Literature DB >> 18428723

Finding protein and nucleotide similarities with FASTA.

William Pearson1.   

Abstract

The FASTA package provides a comprehensive set of similarity searching programs, similar to those provided by the BLAST package, and some additional programs that are not provided by BLAST for searching with short peptides and oligonucleotides. The FASTA programs work with a wide variety of database formats, including mySQL sequence databases. FASTA provides very accurate statistical significance estimates, and is more sensitive than BLASTN when comparing DNA sequences. These protocols describe how to use the FASTA programs to characterize protein and DNA sequences, using protein:protein, protein:DNA, and DNA:DNA comparisons.

Mesh：

Year:  2004        PMID： 18428723     DOI： 10.1002/0471250953.bi0309s04

Source DB:  PubMed          Journal:  Curr Protoc Bioinformatics        ISSN： 1934-3396


  10 in total

1.  Genome annotation and intraviral interactome for the Streptococcus pneumoniae virulent phage Dp-1.

Authors:  Mourad Sabri; Roman Häuser; Marc Ouellette; Jing Liu; Mohammed Dehbi; Greg Moeck; Ernesto García; Björn Titz; Peter Uetz; Sylvain Moineau
Journal:  J Bacteriol       Date:  2010-11-19       Impact factor: 3.490

2.  Large scale of human duplicate genes divergence.

Authors:  Alexander E Vinogradov
Journal:  J Mol Evol       Date:  2012-08-25       Impact factor: 2.395

3.  HoSeIn: A Workflow for Integrating Various Homology Search Results from Metagenomic and Metatranscriptomic Sequence Datasets.

Authors:  Gaston Rozadilla; Jorgelina Moreiras Clemente; Christina B McCarthy
Journal:  Bio Protoc       Date:  2020-07-20

4.  Efficient feature selection and classification of protein sequence data in bioinformatics.

Authors:  Muhammad Javed Iqbal; Ibrahima Faye; Brahim Belhaouari Samir; Abas Md Said
Journal:  ScientificWorldJournal       Date:  2014-06-19

5.  Evidence that ebolaviruses and cuevaviruses have been diverging from marburgviruses since the Miocene.

Authors:  Derek J Taylor; Matthew J Ballinger; Jack J Zhan; Laura E Hanzly; Jeremy A Bruenn
Journal:  PeerJ       Date:  2014-09-02       Impact factor: 2.984

6.  Human more complex than mouse at cellular level.

Authors:  Alexander E Vinogradov
Journal:  PLoS One       Date:  2012-07-24       Impact factor: 3.240

7.  Genomic complexity of the variable region-containing chitin-binding proteins in amphioxus.

Authors:  Larry J Dishaw; M Gail Mueller; Natasha Gwatney; John P Cannon; Robert N Haire; Ronda T Litman; Chris T Amemiya; Tatsuya Ota; Lee Rowen; Gustavo Glusman; Gary W Litman
Journal:  BMC Genet       Date:  2008-12-01       Impact factor: 2.797

Review 8.  Role of bioinformatics in establishing microRNAs as modulators of abiotic stress responses: the new revolution.

Authors:  Anita Tripathi; Kavita Goswami; Neeti Sanan-Mishra
Journal:  Front Physiol       Date:  2015-10-26       Impact factor: 4.566

9.  CRISPR adaptive immune systems of Archaea.

Authors:  Gisle Vestergaard; Roger A Garrett; Shiraz A Shah
Journal:  RNA Biol       Date:  2014-02-07       Impact factor: 4.652

10.  The whole genome sequence of the Mediterranean fruit fly, Ceratitis capitata (Wiedemann), reveals insights into the biology and adaptive evolution of a highly invasive pest species.

Authors:  Alexie Papanicolaou; Marc F Schetelig; Peter Arensburger; Peter W Atkinson; Joshua B Benoit; Kostas Bourtzis; Pedro Castañera; John P Cavanaugh; Hsu Chao; Christopher Childers; Ingrid Curril; Huyen Dinh; HarshaVardhan Doddapaneni; Amanda Dolan; Shannon Dugan; Markus Friedrich; Giuliano Gasperi; Scott Geib; Georgios Georgakilas; Richard A Gibbs; Sarah D Giers; Ludvik M Gomulski; Miguel González-Guzmán; Ana Guillem-Amat; Yi Han; Artemis G Hatzigeorgiou; Pedro Hernández-Crespo; Daniel S T Hughes; Jeffery W Jones; Dimitra Karagkouni; Panagiota Koskinioti; Sandra L Lee; Anna R Malacrida; Mosè Manni; Kostas Mathiopoulos; Angela Meccariello; Shwetha C Murali; Terence D Murphy; Donna M Muzny; Georg Oberhofer; Félix Ortego; Maria D Paraskevopoulou; Monica Poelchau; Jiaxin Qu; Martin Reczko; Hugh M Robertson; Andrew J Rosendale; Andrew E Rosselot; Giuseppe Saccone; Marco Salvemini; Grazia Savini; Patrick Schreiner; Francesca Scolari; Paolo Siciliano; Sheina B Sim; George Tsiamis; Enric Ureña; Ioannis S Vlachos; John H Werren; Ernst A Wimmer; Kim C Worley; Antigone Zacharopoulou; Stephen Richards; Alfred M Handler
Journal:  Genome Biol       Date:  2016-09-22       Impact factor: 13.583
  10 in total

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