Literature DB >> 18428695

Viewing and editing assembled sequences using Consed.

David Gordon1.   

Abstract

Consed is a program for viewing and editing assemblies prepared by the Phrap assembly program. This unit presents a general introduction to Consed. It also provides instructions for identifying problem regions and searching in Consed. Additional protocols describe creating tags, picking primers, correcting joins and adding and removing reads. Instructions are also given for the use of Assembly View, predicting the results of a restriction digestion, the use of Consed in conjunction with PolyPhred, and using Autofinish, as well as a procedure for running Phred and Phrap.

Mesh：

Year:  2003        PMID： 18428695     DOI： 10.1002/0471250953.bi1102s02

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


  94 in total

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3.  Evolution of an antifreeze protein by neofunctionalization under escape from adaptive conflict.

Authors:  Cheng Deng; C-H Christina Cheng; Hua Ye; Ximiao He; Liangbiao Chen
Journal:  Proc Natl Acad Sci U S A       Date:  2010-11-29       Impact factor: 11.205

4.  The genome of the alga-associated marine flavobacterium Formosa agariphila KMM 3901T reveals a broad potential for degradation of algal polysaccharides.

Authors:  Alexander J Mann; Richard L Hahnke; Sixing Huang; Johannes Werner; Peng Xing; Tristan Barbeyron; Bruno Huettel; Kurt Stüber; Richard Reinhardt; Jens Harder; Frank Oliver Glöckner; Rudolf I Amann; Hanno Teeling
Journal:  Appl Environ Microbiol       Date:  2013-08-30       Impact factor: 4.792

5.  Comparative genomic analyses of seventeen Streptococcus pneumoniae strains: insights into the pneumococcal supragenome.

Authors:  N Luisa Hiller; Benjamin Janto; Justin S Hogg; Robert Boissy; Susan Yu; Evan Powell; Randy Keefe; Nathan E Ehrlich; Kai Shen; Jay Hayes; Karen Barbadora; William Klimke; Dmitry Dernovoy; Tatiana Tatusova; Julian Parkhill; Stephen D Bentley; J Christopher Post; Garth D Ehrlich; Fen Z Hu
Journal:  J Bacteriol       Date:  2007-08-03       Impact factor: 3.490

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Journal:  Mol Biol Rep       Date:  2012-04-26       Impact factor: 2.316

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8.  Consed: a graphical editor for next-generation sequencing.

Authors:  David Gordon; Phil Green
Journal:  Bioinformatics       Date:  2013-08-31       Impact factor: 6.937

9.  Proteogenomic Insights into the Physiology of Marine, Sulfate-Reducing, Filamentous Desulfonema limicola and Desulfonema magnum.

Authors:  Vanessa Schnaars; Lars Wöhlbrand; Sabine Scheve; Christina Hinrichs; Richard Reinhardt; Ralf Rabus
Journal:  Microb Physiol       Date:  2021-02-19

10.  The apolipoprotein L family of programmed cell death and immunity genes rapidly evolved in primates at discrete sites of host-pathogen interactions.

Authors:  Eric E Smith; Harmit S Malik
Journal:  Genome Res       Date:  2009-03-19       Impact factor: 9.043
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