Literature DB >> 24819825

Editorial: Alignment-free methods in computational biology.

Susana Vinga.   

Abstract

Mesh：

Year:  2014        PMID： 24819825     DOI： 10.1093/bib/bbu005

Source DB:  PubMed          Journal:  Brief Bioinform        ISSN： 1467-5463            Impact factor:   11.622


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  20 in total

1.  CAFE: aCcelerated Alignment-FrEe sequence analysis.

Authors:  Yang Young Lu; Kujin Tang; Jie Ren; Jed A Fuhrman; Michael S Waterman; Fengzhu Sun
Journal:  Nucleic Acids Res       Date:  2017-07-03       Impact factor: 16.971

2.  A coverage criterion for spaced seeds and its applications to support vector machine string kernels and k-mer distances.

Authors:  Laurent Noé; Donald E K Martin
Journal:  J Comput Biol       Date:  2014-12       Impact factor: 1.479

3.  Identity: rapid alignment-free prediction of sequence alignment identity scores using self-supervised general linear models.

Authors:  Hani Z Girgis; Benjamin T James; Brian B Luczak
Journal:  NAR Genom Bioinform       Date:  2021-02-01

4.  CAM: an alignment-free method to recover phylogenies using codon aversion motifs.

Authors:  Justin B Miller; Lauren M McKinnon; Michael F Whiting; Perry G Ridge
Journal:  PeerJ       Date:  2019-06-04       Impact factor: 2.984

5.  Integrating alignment-based and alignment-free sequence similarity measures for biological sequence classification.

Authors:  Ivan Borozan; Stuart Watt; Vincent Ferretti
Journal:  Bioinformatics       Date:  2015-01-07       Impact factor: 6.937

6.  Estimating evolutionary distances between genomic sequences from spaced-word matches.

Authors:  Burkhard Morgenstern; Bingyao Zhu; Sebastian Horwege; Chris André Leimeister
Journal:  Algorithms Mol Biol       Date:  2015-02-11       Impact factor: 1.405

7.  rasbhari: Optimizing Spaced Seeds for Database Searching, Read Mapping and Alignment-Free Sequence Comparison.

Authors:  Lars Hahn; Chris-André Leimeister; Rachid Ounit; Stefano Lonardi; Burkhard Morgenstern
Journal:  PLoS Comput Biol       Date:  2016-10-19       Impact factor: 4.475

8.  Phylogeny reconstruction based on the length distribution of k-mismatch common substrings.

Authors:  Burkhard Morgenstern; Svenja Schöbel; Chris-André Leimeister
Journal:  Algorithms Mol Biol       Date:  2017-12-11       Impact factor: 1.405

9.  A weighted string kernel for protein fold recognition.

Authors:  Saghi Nojoomi; Patrice Koehl
Journal:  BMC Bioinformatics       Date:  2017-08-25       Impact factor: 3.169

Review 10.  Alignment-free sequence comparison: benefits, applications, and tools.

Authors:  Andrzej Zielezinski; Susana Vinga; Jonas Almeida; Wojciech M Karlowski
Journal:  Genome Biol       Date:  2017-10-03       Impact factor: 13.583
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