Template:F5samples: Difference between revisions
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=== Sample info === | === Sample info === | ||
<table> | <table> | ||
<tr><th scope="row" align="right"> [[Property:sample_strain|strain]] </th><td> [[sample_strain::{{{sample_strain}}}]]</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> [[sample_tissue::{{{sample_tissue}}}]]</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> [[sample_dev_stage::{{{sample_dev_stage}}}]]</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> [[sample_sex::{{{sample_sex}}}]]</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> [[sample_age::{{{sample_age}}}]]</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> [[sample_ethnicity::{{{sample_ethnicity}}}]]</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> [[sample_cell_type::{{{sample_cell_type}}}]] </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> [[sample_cell_line::{{{sample_cell_line}}}]] </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> [[sample_collaboration::{{{sample_collaboration}}}]]</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>[[sample_experimental_condition::{{{sample_experimental_condition}}}]]</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> [[sample_disease::{{{sample_disease}}}]]</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> [[sample_cell_lot::{{{sample_cell_lot}}}]]</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> [[sample_cell_catalog::{{{sample_cell_catalog}}}]]</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> [[sample_company::{{{sample_company}}}]]</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> [[sample_donor(cell lot)::{{{sample_donor(cell lot)}}}]]</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_note|Note]]</th><td> [[sample_note::{{{sample_note}}}]]</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 16:51, 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: