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=== Sample info ===
=== Sample info ===
<table>
<table>
<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>
<tr><th scope="row" align="right"> [[Property:sample_dev_stage|dev_stage]] </th><td>{{#if:{{{sample_dev_stage}}}|[[sample_dev_stage::{{{sample_dev_stage}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_dev_stage|dev_stage]]:</th><td>{{#if:{{{sample_dev_stage}}}|[[sample_dev_stage::{{{sample_dev_stage}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_sex|sex]]</th><td>{{#if:{{{sample_sex}}}|[[sample_sex::{{{sample_sex}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_sex|sex]]:</th><td>{{#if:{{{sample_sex}}}|[[sample_sex::{{{sample_sex}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_age|age]]</th><td>{{#if:{{{sample_age}}}|[[sample_age::{{{sample_age}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_age|age]]:</th><td>{{#if:{{{sample_age}}}|[[sample_age::{{{sample_age}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_ethnicity|ethnicity]]</th><td>{{#if:{{{sample_ethnicity}}}|[[sample_ethnicity::{{{sample_ethnicity}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_ethnicity|ethnicity]]:</th><td>{{#if:{{{sample_ethnicity}}}|[[sample_ethnicity::{{{sample_ethnicity}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_type|cell_type]]</th><td> {{#if:{{{sample_cell_type}}}|[[sample_cell_type::{{{sample_cell_type}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_type|cell_type]]:</th><td> {{#if:{{{sample_cell_type}}}|[[sample_cell_type::{{{sample_cell_type}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_line|cell_line]]</th><td>{{#if:{{{sample_cell_line}}}|[[sample_cell_line::{{{sample_cell_line}}}]]|NA}}  </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_line|cell_line]]:</th><td>{{#if:{{{sample_cell_line}}}|[[sample_cell_line::{{{sample_cell_line}}}]]|NA}}  </td>
<tr><th scope="row" align="right"> [[Property:sample_collaboration|collaboration]]</th><td> {{#if:{{{sample_collaboration}}}|[[sample_collaboration::{{{sample_collaboration}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_collaboration|collaboration]]:</th><td> {{#if:{{{sample_collaboration}}}|[[sample_collaboration::{{{sample_collaboration}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_experimental_condition|Experimental condition]]</th><td>{{#if:{{{sample_experimental_condition}}}|[[sample_experimental_condition::{{{sample_experimental_condition}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_experimental_condition|Experimental condition]]:</th><td>{{#if:{{{sample_experimental_condition}}}|[[sample_experimental_condition::{{{sample_experimental_condition}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_disease|disease]]</th><td>{{#if:{{{sample_disease}}}|[[sample_disease::{{{sample_disease}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_disease|disease]]:</th><td>{{#if:{{{sample_disease}}}|[[sample_disease::{{{sample_disease}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_lot|cell_lot]]</th><td>{{#if:{{{sample_cell_lot}}}|[[sample_cell_lot::{{{sample_cell_lot}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_lot|cell_lot]];</th><td>{{#if:{{{sample_cell_lot}}}|[[sample_cell_lot::{{{sample_cell_lot}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_catalog|cell_catalog]]</th><td> {{#if:{{{sample_cell_catalog}}}|[[sample_cell_catalog::{{{sample_cell_catalog}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_cell_catalog|cell_catalog]]:</th><td> {{#if:{{{sample_cell_catalog}}}|[[sample_cell_catalog::{{{sample_cell_catalog}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_company|company]]</th><td> {{#if:{{{sample_company}}}|[[sample_company::{{{sample_company}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_company|company]]:</th><td> {{#if:{{{sample_company}}}|[[sample_company::{{{sample_company}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_donor(cell lot)|donor(cell lot)]]</th><td> {{#if:{{{sample_donor}}}|[[sample_donor(cell lot)::{{{sample_donor(cell lot)}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_donor(cell lot)|donor(cell lot)]]:</th><td> {{#if:{{{sample_donor(cell lot)}}}|[[sample_donor(cell lot)::{{{sample_donor(cell lot)}}}]]|NA}}</td>
<tr><th scope="row" align="right"> [[Property:sample_note|Note]]</th><td>{{#if:{{{sample_note}}}|[[sample_note::{{{sample_note}}}]]|NA}} </td>
<tr><th scope="row" align="right"> [[Property:sample_note|Note]]:</th><td>{{#if:{{{sample_note}}}|[[sample_note::{{{sample_note}}}]]|NA}} </td>
</table>
</table>



Revision as of 16:54, 15 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: