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Sequence analysis (methods) Section edited by Burkhard Morgenstern

This section incorporates all aspects of sequence analysis methodology, including but not limited to: sequence alignment algorithms, discrete algorithms, phylogeny algorithms, gene prediction and sequence clustering methods.

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1.

Methodology article   Open Access

Large-scale multiple testing in genome-wide association studies via region-specific hidden Markov models

Jian Xiao, Wensheng Zhu, Jianhua Guo BMC Bioinformatics 2013, 14:282 (25 September 2013)

Abstract | Provisional PDF | PubMed

2.

Software   Open Access

Peak Finder Metaserver - a novel application for finding peaks in ChIP-seq data

Marcin Kruczyk, Husen M Umer, Stefan Enroth, Jan Komorowski BMC Bioinformatics 2013, 14:280 (23 September 2013)

Abstract | Provisional PDF | PubMed

3.

Research article   Open Access Highly Accessed

Comparing a few SNP calling algorithms using low-coverage sequencing data

Xiaoqing Yu, Shuying Sun BMC Bioinformatics 2013, 14:274 (17 September 2013)

Abstract | Full text | PDF | PubMed

4.

Methodology article   Open Access Highly Accessed

Levenshtein error-correcting barcodes for multiplexed DNA sequencing

Tilo Buschmann, Leonid V Bystrykh BMC Bioinformatics 2013, 14:272 (11 September 2013)

Abstract | Provisional PDF | PubMed

5.

Methodology article   Open Access Highly Accessed

Efficient alignment of RNA secondary structures using sparse dynamic programming

Cuncong Zhong, Shaojie Zhang BMC Bioinformatics 2013, 14:269 (8 September 2013)

Abstract | Full text | PDF | ePUB | PubMed

6.

Research article   Open Access Highly Accessed

Centroid based clustering of high throughput sequencing reads based on n-mer counts

Alexander Solovyov, W Lipkin BMC Bioinformatics 2013, 14:268 (8 September 2013)

Abstract | Full text | PDF | PubMed

7.

Software   Open Access Highly Accessed

kClust: fast and sensitive clustering of large protein sequence databases

Maria Hauser, Christian E Mayer, Johannes Söding BMC Bioinformatics 2013, 14:248 (15 August 2013)

Abstract | Full text | PDF | ePUB | PubMed

8.

Methodology article   Open Access Highly Accessed

MatrixCatch - a novel tool for the recognition of composite regulatory elements in promoters

Igor V Deyneko, Alexander E Kel, Olga V Kel-Margoulis, Elena V Deineko, Edgar Wingender, Siegfried Weiss BMC Bioinformatics 2013, 14:241 (8 August 2013)

Abstract | Full text | PDF | ePUB | PubMed

9.

Methodology article   Open Access Highly Accessed

A fast weak motif-finding algorithm based on community detection in graphs

Caiyan Jia, Matthew B Carson, Jian Yu BMC Bioinformatics 2013, 14:227 (17 July 2013)

Abstract | Full text | PDF | ePUB | PubMed

10.

Methodology article   Open Access Highly Accessed

Fast online and index-based algorithms for approximate search of RNA sequence-structure patterns

Fernando Meyer, Stefan Kurtz, Michael Beckstette BMC Bioinformatics 2013, 14:226 (17 July 2013)

Abstract | Full text | PDF | ePUB | PubMed

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