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Sequence analysis (applications)

This section incorporates all aspects of sequence analysis applications, including but not limited to: software, workflows and webservers dealing with applied sequence/genome analysis, sequence assembly, analysis of sequence features, and protein function and ligand binding, estimated through sequence features.

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101.

Methodology article   Open Access

Improving probe set selection for microbial community analysis by leveraging taxonomic information of training sequences

Paul M Ruegger, Gianluca Della Vedova, Tao Jiang, James Borneman BMC Bioinformatics 2011, 12:394 (10 October 2011)

Abstract | Full text | PDF | PubMed

102.

Research article   Open Access

Cross-validated stepwise regression for identification of novel non-nucleoside reverse transcriptase inhibitor resistance associated mutations

Koen Van der Borght, Elke Van Craenenbroeck, Pierre Lecocq, Margriet Van Houtte, Barbara Van Kerckhove, Lee Bacheler, Geert Verbeke, Herman van Vlijmen BMC Bioinformatics 2011, 12:386 (3 October 2011)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

103.

Methodology article   Open Access

Multilocus association mapping using generalized ridge logistic regression

Zhe Liu, Yuanyuan Shen, Jurg Ott BMC Bioinformatics 2011, 12:384 (29 September 2011)

Abstract | Full text | PDF | PubMed

104.

Software   Open Access Highly Accessed

GOmotif: A web server for investigating the biological role of protein sequence motifs

Franklin Bristow, Runtao He, Gary Van Domselaar BMC Bioinformatics 2011, 12:379 (26 September 2011)

Abstract | Full text | PDF | PubMed

105.

Database   Open Access Highly Accessed

EnzymeDetector: an integrated enzyme function prediction tool and database

Susanne Quester, Dietmar Schomburg BMC Bioinformatics 2011, 12:376 (23 September 2011)

Abstract | Full text | PDF | PubMed

106.

Research article   Open Access

Significance testing in ridge regression for genetic data

Erika Cule, Paolo Vineis, Maria De Iorio BMC Bioinformatics 2011, 12:372 (19 September 2011)

Abstract | Full text | PDF | PubMed

107.

Research article   Open Access Highly Accessed

Simple Shared Motifs (SSM) in conserved region of promoters: a new approach to identify co-regulation patterns

Jérémy Gruel, Michel LeBorgne, Nolwenn LeMeur, Nathalie Théret BMC Bioinformatics 2011, 12:365 (12 September 2011)

Abstract | Full text | PDF | PubMed

108.

Correspondence   Open Access Highly Accessed

Implementing a genomic data management system using iRODS in the Wellcome Trust Sanger Institute

Gen-Tao Chiang, Peter Clapham, Guoying Qi, Kevin Sale, Guy Coates BMC Bioinformatics 2011, 12:361 (9 September 2011)

Abstract | Full text | PDF | PubMed

109.

Methodology article   Open Access Highly Accessed

GO-based Functional Dissimilarity of Gene Sets

Norberto Díaz-Díaz, Jesús S Aguilar-Ruiz BMC Bioinformatics 2011, 12:360 (1 September 2011)

Abstract | Full text | PDF | PubMed

110.

Research article   Open Access Highly Accessed

An integrative approach to ortholog prediction for disease-focused and other functional studies

Yanhui Hu, Ian Flockhart, Arunachalam Vinayagam, Clemens Bergwitz, Bonnie Berger, Norbert Perrimon, Stephanie E Mohr BMC Bioinformatics 2011, 12:357 (31 August 2011)

Abstract | Full text | PDF | PubMed

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