Difference between revisions of "Category:ECO:0000295 ! RNA-seq evidence"
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{{Autobox|1='''id:''' ECO:0000295<br> | {{Autobox|1='''id:''' ECO:0000295<br> | ||
'''name:''' RNA-seq evidence<br> | '''name:''' RNA-seq evidence<br> | ||
| − | '''def:''' "A type of transcript | + | '''def:''' "A type of transcript evidence based on high-throughput (HT) sequencing of fragmented cDNA molecules." [ECO:MCC]<br> |
| + | '''alt_id:''' ECO:0000357<br> | ||
| + | '''synonym:''' "differential gene expression evidence from RNA-seq experiment" NARROW []<br> | ||
'''synonym:''' "RNA sequencing" RELATED []<br> | '''synonym:''' "RNA sequencing" RELATED []<br> | ||
'''synonym:''' "whole transcriptome shotgun sequencing" EXACT [PMID:18611170]<br> | '''synonym:''' "whole transcriptome shotgun sequencing" EXACT [PMID:18611170]<br> | ||
'''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 |
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