Template:F5samples: Difference between revisions
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{{#if: {{#pos:{{{profile_hcage}}}|CNhs}} | | {{#if: {{#pos:{{{profile_hcage}}}|CNhs}} | | ||
<html><h2>TF to Motif to TF network</h2></html>{{#info:Analyst: Erik Arner<br>Application Developer: Jayson HARSHBARGER}}<br> | <html><h2>TF to Motif to TF network</h2></html>{{#info:Mouseover nodes and edges to see attributes. Motifs are shown in orange, TFs are shown in blue. Promoter and z-score are attributes of the Motif to TF edges (blue arrow). TF to Motif edges are shown in orange.<br>Motifs shown are the top (maximum 30) motifs in the sample. TFs shown have at least one CAGE promoter with at at least 10 TPM expression (RLE normalized) in the sample. Edges shown have a z-score of at least 1.5 (based on correlation between motif activity and promoter expression).Analyst: Erik Arner<br>Application Developer: Jayson HARSHBARGER}}<br> | ||
{{#explode:{{{profile_hcage}}}|,|0}}.{{PAGENAME}}.xgmml | {{#explode:{{{profile_hcage}}}|,|0}}.{{PAGENAME}}.xgmml | ||
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Revision as of 14:26, 23 May 2012
| Name: | {{{name}}} |
|---|---|
| Species: | {{{sample_species}}} |
| Genomic View: | zenbu , UCSC |
Details
Transcriptome profiling
| hCAGE | {{{profile_hcage}}} |
|---|---|
| RNA-seq | {{{profile_rnaseq}}} |
| smallRNA seq | {{{profile_srnaseq}}} |
| nanoCAGEscan | {{{profile_cagescan}}} |
Sample info
| strain | {{{sample_strain}}} |
|---|---|
| tissue | {{{sample_tissue}}} |
| dev_stage | {{{sample_dev_stage}}} |
| sex | {{{sample_sex}}} |
| age | {{{sample_age}}} |
| ethnicity | {{{sample_ethnicity}}} |
| cell_type | {{{sample_cell_type}}} |
| cell_line | {{{sample_cell_line}}} |
| collaboration | {{{sample_collaboration}}} |
| Experimental condition | {{{sample_experimental_condition}}} |
| disease | {{{sample_disease}}} |
| cell_lot | {{{sample_cell_lot}}} |
| cell_catalog | {{{sample_cell_catalog}}} |
| company | {{{sample_company}}} |
| donor(cell lot) | {{{sample_donor(cell lot)}}} |
| Note | {{{sample_note}}} |
RNA info
| sample_id | {{{sample_id}}} |
|---|---|
| tube_id | {{{rna_tube_id}}} |
| box | {{{rna_box}}} |
| position | {{{rna_position}}} |
| lot_number | {{{rna_lot_number}}} |
| catalog_number | {{{rna_catalog_number}}} |
| RIN | {{{rna_rin}}} |
| OD260/230 | {{{rna_od260/230}}} |
| OD260/280 | {{{rna_od260/280}}} |
| sample_type | {{{rna_sample_type}}} |
| extraction_protocol | {{{rna_extraction_protocol}}} |
| weight_ug | {{{rna_weight_ug}}} |
| concentration | {{{rna_concentration}}} |
Parent ontology
is_a relathionship
{{{is_a}}}
part_of relathionship
{{{part_of}}}
has_quality relathionship
{{{has_quality}}}
Ancestors in FF ontology
| Anatomy | Cell type | Disease |
|---|---|---|
|
UBERON: |
CL: |
Property "Ancestors in disease facet" (as page type) with input value "{{{ancestors_in_disease_facet}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.DOID: |
