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== Details ==
== Details ==
 
<html><style type="text/css"> 
 
table.detailinfo td { width:35%; background-color: #EAEBFF;}
table.detailinfo th { width:15%; background-color: #5A5FB5; color: white;}
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<div style="width:50%; float:left;">
=== Transcriptome profiling ===
=== Transcriptome profiling ===
<table>
<table class="detailinfo">
<tr><th scope="row" align="right"> [[Property:profile_hcage|hCAGE]]: </th> <td> {{#switch: {{{profile_hcage}}}|,,,=NA| =NA |{{{profile_hcage}}}}}</td>
<tr><th scope="row" align="right"> [[Property:profile_hcage|hCAGE]]: </th> <td> {{#switch: {{{profile_hcage}}}|,,,=NA| =NA |{{{profile_hcage}}}}}</td>
<tr><th scope="row" align="right"> [[Property:profile_rnaseq|RNA-seq]]: </th><td>{{#switch: {{{profile_rnaseq}}}|,,,=NA| =NA |{{{profile_rnaseq}}}}}
<tr><th scope="row" align="right"> [[Property:profile_rnaseq|RNA-seq]]: </th><td>{{#switch: {{{profile_rnaseq}}}|,,,=NA| =NA |{{{profile_rnaseq}}}}}
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=== Sample info ===
=== Sample info ===
<table>
<table class="detailinfo">
<tr><th scope="row" align="right"> [[Property:sample_strain|strain]]: </th><td>{{#if:{{{sample_strain}}}|[[sample_strain::{{{sample_strain}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_strain|strain]]: </th><td>{{#if:{{{sample_strain}}}|[[sample_strain::{{{sample_strain}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_tissue|tissue]]:</th><td>{{#if:{{{sample_tissue}}}|[[sample_tissue::{{{sample_tissue}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_tissue|tissue]]:</th><td>{{#if:{{{sample_tissue}}}|[[sample_tissue::{{{sample_tissue}}}]]|NA}} </td>
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=== RNA info ===
=== RNA info ===
<table>
<table class="detailinfo">
<tr><th scope="row" align="right"> [[Property:sample_id|sample_id]]: </th><td>{{#if:{{{sample_id}}}|[[sample_id::{{{sample_id}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_id|sample_id]]: </th><td>{{#if:{{{sample_id}}}|[[sample_id::{{{sample_id}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:rna_tube_id|tube_id]]:</th><td>{{#if:{{{rna_tube_id}}}|[[rna_tube_id::{{{rna_tube_id}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:rna_tube_id|tube_id]]:</th><td>{{#if:{{{rna_tube_id}}}|[[rna_tube_id::{{{rna_tube_id}}}]]|NA}}</td>
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<tr><th scope="row" align="right"> [[Property:rna_concentration|concentration]]:</th><td>{{#if:{{{rna_concentration}}}|[[rna_concentration::{{{rna_concentration}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:rna_concentration|concentration]]:</th><td>{{#if:{{{rna_concentration}}}|[[rna_concentration::{{{rna_concentration}}}]]|NA}}</td>
</table>
</table>
</div>


== Parent ontology==
== Parent ontology==

Revision as of 11:26, 16 August 2013


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 ontology (non-development)

Connected ontology terms with is_a, part_of or located_in relathionship <br>Analyst: Hideya Kawaji

CL: Cell type

DOID: Disease
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.

UBERON: Anatomy

FF: FANTOM5

Ancestors in ontology (development)

Connected ontology terms with develops_from, derives_from or preceded_by relathionship <br>Analyst: Hideya Kawaji



De novo Motif

<b>Homer de novo Motifs</b><br>Analyst: Michael Rehli


Related Novel Motifs

The values shown are the p-values of novel motifs in FANTOM5 samples. <br>Analyst: Michiel de Hoon

CAGE Library ID:{{{profile_hcage}}}


This sample isn't target for the analysis


Related JASPAR Motifs

The values shown are the p-values of jaspar motifs in FANTOM5 samples. <br>Analyst: Michiel de Hoon

CAGE Library ID:{{{profile_hcage}}}


This sample isn't target for the analysis



Repeat Enrichment

<br>Analyst:

no result for this sample


Relative expression of the co-expression cluster

<br>Analyst: