PMID:19082552: Difference between revisions

Revision as of 19:57, 2 February 2010

Kropinski, AM, Borodovsky, M, Carver, TJ, Cerdeño-Tárraga, AM, Darling, A, Lomsadze, A, Mahadevan, P, Stothard, P, Seto, D, Van Domselaar, G and Wishart, DS (2009) In silico identification of genes in bacteriophage DNA.Methods Mol. Biol. 502:57-89

Abstract

<protect>One of the most satisfying aspects of a genome sequencing project is the identification of the genes contained within it.These are of two types: those which encode tRNAs and those which produce proteins. After a general introduction on the properties of protein-encoding genes and the utility of the Basic Local Alignment Search Tool (BLASTX) to identify genes through homologs, a variety of tools are discussed by their creators. These include for genome annotation: GeneMark, Artemis, and BASys; and, for genome comparisons: Artemis Comparison Tool (ACT), Mauve, CoreGenes, and GeneOrder.

|- |bgcolor='#CCCCFF' nowrap |Links || PubMed
Online version:10.1007/978-1-60327-565-1_6 |} </protect>

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Useful Materials and Methods

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Annotations

Gene product	Qualifier	GO ID	GO term name	Evidence Code	with/from	Aspect	Notes	Status
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+<protect>
+<span style = 'font-size: large'> '''Kropinski, AM, Borodovsky, M, Carver, TJ, Cerdeño-Tárraga, AM, Darling, A, Lomsadze, A, Mahadevan, P, Stothard, P, Seto, D, Van Domselaar, G and Wishart, DS'''  (2009) In silico identification of genes in bacteriophage DNA.''Methods Mol. Biol.'' '''502''':57-89</span>
+{|{{Prettytable}} align = 'center' width= '70%'
+|-
+|{{TableHeadingColor}} |'''Abstract''' || <protect>One of the most satisfying aspects of a genome sequencing project is the identification of the genes contained within it.These are of two types: those which encode tRNAs and those which produce proteins. After a general introduction on the properties of protein-encoding genes and the utility of the Basic Local Alignment Search Tool (BLASTX) to identify genes through homologs, a variety of tools are discussed by their creators. These include for genome annotation: GeneMark, Artemis, and BASys; and, for genome comparisons: Artemis Comparison Tool (ACT), Mauve, CoreGenes, and GeneOrder.</protect>
+|-
+|{{TableHeadingColor}} nowrap |'''Links''' ||  [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=19082552 PubMed]<br/>Online version:[http://dx.doi.org/10.1007/978-1-60327-565-1_6 10.1007/978-1-60327-565-1_6]
+|}
+</protect>
+==Significance {{HelpIcon|Help:Literature}} ==
+{{LitSignificance}}
+== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
+{{LitMaterials}}
+==Annotations {{HelpIcon|Help:Literature}}==
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+<!--
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+{|   id="A4b6883b97e7f0"  class=" tableEdit GO_table_reference"
+|- {{table heading style}}
+!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status
+|- class="tableEdit_footer"
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+<!--box uid=63ce1649aab8b3180235b0af7618f667.170444.A4b6883b97e7f0--></protect>
+==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
+{{LitLinks}}
+==See also==
+==References==
+{{RefHelp}}
+<references/>