Difference between revisions of "Search binding sites (analysis)"
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==== Description ==== | ==== Description ==== | ||
| − | Search binding sites | + | Search for TF binding sites in GTRD near the speciefied gene. |
==== Parameters: ==== | ==== Parameters: ==== | ||
| − | * ''' | + | * '''preparedTables''' (expert) – preparedTables |
| + | * '''peaksFolder''' (expert) – peaksFolder | ||
* '''Organism''' – Organism | * '''Organism''' – Organism | ||
| − | * '''Gene symbol or ID''' – Restrict search to | + | * '''Gene symbol or ID''' – Restrict search to sites near this gene, enter <nowiki>'</nowiki>Any<nowiki>'</nowiki> to search in all genes |
* '''Transcription factor''' – Transcription factor | * '''Transcription factor''' – Transcription factor | ||
| − | * ''' | + | * '''Data set''' – Data set |
* '''Cell line''' – Cell line | * '''Cell line''' – Cell line | ||
* '''Treatment''' – Treatment/condition | * '''Treatment''' – Treatment/condition | ||
* '''Max gene distance''' – Maximal distance from site to gene | * '''Max gene distance''' – Maximal distance from site to gene | ||
| + | * '''Output type''' – Type of result | ||
* '''Binding sites''' (expert) – Found transcription factor binding sites | * '''Binding sites''' (expert) – Found transcription factor binding sites | ||
Latest revision as of 18:14, 9 December 2020
- Analysis title
Search binding sites
- Provider
- Institute of Systems Biology
- Class
SearchBindingSites- Plugin
- biouml.plugins.gtrd (GTRD)
[edit] Description
Search for TF binding sites in GTRD near the speciefied gene.
[edit] Parameters:
- preparedTables (expert) – preparedTables
- peaksFolder (expert) – peaksFolder
- Organism – Organism
- Gene symbol or ID – Restrict search to sites near this gene, enter 'Any' to search in all genes
- Transcription factor – Transcription factor
- Data set – Data set
- Cell line – Cell line
- Treatment – Treatment/condition
- Max gene distance – Maximal distance from site to gene
- Output type – Type of result
- Binding sites (expert) – Found transcription factor binding sites
