FF:12225-129F2

Name:	CD34+ stem cells - adult bone marrow derived, donor1
Species:	Human (Homo sapiens)
Library ID:	{{{library_id}}}
Sample type:	{{{sample_category}}}
Genomic View:	UCSC
CAGEd-oPOSSUM:	link

Additional information

Sample information strain NA tissue bone marrow dev stage NA sex NA age NA cell type stem cell cell line NA company Stem cell technologies collaboration FANTOM5 OSC CORE (contact: Al Forrest) External link for information [{{{sample_info_link}}} {{{sample_info_link}}}] RNA information lot number NA catalog number NA sample type NA extraction protocol (Details) OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

Download raw sequence, BAM & CTSS
Hg19 BAM CTSS [{{{hg19bam}}} download] [{{{hg19ctss}}} donwload] Hg38 BAM CTSS [{{{hg38bam}}} download] [{{{hg38ctss}}} donwload]

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. <br>Analyst:NA <br><br>link to dataset.<br>data

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MCL coexpression id	Coexpression_dpi_cluster_scores_median_value
C270-CD4-Fibroblast-acute-iPS-Aortic-CD34-Smooth	0.83
C241-Reticulocytes-chronic-Tracheal-Hodgkin-Endothelial-Hair-thymus	0.814
C248-iPS-Aortic-Hep2-amygdala-acute-medial-Myoblast	0.671
C209-acute-myelodysplastic-CD34-granulocyte-CD133-liver-spleen	0.528
C109-Reticulocytes-non-acute-Hodgkin-Burkitt-retinoblastoma-lymphoma	0.459
C281-Hodgkin-Reticulocytes-chronic-NK-acute-retinoblastoma-small	0.381
C57-Neutrophils-Eosinophils-Whole-CD4-CD8-CD19-Natural	0.374
C246-Neutrophils-Eosinophils-Whole-CD14-CD14CD16-Basophils-migratory	0.366
C187-migratory-immature-Dendritic-CD19-CD14-Monocytederived-Macrophage	0.313
C280-Mast-Natural-CD19-CD8-Eosinophils-CD34-CD4	0.229

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Repeat families with enriched expression in this sample<b>Summary:</b>Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed.<br><b>Analyst:</b>NA<br><br>link to dataset.<br>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 motifs<b>Summary:</b>Association of JASPAR motif to the promoter expression in thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs12588

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MA0076.1		1.02e-10
MA0060.1		1.14e-4
MA0149.1		1.16e-1
MA0100.1		1.16e-6
MA0259.1		1.17e-1
Jaspar motif	Logo	p-value

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FANTOM5 phase1 novel unique motifs<b>Summary:</b>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 in169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs12588

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147		1.01e-2
47		1.03e-1
70		1.03e-1
137		1.05e-1
23		1.05e-4
Novel motif	Logo	p-value

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de novo motifs identified by HOMER in promoters active in this sample<b>Summary:</b>The result of HOMER in this sample is shown.<br><b>Analyst:</b>NA <br> library id: CNhs12588

FANTOM5 (FF) ontology

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Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000002 in vivo cell sample
FF:0000026 human CD34-positive hematopoietic stem cell sample
FF:0000210 human sample

Ancestor terms (non development)<b>Summary:</b>Connected ontology terms with is_a, part_of or located_in relationship <br><b>Analyst:</b> Hideya Kawaji<br><br>link to source data<br>data

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000034 (stem cell)

FF: FANTOM5
NA

Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
NA