Articles
Volume 14 (2013) - March 2013
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Methodology article
PlanktoVision – an automated analysis system for the identification of phytoplankton Katja Schulze, Ulrich M Tillich, Thomas Dandekar, Marcus Frohme BMC Bioinformatics 2013, 14:115 (27 March 2013) |
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Research article
Computing minimal nutrient sets from metabolic networks via linear constraint solving Steven Eker, Markus Krummenacker, Alexander G Shearer, Ashish Tiwari, Ingrid M Keseler, Carolyn Talcott, Peter D Karp BMC Bioinformatics 2013, 14:114 (27 March 2013) |
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Methodology article
Using cited references to improve the retrieval of related biomedical documents Francisco M Ortuño, Ignacio Rojas, Miguel A Andrade-Navarro, Jean-Fred Fontaine BMC Bioinformatics 2013, 14:113 (27 March 2013) |
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Research article
A systematic comparison of the MetaCyc and KEGG pathway databases Tomer Altman, Michael Travers, Anamika Kothari, Ron Caspi, Peter D Karp BMC Bioinformatics 2013, 14:112 (27 March 2013) |
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Database
Emma M Rath, Dominique Tessier, Alexander A Campbell, Hong Ching Lee, Tim Werner, Noeris K Salam, Lawrence K Lee, W Bret Church BMC Bioinformatics 2013, 14:111 (27 March 2013) |
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Methodology article
Differential expression analysis for paired RNA-seq data Lisa M Chung, John P Ferguson, Wei Zheng, Feng Qian, Vincent Bruno, Ruth R Montgomery, Hongyu Zhao BMC Bioinformatics 2013, 14:110 (27 March 2013) |
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Software
TPMS: a set of utilities for querying collections of gene trees Thomas Bigot, Vincent Daubin, Florent Lassalle, Guy Perrière BMC Bioinformatics 2013, 14:109 (27 March 2013) |
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Methodology article
LASAGNA: A novel algorithm for transcription factor binding site alignment Chih Lee, Chun-Hsi Huang BMC Bioinformatics 2013, 14:108 (24 March 2013) |
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Methodology article
Non-negative matrix factorization by maximizing correntropy for cancer clustering Jim Jing-Yan Wang, Xiaolei Wang, Xin Gao BMC Bioinformatics 2013, 14:107 (24 March 2013) |
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Research article
SMOTE for high-dimensional class-imbalanced data Rok Blagus, Lara Lusa BMC Bioinformatics 2013, 14:106 (22 March 2013) |
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Software
Abhijit Karnik, Rucha Karnik, Christopher Grefen BMC Bioinformatics 2013, 14:105 (22 March 2013) |
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Methodology article
Anne-Lise Veuthey, Alan Bridge, Julien Gobeill, Patrick Ruch, Johanna R McEntyre, Lydie Bougueleret, Ioannis Xenarios BMC Bioinformatics 2013, 14:104 (22 March 2013) |
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Correspondence
The Enzyme Portal: a case study in applying user-centred design methods in bioinformatics Paula de Matos, Jennifer A Cham, Hong Cao, Rafael Alcántara, Francis Rowland, Rodrigo Lopez, Christoph Steinbeck BMC Bioinformatics 2013, 14:103 (20 March 2013) The first ‘how to’ guide for applying User-Centred Design (UCD) to websites for bioinformatics involves biomedical researchers rather than developers to design better web experiences, for example The Enzyme Portal |
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Research article
Mobilomics in Saccharomyces cerevisiae strains Giulia Menconi, Giovanni Battaglia, Roberto Grossi, Nadia Pisanti, Roberto Marangoni BMC Bioinformatics 2013, 14:102 (20 March 2013) |
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Methodology article
Adaptive filtering of microarray gene expression data based on Gaussian mixture decomposition Michal Marczyk, Roman Jaksik, Andrzej Polanski, Joanna Polanska BMC Bioinformatics 2013, 14:101 (20 March 2013) |
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Research article
Hsiu-Ling Chou, Chung-Tay Yao, Sui-Lun Su, Chia-Yi Lee, Kuang-Yu Hu, Harn-Jing Terng, Yun-Wen Shih, Yu-Tien Chang, Yu-Fen Lu, Chi-Wen Chang, Mark L Wahlqvist, Thomas Wetter, Chi-Ming Chu BMC Bioinformatics 2013, 14:100 (19 March 2013) |
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Research article
Unsupervised Bayesian linear unmixing of gene expression microarrays Cécile Bazot, Nicolas Dobigeon, Jean-Yves Tourneret, Aimee K Zaas, Geoffrey S Ginsburg, Alfred O Hero BMC Bioinformatics 2013, 14:99 (19 March 2013) |
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Research article
Anna Katharina Dehof, Simon Loew, Hans-Peter Lenhof, Andreas Hildebrandt BMC Bioinformatics 2013, 14:98 (16 March 2013) |
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Methodology article
Estimate hidden dynamic profiles of siRNA effect on apoptosis Takanori Ueda, Daisuke Tominaga, Noriko Araki, Tomohiro Yoshikawa BMC Bioinformatics 2013, 14:97 (15 March 2013) |
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Methodology article
Mining for class-specific motifs in protein sequence classification Satish M Srinivasan, Suleyman Vural, Brian R King, Chittibabu Guda BMC Bioinformatics 2013, 14:96 (15 March 2013) |
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Software
CGAP: a new comprehensive platform for the comparative analysis of chloroplast genomes Jinkui Cheng, Xu Zeng, Guomin Ren, Zhihua Liu BMC Bioinformatics 2013, 14:95 (14 March 2013) |
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Methodology article
An inferential framework for biological network hypothesis tests Phillip D Yates, Nitai D Mukhopadhyay BMC Bioinformatics 2013, 14:94 (14 March 2013) |
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Research article
A distance-field based automatic neuron tracing method Jinzhu Yang, Paloma T Gonzalez-Bellido, Hanchuan Peng BMC Bioinformatics 2013, 14:93 (12 March 2013) |
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Methodology article
Inferring microRNA and transcription factor regulatory networks in heterogeneous data Thuc D Le, Lin Liu, Bing Liu, Anna Tsykin, Gregory J Goodall, Kenji Satou, Jiuyong Li BMC Bioinformatics 2013, 14:92 (11 March 2013) |
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Research article
A comparison of methods for differential expression analysis of RNA-seq data Charlotte Soneson, Mauro Delorenzi BMC Bioinformatics 2013, 14:91 (9 March 2013) |
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Methodology article
Chuanxin Zou, Jiayu Gong, Honglin Li BMC Bioinformatics 2013, 14:90 (9 March 2013) |
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Methodology article
Digital sorting of complex tissues for cell type-specific gene expression profiles Yi Zhong, Ying-Wooi Wan, Kaifang Pang, Lionel ML Chow, Zhandong Liu BMC Bioinformatics 2013, 14:89 (7 March 2013) |
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Methodology article
DNdisorder: predicting protein disorder using boosting and deep networks Jesse Eickholt, Jianlin Cheng BMC Bioinformatics 2013, 14:88 (6 March 2013) |
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Methodology article
Zhenyu Yang, Zuojing Li, David R Bickel BMC Bioinformatics 2013, 14:87 (6 March 2013) |
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Methodology article
Age-adjusted nonparametric detection of differential DNA methylation with case–control designs Hanwen Huang, Zhongxue Chen, Xudong Huang BMC Bioinformatics 2013, 14:86 (6 March 2013) |
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Methodology article
Guy Baele, Philippe Lemey, Stijn Vansteelandt BMC Bioinformatics 2013, 14:85 (6 March 2013) |
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Research article
Bivariate segmentation of SNP-array data for allele-specific copy number analysis in tumour samples David Mosén-Ansorena, Ana María Aransay BMC Bioinformatics 2013, 14:84 (5 March 2013) |
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Methodology article
HuntMi: an efficient and taxon-specific approach in pre-miRNA identification Adam Gudy¿, Micha¿ Wojciech Szcze¿niak, Marek Sikora, Izabela Makalowska BMC Bioinformatics 2013, 14:83 (5 March 2013) |
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Research article
Learning a peptide-protein binding affinity predictor with kernel ridge regression Sébastien Giguère, Mario Marchand, François Laviolette, Alexandre Drouin, Jacques Corbeil BMC Bioinformatics 2013, 14:82 (5 March 2013) |
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Methodology article
Prediction of heterogeneous differential genes by detecting outliers to a Gaussian tight cluster Zihua Yang, Zhengrong Yang BMC Bioinformatics 2013, 14:81 (5 March 2013) |
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Research article
Xiao Wu, Kathryn Berkow, Daniel N Frank, Ellen Li, Ajay S Gulati, Wei Zhu BMC Bioinformatics 2013, 14:79 (5 March 2013) |
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Software
John C Earls, James A Eddy, Cory C Funk, Younhee Ko, Andrew T Magis, Nathan D Price BMC Bioinformatics 2013, 14:78 (5 March 2013) |
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Software
Björn Hammesfahr, Florian Odronitz, Stefanie Mühlhausen, Stephan Waack, Martin Kollmar BMC Bioinformatics 2013, 14:77 (4 March 2013) |
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Software
Jerry Guintivano, Michal Arad, Kellie LK Tamashiro, Todd D Gould, Zachary A Kaminsky BMC Bioinformatics 2013, 14:76 (3 March 2013) |
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Software
virtualArray: a R/bioconductor package to merge raw data from different microarray platforms Andreas Heider, Rüdiger Alt BMC Bioinformatics 2013, 14:75 (2 March 2013) |
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Software
MethylPCA: a toolkit to control for confounders in methylome-wide association studies Wenan Chen, Guimin Gao, Srilaxmi Nerella, Christina M Hultman, Patrik KE Magnusson, Patrick F Sullivan, Karolina A Aberg, Edwin JCG van den Oord BMC Bioinformatics 2013, 14:74 (2 March 2013) |
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Software
Dariusz Mrozek, Bożena Małysiak-Mrozek, Artur Siążnik BMC Bioinformatics 2013, 14:73 (1 March 2013) |
