FF:11700-123A8: Difference between revisions

Latest revision as of 18:15, 4 June 2020

Name:	Mesenchymal Stem Cells - umbilical, donor3
Species:	Human (Homo sapiens)
Library ID:	CNhs12127
Sample type:	primary cells
Genomic View:	UCSC
RefEX:	Specific genes
FANTOM CAT:	1, 2, 3, 4, 5
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	umbilical cord
dev stage	NA
sex	NA
age	NA
cell type	mesenchymal stem cell
cell line	NA
company	Sciencell/3H
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	SC7535
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005444

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12127		CAGE		DRX008359		DRR009231

Accession ID Hg19

Library id		BAM		CTSS
CNhs12127		DRZ000656		DRZ002041

Accession ID Hg38

Library id		BAM		CTSS
CNhs12127		DRZ012006		DRZ013391

Download raw sequence, BAM & CTSS

Hg19

Fasta	BAM	CTSS
download	download	donwload

Hg38

BAM	CTSS
download	donwload

RNA-Seq Accession numbers

Method		Sample accession id
sRNA-Seq		SAMD00005444

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
SRhi10011.GTTTCG		sRNA-Seq		DRX037179		DRR041545

Accession ID Hg19

Library id		BAM		CTSS
SRhi10011.GTTTCG		DRZ007187

Relative expression to median (log10)

Transcription factors with enriched expression in this sampleRanked list of transcription factor promoter expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.

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

Coexpression cluster	score
C0-CD14-Eosinophils-Neutrophils-Basophils-CD34-immature-Peripheral	0
C1-testis-epididymis-embryonic-medulla-pituitary-trachea-caudate	0
C10-occipital-temporal-parietal-brain-duodenum-Neurons-Neural	0
C100-rhabdomyosarcoma-gastric-pineal-Wilms-cervical-mesodermal-endometrial	0
C101-small-cerebellum-maxillary-colon-parietal-epididymis-merkel	0
C102-neuroblastoma-testicular-pituitary-carcinosarcoma-rectum-acantholytic-iPS	0
C103-CD4-CD8-Natural-Peripheral-Whole-Neutrophils-Basophils	0
C104-Mast-Basophils-immature-CD14-CD34-eye-Natural	0
C105-heart-skeletal-occipital-hippocampus-acute-Sebocyte-penis	0
C106-Hep2-epitheloid-placenta-cervical-rectal-anaplastic-glassy	0
C107-Neutrophils-CD14-Eosinophils-Monocytederived-Whole-Peripheral-blood	0
C108-breast-hepatoblastoma-MCF7-parotid-salivary-submaxillary-prostate	0
C109-Reticulocytes-non-acute-Hodgkin-Burkitt-retinoblastoma-lymphoma	0.0617
C11-cerebellum-medulla-pons-parietal-occipital-middle-medial	0
C110-leukemia-chronic-Eosinophils-acute-Whole-CD34-Lymphatic	0
C111-medulla-lung-trachea-testis-caudate-epididymis-throat	0
C112-gastric-pancreas-temporal-duodenum-small-extraskeletal-adrenal	0
C113-thyroid-throat-lung-lymph-small-colon-trachea	0
C114-teratocarcinoma-medulloblastoma-carcinosarcoma-iPS-anaplastic-acute-neuroblastoma	0
C115-pituitary-Neural-caudate-putamen-amygdala-medulla-hippocampus	0
C116-myeloma-xeroderma-tonsil-CD19-spleen-lymph-trachea	0
C117-serous-clear-kidney-neuroectodermal-mesothelioma-endometrial-Intestinal	0
C118-cerebellum-parietal-occipital-medial-middle-frontal-insula	0
C119-CD4-CD8-Natural-Neutrophils-CD14-Peripheral-CD19	0
C12-Mast-Basophils-immature-chorionic-mature-CD14-Eosinophils	0
C120-immature-salivary-tongue-skin-cervical-CD14-CD34	0
C121-NK-Natural-CD8-CD4-anaplastic-chronic-B	0
C122-chronic-Reticulocytes-skeletal-leukemia-acute-colon-Tracheal	0
C123-CD19-Natural-CD8-CD4-CD14-Peripheral-Basophils	0
C124-small-temporal-duodenum-colon-gall-signet-Hepatocyte	0
C125-mucinous-alveolar-mesothelioma-Smooth-lung-CD14-Nucleus	0
C126-gastrointestinal-argyrophil-smallcell-merkel-bile-insula-brain	0
C127-maxillary-small-hepatoblastoma-hepatocellular-alveolar-colon-argyrophil	0
C128-testicular-choriocarcinoma-H9-teratocarcinoma-pancreatic-iPS-HES3GFP	0
C129-liver-Hepatocyte-colon-duodenum-temporal-testicular-small	0
C13-Neutrophils-Eosinophils-CD14-Monocytederived-Whole-Peripheral-CD4	0
C130-iPS-HES3GFP-H9-teratocarcinoma-testicular-colon-Alveolar	0
C131-lung-trachea-Alveolar-thyroid-umbilical-throat-skin	0
C132-acute-small-Dendritic-Macrophage-CD14-Neutrophils-Monocytederived	0
C133-signet-gall-small-kidney-colon-ductal-adenocarcinoma	0
C134-skeletal-diaphragm-tongue-throat-Skeletal-skin-penis	0
C135-neuroblastoma-retinoblastoma-carcinoid-choriocarcinoma-testicular-acute-rectum	0
C136-Wilms-extraskeletal-anaplastic-rhabdomyosarcoma-cholangiocellular-nonsmall-neuroectodermal	0
C137-large-ductal-melanoma-cervical-Endothelial-Smooth-chronic	0
C138-diffuse-Burkitt-lymphangiectasia-lymphoma-acute-CD19-pineal	0
C139-astrocytoma-skin-salivary-gall-serous-Mallassezderived-renal	0
C14-Whole-blood-Reticulocytes-liver-Neutrophils-Eosinophils-spleen	0
C140-Renal-Endothelial-Hepatic-Lymphatic-heart-lung-spleen	0
C141-Hodgkin-acute-thymus-chronic-vein-CD4-B	0
C142-Preadipocyte-Fibroblast-hepatic-Ewing-Adipocyte-Olfactory-Hair	0.261
C143-Monocytederived-CD14-Macrophage-Dendritic-Basophils-CD14CD16-Osteoblast	0
C144-CD4-tonsil-NK-appendix-CD8-splenic-mycosis	0
C145-neuroblastoma-peripheral-neuroectodermal-neuroepithelioma-carcinoid-adult-extraskeletal	0
C146-lymphangiectasia-lymphoma-gall-lymph-tonsil-gastric-transitionalcell	0
C147-Neutrophils-Eosinophils-CD4-CD14-CD8-Natural-Peripheral	0
C148-kidney-small-epididymis-pancreas-serous-duodenum-temporal	0
C149-occipital-medial-brain-amygdala-parietal-cerebral-cerebellum	0
C15-anaplastic-small-skeletal-neuroblastoma-parietal-temporal-tongue	0
C150-merkel-carcinoid-nonsmall-gastrointestinal-argyrophil-pineal-small	0
C151-CD14-Natural-Basophils-CD8-Eosinophils-CD4-Mast	0
C152-peripheral-neuroectodermal-neuroepithelioma-neuroblastoma-testicular-carcinoid-lung	0
C153-rhabdomyosarcoma-liposarcoma-pancreatic-somatostatinoma-Reticulocytes-lymphoma-testicular	0
C154-adenocarcinoma-Mesenchymal-Cardiac-small-sacrococcigeal-Smooth-Prostate	0
C155-pituitary-placenta-nonsmall-cervical-smallcell-choriocarcinoma-epitheloid	0
C156-plasma-splenic-hereditary-B-large-xeroderma-b	0
C157-testicular-H9-testis-iPS-teratocarcinoma-colon-trachea	0
C158-adrenal-gastric-temporal-parietal-duodenum-caudate-putamen	0
C159-choriocarcinoma-pancreatic-placenta-chorionic-testicular-bronchioalveolar-seminal	0
C16-medial-amygdala-occipital-parietal-olfactory-putamen-brain	0
C160-medulla-Hepatocyte-retina-corpus-liver-pineal-cerebral	0
C161-mesothelioma-Mesothelial-acute-mesenchymal-extraskeletal-renal-placenta	0
C162-spinal-locus-medulla-substantia-thalamus-globus-diencephalon	0
C163-Skeletal-skeletal-Pericytes-Hepatic-rhabdomyosarcoma-throat-mesenchymal	0
C164-signet-corpus-optic-mucinous-substantia-salivary-choriocarcinoma	0
C165-epithelioid-Adipocyte-mesothelioma-myxofibrosarcoma-lung-gastric-Mesothelial	0
C166-Macrophage-Monocytederived-Dendritic-adipose-lymph-CD14-lung	0
C167-Basophils-Mast-Eosinophils-Neutrophils-Peripheral-Whole-CD4	0
C168-Mast-CD14-immature-Basophils-Eosinophils-CD34-Peripheral	0
C169-hereditary-adult-gall-lymphangiectasia-chronic-b-choriocarcinoma	0
C17-Mast-CD14-Monocytederived-Lymphatic-Smooth-mesenchymal-Macrophage	0
C170-epitheloid-cervical-Hep2-keratoacanthoma-adult-neuroblastoma-signet	0
C171-merkel-neuroblastoma-pineal-retinoblastoma-carcinoid-small-eye	0
C172-chorionic-skeletal-tongue-amniotic-liver-gastrointestinal-Pericytes	0.261
C173-Adipocyte-mature-skin-left-Hepatocyte-Osteoblast-adipose	0
C174-CD14-Neutrophils-Smooth-mesothelioma-embryonic-Monocytederived-Eosinophils	0
C175-Eosinophils-Neutrophils-CD4-Basophils-CD19-CD8-Natural	-0.0924
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19	-0.372
C177-melanoma-Melanocyte-mesenchymal-retina-Mallassezderived-Gingival-squamous	0
C178-spleen-liver-Hepatocyte-b-lymph-vein-thymus	0
C179-CD19-Peripheral-lymphoma-blood-lymph-spleen-tonsil	0
C18-CD4-CD8-thymus-Whole-Peripheral-Natural-blood	0
C180-skeletal-heart-Hepatocyte-acute-occipital-hippocampus-middle	-0.0843
C181-liposarcoma-somatostatinoma-neuroblastoma-mesothelioma-nonsmall-small-Alveolar	0
C182-renal-mature-mesothelioma-lung-Mammary-Adipocyte-acute	0
C183-acute-non-CD34-diffuse-CD133-myeloma-Burkitt	0
C184-somatostatinoma-smallcell-nonsmall-small-gastrointestinal-pineal-thyroid	0
C185-small-adrenal-gastric-Mesenchymal-acute-HES3GFP-testis	0
C186-squamous-papillotubular-large-Tracheal-oral-Small-epidermoid	0
C187-migratory-immature-Dendritic-CD19-CD14-Monocytederived-Macrophage	0
C188-left-heart-tongue-skeletal-Skeletal-diaphragm-throat	0
C189-b-splenic-tonsil-CD19-lymph-appendix-spleen	0
C19-embryonic-testis-cord-chronic-CD14-NK-mesothelioma	0
C190-colon-small-rectum-duodenum-appendix-temporal-oral	0
C191-leiomyoblastoma-Mast-parietal-acute-bone-neuroepithelioma-embryonic	0
C192-Neutrophils-CD14-Peripheral-Eosinophils-CD8-Natural-CD4	0
C193-Mesenchymal-Adipocyte-mature-Cardiac-heart-CD14CD16-CD14	0
C194-MCF7-breast-prostate-Intestinal-diffuse-Wilms-Alveolar	0
C195-Small-Gingival-Bronchial-Smooth-mesenchymal-Urothelial-Tracheal	0
C196-testicular-iPS-H9-teratocarcinoma-HES3GFP-choriocarcinoma-endometrial	0
C197-tongue-esophagus-tonsil-salivary-cervix-nasal-Gingival	0
C198-Mesenchymal-Hair-Hepatic-Fibroblast-Smooth-tenocyte-Pericytes	0.214
C199-glioblastoma-B-osteosarcoma-Fibroblast-heart-rhabdomyosarcoma-myxofibrosarcoma	0
C2-Eosinophils-Neutrophils-CD14-Whole-Basophils-Peripheral-Mast	0
C20-heart-left-skeletal-diaphragm-tongue-umbilical-throat	0
C200-seminal-Cardiac-Smooth-Hair-submaxillary-Neutrophils-mixed	0.217
C201-colon-small-adenocarcinoma-duodenum-temporal-signet-gall	0
C202-salivary-skin-penis-tongue-uterus-cervical-immature	0
C203-acute-NK-chronic-CD133-lymphoma-immature-Dendritic	0
C204-Smooth-nasal-CD4-CD19-CD8-CD14-CD34	0
C205-mycosis-cord-hairy-xeroderma-CD4-B-b	0
C206-melanoma-somatostatinoma-nonsmall-small-neuroblastoma-smallcell-pituitary	0
C207-Corneal-Keratinocyte-Esophageal-Mammary-Bronchial-Urothelial-Sebocyte	0
C208-skin-amniotic-papillotubular-salivary-umbilical-Alveolar-serous	0
C209-acute-myelodysplastic-CD34-granulocyte-CD133-liver-spleen	0
C21-cord-mycosis-hairy-xeroderma-adult-CD4-anaplastic	0
C210-Burkitt-lymphoma-appendix-acute-diffuse-CD19-tonsil	0
C211-small-Hepatocyte-liver-colon-temporal-duodenum-kidney	0
C212-chronic-acute-Whole-Reticulocytes-leukemia-blood-CD34	0
C213-CD14-Natural-CD8-CD4-Basophils-Eosinophils-Peripheral	0
C214-Neurons-Neural-duodenum-temporal-occipital-parietal-brain	0
C215-chronic-acute-peripheral-Hepatocyte-osteosarcoma-NK-immature	0
C216-osteosarcoma-Smooth-Mesenchymal-large-neuroectodermal-acute-CD34	0
C217-carcinoid-neuroectodermal-mature-mesodermal-colon-acute-occipital	0
C218-tonsil-lymph-CD19-spleen-colon-appendix-salivary	0
C219-nasal-Basophils-amniotic-Melanocyte-CD14-Osteoblast-duodenum	0
C22-CD4-CD8-Natural-Basophils-CD14-Peripheral-CD19	0
C220-Adipocyte-mature-left-breast-skin-liver-adipose	0
C221-alveolar-Osteoblast-Myoblast-mesenchymal-liposarcoma-Smooth-hepatocellular	0
C222-Melanocyte-Tracheal-Neutrophils-seminal-Smooth-Hair-Chondrocyte	0.321
C223-Chondrocyte-basal-renal-Fibroblast-Smooth-spindle-Synoviocyte	0
C224-clear-serous-pleomorphic-choriocarcinoma-mesothelioma-amniotic-renal	0
C225-ductal-alveolar-giant-prostate-salivary-squamous-Tracheal	0
C226-Corneal-Keratinocyte-Esophageal-Urothelial-Mammary-Bronchial-Tracheal	0
C227-chorionic-amniotic-Mesenchymal-Placental-gastric-diaphragm-tongue	0
C228-colon-Intestinal-Prostate-hepatoblastoma-hepatocellular-testis-adult	0
C229-Mesenchymal-CD4-Melanocyte-acute-skeletal-left-heart	0
C23-CD4-CD8-Natural-Peripheral-Basophils-CD19-CD14	0
C230-aorta-normal-heart-penis-osteosarcoma-basal-lung	0
C231-Mesothelial-mesenchymal-mesothelioma-Fibroblast-Preadipocyte-leiomyoma-mycosis	0
C232-teratocarcinoma-HES3GFP-H9-iPS-testicular-neuroblastoma-cerebellum	0
C233-uterus-cervix-ovary-epididymis-colon-rectum-MCF7	0
C234-oral-epidermoid-malignant-cervical-ductal-lung-keratoacanthoma	0
C235-Intestinal-Prostate-liver-colon-small-kidney-pancreas	0
C236-CD14-Neutrophils-Monocytederived-renal-Eosinophils-testis-mesothelioma	0
C237-acute-breast-testicular-hepatoblastoma-chronic-argyrophil-Bronchial	0
C238-stomach-gall-breast-duodenum-temporal-MCF7-smallcell	0
C239-CD4-lymphangiectasia-CD8-NK-mycosis-Renal-hairy	0
C24-pineal-eye-retina-retinoblastoma-medulloblastoma-small-cerebral	0
C240-Adipocyte-Preadipocyte-Osteoblast-Chondrocyte-tenocyte-Synoviocyte-mesenchymal	0
C241-Reticulocytes-chronic-Tracheal-Hodgkin-Endothelial-Hair-thymus	0.435
C242-acute-Chondrocyte-myelodysplastic-granulocyte-biphenotypic-Fibroblast-stomach	0
C243-Chondrocyte-trachea-Synoviocyte-mesodermal-renal-Fibroblast-Ewing	0
C244-CD14-Monocytederived-Hepatocyte-heart-Neutrophils-acute-Macrophage	0
C245-prostate-penis-salivary-esophagus-kidney-Neutrophils-Pancreatic	0
C246-Neutrophils-Eosinophils-Whole-CD14-CD14CD16-Basophils-migratory	-0.0242
C247-pons-locus-medulla-spinal-paracentral-medial-occipital	0
C248-iPS-Aortic-Hep2-amygdala-acute-medial-Myoblast	0
C249-nonsmall-small-smallcell-occipital-somatostatinoma-maxillary-medial	0
C25-small-colon-temporal-duodenum-liver-Hepatocyte-gall	0
C250-Mast-Neutrophils-CD14-Eosinophils-CD8-Peripheral-CD4	0
C251-gall-tonsil-trachea-CD14-salivary-throat-tongue	0
C252-hepatic-Olfactory-sacrococcigeal-leiomyoma-normal-Synoviocyte-glioblastoma	0
C253-spleen-rhabdomyosarcoma-Hepatocyte-small-uterus-liver-rectum	0
C254-prostate-rhabdomyosarcoma-seminal-Fibroblast-transitionalcell-Smooth-Iris	0
C255-Wilms-leiomyoblastoma-kidney-adrenal-MCF7-epithelioid-Mast	0
C256-occipital-caudate-amygdala-medial-thalamus-hippocampus-medulla	0
C257-pineal-insula-frontal-occipital-temporal-medial-paracentral	0
C258-hepatoblastoma-hepatocellular-signet-colon-Intestinal-Prostate-gastric	0
C259-Preadipocyte-Adipocyte-Fibroblast-Chondrocyte-tenocyte-normal-Ewing	0
C26-Eosinophils-Neutrophils-CD14-CD14CD16-Basophils-Monocytederived-Whole	0
C260-acute-chronic-Natural-NK-Basophils-biphenotypic-blood	0
C261-locus-medial-parietal-pons-diencephalon-olfactory-spinal	0
C262-breast-MCF7-skeletal-Reticulocytes-mucinous-hepatoblastoma-Wilms	0
C263-cervical-keratoacanthoma-tongue-skin-esophagus-throat-tonsil	0
C264-giant-keratoacanthoma-colon-fibrosarcoma-HES3GFP-Hep2-acute	0
C265-CD4-Eosinophils-CD14-Natural-CD19-Basophils-CD8	0
C266-acute-chronic-leukemia-small-choriocarcinoma-hepatoma-Mast	0
C267-pancreatic-placenta-choriocarcinoma-testicular-teratocarcinoma-chorionic-clear	0
C268-Mallassezderived-Urothelial-Gingival-Small-Bronchial-Tracheal-Prostate	0
C269-Basophils-Mast-Eosinophils-mature-CD14-chorionic-CD4	0
C27-pancreas-temporal-duodenum-salivary-ductus-umbilical-lung	0
C270-CD4-Fibroblast-acute-iPS-Aortic-CD34-Smooth	0
C271-pineal-spinal-locus-globus-medulla-thalamus-cerebellum	0
C272-CD19-CD4-CD8-Whole-Peripheral-lymph-tonsil	0
C273-Neutrophils-CD14-Eosinophils-Monocytederived-CD4-Natural-Mast	0
C274-CD14-Mast-immature-Basophils-mature-vagina-Hepatocyte	0
C275-pons-medulla-cerebellum-locus-thalamus-diencephalon-spinal	0
C276-mesothelioma-kidney-renal-small-clear-cerebellum-Renal	0
C277-mesothelioma-epithelioid-thyroid-extraskeletal-alveolar-glioblastoma-adenocarcinoma	0
C278-amygdala-hippocampus-insula-medial-putamen-temporal-olfactory	0
C279-parietal-cerebellum-occipital-temporal-middle-duodenum-medial	0
C28-thymus-acute-vein-Hodgkin-chronic-throat-Dendritic	0
C280-Mast-Natural-CD19-CD8-Eosinophils-CD34-CD4	0
C281-Hodgkin-Reticulocytes-chronic-NK-acute-retinoblastoma-small	0.403
C282-acute-B-tonsil-CD19-submaxillary-lymph-throat	0
C283-tenocyte-Chondrocyte-mesenchymal-Macrophage-pleomorphic-Synoviocyte-cholangiocellular	0
C284-parietal-occipital-medial-temporal-olfactory-locus-hippocampus	0
C285-cervical-Hep2-small-colon-temporal-duodenum-bronchogenic	0
C286-cerebellum-occipital-optic-parietal-globus-caudate-medial	0
C287-Hepatocyte-Chondrocyte-Adipocyte-Synoviocyte-liver-tenocyte-mesenchymal	0
C288-Chondrocyte-Renal-Pericytes-Fibroblast-aorta-Smooth-Meningeal	0
C289-chorionic-skeletal-heart-Mast-amniotic-granulosa-left	0
C29-mature-adipose-Adipocyte-breast-Lymphatic-vein-heart	0
C290-Eosinophils-CD14-Basophils-Mast-CD4-CD8-immature	0
C291-spinal-substantia-retina-medulla-tongue-skeletal-trachea	0
C292-Mesenchymal-skin-umbilical-Adipocyte-mesenchymal-Chondrocyte-skeletal	0.261
C293-CD14-CD14CD16-Basophils-Peripheral-immature-Eosinophils-CD34	0
C294-CD14-Macrophage-Monocytederived-CD14CD16-Neutrophils-Basophils-Peripheral	0
C295-Fibroblast-Smooth-Myoblast-Chondrocyte-hepatic-Synoviocyte-Preadipocyte	0.423
C296-gall-small-mesothelioma-acute-bronchioalveolar-epidermoid-mixed	0
C297-Eosinophils-CD4-Basophils-Natural-Neutrophils-CD8-Peripheral	0
C298-small-optic-substantia-thalamus-diencephalon-globus-occipital	0
C299-CD14CD16-Eosinophils-Neutrophils-CD14-Whole-Basophils-blood	0
C3-occipital-temporal-insula-medial-postcentral-frontal-amygdala	0
C30-thyroid-throat-mesothelioma-mucinous-trachea-chorionic-mesenchymal	0
C300-CD4-CD8-NK-Natural-blood-mycosis-Basophils	0
C301-Smooth-mesenchymal-Endothelial-Hepatic-basal-hepatic-chorionic	0.54
C302-acute-peripheral-Neutrophils-NK-myelodysplastic-CD34-carcinoid	0
C303-CD14-Basophils-Peripheral-Eosinophils-CD14CD16-Neutrophils-Whole	0
C305-heart-skeletal-smooth-left-bladder-penis-esophagus	0
C31-skeletal-tongue-diaphragm-throat-penis-skin-trachea	0
C32-middle-occipital-parietal-hippocampus-amygdala-medial-olfactory	0
C33-Reticulocytes-liver-Whole-blood-chronic-acute-spleen	0
C34-placenta-chorionic-choriocarcinoma-mesothelioma-Wilms-Smooth-bile	0
C35-caudate-putamen-diencephalon-nucleus-globus-thalamus-insula	0
C36-B-b-splenic-plasma-xeroderma-adrenal-Burkitt	0
C37-salivary-submaxillary-parotid-seminal-tongue-ductus-trachea	0
C38-extraskeletal-rhabdomyosarcoma-adrenal-rectal-mesothelioma-lung-Wilms	0
C39-epididymis-ductus-seminal-testis-acute-thyroid-CD133	0
C4-optic-corpus-substantia-medulla-spinal-thalamus-globus	0
C40-eye-retina-Lens-pineal-tongue-retinoblastoma-small	0
C41-retina-eye-medulla-Retinal-medulloblastoma-kidney-pineal	0
C42-small-lung-maxillary-pharyngeal-Mesenchymal-Wilms-colon	0
C43-ductus-seminal-duodenum-temporal-gall-prostate-bladder	0
C44-Dendritic-CD19-CD133-granulocyte-acute-thymus-immature	0
C45-testicular-choriocarcinoma-H9-teratocarcinoma-Wilms-pancreatic-iPS	0
C46-acute-Hodgkin-thymus-CD8-chronic-CD4-merkel	0
C47-CD19-Burkitt-acute-xeroderma-tonsil-lymphoma-appendix	0
C48-smooth-bladder-esophagus-colon-penis-aorta-uterus	0
C49-H9-iPS-testicular-HES3GFP-teratocarcinoma-hepatoblastoma-choriocarcinoma	0
C5-Hepatocyte-liver-hepatocellular-Intestinal-kidney-small-pancreas	0
C50-chorionic-placenta-amniotic-migratory-smallcell-chronic-choriocarcinoma	0
C51-kidney-mesothelioma-renal-signet-gall-lung-pancreas	0
C52-adult-NK-chronic-cord-testis-embryonic-myeloma	0
C53-medulloblastoma-pineal-retinoblastoma-small-retina-eye-pituitary	0
C54-Dendritic-Macrophage-Monocytederived-CD14-leiomyoma-adipose-immature	0
C55-hepatocellular-Intestinal-liver-Prostate-fibrosarcoma-Hepatocyte-hepatoblastoma	0
C56-heart-left-umbilical-skeletal-penis-diaphragm-tongue	0
C57-Neutrophils-Eosinophils-Whole-CD4-CD8-CD19-Natural	0
C58-Melanocyte-melanoma-retina-Retinal-eye-migratory-H9	0
C59-Smooth-Fibroblast-Mesenchymal-tenocyte-Ewing-skin-hepatic	0.54
C6-CD14-Eosinophils-Basophils-Peripheral-CD34-Natural-immature	0
C60-esophagus-tonsil-throat-tongue-uterus-cervix-cervical	0
C61-migratory-Dendritic-immature-Macrophage-xeroderma-cord-b	0
C62-Burkitt-tonsil-CD19-submaxillary-spleen-salivary-lymph	0
C63-neuroectodermal-neuroblastoma-carcinoid-peripheral-chronic-neuroepithelioma-acute	0
C64-Mast-chronic-acute-immature-chorionic-Basophils-Dendritic	0
C65-CD14-Eosinophils-Monocytederived-Basophils-immature-Macrophage-Neutrophils	0
C66-cerebellum-middle-occipital-parietal-medial-amygdala-hippocampus	0
C67-CD14-Monocytederived-Macrophage-dura-Dendritic-spleen-lung	0
C68-amniotic-chorionic-Placental-salivary-placenta-tongue-mesothelioma	0
C69-anaplastic-CD14-cord-hairy-mycosis-adult-NK	0
C7-CD14-Eosinophils-Neutrophils-Smooth-Basophils-Macrophage-Mast	0
C70-parotid-submaxillary-salivary-throat-trachea-aorta-tongue	0
C71-Monocytederived-Macrophage-CD14-Dendritic-Osteoblast-leiomyoma-Prostate	0
C72-skeletal-tongue-throat-heart-diaphragm-penis-left	0
C73-pineal-eye-retina-caudate-cerebellum-left-parietal	0
C74-splenic-B-b-plasma-xeroderma-lymphoma-hairy	0
C75-Eosinophils-Natural-CD8-Basophils-CD14-CD4-Peripheral	0
C76-argyrophil-gastrointestinal-temporal-duodenum-neuroblastoma-merkel-smallcell	0
C77-Saos2-osteosarcoma-Neutrophils-Natural-Chondrocyte-Basophils-CD8	0
C78-lymphoma-plasma-tonsil-appendix-lymph-seminal-trachea	0
C79-chorionic-Chondrocyte-Cardiac-Smooth-Fibroblast-Preadipocyte-Mesenchymal	0.519
C8-Natural-CD8-Basophils-CD4-CD14-Peripheral-CD34	0
C80-immature-migratory-CD14-Dendritic-splenic-cord-Mast	0
C81-trachea-salivary-throat-aorta-eye-submaxillary-parotid	0
C82-Basophils-CD14-Eosinophils-Natural-Peripheral-immature-CD34	0
C83-choriocarcinoma-pancreatic-placenta-chorionic-HES3GFP-testicular-amniotic	0
C84-choriocarcinoma-pancreatic-Wilms-Mallassezderived-thymus-salivary-colon	0
C85-neuroblastoma-carcinoid-retinoblastoma-small-pineal-rhabdomyosarcoma-medulloblastoma	0
C86-colon-carcinoid-small-neuroectodermal-giant-large-neuroepithelioma	0
C87-retinoblastoma-left-nonsmall-heart-small-diaphragm-bronchogenic	0
C88-Melanocyte-melanoma-Macrophage-Mesenchymal-migratory-Dendritic-Monocytederived	0
C89-small-retinoblastoma-medulloblastoma-iPS-acantholytic-eye-bronchogenic	0
C9-skeletal-diaphragm-tongue-throat-penis-heart-left	0
C90-neuroectodermal-peripheral-neuroepithelioma-neuroblastoma-carcinoid-parietal-putamen	0
C91-Fibroblast-Smooth-mesenchymal-Mesothelial-Small-Preadipocyte-Hair	0
C92-CD14CD16-CD14-Eosinophils-Basophils-Neutrophils-Macrophage-Whole	0
C93-chronic-acute-leukemia-acantholytic-medulloblastoma-testis-papillotubular	0
C94-smallcell-adrenal-lung-nonsmall-small-somatostatinoma-teratocarcinoma	0
C95-lung-aorta-trachea-penis-Alveolar-throat-endometrioid	0
C96-non-acute-tonsil-spleen-Burkitt-lymphoma-appendix	0
C97-small-smallcell-gastrointestinal-argyrophil-putamen-duodenum-brain	0
C98-CD8-Natural-Basophils-blood-CD4-Peripheral-Whole	0
C99-hairy-mycosis-submaxillary-salivary-cord-kidney-parotid	0

Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed. Analyst:NA link to dataset. data

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

JASPAR motifsSummary: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 Analyst: Michiel de Hoon link to dataset. data

library id: CNhs12127

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.5
MA0003.1	MA0003.1	0.179
MA0004.1	MA0004.1	0.853
MA0006.1	MA0006.1	0.309
MA0007.1	MA0007.1	0.0302
MA0009.1	MA0009.1	0.486
MA0014.1	MA0014.1	0.918
MA0017.1	MA0017.1	0.0598
MA0018.2	MA0018.2	0.00107
MA0019.1	MA0019.1	0.766
MA0024.1	MA0024.1	0.243
MA0025.1	MA0025.1	0.0414
MA0027.1	MA0027.1	0.85
MA0028.1	MA0028.1	0.953
MA0029.1	MA0029.1	0.487
MA0030.1	MA0030.1	0.0319
MA0031.1	MA0031.1	9.3509e-5
MA0035.2	MA0035.2	0.0554
MA0038.1	MA0038.1	0.0069
MA0039.2	MA0039.2	0.72
MA0040.1	MA0040.1	0.854
MA0041.1	MA0041.1	0.593
MA0042.1	MA0042.1	0.994
MA0043.1	MA0043.1	0.00227
MA0046.1	MA0046.1	0.154
MA0047.2	MA0047.2	0.192
MA0048.1	MA0048.1	0.331
MA0050.1	MA0050.1	4.72037e-7
MA0051.1	MA0051.1	2.07794e-5
MA0052.1	MA0052.1	0.68
MA0055.1	MA0055.1	0.0374
MA0057.1	MA0057.1	0.285
MA0058.1	MA0058.1	0.883
MA0059.1	MA0059.1	0.203
MA0060.1	MA0060.1	1.45979e-4
MA0061.1	MA0061.1	0.447
MA0062.2	MA0062.2	0.109
MA0065.2	MA0065.2	0.0336
MA0066.1	MA0066.1	0.302
MA0067.1	MA0067.1	0.0152
MA0068.1	MA0068.1	0.393
MA0069.1	MA0069.1	0.478
MA0070.1	MA0070.1	0.149
MA0071.1	MA0071.1	0.0143
MA0072.1	MA0072.1	0.705
MA0073.1	MA0073.1	0.715
MA0074.1	MA0074.1	0.203
MA0076.1	MA0076.1	0.289
MA0077.1	MA0077.1	0.482
MA0078.1	MA0078.1	0.732
MA0079.2	MA0079.2	0.587
MA0080.2	MA0080.2	2.67015e-6
MA0081.1	MA0081.1	0.00641
MA0083.1	MA0083.1	0.0853
MA0084.1	MA0084.1	0.524
MA0087.1	MA0087.1	0.882
MA0088.1	MA0088.1	0.141
MA0090.1	MA0090.1	0.0271
MA0091.1	MA0091.1	0.00663
MA0092.1	MA0092.1	0.0648
MA0093.1	MA0093.1	0.906
MA0099.2	MA0099.2	0.148
MA0100.1	MA0100.1	0.666
MA0101.1	MA0101.1	0.907
MA0102.2	MA0102.2	0.04
MA0103.1	MA0103.1	0.689
MA0104.2	MA0104.2	0.978
MA0105.1	MA0105.1	0.0677
MA0106.1	MA0106.1	0.018
MA0107.1	MA0107.1	0.863
MA0108.2	MA0108.2	0.115
MA0111.1	MA0111.1	0.658
MA0112.2	MA0112.2	8.37915e-4
MA0113.1	MA0113.1	0.0103
MA0114.1	MA0114.1	0.0484
MA0115.1	MA0115.1	0.994
MA0116.1	MA0116.1	0.0363
MA0117.1	MA0117.1	0.629
MA0119.1	MA0119.1	0.0522
MA0122.1	MA0122.1	0.748
MA0124.1	MA0124.1	0.381
MA0125.1	MA0125.1	0.573
MA0131.1	MA0131.1	0.281
MA0135.1	MA0135.1	0.437
MA0136.1	MA0136.1	4.77891e-6
MA0137.2	MA0137.2	0.285
MA0138.2	MA0138.2	0.0672
MA0139.1	MA0139.1	0.682
MA0140.1	MA0140.1	0.0112
MA0141.1	MA0141.1	0.0651
MA0142.1	MA0142.1	0.587
MA0143.1	MA0143.1	0.958
MA0144.1	MA0144.1	0.822
MA0145.1	MA0145.1	0.159
MA0146.1	MA0146.1	0.023
MA0147.1	MA0147.1	0.791
MA0148.1	MA0148.1	0.719
MA0149.1	MA0149.1	0.662
MA0150.1	MA0150.1	0.832
MA0152.1	MA0152.1	0.961
MA0153.1	MA0153.1	0.17
MA0154.1	MA0154.1	0.0647
MA0155.1	MA0155.1	0.174
MA0156.1	MA0156.1	0.00902
MA0157.1	MA0157.1	0.00579
MA0159.1	MA0159.1	0.399
MA0160.1	MA0160.1	0.104
MA0162.1	MA0162.1	0.0977
MA0163.1	MA0163.1	6.93535e-4
MA0164.1	MA0164.1	0.749
MA0258.1	MA0258.1	0.0177
MA0259.1	MA0259.1	0.827

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 in169 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: CNhs12127

Novel motif	Logo	P-value
1	1	0.0839
10	10	0.398
100	100	0.28
101	101	0.589
102	102	0.647
103	103	0.11
104	104	0.425
105	105	0.246
106	106	0.19
107	107	0.0619
108	108	0.574
109	109	0.0193
11	11	0.0331
110	110	0.0671
111	111	0.389
112	112	0.974
113	113	0.793
114	114	0.247
115	115	0.819
116	116	0.0652
117	117	0.233
118	118	0.397
119	119	0.212
12	12	0.505
120	120	0.2
121	121	0.809
122	122	0.99
123	123	0.315
124	124	0.535
125	125	0.397
126	126	0.38
127	127	0.0346
128	128	0.188
129	129	0.404
13	13	0.215
130	130	0.238
131	131	0.99
132	132	0.366
133	133	0.409
134	134	0.322
135	135	0.572
136	136	0.778
137	137	0.093
138	138	0.235
139	139	0.261
14	14	0.94
140	140	0.591
141	141	0.507
142	142	0.107
143	143	0.132
144	144	0.597
145	145	0.442
146	146	0.186
147	147	0.165
148	148	0.506
149	149	0.128
15	15	0.461
150	150	0.454
151	151	0.331
152	152	0.142
153	153	0.353
154	154	0.541
155	155	0.284
156	156	0.373
157	157	0.618
158	158	0.401
159	159	0.755
16	16	0.11
160	160	0.0201
161	161	0.17
162	162	0.0993
163	163	0.509
164	164	0.632
165	165	0.446
166	166	0.388
167	167	0.925
168	168	0.68
169	169	0.0299
17	17	0.0584
18	18	0.177
19	19	0.0926
2	2	0.413
20	20	0.67
21	21	0.644
22	22	0.0838
23	23	0.365
24	24	0.686
25	25	0.832
26	26	0.0121
27	27	0.222
28	28	0.335
29	29	0.353
3	3	0.261
30	30	0.393
31	31	0.378
32	32	5.47847e-9
33	33	0.523
34	34	0.166
35	35	0.618
36	36	0.149
37	37	0.0767
38	38	0.336
39	39	0.331
4	4	0.595
40	40	0.013
41	41	0.641
42	42	0.712
43	43	0.102
44	44	0.388
45	45	0.621
46	46	0.0481
47	47	0.12
48	48	0.0894
49	49	0.139
5	5	0.844
50	50	0.302
51	51	0.115
52	52	0.978
53	53	0.808
54	54	0.384
55	55	0.332
56	56	0.192
57	57	0.183
58	58	0.957
59	59	0.068
6	6	0.747
60	60	0.576
61	61	0.281
62	62	0.719
63	63	0.137
64	64	0.119
65	65	0.0468
66	66	0.258
67	67	0.989
68	68	0.14
69	69	0.182
7	7	0.605
70	70	0.922
71	71	0.051
72	72	0.955
73	73	0.104
74	74	0.877
75	75	0.26
76	76	0.436
77	77	0.0427
78	78	0.785
79	79	0.085
8	8	0.0394
80	80	0.886
81	81	0.461
82	82	0.282
83	83	0.946
84	84	0.352
85	85	0.211
86	86	0.946
87	87	0.341
88	88	0.294
89	89	0.24
9	9	0.368
90	90	0.948
91	91	0.264
92	92	0.941
93	93	0.262
94	94	0.319
95	95	0.209
96	96	0.589
97	97	0.643
98	98	0.357
99	99	0.00203

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: CNhs12127

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000094 human mesenchymal stem cell of umbilical cord-Sciencell sample

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
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000723 (somatic stem cell)
0000048 (multi fate stem cell)
0000548 (animal cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000219 (motile cell)
0000134 (mesenchymal cell)
0000349 (extraembryonic cell)
0000255 (eukaryotic cell)
0000034 (stem cell)
0002569 (mesenchymal stem cell of umbilical cord)

UBERON: Anatomy
0002331 (umbilical cord)
0002384 (connective tissue)
0000479 (tissue)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0001062 (anatomical entity)
0000478 (extraembryonic structure)
0003104 (mesenchyme)
0010317 (germ layer / neural crest derived structure)
0003422 (mesenchyme of umbilical cord)
0009142 (entire embryonic mesenchyme)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000094 (human mesenchymal stem cell of umbilical cord-Sciencell sample)
0000001 (sample)

Ancestor terms (development)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship Analyst: Hideya Kawaji link to source data data
CL:0000134 (mesenchymal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002331,UBERON:0002384,UBERON:0000926,UBERON:0000479,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000923,UBERON:0002050,UBERON:0005423,UBERON:0000481,UBERON:0001062,UBERON:0000478,UBERON:0005291,UBERON:0003104,UBERON:0006598,UBERON:0002532,UBERON:0000358,UBERON:0003422,UBERON:0000307,UBERON:0009142,UBERON:0003081,UBERON:0000091,UBERON:0000087,UBERON:0006603,UBERON:0007806,UBERON:0008780,UBERON:0005728
+|DRA_sample_Accession=CAGE@SAMD00005444
-|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000144,CL:0000723,CL:0000048,CL:0000548,CL:0000034,CL:0000012,CL:0002320,CL:0000063,CL:0002371,CL:0000219,CL:0000004,CL:0000134,CL:0000255,CL:0002569
+|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00005444
+|accession_numbers=CAGE;DRX008359;DRR009231;DRZ000656;DRZ002041;DRZ012006;DRZ013391
+|accession_numbers_RNASeq=sRNA-Seq;DRX037179;DRR041545;DRZ007187
+|ancestors_in_anatomy_facet=UBERON:0002331,UBERON:0002384,UBERON:0000479,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0001062,UBERON:0000478,UBERON:0003104,UBERON:0010317,UBERON:0003422,UBERON:0009142
+|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000723,CL:0000048,CL:0000548,CL:0002320,CL:0002371,CL:0000219,CL:0000134,CL:0000349,CL:0000255,CL:0000034,CL:0002569
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000210,FF:0000002,FF:0000101,FF:0000094,FF:0000001
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr4:174451370..174451387,-!p1@HAND2!2.63!428.91!HAND2;;chr7:19157248..19157268,-!p1@TWIST1!2.01!268.38!TWIST1;;chr4:174451350..174451363,-!p3@HAND2!1.67!46.10!HAND2;;chr7:27224842..27224872,-!p1@HOXA11!1.65!43.63!HOXA11;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.63!41.99!HOXC5;;chr6:134210243..134210257,+!p1@TCF21!1.59!37.87!TCF21;;chr19:46801639..46801699,+!p1@HIF3A!1.59!37.87!HIF3A;;chr4:111544219..111544240,-!p1@PITX2!1.58!37.05!PITX2;;chr11:46299199..46299233,+!p1@CREB3L1!1.46!137.48!CREB3L1;;chr4:111558135..111558198,-!p2@PITX2!1.46!27.99!PITX2;;chr2:176969228..176969260,+!p1@HOXD11!1.45!27.17!HOXD11;;chr7:27224795..27224840,-!p2@HOXA11!1.45!27.17!HOXA11;;chr5:134369905..134369972,-!p1@PITX1!1.39!35.40!PITX1;;chr11:46299539..46299620,+!p2@CREB3L1!1.35!35.40!CREB3L1;;chr12:54378923..54378966,+!p1@HOXC10!1.32!19.76!HOXC10;;chr16:86544113..86544145,+!p1@FOXF1!1.29!23.05!FOXF1;;chr12:54402745..54402788,+!p1@HOXC8!1.28!18.11!HOXC8;;chr11:61520075..61520136,+!p1@C11orf9!1.24!34.58!C11orf9;;chr12:54379029..54379057,+!p2@HOXC10!1.20!14.82!HOXC10;;chr5:134369879..134369898,-!p2@PITX1!1.20!14.82!PITX1;;chr7:27205136..27205164,-!p1@HOXA9!1.18!14.00!HOXA9;;chr7:35293685..35293718,-!p1@TBX20!1.15!13.17!TBX20;;chr2:5832508..5832524,+!p1@SOX11!1.15!13.17!SOX11;;chr4:174450089..174450153,-!p2@HAND2!1.15!13.17!HAND2;;chr12:54393880..54393962,+!p1@HOXC9!1.13!12.35!HOXC9;;chr17:46682321..46682362,-!p1@HOXB6!1.13!12.35!HOXB6;;chr7:27213893..27213954,-!p1@HOXA10!1.13!12.35!HOXA10;;chr5:92918919..92918942,+!p1@NR2F1!1.09!50.22!NR2F1;;chrY:21906594..21906622,-!p1@KDM5D!1.07!10.70!KDM5D;;chr5:92919100..92919135,+!p3@NR2F1!1.05!12.35!NR2F1;;chr2:176969179..176969226,+!p2@HOXD11!1.04!9.88!HOXD11;;chr8:49833948..49833973,-!p2@SNAI2!1.01!60.10!SNAI2;;chr11:63684602..63684664,-!p1@RCOR2!1.00!18.11!RCOR2;;chr7:27205106..27205134,-!p2@HOXA9!1.00!9.06!HOXA9;;chr2:176994408..176994492,+!p1@HOXD8!1.00!9.06!HOXD8;;chr8:48650715..48650735,-!p1@CEBPD!0.98!1104.79!CEBPD;;chr15:83953397..83953425,-!p1@BNC1!0.98!9.88!BNC1;;chrX:106960285..106960299,-!p1@TSC22D3!0.97!228.86!TSC22D3;;chr11:113930425..113930471,+!p1@ZBTB16!0.92!10.70!ZBTB16;;chr12:54402729..54402743,+!p3@HOXC8!0.92!7.41!HOXC8;;chr18:19749541..19749557,+!p1@GATA6!0.89!22.23!GATA6;;chr8:49833978..49833996,-!p1@SNAI2!0.88!142.42!SNAI2;;chr19:13134772..13134822,+!p2@NFIX!0.88!9.88!NFIX;;chr1:170633348..170633399,+!p2@PRRX1!0.88!9.06!PRRX1;;chr7:19157043..19157088,-!p2@TWIST1!0.86!16.46!TWIST1;;chr18:19749386..19749404,+!p2@GATA6!0.86!9.06!GATA6;;chr19:45260775..45260838,+!p5@BCL3!0.86!8.23!BCL3;;chr12:2986206..2986258,-!p2@FOXM1!0.85!38.69!FOXM1;;chr12:66218598..66218645,+!p2@HMGA2!0.84!28.81!HMGA2;;chr12:54380404..54380433,+!p3@HOXC10!0.83!5.76!HOXC10;;chr12:54410639..54410659,+!p2@HOXC4,p2@HOXC5,p2@HOXC6!0.83!5.76!HOXC5;;chr7:27192185..27192209,-!p1@HOXA3!0.83!5.76!HOXA3;;chr4:111558118..111558133,-!p5@PITX2!0.83!5.76!PITX2;;chr19:46800289..46800327,+!p2@HIF3A!0.83!5.76!HIF3A;;chr17:26697276..26697303,-!p2@SEBOX,p2@VTN!0.83!5.76!SEBOX;;chr15:57511609..57511651,+!p2@TCF12!0.82!9.88!TCF12;;chr2:239756739..239756755,+!p2@TWIST2!0.82!9.88!TWIST2;;chr5:92918894..92918912,+!p2@NR2F1!0.81!18.93!NR2F1;;chr6:144329384..144329405,-!p1@PLAGL1!0.80!66.68!PLAGL1;;chr16:86600426..86600441,+!p1@FOXC2!0.80!14.00!FOXC2;;chr6:85473156..85473210,-!p2@TBX18!0.80!6.59!TBX18;;chr12:115121962..115121987,-!p1@TBX3!0.79!46.92!TBX3;;chr1:247171347..247171366,-!p2@ZNF695!0.79!9.88!ZNF695;;chr20:50721803..50721857,-!p2@ZFP64!0.78!8.23!ZFP64;;chr1:170632285..170632309,+!p1@PRRX1!0.78!5.76!PRRX1;;chr2:121493425..121493474,+!p1@GLI2!0.77!11.53!GLI2;;chr5:92920456..92920488,+!p9@NR2F1!0.77!5.76!NR2F1;;chr12:54384370..54384382,+!p5@HOXC6!0.77!4.94!HOXC6;;chr12:54422217..54422239,+!p3@HOXC6!0.77!4.94!HOXC6;;chr5:176738887..176738934,-!p1@MXD3!0.76!34.58!MXD3;;chr6:45390025..45390076,+!p2@RUNX2!0.76!12.35!RUNX2;;chr1:247171316..247171336,-!p3@ZNF695!0.76!7.41!ZNF695;;chr17:59477233..59477263,+!p1@TBX2!0.75!15.64!TBX2;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!0.75!4.94!GLIS1;;chr1:23885981..23886002,-!p1@ID3!0.74!882.51!ID3;;chr11:65686802..65686818,+!p6@DRAP1!0.74!8.23!DRAP1;;chr9:77112244..77112262,+!p1@RORB!0.73!4.94!RORB;;chr2:239756671..239756732,+!p1@TWIST2!0.71!14.82!TWIST2;;chr12:115122318..115122331,-!p2@TBX3!0.71!4.12!TBX3;;chr17:46675469..46675481,-!p4@HOXB6!0.71!4.12!HOXB6;;chr17:46675558..46675577,-!p2@HOXB6!0.71!4.12!HOXB6;;chr6:45390269..45390298,+!p5@RUNX2!0.67!6.59!RUNX2;;chr16:54320617..54320643,-!p3@IRX3!0.67!4.94!IRX3;;chr5:92918860..92918871,+!p10@NR2F1!0.67!4.12!NR2F1;;chr5:92918956..92918969,+!p4@NR2F1!0.67!4.12!NR2F1;;chr2:66662281..66662308,+!p1@MEIS1!0.66!14.00!MEIS1;;chr17:59477197..59477212,+!p2@TBX2!0.66!6.59!TBX2;;chr1:8926441..8926473,-!p10@ENO1!0.66!5.76!ENO1;;chr5:92919068..92919082,+!p5@NR2F1!0.64!4.12!NR2F1;;chr11:47236584..47236679,+!p1@DDB2!0.63!41.99!DDB2;;chr11:47279504..47279563,+!p1@NR1H3!0.63!8.23!NR1H3;;chr17:466220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6!0.16!25.52!MBD6;;chr18:47814032..47814079,-!p1@CXXC1!0.16!23.87!CXXC1;;chr22:30162924..30163005,-!p1@ZMAT5!0.16!15.64!ZMAT5;;chr22:42229246..42229270,+!p2@SREBF2!0.16!15.64!SREBF2;;chr22:24093267..24093327,-!p1@ZNF70!0.16!8.23!ZNF70;;chr3:128206762..128206781,-!p2@GATA2!0.16!7.41!GATA2;;chr6:43139041..43139094,+!p3@SRF!0.16!6.59!SRF;;chrX:48900899..48900917,-!p2@TFE3!0.16!4.94!TFE3;;chr21:47063625..47063658,+!p1@PCBP3!0.16!4.94!PCBP3;;chr16:71918033..71918101,-!p1@ZNF821!0.16!4.12!ZNF821;;chr17:4890695..4890773,-!p2@CAMTA2!0.16!3.29!CAMTA2;;chr17:46655730..46655791,-!p1@HOXB4!0.16!2.47!HOXB4;;chr19:58920102..58920149,+!p2@ZNF584!0.16!2.47!ZNF584;;chr20:48808114..48808168,+!p5@CEBPB!0.16!2.47!CEBPB;;chr2:74375058..74375069,-!p3@BOLA3!0.16!1.65!BOLA3;;chr22:41697484..41697496,+!p3@ZC3H7B!0.16!0.82!ZC3H7B;;chr15:71184890..71184909,-!p3@THAP10!0.16!0.82!THAP10;;chr18:3450334..3450341,+!p15@TGIF1!0.16!0.82!TGIF1;;chr19:37407411..37407451,+!p3@ZNF568!0.16!0.82!ZNF568;;chr10:105110720..105110744,-!p3@PCGF6!0.16!0.82!PCGF6;;chr10:48355030..48355090,+!p1@ZNF488!0.16!0.82!ZNF488;;chr12:66218443..66218461,+!p8@HMGA2!0.16!0.82!HMGA2;;chr12:80084137..80084165,-!p10@PAWR!0.16!0.82!PAWR;;chr5:139494672..139494695,+!p8@PURA!0.16!0.82!PURA;;chr6:28973090..28973094,-!p1@ZNF311!0.16!0.82!ZNF311;;chr6:42419290..42419314,-!p5@TRERF1!0.16!0.82!TRERF1;;chr6:43139102..43139112,+!p7@SRF!0.16!0.82!SRF;;chr7:127032330..127032356,-!p3@ZNF800!0.16!0.82!ZNF800;;chr7:44143997..44144008,+!p3@AEBP1!0.16!0.82!AEBP1;;chr19:38183208..38183225,-!p1@ZNF781!0.16!0.82!ZNF781;;chr19:58239007..58239016,-!p2@ZNF671!0.16!0.82!ZNF671;;chr22:39916558..39916579,+!p1@ATF4!0.15!373.75!ATF4;;chr22:29196511..29196541,-!p1@XBP1!0.15!144.07!XBP1;;chr9:137218281..137218340,+!p1@RXRA!0.15!36.22!RXRA;;chr16:29817665..29817719,+!p3@MAZ!0.15!18.93!MAZ;;chr19:20844368..20844407,-!p1@ZNF626!0.15!17.29!ZNF626;;chr19:50169064..50169121,-!p1@IRF3!0.15!17.29!IRF3;;chr17:7387524..7387597,-!p1@ZBTB4!0.15!11.53!ZBTB4;;chr6:41514305..41514359,+!p2@FOXP4!0.15!9.88!FOXP4;;chr8:37553261..37553282,+!p2@ZNF703!0.15!9.06!ZNF703;;chr11:65479702..65479731,+!p1@KAT5!0.15!7.41!KAT5;;chr16:2273645..2273671,+!p2@E4F1!0.15!5.76!E4F1;;chr3:75834687..75834720,-!p1@ZNF717!0.15!5.76!ZNF717;;chrX:106960180..106960197,-!p2@TSC22D3!0.15!4.12!TSC22D3;;chr17:42296855..42296894,-!p4@UBTF!0.15!4.12!UBTF;;chr4:38665866..38665878,+!p4@KLF3!0.15!3.29!KLF3;;chr19:45004584..45004601,-!p2@ZNF180!0.15!1.65!ZNF180;;chr19:6280007..6280019,-!p3@MLLT1!0.15!1.65!MLLT1;;chr1:33721873..33721898,+!p3@ZNF362!0.15!1.65!ZNF362;;chr20:48807456..48807475,+!p3@CEBPB!0.15!1.65!CEBPB;;chr9:2016724..2016752,+!p7@SMARCA2!0.15!1.65!SMARCA2;;chr12:10875351..10875422,-!p4@CSDA!0.15!1.65!CSDA;;chr12:52430894..52430952,+!p3@NR4A1!0.15!1.65!NR4A1;;chr10:3819310..3819325,-!p5@KLF6!0.15!0.82!KLF6;;chr11:6947720..6947812,+!p1@ZNF215!0.15!0.82!ZNF215;;chr11:695731..695765,-!p5@DEAF1!0.15!0.82!DEAF1;;chr14:24025106..24025172,-!p2@ZFHX2!0.15!0.82!ZFHX2;;chr2:28616604..28616615,+!p6@FOSL2!0.15!0.82!FOSL2;;chr3:170076314..170076334,+!p2@SKIL!0.15!0.82!SKIL;;chr19:20011731..20011743,+!p3@ZNF93!0.15!0.82!ZNF93;;chr19:35168547..35168564,+!p3@ZNF302!0.15!0.82!ZNF302;;chr5:142783365..142783379,-!p10@NR3C1!0.15!0.82!NR3C1;;chrX:47863427..47863440,-!p2@ZNF182!0.15!0.82!ZNF182;;chr9:73029018..73029042,-!p6@KLF9!0.15!0.82!KLF9;;chr1:221052733..221052749,+!p2@HLX!0.15!0.82!HLX;;chr1:27023752..27023799,+!p4@ARID1A!0.15!0.82!ARID1A;;chr20:42136308..42136358,+!p2@L3MBTL1!0.15!0.82!L3MBTL;;
+|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000034;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000134;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000222;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0002569;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002331
+|ffid_belonging_in_development=CL:0000134
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 35: / Line 44: @@
 |fonse_treatment_closure=
 |has_quality=
+|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor3.CNhs12127.11700-123A8.hg19.nobarcode.bam
+|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor3.CNhs12127.11700-123A8.hg19.ctss.bed.gz
+|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor3.CNhs12127.11700-123A8.hg19.nobarcode.rdna.fa.gz
+|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor3.CNhs12127.11700-123A8.hg38.nobarcode.bam
+|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor3.CNhs12127.11700-123A8.hg38.nobarcode.ctss.bed.gz
 |id=FF:11700-123A8
-|is_a=EFO:0002091;;FF:0000002;;FF:0000094;;FF:0000210
+|is_a=EFO:0002091;;FF:0000094
+|is_obsolete=
+|library_id=CNhs12127
+|library_id_phase_based=2:CNhs12127
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11700
+|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10011.GTTTCG.11700
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11700
+|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10011.GTTTCG.11700
 |name=Mesenchymal Stem Cells - umbilical, donor3
 |namespace=FANTOM5
@@ Line 42: / Line 65: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12127,LSID839,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=SRhi10011,,,
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 |rna_box=123
 |rna_catalog_number=SC7535
@@ Line 56: / Line 82: @@
 |rna_tube_id=123A8
 |rna_weight_ug=10
+|rnaseq_library_id=SRhi10011.GTTTCG
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=N/A
 |sample_cell_line=
@@ Line 77: / Line 105: @@
 |sample_tissue=umbilical cord
 |top_motifs=RXRA_VDR{dimer}:1.72271906635;GLI1..3:1.4701497021;HOX{A5,B5}:1.34442759232;GTF2A1,2:1.25595940557;TAL1_TCF{3,4,12}:1.20093187532;TFAP4:1.15923142498;ATF6:1.15915485743;LHX3,4:1.11792778599;PBX1:1.07047433566;ZNF238:1.05266864026;HAND1,2:1.03779420109;NR5A1,2:1.02118185544;AR:0.913819876528;RXR{A,B,G}:0.896122070975;NANOG:0.881458748263;EBF1:0.870831103668;NR6A1:0.855365744038;IKZF1:0.76268519384;NR3C1:0.749512625872;NR1H4:0.747214686043;GFI1:0.745021858239;ESRRA:0.731195986305;STAT5{A,B}:0.588265667422;POU2F1..3:0.586697708663;ZNF148:0.581978831223;NFY{A,B,C}:0.577723102313;TFCP2:0.562493836479;TEAD1:0.555615324476;GZF1:0.548147770488;ZNF423:0.543790204109;SOX17:0.540953935631;SRF:0.516464165344;GFI1B:0.473893344261;NKX2-3_NKX2-5:0.454381399178;TP53:0.449600062522;NFIX:0.420483660644;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.400159525142;RORA:0.352404912317;TFAP2{A,C}:0.351053558202;KLF4:0.349888589743;ZBTB6:0.339050742566;HNF4A_NR2F1,2:0.337035190743;TLX1..3_NFIC{dimer}:0.331019278694;CDC5L:0.291210861691;NANOG{mouse}:0.288658676671;TOPORS:0.281670143205;HES1:0.256338023884;ZIC1..3:0.242072417203;TBP:0.230437632706;SPZ1:0.227225339853;HLF:0.226243006097;ESR1:0.222869298235;UFEwm:0.220802770808;RREB1:0.213520150131;YY1:0.191917984158;HNF1A:0.183101719314;EN1,2:0.177416501554;NFE2L2:0.17519696568;REST:0.170599423925;ALX4:0.168093939811;PRRX1,2:0.13730760944;TBX4,5:0.104995657433;SMAD1..7,9:0.102401599621;XCPE1{core}:0.098756770372;CEBPA,B_DDIT3:0.0877871947593;LEF1_TCF7_TCF7L1,2:0.0785425281739;CRX:0.071646917388;PAX3,7:0.0642398240907;NFE2:0.0599644627012;MAFB:0.059214812143;MYB:0.0537712947415;PATZ1:0.0144310236284;GTF2I:0.00361463367025;E2F1..5:0.00109736249727;GATA6:-0.0106319693806;PPARG:-0.0165530052249;ZNF384:-0.0267441388089;POU3F1..4:-0.0402069027106;BACH2:-0.0481453540423;RFX1:-0.0534778241695;NFATC1..3:-0.0568744339574;SOX5:-0.0574810970425;FOS_FOS{B,L1}_JUN{B,D}:-0.0628884264052;HOX{A6,A7,B6,B7}:-0.0910612433789;SOX{8,9,10}:-0.0952884843795;PAX1,9:-0.104850656817;ZNF143:-0.115591088224;HIC1:-0.116592013238;HSF1,2:-0.121237683365;PAX5:-0.12488674813;XBP1:-0.138181474561;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.142659024249;RUNX1..3:-0.146471954954;MYBL2:-0.154463304296;POU5F1:-0.160319179221;MTF1:-0.165150437525;HOXA9_MEIS1:-0.183778665798;NKX3-1:-0.192547814699;bHLH_family:-0.19488833996;FOSL2:-0.195995629432;MZF1:-0.203426064468;DBP:-0.205875069196;NFKB1_REL_RELA:-0.206264325867;NKX2-2,8:-0.206538863879;SP1:-0.2215500725;POU1F1:-0.22320079815;ONECUT1,2:-0.224083045047;PITX1..3:-0.23176446941;ADNP_IRX_SIX_ZHX:-0.250495869185;MEF2{A,B,C,D}:-0.254059361017;HOX{A4,D4}:-0.262316201342;LMO2:-0.292665969987;STAT2,4,6:-0.298898401818;NFE2L1:-0.311004406081;PAX8:-0.312287884996;ELK1,4_GABP{A,B1}:-0.318460603355;FOXM1:-0.320738713586;FOXL1:-0.336043555423;T:-0.342211184828;ETS1,2:-0.384825942381;FOX{F1,F2,J1}:-0.386675723204;OCT4_SOX2{dimer}:-0.392331288549;CUX2:-0.401524064005;HBP1_HMGB_SSRP1_UBTF:-0.410726982932;GATA4:-0.416146264519;PAX6:-0.42144127356;NHLH1,2:-0.434800931319;PRDM1:-0.441089475934;SPIB:-0.446111780513;TEF:-0.446720839451;STAT1,3:-0.45199641715;ELF1,2,4:-0.454308359082;SNAI1..3:-0.455385933631;MAZ:-0.457694475712;CDX1,2,4:-0.497252154935;AHR_ARNT_ARNT2:-0.497926385189;TFAP2B:-0.498689887468;FOXP3:-0.50573491808;NRF1:-0.508182297229;AIRE:-0.513421320735;FOXD3:-0.520370646705;ARID5B:-0.52672112223;FOXA2:-0.543930921356;HMX1:-0.550505504168;TFDP1:-0.557874265237;MTE{core}:-0.580453262176;SOX2:-0.584576426961;NKX3-2:-0.613636001652;RFX2..5_RFXANK_RFXAP:-0.62821708365;ATF2:-0.658415597389;EVI1:-0.673658917477;MED-1{core}:-0.682598446604;MYFfamily:-0.684917805577;TLX2:-0.689559319464;FOXQ1:-0.691117501982;GCM1,2:-0.724704317423;HMGA1,2:-0.743010997938;DMAP1_NCOR{1,2}_SMARC:-0.743797368474;FOX{I1,J2}:-0.769386684864;JUN:-0.784385109974;EP300:-0.785240597128;BREu{core}:-0.796299463692;SPI1:-0.797566328242;POU6F1:-0.808198811715;MYOD1:-0.812668538174;ZEB1:-0.827979696462;BPTF:-0.837294773652;NKX6-1,2:-0.878230741687;IRF7:-0.888323789776;IRF1,2:-0.890844309889;NFIL3:-0.897758344805;ATF5_CREB3:-0.917524007546;PAX2:-0.923332557131;VSX1,2:-0.924570826875;ATF4:-0.952996959282;EGR1..3:-0.97258448549;CREB1:-0.982859412714;TGIF1:-0.988472968265;FOX{D1,D2}:-1.04991027276;PDX1:-1.05337071618;ZFP161:-1.08139957198;HIF1A:-1.09730041613;SREBF1,2:-1.11345426463;PAX4:-1.14415496389;FOXP1:-1.19372337298;ALX1:-1.21715862628;NKX2-1,4:-1.30501056332;RBPJ:-1.38022320743;ZBTB16:-1.44516473585;IKZF2:-1.53338119164;FOXO1,3,4:-1.71218786855;FOXN1:-1.97721513095
+|xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11700-123A8;search_select_hide=table117:FF:11700-123A8
 }}

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FF:11700-123A8: Difference between revisions

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Latest revision as of 18:15, 4 June 2020

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