Difference between revisions of "Category:ECO:0000295 ! RNA-seq evidence"

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'''synonym:''' "WTSS" EXACT []<br>
 
'''synonym:''' "WTSS" EXACT []<br>
 
'''is_a:''' [[:Category:ECO:0000009 ! transcript expression evidence|ECO:0000009 ! transcript expression evidence]][[Category:ECO:0000009 ! transcript expression evidence|ECO:0000009 ! transcript expression evidence]]<br>
 
'''is_a:''' [[:Category:ECO:0000009 ! transcript expression evidence|ECO:0000009 ! transcript expression evidence]][[Category:ECO:0000009 ! transcript expression evidence|ECO:0000009 ! transcript expression evidence]]<br>
 +
'''relationship:''' IAO:0000136: [http://gowiki.tamu.edu/index.php/Category:GO:0010467_!_is_about_gene_expression GO:0010467 ! is about gene expression]<br>
 +
'''relationship:''' OBI:0000312: OBI:0001271 ! is_specified_output_of RNA-seq assay<br>
 
'''comment:''' Total RNA is isolated from cells and mRNA is purified by targeting the 3' polyadenylated (poly(A)) tail with poly(T) oligos covalently attached to a substrate. Next, cDNA fragments are generated either by hydrolysis of RNA into 200-300 base oligonucleotides, preceded by reverse transcription, or by reverse transcription initiated by random primers. The cDNA second strand is synthesized, fragments are adapter ligated and high-throughput sequencing is performed by Roche 454, Illumina, ABI-SOLiD, or another HT sequencing technology. Resulting sort reads are aligned against a reference genome, and downstream analysis is performed.<br>
 
'''comment:''' Total RNA is isolated from cells and mRNA is purified by targeting the 3' polyadenylated (poly(A)) tail with poly(T) oligos covalently attached to a substrate. Next, cDNA fragments are generated either by hydrolysis of RNA into 200-300 base oligonucleotides, preceded by reverse transcription, or by reverse transcription initiated by random primers. The cDNA second strand is synthesized, fragments are adapter ligated and high-throughput sequencing is performed by Roche 454, Illumina, ABI-SOLiD, or another HT sequencing technology. Resulting sort reads are aligned against a reference genome, and downstream analysis is performed.<br>
 
}}
 
}}

Latest revision as of 06:05, 8 April 2019

id: ECO:0000295

name: RNA-seq evidence
def: "A type of transcript evidence based on high-throughput (HT) sequencing of fragmented cDNA molecules." [ECO:MCC]
alt_id: ECO:0000357
synonym: "differential gene expression evidence from RNA-seq experiment" NARROW []
synonym: "RNA sequencing" RELATED []
synonym: "whole transcriptome shotgun sequencing" EXACT [PMID:18611170]
synonym: "WTSS" EXACT []
is_a: ECO:0000009 ! transcript expression evidence
relationship: IAO:0000136: GO:0010467 ! is about gene expression
relationship: OBI:0000312: OBI:0001271 ! is_specified_output_of RNA-seq assay
comment: Total RNA is isolated from cells and mRNA is purified by targeting the 3' polyadenylated (poly(A)) tail with poly(T) oligos covalently attached to a substrate. Next, cDNA fragments are generated either by hydrolysis of RNA into 200-300 base oligonucleotides, preceded by reverse transcription, or by reverse transcription initiated by random primers. The cDNA second strand is synthesized, fragments are adapter ligated and high-throughput sequencing is performed by Roche 454, Illumina, ABI-SOLiD, or another HT sequencing technology. Resulting sort reads are aligned against a reference genome, and downstream analysis is performed.

 ECO:0000295

Last version checked
releases/2019-06-14.

14:06:2019 08:25.

rctauber		Last updated
releases/2019-06-14

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