Articles
Volume 8 (2007) - October 2007
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Research article
SABERTOOTH: protein structural alignment based on a vectorial structure representation Florian Teichert, Ugo Bastolla, Markus Porto BMC Bioinformatics 2007, 8:425 (31 October 2007) |
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Research article
Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction Mette V Larsen, Claus Lundegaard, Kasper Lamberth, Soren Buus, Ole Lund, Morten Nielsen BMC Bioinformatics 2007, 8:424 (31 October 2007) |
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Research article
PubMed related articles: a probabilistic topic-based model for content similarity Jimmy Lin, W John Wilbur BMC Bioinformatics 2007, 8:423 (30 October 2007) |
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Research article
SIRAC: Supervised Identification of Regions of Aberration in aCGH datasets Carmen Lai, Hugo M Horlings, Marc J van de Vijver, Eric H van Beers, Petra M Nederlof, Lodewyk FA Wessels, Marcel JT Reinders BMC Bioinformatics 2007, 8:422 (30 October 2007) |
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Methodology article
Francisco Llaneras, Jesús Picó BMC Bioinformatics 2007, 8:421 (30 October 2007) |
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Methodology article
Yao Shen, Gertraud Burger BMC Bioinformatics 2007, 8:420 (29 October 2007) |
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Methodology article
Mark D Robinson, David P De Souza, Woon Keen, Eleanor C Saunders, Malcolm J McConville, Terence P Speed, Vladimir A Likić BMC Bioinformatics 2007, 8:419 (29 October 2007) |
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Software
HeliCis: a DNA motif discovery tool for colocalized motif pairs with periodic spacing Erik Larsson, Per Lindahl, Petter Mostad BMC Bioinformatics 2007, 8:418 (28 October 2007) |
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Research article
How accurately is ncRNA aligned within whole-genome multiple alignments? Adrienne X Wang, Walter L Ruzzo, Martin Tompa BMC Bioinformatics 2007, 8:417 (26 October 2007) |
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Research article
Daniel Barthel, Jonathan D Hirst, Jacek Błażewicz, Edmund K Burke, Natalio Krasnogor BMC Bioinformatics 2007, 8:416 (26 October 2007) |
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Research article
Michael Gormley, William Dampier, Adam Ertel, Bilge Karacali, Aydin Tozeren BMC Bioinformatics 2007, 8:415 (26 October 2007) |
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Methodology article
Jingchun Sun, Yan Sun, Guohui Ding, Qi Liu, Chuan Wang, Youyu He, Tieliu Shi, Yixue Li, Zhongming Zhao BMC Bioinformatics 2007, 8:414 (26 October 2007) |
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Methodology article
David J Irons, Nicholas AM Monk BMC Bioinformatics 2007, 8:413 (25 October 2007) |
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Correspondence
Reproducibility of microarray data: a further analysis of microarray quality control (MAQC) data James J Chen, Huey-Miin Hsueh, Robert R Delongchamp, Chien-Ju Lin, Chen-An Tsai BMC Bioinformatics 2007, 8:412 (25 October 2007) |
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Methodology article
Estimating genealogies from linked marker data: a Bayesian approach Dario Gasbarra, Matti Pirinen, Mikko J Sillanpää, Elja Arjas BMC Bioinformatics 2007, 8:411 (25 October 2007) |
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Research article
Features generated for computational splice-site prediction correspond to functional elements Rezarta Dogan, Lise Getoor, W John Wilbur, Stephen M Mount BMC Bioinformatics 2007, 8:410 (24 October 2007) |
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Methodology article
Absolute estimation of initial concentrations of amplicon in a real-time RT-PCR process Marjo V Smith, Chris R Miller, Michael Kohn, Nigel J Walker, Chris J Portier BMC Bioinformatics 2007, 8:409 (23 October 2007) |
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Research article
Ioannis A Maraziotis, Konstantina Dimitrakopoulou, Anastasios Bezerianos BMC Bioinformatics 2007, 8:408 (23 October 2007) |
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Research article
Bioinformatic identification of novel putative photoreceptor specific Charles G Danko, Vera A McIlvain, Maochun Qin, Barry E Knox, Arkady M Pertsov BMC Bioinformatics 2007, 8:407 (22 October 2007) |
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Software
MetaLook: a 3D visualisation software for marine ecological genomics Thierry Lombardot, Renzo Kottmann, Gregory Giuliani, Andrea de Bono, Nans Addor, Frank Glöckner BMC Bioinformatics 2007, 8:406 (22 October 2007) |
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Software
AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa Alexandros Stamatakis, Alexander F Auch, Jan Meier-Kolthoff, Markus Göker BMC Bioinformatics 2007, 8:405 (22 October 2007) |
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Methodology article
Application of amino acid occurrence for discriminating different folding types of globular proteins Y-h Taguchi, M Michael Gromiha BMC Bioinformatics 2007, 8:404 (22 October 2007) |
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Methodology article
Modeling SAGE tag formation and its effects on data interpretation within a Bayesian framework Michael A Gilchrist, Hong Qin, Russell Zaretzki BMC Bioinformatics 2007, 8:403 (18 October 2007) |
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Software
Daniel Dalevi, Todd Z DeSantis, Jakob Fredslund, Gary L Andersen, Victor M Markowitz, Philip Hugenholtz BMC Bioinformatics 2007, 8:402 (18 October 2007) |
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Software
Richard G Côté, Philip Jones, Lennart Martens, Samuel Kerrien, Florian Reisinger, Quan Lin, Rasko Leinonen, Rolf Apweiler, Henning Hermjakob BMC Bioinformatics 2007, 8:401 (18 October 2007) |
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Research article
Gert Sclep, Joke Allemeersch, Robin Liechti, Björn De Meyer, Jim Beynon, Rishikesh Bhalerao, Yves Moreau, Wilfried Nietfeld, Jean-Pierre Renou, Philippe Reymond, Martin TR Kuiper, Pierre Hilson BMC Bioinformatics 2007, 8:400 (18 October 2007) |
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Methodology article
fREDUCE: Detection of degenerate regulatory elements using correlation with expression Randy Z Wu, Christina Chaivorapol, Jiashun Zheng, Hao Li, Shoudan Liang BMC Bioinformatics 2007, 8:399 (17 October 2007) |
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Software
Strainer: software for analysis of population variation in community genomic datasets John M Eppley, Gene W Tyson, Wayne M Getz, Jillian F Banfield BMC Bioinformatics 2007, 8:398 (17 October 2007) |
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Research article
Dennis R Livesay, Patrick D Kidd, Sepehr Eskandari, Usman Roshan BMC Bioinformatics 2007, 8:397 (17 October 2007) |
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Research article
Tobias Wittkop, Jan Baumbach, Francisco P Lobo, Sven Rahmann BMC Bioinformatics 2007, 8:396 (17 October 2007) |
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Correction
Permutation test for periodicity in short time series data Andrey A Ptitsyn, Sanjin Zvonic, Jeffrey M Gimble BMC Bioinformatics 2007, 8:395 (17 October 2007) |
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Correspondence
Oscar M Rueda, Ramon Diaz-Uriarte BMC Bioinformatics 2007, 8:394 (16 October 2007) |
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Research article
Local Renyi entropic profiles of DNA sequences Susana Vinga, Jonas S Almeida BMC Bioinformatics 2007, 8:393 (16 October 2007) |
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Research article
Improved human disease candidate gene prioritization using mouse phenotype Jing Chen, Huan Xu, Bruce J Aronow, Anil G Jegga BMC Bioinformatics 2007, 8:392 (16 October 2007) |
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Research article
Analysis on multi-domain cooperation for predicting protein-protein interactions Rui-Sheng Wang, Yong Wang, Ling-Yun Wu, Xiang-Sun Zhang, Luonan Chen BMC Bioinformatics 2007, 8:391 (16 October 2007) |
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Research article
William A McLaughlin, Ken Chen, Tingjun Hou, Wei Wang BMC Bioinformatics 2007, 8:390 (16 October 2007) |
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Software
Eider B Moore, Andrew V Poliakov, Peter Lincoln, James F Brinkley BMC Bioinformatics 2007, 8:389 (15 October 2007) |
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Research article
Topology independent protein structural alignment Joe Dundas, TA Binkowski, Bhaskar DasGupta, Jie Liang BMC Bioinformatics 2007, 8:388 (15 October 2007) |
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Methodology article
Weighted analysis of general microarray experiments Anders Sjögren, Erik Kristiansson, Mats Rudemo, Olle Nerman BMC Bioinformatics 2007, 8:387 (15 October 2007) |
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Research article
Large scale statistical inference of signaling pathways from RNAi and microarray data Holger Froehlich, Mark Fellmann, Holger Sueltmann, Annemarie Poustka, Tim Beissbarth BMC Bioinformatics 2007, 8:386 (15 October 2007) |
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Research article
Discriminative motif discovery in DNA and protein sequences using the DEME algorithm Emma Redhead, Timothy L Bailey BMC Bioinformatics 2007, 8:385 (15 October 2007) |
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Research article
Yung-Keun Kwon, Sun Choi, Kwang-Hyun Cho BMC Bioinformatics 2007, 8:384 (15 October 2007) |
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Software
ProbCD: enrichment analysis accounting for categorization uncertainty Ricardo ZN Vêncio, Ilya Shmulevich BMC Bioinformatics 2007, 8:383 (12 October 2007) |
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Software
Aaron M Newman, James B Cooper BMC Bioinformatics 2007, 8:382 (11 October 2007) |
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Software
PFAAT version 2.0: A tool for editing, annotating, and analyzing multiple sequence alignments Daniel R Caffrey, Paul H Dana, Vidhya Mathur, Marco Ocano, Eun-Jong Hong, Yaoyu E Wang, Shyamal Somaroo, Brian E Caffrey, Shobha Potluri, Enoch S Huang BMC Bioinformatics 2007, 8:381 (11 October 2007) |
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Methodology article
Oliviero Carugo BMC Bioinformatics 2007, 8:380 (11 October 2007) |
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Software
Dianhui Zhu, George E Fox, Sugoto Chakravarty BMC Bioinformatics 2007, 8:379 (10 October 2007) |
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Research article
William O Ward, Carol D Swartz, Steffen Porwollik, Sarah H Warren, Nancy M Hanley, Geremy W Knapp, Michael McClelland, David M DeMarini BMC Bioinformatics 2007, 8:378 (9 October 2007) |
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Methodology article
Robert Hoehndorf, Frank Loebe, Janet Kelso, Heinrich Herre BMC Bioinformatics 2007, 8:377 (9 October 2007) The problem of interoperability of fixed anatomy ontologies with the more flexible phenotype ontologies can be solved by treating canonical information as the default that can be modified when more information is available.
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Research article
Single TNF Tomasz Lipniacki, Krzysztof Puszynski, Pawel Paszek, Allan R Brasier, Marek Kimmel BMC Bioinformatics 2007, 8:376 (9 October 2007) |
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Research article
Bingjun Jiang, Hong Qu, Yuanlei Hu, Ting Ni, Zhongping Lin BMC Bioinformatics 2007, 8:375 (9 October 2007) |
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Research article
Statistical power of phylo-HMM for evolutionarily conserved element detection Xiaodan Fan, Jun Zhu, Eric E Schadt, Jun S Liu BMC Bioinformatics 2007, 8:374 (5 October 2007) |
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Research article
qPIPSA: Relating enzymatic kinetic parameters and interaction fields Razif R Gabdoulline, Matthias Stein, Rebecca C Wade BMC Bioinformatics 2007, 8:373 (5 October 2007) A new software program, qPIPSA, can estimate an enzyme’s kinetic parameters from its structural properties when no experimental data are available, which is useful for the simulation of metabolic networks in quantitative systems biology and understanding enzyme mechanism.
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Software
Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases Seth I Berger, Jeremy M Posner, Avi Ma'ayan BMC Bioinformatics 2007, 8:372 (4 October 2007) |
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Methodology article
Extended analysis of benchmark datasets for Agilent two-color microarrays Kathleen F Kerr BMC Bioinformatics 2007, 8:371 (3 October 2007) |
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Methodology article
Gene selection for classification of microarray data based on the Bayes error Ji-Gang Zhang, Hong-Wen Deng BMC Bioinformatics 2007, 8:370 (3 October 2007) |
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Software
Primique: automatic design of specific PCR primers for each sequence in a family Jakob Fredslund, Mette Lange BMC Bioinformatics 2007, 8:369 (3 October 2007) |
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Research article
Ágnes Baross, Allen D Delaney, H Irene Li, Tarun Nayar, Stephane Flibotte, Hong Qian, Susanna Y Chan, Jennifer Asano, Adrian Ally, Manqiu Cao, Patricia Birch, Mabel Brown-John, Nicole Fernandes, Anne Go, Giulia Kennedy, Sylvie Langlois, Patrice Eydoux, JM Friedman, Marco A Marra BMC Bioinformatics 2007, 8:368 (2 October 2007) |
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Database
BNDB – The Biochemical Network Database Jan Küntzer, Christina Backes, Torsten Blum, Andreas Gerasch, Michael Kaufmann, Oliver Kohlbacher, Hans-Peter Lenhof BMC Bioinformatics 2007, 8:367 (2 October 2007) The problem of the diversity of biochemical databases is made easier by their semantic integration into the Biochemical Network Database, which can model and visualize most biochemical processes.
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Methodology article
Yair Horesh, Tirza Doniger, Shulamit Michaeli, Ron Unger BMC Bioinformatics 2007, 8:366 (1 October 2007) |
