Fast and Sensitive Alignment of Microbial Whole Genome Sequencing Reads to Large Sequence Datasets on a Desktop PC: Application to Metagenomic Datasets and Pathogen Identification

Lőrinc S. Pongor; Roberto Vera; Balázs Ligeti

doi:10.1371/journal.pone.0103441

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Open Access

Peer-reviewed

Research Article

Fast and Sensitive Alignment of Microbial Whole Genome Sequencing Reads to Large Sequence Datasets on a Desktop PC: Application to Metagenomic Datasets and Pathogen Identification

Lőrinc S. Pongor ,

Contributed equally to this work with: Lőrinc S. Pongor, Roberto Vera, Balázs Ligeti

* E-mail: pongorlorinc@gmail.com

Affiliations Faculty of Information Technology, Pázmány Péter Catholic University, Budapest, Hungary, 2nd Department of Pediatrics, Semmelweis University, Budapest, Hungary
⨯
Roberto Vera ,

Contributed equally to this work with: Lőrinc S. Pongor, Roberto Vera, Balázs Ligeti

Affiliations Faculty of Information Technology, Pázmány Péter Catholic University, Budapest, Hungary, Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, Trieste, Italy
⨯
Balázs Ligeti

Contributed equally to this work with: Lőrinc S. Pongor, Roberto Vera, Balázs Ligeti

Affiliation Faculty of Information Technology, Pázmány Péter Catholic University, Budapest, Hungary
⨯

Fast and Sensitive Alignment of Microbial Whole Genome Sequencing Reads to Large Sequence Datasets on a Desktop PC: Application to Metagenomic Datasets and Pathogen Identification

Lőrinc S. Pongor,
Roberto Vera,
Balázs Ligeti

Published: July 31, 2014
https://doi.org/10.1371/journal.pone.0103441

About the Authors

Lőrinc S. Pongor

Contributed equally to this work with: Lőrinc S. Pongor, Roberto Vera, Balázs Ligeti

* E-mail: pongorlorinc@gmail.com

Affiliations Faculty of Information Technology, Pázmány Péter Catholic University, Budapest, Hungary, 2nd Department of Pediatrics, Semmelweis University, Budapest, Hungary

Roberto Vera

Contributed equally to this work with: Lőrinc S. Pongor, Roberto Vera, Balázs Ligeti

Affiliations Faculty of Information Technology, Pázmány Péter Catholic University, Budapest, Hungary, Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, Trieste, Italy

Balázs Ligeti

Contributed equally to this work with: Lőrinc S. Pongor, Roberto Vera, Balázs Ligeti

Affiliation Faculty of Information Technology, Pázmány Péter Catholic University, Budapest, Hungary

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: LSP RV. Performed the experiments: BL RV. Analyzed the data: LSP BL RV. Contributed to the writing of the manuscript: LSP BL RV.

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Sequence alignment
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BLAST algorithm
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Genomic databases
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Metagenomics
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Genomics
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Bacillus anthracis
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Taxonomy
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Bacterial genomics
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