor package for analyzing ChIP-chip readouts Joern Toedling, Oleg Sklyar, Wolfgang Huber BMC Bioinformatics 2007, 8:221 (26 June 2007) |
|
Methodology article
A robust measure of correlation between two genes on a microarray Johanna Hardin, Aya Mitani, Leanne Hicks, Brian VanKoten BMC Bioinformatics 2007, 8:220 (25 June 2007) |
|
Research article
Normalization and experimental design for ChIP-chip data Shouyong Peng, Artyom A Alekseyenko, Erica Larschan, Mitzi I Kuroda, Peter J Park BMC Bioinformatics 2007, 8:219 (25 June 2007) |
|
Research article
Novel and simple transformation algorithm for combining microarray data sets Ki-Yeol Kim, Dong Ki, Ha Jeong, Hei-Cheul Jeung, Hyun Chung, Sun Rha BMC Bioinformatics 2007, 8:218 (25 June 2007) |
|
Software
GenMAPP 2: new features and resources for pathway analysis Nathan Salomonis, Kristina Hanspers, Alexander C Zambon, Karen Vranizan, Steven C Lawlor, Kam D Dahlquist, Scott W Doniger, Josh Stuart, Bruce R Conklin, Alexander R Pico BMC Bioinformatics 2007, 8:217 (24 June 2007) |
|
Database
ProMEX: a mass spectral reference database for proteins and protein phosphorylation sites Jan Hummel, Michaela Niemann, Stefanie Wienkoop, Waltraud Schulze, Dirk Steinhauser, Joachim Selbig, Dirk Walther, Wolfram Weckwerth BMC Bioinformatics 2007, 8:216 (23 June 2007) |
|
Research article
FlexOracle: predicting flexible hinges by identification of stable domains Samuel C Flores, Mark B Gerstein BMC Bioinformatics 2007, 8:215 (22 June 2007) |
|
Software
Precise protein quantification based on peptide quantification using iTRAQ™ Andreas M Boehm, Stephanie Pütz, Daniela Altenhöfer, Albert Sickmann, Michael Falk BMC Bioinformatics 2007, 8:214 (21 June 2007) |
|
Software
Namshin Kim, Christopher Lee BMC Bioinformatics 2007, 8:213 (20 June 2007) |
|
Methodology article
Optimization based automated curation of metabolic reconstructions Vinay Satish Kumar, Madhukar S Dasika, Costas D Maranas BMC Bioinformatics 2007, 8:212 (20 June 2007) |
|
Software
Composition Profiler: a tool for discovery and visualization of amino acid composition differences Vladimir Vacic, Vladimir N Uversky, A Keith Dunker, Stefano Lonardi BMC Bioinformatics 2007, 8:211 (19 June 2007) |
|
Research article
A multiresolution approach to automated classification of protein subcellular location images Amina Chebira, Yann Barbotin, Charles Jackson, Thomas Merryman, Gowri Srinivasa, Robert F Murphy, Jelena Kovačević BMC Bioinformatics 2007, 8:210 (19 June 2007) |
|
Software
Charles Bland, Teresa L Ramsey, Fareedah Sabree, Micheal Lowe, Kyndall Brown, Nikos C Kyrpides, Philip Hugenholtz BMC Bioinformatics 2007, 8:209 (18 June 2007) |
|
Software
Seahawk: moving beyond HTML in Web-based bioinformatics analysis Paul MK Gordon, Christoph W Sensen BMC Bioinformatics 2007, 8:208 (18 June 2007) A new program designed to meet the needs of biologists automatically combines different bioinformatic web services without the tedious copying, pasting and reformatting of data otherwise associated with multistep analyses.
|
|
Methodology article
Orthogonal projections to latent structures as a strategy for microarray data normalization Max Bylesjö, Daniel Eriksson, Andreas Sjödin, Stefan Jansson, Thomas Moritz, Johan Trygg BMC Bioinformatics 2007, 8:207 (18 June 2007) |
|
Research article
Selecting dissimilar genes for multi-class classification, an application in cancer subtyping Zhipeng Cai, Randy Goebel, Mohammad R Salavatipour, Guohui Lin BMC Bioinformatics 2007, 8:206 (16 June 2007) |
|
Research article
ISHAPE: new rapid and accurate software for haplotyping Olivier Delaneau, Cédric Coulonges, Pierre-Yves Boelle, George Nelson, Jean-Louis Spadoni, Jean-François Zagury BMC Bioinformatics 2007, 8:205 (15 June 2007) |
|
Software
Genomorama: genome visualization and analysis Jason D Gans, Murray Wolinsky BMC Bioinformatics 2007, 8:204 (14 June 2007) |
|
Methodology article
Using expression arrays for copy number detection: an example from E. coli Dmitriy Skvortsov, Diana Abdueva, Michael E Stitzer, Steven E Finkel, Simon Tavaré BMC Bioinformatics 2007, 8:203 (14 June 2007) |
|
Methodology article
Zheng Li, Shireesh Srivastava, Sheenu Mittal, Xuerui Yang, Lufang Sheng, Christina Chan BMC Bioinformatics 2007, 8:202 (14 June 2007) |
|
Methodology article
Gianluca Pollastri, Alberto JM Martin, Catherine Mooney, Alessandro Vullo BMC Bioinformatics 2007, 8:201 (14 June 2007) |
|
Research article
Evaluation of sample size effect on the identification of haplotype blocks Dai Osabe, Toshihito Tanahashi, Kyoko Nomura, Shuichi Shinohara, Naoto Nakamura, Toshikazu Yoshikawa, Hiroshi Shiota, Parvaneh Keshavarz, Yuka Yamaguchi, Kiyoshi Kunika, Maki Moritani, Hiroshi Inoue, Mitsuo Itakura BMC Bioinformatics 2007, 8:200 (14 June 2007) |
|
Methodology article
A domain-based approach to predict protein-protein interactions Mudita Singhal, Haluk Resat BMC Bioinformatics 2007, 8:199 (13 June 2007) |
|
Software
A novel approach to sequence validating protein expression clones with automated decision making Elena Taycher, Andreas Rolfs, Yanhui Hu, Dongmei Zuo, Stephanie E Mohr, Janice Williamson, Joshua LaBaer BMC Bioinformatics 2007, 8:198 (13 June 2007) The Automated Clone Evaluation (ACE) system, a web-based plasmid sequence verification platform, replaces the laborious manual evaluation of thousands of protein expression clones with an automatic check of sequences against user-defined criteria.
|
|
Software
MASPECTRAS: a platform for management and analysis of proteomics LC-MS/MS data Jürgen Hartler, Gerhard G Thallinger, Gernot Stocker, Alexander Sturn, Thomas R Burkard, Erik Körner, Robert Rader, Andreas Schmidt, Karl Mechtler, Zlatko Trajanoski BMC Bioinformatics 2007, 8:197 (13 June 2007) |
|
Research article
Reconstruction of cell population dynamics using CFSE Andrew Yates, Cliburn Chan, Jessica Strid, Simon Moon, Robin Callard, Andrew JT George, Jaroslav Stark BMC Bioinformatics 2007, 8:196 (12 June 2007) |
|
Research article
Establishing a major cause of discrepancy in the calibration of Affymetrix GeneChips Andrew P Harrison, Caroline E Johnston, Christine A Orengo BMC Bioinformatics 2007, 8:195 (11 June 2007) |
|
Research article
Hui Yu, Feng Wang, Kang Tu, Lu Xie, Yuan-Yuan Li, Yi-Xue Li BMC Bioinformatics 2007, 8:194 (11 June 2007) |
|
Research article
Improved benchmarks for computational motif discovery Geir Sandve, Osman Abul, Vegard Walseng, Finn Drabløs BMC Bioinformatics 2007, 8:193 (8 June 2007) |
|
Methodology article
Additive risk survival model with microarray data Shuangge Ma, Jian Huang BMC Bioinformatics 2007, 8:192 (8 June 2007) |
|
Software
Bio::NEXUS: a Perl API for the NEXUS format for comparative biological data Thomas Hladish, Vivek Gopalan, Chengzhi Liang, Weigang Qiu, Peter Yang, Arlin Stoltzfus BMC Bioinformatics 2007, 8:191 (8 June 2007) |
|
Research article
Amelia B Bellamy-Royds, Marcel Turcotte BMC Bioinformatics 2007, 8:190 (8 June 2007) |
|
Software
MATLIGN: a motif clustering, comparison and matching tool Matti Kankainen, Ari Löytynoja BMC Bioinformatics 2007, 8:189 (8 June 2007) |
|
Research article
Wei-Sheng Wu, Wen-Hsiung Li, Bor-Sen Chen BMC Bioinformatics 2007, 8:188 (8 June 2007) |
|
Software
ZPS: visualization of recent adaptive evolution of proteins Sujay Chattopadhyay, Daniel E Dykhuizen, Evgeni V Sokurenko BMC Bioinformatics 2007, 8:187 (7 June 2007) |
|
Methodology article
An efficient pseudomedian filter for tiling microrrays Thomas E Royce, Nicholas J Carriero, Mark B Gerstein BMC Bioinformatics 2007, 8:186 (7 June 2007) |
|
Methodology article
160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA) Isaac TS Li, Warren Shum, Kevin Truong BMC Bioinformatics 2007, 8:185 (7 June 2007) |
|
Research article
Identification of sequence motifs significantly associated with antisense activity Kyle A McQuisten, Andrew S Peek BMC Bioinformatics 2007, 8:184 (7 June 2007) |
|
Software
MPHASYS: a mouse phenotype analysis system R Calder, Rudolf B Beems, Harry van Steeg, I Mian, Paul HM Lohman, Jan Vijg BMC Bioinformatics 2007, 8:183 (6 June 2007) |
|
Research article
Andrew S Peek BMC Bioinformatics 2007, 8:182 (6 June 2007) |
|
Methodology article
Joint mapping of genes and conditions via multidimensional unfolding analysis Katrijn Van Deun, Kathleen Marchal, Willem J Heiser, Kristof Engelen, Iven Van Mechelen BMC Bioinformatics 2007, 8:181 (5 June 2007) |
|
Database
Pierre de la Grange, Martin Dutertre, Margot Correa, Didier Auboeuf BMC Bioinformatics 2007, 8:180 (4 June 2007) |
|
Software
Markus Weniger, Julia C Engelmann, Jörg Schultz BMC Bioinformatics 2007, 8:179 (2 June 2007) |
