Warning: file(/var/www/html/resource_browser/extensions/p1samples_FFCP.txt): failed to open stream: No such file or directory in /var/www/html/resource_browser/extensions/gene_exptable.php on line 21

Warning: count(): Parameter must be an array or an object that implements Countable in /var/www/html/resource_browser/extensions/gene_exptable.php on line 38
Difference between revisions of "Template:FFCP" - resource_browser
Personal tools

Difference between revisions of "Template:FFCP"

From FANTOM5_SSTAR

Jump to: navigation, search
Line 5: Line 5:
 
<div style="width:50%; float:none;">
 
<div style="width:50%; float:none;">
 
<table class="detailinfo">
 
<table class="detailinfo">
<tr><th scope="row" align="right">short description:</th><td> {{#show:{{FULLPAGENAME}}|?short_description}}</td></tr>
+
<tr><th scope="row" align="right">Short description:</th><td> {{#show:{{FULLPAGENAME}}|?short_description}}</td></tr>
 
<tr><th scope="row" align="right">DPIdataset:</th><td> {{#switch:{{{DPIdataset}}} |robustDPI=robustDPI|permissiveDPI=permissiveDPI|#default = NA}}</td></tr>
 
<tr><th scope="row" align="right">DPIdataset:</th><td> {{#switch:{{{DPIdataset}}} |robustDPI=robustDPI|permissiveDPI=permissiveDPI|#default = NA}}</td></tr>
 
<tr><th scope="row" align="right">TSS-like-by-RIKEN-classifier(Yes/No):</th><td> {{#switch: {{{TSSclassifier}}} | S = Yes| #default = NA| W= No|N=No}} </td></tr>
 
<tr><th scope="row" align="right">TSS-like-by-RIKEN-classifier(Yes/No):</th><td> {{#switch: {{{TSSclassifier}}} | S = Yes| #default = NA| W= No|N=No}} </td></tr>
Line 11: Line 11:
 
{{#switch: {{{GencodeV16b_All_Build2_RSEM10_CPAT_consensus}}} | no_gencodeV16_or_build2_transcript = no_gencodeV16_or_build2_transcript| #default = NA|novel_noncoding=novel_noncoding|novel_coding=novel_coding|gencodeV16_ncRNA=gencodeV16_ncRNA|gencodeV16_protein_coding=gencodeV16_protein_coding}}</td></tr>
 
{{#switch: {{{GencodeV16b_All_Build2_RSEM10_CPAT_consensus}}} | no_gencodeV16_or_build2_transcript = no_gencodeV16_or_build2_transcript| #default = NA|novel_noncoding=novel_noncoding|novel_coding=novel_coding|gencodeV16_ncRNA=gencodeV16_ncRNA|gencodeV16_protein_coding=gencodeV16_protein_coding}}</td></tr>
 
<tr><th scope="row" align="right">EntrezGene:</th><td>{{#if:{{{EntrezGene}}}|{{#ifeq:{{#show:{{FULLPAGENAME}}|?EntrezGene}}|NA|NA|{{#ifexist:EntrezGene:{{{EntrezGene}}}|[[EntrezGene:{{{EntrezGene}}}|{{#show:EntrezGene:{{{EntrezGene}}}|?Symbol}}]]|[http://www.ncbi.nlm.nih.gov/gene?term={{{EntrezGene}}}  {{{EntrezGene}}}] }}}}|NA}}</td></tr>
 
<tr><th scope="row" align="right">EntrezGene:</th><td>{{#if:{{{EntrezGene}}}|{{#ifeq:{{#show:{{FULLPAGENAME}}|?EntrezGene}}|NA|NA|{{#ifexist:EntrezGene:{{{EntrezGene}}}|[[EntrezGene:{{{EntrezGene}}}|{{#show:EntrezGene:{{{EntrezGene}}}|?Symbol}}]]|[http://www.ncbi.nlm.nih.gov/gene?term={{{EntrezGene}}}  {{{EntrezGene}}}] }}}}|NA}}</td></tr>
<tr><th scope="row" align="right">description:</th><td> {{#show:{{FULLPAGENAME}}|?description}}</td></tr>
+
<tr><th scope="row" align="right">Description:</th><td> {{#show:{{FULLPAGENAME}}|?description}}</td></tr>
 
<tr><th scope="row" align="right">Species:</th><td>{{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|[[species::Human (Homo sapiens)]]}}{{#if:{{#pos:{{FULLPAGENAME}}|Mm9}}|[[species::Mouse (Mus musculus)]]}}</td></tr>
 
<tr><th scope="row" align="right">Species:</th><td>{{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|[[species::Human (Homo sapiens)]]}}{{#if:{{#pos:{{FULLPAGENAME}}|Mm9}}|[[species::Mouse (Mus musculus)]]}}</td></tr>
<tr><th scope="row" align="right">association with transcript:</th><td> {{#show:{{FULLPAGENAME}}|?association_with_transcript}}</td></tr>
+
<tr><th scope="row" align="right">Association with transcript:</th><td> {{#show:{{FULLPAGENAME}}|?association_with_transcript}}</td></tr>
 
{{#if: {{{HGNC}}} | <tr><th scope="row" align="right">HGNC:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?HGNC}}| {{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|NA|}}|NA|[http://www.genenames.org/cgi-bin/quick_search.pl?.cgifields=type&num=50&search={{#show:{{FULLPAGENAME}}|?HGNC}}&submit=Submit {{#show:{{FULLPAGENAME}}|?HGNC}}]|NA}}</td></tr>|}}
 
{{#if: {{{HGNC}}} | <tr><th scope="row" align="right">HGNC:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?HGNC}}| {{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|NA|}}|NA|[http://www.genenames.org/cgi-bin/quick_search.pl?.cgifields=type&num=50&search={{#show:{{FULLPAGENAME}}|?HGNC}}&submit=Submit {{#show:{{FULLPAGENAME}}|?HGNC}}]|NA}}</td></tr>|}}
 
{{#if: {{{UniProt}}} | <tr><th scope="row" align="right">UniProt:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?UniProt}}|NA|NA|[http://www.uniprot.org/uniprot/?query={{#show:{{FULLPAGENAME}}|?UniProt}}  {{#show:{{FULLPAGENAME}}|?UniProt}}]|NA}}</td></tr> |}}
 
{{#if: {{{UniProt}}} | <tr><th scope="row" align="right">UniProt:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?UniProt}}|NA|NA|[http://www.uniprot.org/uniprot/?query={{#show:{{FULLPAGENAME}}|?UniProt}}  {{#show:{{FULLPAGENAME}}|?UniProt}}]|NA}}</td></tr> |}}
<tr><th scope="row" align="right">coexpression_cluster:</th><td>
+
<tr><th scope="row" align="right">Coexpression cluster:</th><td>
 
{{#if:{{#pos:{{PAGENAME}}|Hg19}}
 
{{#if:{{#pos:{{PAGENAME}}|Hg19}}
 
|{{#ifeq:{{#pos:{{{coexpression_cluster_id}}}|C}}|0|[[coexpression_cluster_id::{{{coexpression_cluster_id}}}|]][[Coexpression cluster:{{{coexpression_cluster_id}}}|{{#show:Coexpression cluster:{{{coexpression_cluster_id}}}|?Full_id}}]]|NA}}
 
|{{#ifeq:{{#pos:{{{coexpression_cluster_id}}}|C}}|0|[[coexpression_cluster_id::{{{coexpression_cluster_id}}}|]][[Coexpression cluster:{{{coexpression_cluster_id}}}|{{#show:Coexpression cluster:{{{coexpression_cluster_id}}}|?Full_id}}]]|NA}}
Line 265: Line 265:
 
{{#if:{{{ontology_enrichment_celltype_v019_2}}}|
 
{{#if:{{{ontology_enrichment_celltype_v019_2}}}|
 
<div style="float:left;width:33%;">
 
<div style="float:left;width:33%;">
<table class="enrichment_list"><caption class="table_title">Cell Type</caption><html><thead></html>
+
<table class="enrichment_list"><caption class="table_title">Cell type</caption><html><thead></html>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
 
<html></thead><tbody></html><tr><td>
 
<html></thead><tbody></html><tr><td>
Line 276: Line 276:
 
}}{{#if:{{{ontology_enrichment_uberon_v019_2}}}|
 
}}{{#if:{{{ontology_enrichment_uberon_v019_2}}}|
 
<div style="float:left;width:33%;">
 
<div style="float:left;width:33%;">
<table class="enrichment_list"><caption class="table_title">Uber Anatomy</caption><html><thead></html>
+
<table class="enrichment_list"><caption class="table_title">Uber anatomy</caption><html><thead></html>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
 
<html></thead><tbody></html><tr><td>
 
<html></thead><tbody></html><tr><td>

Revision as of 08:22, 22 October 2013

Short description:
DPIdataset: NA
TSS-like-by-RIKEN-classifier(Yes/No): NA
GencodeV16b_All_Build2_RSEM10_CPAT_consensus: NA
EntrezGene:{{{EntrezGene}}}
Description:
Species:
Association with transcript:
HGNC: NA
UniProt: [1]
Coexpression cluster:


View on UCSC genome browser OSC local mirror

Mouse over to see Genome browser image, Click image to go to Genome browser

CAGE Expression

Sample

{{{short_description}}}

0.00



  • Click each plot point to find sample in table

Ontology-based sample term enrichment analysis

Cell type
Ontology termp-valuen
[[{{{ontology_enrichment_celltype_v019_2}}}|]]
Uber anatomy
Ontology termp-valuen
[[{{{ontology_enrichment_uberon_v019_2}}}|]]
Disease
Ontology termp-valuen
[[{{{ontology_enrichment_disease_v019_2}}}|]]








"FFCP" is not a number.