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Introduction Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.


Genes, TSS regions, motifs, samples, etc profiled in FANTOM5.  
<html><style>
#front-table td { border-top: 1px solid #AAA; vertical-align:middle; padding: 0.5em 0 0.5em 0; }
#front-table th { text-align: left; padding: 2em 0 0.3em 0; }
#front-table li { line-height: 1.2em; }
</style></html>


=== Usage ===
* Just click any in the left menue
* Or, keyword search on top of this page.
* Or, make a complex query at [[Special:Ask]], if you are familiar with [http://semantic-mediawiki.org/ Semantic MediaWIki]


=== Note ===
<table cellspacing="0" id="front-table">
* we are focusing on phase1 freeze, and we are '''still keep updating''' this.
<html>
* contact: KAWAJI, Hideya <kawaji@gsc.riken.jp>, SHIMOJI, Hisashi <hisashi.shimoji@dnaform.jp>, or WP4 <fantom5-wp4@gsc.riken.jp>  
<form method="get" action="/resource_browser/RB_SearchResults">
  <tr>
    <th ><b>Gene Search</b></td>
    <th  colspan="2"><input type="text" name="sq" value="" style="width: 440px;"></td>
    <th ><input type="submit" value="search"></td>
  </tr>
</form>
  <tr>
    <th style="width: 120px;"></td>
    <th style="width: 300px;"></td>
    <th style="width: 160px; padding-left: 19px;">Examples</td>
    <th style="width: 160px;">Browse</td>
  </tr></html>
  <tr>
    <td>'''Samples'''</td>
    <td>Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod.</td>
    <td style="width: 160px;">
{{#ask:[[Category:FF Samples]]
| limit=3
| format=ul
| searchlabel=
| order=random
}}
    </td>
    <td>
[[Browse_samples|Samples by name]]


=== Data source ===
[[Browse_facet|Samples by categories]]
See [[Data_source]]


= Other browsers/resources =
[[Browse_series|Samples by series]]
* [https://fantom5-collaboration.gsc.riken.jp/wiki FANTOM5 collaboration wiki]
* [https://fantom5-collaboration.gsc.riken.jp/zenbu zenbu]
* [https://fantom5-collaboration.gsc.riken.jp/ucsc UCSC mirror (at RIKEN)]
* [http://yuri.lbl.gov:8600/fonse/ FONSE (Fantomy ONtology Sample Explorer)] (user:terry , pass: T34s377)
* [http://www.biolayout.org/fantom5/ BioLayout]
* FANTOM5 [http://people.binf.ku.dk/tfb525/fantom/ promoter] / [http://people.binf.ku.dk/tfb525/enhancers/ enhancer] selector (by Kang and Albin; pass: 9EPefA4e)


* [https://fantom5-collaboration.gsc.riken.jp/files/data/shared/FREEZE_PHASE1/ phase1 data freeze]
[[Browse_datatype|Samples by data type]]
* [https://fantom5-collaboration.gsc.riken.jp/files/data/shared/LATEST_UPDATE/ latest update]
 
</td>
  </tr>
  <tr>
    <td>'''Co-expression'''</td>
    <td>
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    </td>
    <td>
{{#ask:[[Category:Coexpression clusters]]
| limit=3
| format=ul
| searchlabel=
| order=random
}}
    </td>
    <td>
[[Browse_coexpression_clusters|Human]]
 
[[Browse_MCL_coexpression_mouse|Mouse]]
</td>
  </tr>
  <tr>
    <td>'''MOTIFs'''</td>
    <td>
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    </td>
    <td>
{{#ask:[[Category:MacroAPE_1083]]
| limit=3
| format=ul
| searchlabel=
| order=random
}}
    </td>
    <td>
[[Browse_MacroAPE|MacroAPE]]
 
[[Browse_swissregulon|Swissregulon]]
</td>
  </tr>
  <tr>
    <td>'''Genes'''</td>
    <td>
Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia.
    </td>
    <td>
{{#ask:[[Category:EntrezGene]]
| limit=3
| format=ul
| searchlabel=
| order=random
}}
    </td>
    <td>
[[Browse_genes|Genes]]
 
[[Browse_tss|TSSs]]
 
[[Browse_Transcription_Factors|TFs]]
</td>
  </tr>
  <tr>
    <td>'''Ontologies'''</td>
    <td>
Duis aute irure dolor in reprehenderit in voluptate.
    </td>
    <td>
{{#ask:[[Category:FF_Terms]]
| limit=3
| format=ul
| searchlabel=
| order=random
}}
    </td>
    <td>
[[FF_Ontology_terms_list|FANTOM5 (FF)]]
 
[[Cell_Ontology_terms_list|Cell Type (CL)]]
 
[[Human_Disease_Ontology_terms_list|Disease (DOID)]]
 
[[Uber_Anatomy_Ontology_terms_list|Anatomy (UBERON)]]
</td>
  </tr>
</table>

Revision as of 19:17, 22 November 2012

Introduction Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.


Gene Search
Examples Browse
Samples Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod.

Samples by name

Samples by categories

Samples by series

Samples by data type

Co-expression

Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor.

Human

Mouse

MOTIFs

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MacroAPE

Swissregulon

Genes

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Genes

TSSs

TFs

Ontologies

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FANTOM5 (FF)

Cell Type (CL)

Disease (DOID)

Anatomy (UBERON)

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