Difference between revisions of "Category:ECO:0005531 ! motif discovery evidence"
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{{Autobox|1='''id:''' ECO:0005531<br> | {{Autobox|1='''id:''' ECO:0005531<br> | ||
'''name:''' motif discovery evidence<br> | '''name:''' motif discovery evidence<br> | ||
| − | '''def:''' "A type of sequence alignment evidence based on a set of algorithms that infer over-represented motifs from a set of biological sequences returning one or more local multiple sequence alignment defining the inferred motifs." [ECO:SW, PMID:10812473, PMID:16845028, PMID:8211139]<br> | + | '''def:''' "A type of multiple sequence alignment evidence based on a set of algorithms that infer over-represented motifs from a set of biological sequences returning one or more local multiple sequence alignment defining the inferred motifs." [ECO:SW, PMID:10812473, PMID:16845028, PMID:8211139]<br> |
| − | '''is_a:''' [[:Category:ECO: | + | '''is_a:''' [[:Category:ECO:0005555 ! multiple sequence alignment evidence|ECO:0005555 ! multiple sequence alignment evidence]][[Category:ECO:0005555 ! multiple sequence alignment evidence|ECO:0005555 ! multiple sequence alignment evidence]]<br> |
'''comment:''' Relationship type between sequences (e.g. orthologs from multiple genomes or co-expressed genes in the same genome) is not necessarily assumed. The local multiple sequence alignment is typically ungapped. A common application of motif discovery is to infer the binding motif of a given transcription factor (TF). This can be based on the results of a whole-genome expression analysis, assuming that co-expressed genes are co-regulated by the same TF (PMID: 19892760), from peaks in ChIP-seq experiments with the TF (PMID: 16264194), or from the comparative genomics analysis of the promoter regions of orthologs (PMID: 23032607).<br> | '''comment:''' Relationship type between sequences (e.g. orthologs from multiple genomes or co-expressed genes in the same genome) is not necessarily assumed. The local multiple sequence alignment is typically ungapped. A common application of motif discovery is to infer the binding motif of a given transcription factor (TF). This can be based on the results of a whole-genome expression analysis, assuming that co-expressed genes are co-regulated by the same TF (PMID: 19892760), from peaks in ChIP-seq experiments with the TF (PMID: 16264194), or from the comparative genomics analysis of the promoter regions of orthologs (PMID: 23032607).<br> | ||
}} | }} | ||
Revision as of 11:01, 9 August 2016
| id: ECO:0005531 name: motif discovery evidence |
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