Template:F5samples

Name:	{{{name}}}
Species:	{{{sample_species}}}
Library ID:	{{{library_id}}}
Sample type:	{{{sample_category}}}
Genomic View:	zenbu , UCSC
CAGEd-oPOSSUM:	link

Additional information

Sample information strain {{{sample_strain}}} tissue {{{sample_tissue}}} dev stage {{{sample_dev_stage}}} sex {{{sample_sex}}} age {{{sample_age}}} cell type {{{sample_cell_type}}} cell line {{{sample_cell_line}}} company {{{sample_company}}} collaboration {{{sample_collaboration}}} External link for information [{{{sample_info_link}}} {{{sample_info_link}}}] RNA information lot number {{{rna_lot_number}}} catalog number {{{rna_catalog_number}}} sample type {{{rna_sample_type}}} extraction protocol (Details) {{{rna_extraction_protocol}}}

Co-expression clusters with enriched expression in this sampleRanked list of co-expression cluster expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.
Analyst:NA

link to dataset.
data

Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.
Analyst:NA

link to dataset.
data no result for this sample

TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample

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JASPAR motifsSummary:Association of JASPAR motif to the promoter expression in this sample. Pearson's correlation between the number of TFBSs estimated by using the position-weight matrix for each promoter and its expression is expressed as Z-score by taking the ones based on random position-weight matrix, and the tail probability of the normal distribution corresponding to the Z-score is taken as the resulting P-value. Lower P-value indicates more (non-random) association of the motif to promoter expression
Analyst: Michiel de Hoon


link to dataset.
data
library id: {{{profile_hcage}}}This sample isn't target for the analysis

FANTOM5 phase1 novel unique motifsSummary:Association of the 169 novel and unique motifs discovered in FANTOM5 phase1 in this sample. Among the de-novo motifs discovered by DMF, HOMER,ChIPMunk, and ScanAll, only novel motifs are selected after comparison with known motif sets, and their clustering based on MACRO-APE resulted in 169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above
Analyst: Michiel de Hoon


link to dataset.
data
library id: {{{profile_hcage}}}This sample isn't target for the analysis

de novo motifs identified by HOMER in promoters active in this sampleSummary:The result of HOMER in this sample is shown.
Analyst:NA
library id: {{{profile_hcage}}}

FANTOM5 (FF) ontology

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Direct parent terms

is_a relathionship
{{{is_a}}}

part_of relathionship
{{{part_of}}}

has_quality relathionship
{{{has_quality}}}

Ancestor terms (non development)Summary:Connected ontology terms with is_a, part_of or located_in relationship
Analyst: Hideya Kawaji

link to source data
data

CL: Cell type
NA

DOID: Disease
NA

UBERON: Anatomy
NA

FF: FANTOM5
NA

Ancestor terms (development)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship
Analyst: Hideya Kawaji

link to source data
data
NA

Property "Timecourse" (as page type) with input value "{{{timecourse}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.

Property "Sample seq library id" (as page type) with input value "{{{profile_hcage}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. Property "Sample timecourse" (as page type) with input value "{{{sample_timecourse}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.