FF:11604-120I2: Difference between revisions

Latest revision as of 18:11, 4 June 2020

Name:	Hepatic Stellate Cells (lipocyte), donor2
Species:	Human (Homo sapiens)
Library ID:	CNhs12093
Sample type:	primary cells
Genomic View:	UCSC
RefEX:	Specific genes
FANTOM CAT:	1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	liver
dev stage	NA
sex	NA
age	NA
cell type	adipocyte, lipocyte of liver
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	SC5305
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00004864

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12093		CAGE		DRX008305		DRR009177

Accession ID Hg19

Library id		BAM		CTSS
CNhs12093		DRZ000602		DRZ001987

Accession ID Hg38

Library id		BAM		CTSS
CNhs12093		DRZ011952		DRZ013337

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		SAMD00004864

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
SRhi10009.AGTTCC		sRNA-Seq		DRX037138		DRR041504

Accession ID Hg19

Library id		BAM		CTSS
SRhi10009.AGTTCC		DRZ007146

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	-0.0587
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	-0.318
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
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	0.393
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	-0.0139
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19	-0.4
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	-0.148
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	0.838
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	0.406
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	0.427
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	0.838
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	0.167
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
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	0.393
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	-0.0737
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	0.393
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	0.733
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	0.596
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	0.733
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	0.393
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	0.992
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	0.596
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: CNhs12093

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.449
MA0003.1	MA0003.1	0.157
MA0004.1	MA0004.1	0.888
MA0006.1	MA0006.1	0.33
MA0007.1	MA0007.1	0.105
MA0009.1	MA0009.1	0.191
MA0014.1	MA0014.1	0.719
MA0017.1	MA0017.1	0.0714
MA0018.2	MA0018.2	0.00454
MA0019.1	MA0019.1	0.556
MA0024.1	MA0024.1	0.0029
MA0025.1	MA0025.1	0.104
MA0027.1	MA0027.1	0.735
MA0028.1	MA0028.1	0.00304
MA0029.1	MA0029.1	0.189
MA0030.1	MA0030.1	0.134
MA0031.1	MA0031.1	0.0915
MA0035.2	MA0035.2	0.081
MA0038.1	MA0038.1	0.998
MA0039.2	MA0039.2	0.943
MA0040.1	MA0040.1	0.285
MA0041.1	MA0041.1	0.218
MA0042.1	MA0042.1	0.523
MA0043.1	MA0043.1	3.56181e-5
MA0046.1	MA0046.1	0.326
MA0047.2	MA0047.2	0.724
MA0048.1	MA0048.1	0.961
MA0050.1	MA0050.1	0.0015
MA0051.1	MA0051.1	0.00182
MA0052.1	MA0052.1	0.0845
MA0055.1	MA0055.1	0.648
MA0057.1	MA0057.1	0.38
MA0058.1	MA0058.1	0.601
MA0059.1	MA0059.1	0.717
MA0060.1	MA0060.1	0.428
MA0061.1	MA0061.1	0.619
MA0062.2	MA0062.2	3.02934e-7
MA0065.2	MA0065.2	0.0465
MA0066.1	MA0066.1	0.0885
MA0067.1	MA0067.1	0.0477
MA0068.1	MA0068.1	0.902
MA0069.1	MA0069.1	0.523
MA0070.1	MA0070.1	0.00502
MA0071.1	MA0071.1	0.0383
MA0072.1	MA0072.1	0.488
MA0073.1	MA0073.1	0.714
MA0074.1	MA0074.1	0.144
MA0076.1	MA0076.1	7.1542e-5
MA0077.1	MA0077.1	0.35
MA0078.1	MA0078.1	0.103
MA0079.2	MA0079.2	0.753
MA0080.2	MA0080.2	5.02702e-5
MA0081.1	MA0081.1	0.04
MA0083.1	MA0083.1	8.12252e-6
MA0084.1	MA0084.1	0.47
MA0087.1	MA0087.1	0.277
MA0088.1	MA0088.1	0.675
MA0090.1	MA0090.1	0.00325
MA0091.1	MA0091.1	1.95292e-5
MA0092.1	MA0092.1	0.186
MA0093.1	MA0093.1	0.767
MA0099.2	MA0099.2	0.767
MA0100.1	MA0100.1	0.0961
MA0101.1	MA0101.1	0.485
MA0102.2	MA0102.2	0.00288
MA0103.1	MA0103.1	0.623
MA0104.2	MA0104.2	0.496
MA0105.1	MA0105.1	0.329
MA0106.1	MA0106.1	0.281
MA0107.1	MA0107.1	0.628
MA0108.2	MA0108.2	1.58833e-8
MA0111.1	MA0111.1	0.547
MA0112.2	MA0112.2	0.00113
MA0113.1	MA0113.1	0.0317
MA0114.1	MA0114.1	0.142
MA0115.1	MA0115.1	0.773
MA0116.1	MA0116.1	0.179
MA0117.1	MA0117.1	0.418
MA0119.1	MA0119.1	0.0578
MA0122.1	MA0122.1	0.866
MA0124.1	MA0124.1	0.266
MA0125.1	MA0125.1	0.844
MA0131.1	MA0131.1	0.137
MA0135.1	MA0135.1	0.337
MA0136.1	MA0136.1	5.83815e-10
MA0137.2	MA0137.2	0.00913
MA0138.2	MA0138.2	0.142
MA0139.1	MA0139.1	0.846
MA0140.1	MA0140.1	0.147
MA0141.1	MA0141.1	0.0416
MA0142.1	MA0142.1	0.677
MA0143.1	MA0143.1	0.488
MA0144.1	MA0144.1	0.895
MA0145.1	MA0145.1	0.0783
MA0146.1	MA0146.1	0.0468
MA0147.1	MA0147.1	0.647
MA0148.1	MA0148.1	0.809
MA0149.1	MA0149.1	0.485
MA0150.1	MA0150.1	0.531
MA0152.1	MA0152.1	0.909
MA0153.1	MA0153.1	0.0263
MA0154.1	MA0154.1	0.0726
MA0155.1	MA0155.1	0.0183
MA0156.1	MA0156.1	9.94603e-8
MA0157.1	MA0157.1	0.291
MA0159.1	MA0159.1	0.363
MA0160.1	MA0160.1	0.321
MA0162.1	MA0162.1	0.116
MA0163.1	MA0163.1	0.0534
MA0164.1	MA0164.1	0.984
MA0258.1	MA0258.1	0.00294
MA0259.1	MA0259.1	0.348

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: CNhs12093

Novel motif	Logo	P-value
1	1	0.651
10	10	0.588
100	100	0.655
101	101	0.827
102	102	0.476
103	103	0.417
104	104	0.217
105	105	0.202
106	106	0.025
107	107	0.0114
108	108	0.456
109	109	0.263
11	11	0.0778
110	110	0.146
111	111	0.96
112	112	0.705
113	113	0.428
114	114	0.395
115	115	0.106
116	116	0.0838
117	117	0.995
118	118	0.722
119	119	0.41
12	12	0.934
120	120	0.402
121	121	0.812
122	122	0.974
123	123	0.288
124	124	0.311
125	125	0.45
126	126	0.615
127	127	0.541
128	128	0.0465
129	129	0.199
13	13	0.581
130	130	0.535
131	131	0.511
132	132	0.249
133	133	0.815
134	134	0.198
135	135	0.183
136	136	0.669
137	137	0.144
138	138	0.905
139	139	0.0997
14	14	0.699
140	140	0.674
141	141	0.717
142	142	0.588
143	143	0.104
144	144	0.8
145	145	0.418
146	146	0.413
147	147	0.173
148	148	0.981
149	149	0.0034
15	15	0.805
150	150	0.39
151	151	0.343
152	152	0.126
153	153	0.646
154	154	0.567
155	155	0.694
156	156	0.938
157	157	0.217
158	158	0.652
159	159	0.478
16	16	0.108
160	160	0.0185
161	161	0.421
162	162	0.0815
163	163	0.952
164	164	0.821
165	165	0.242
166	166	0.431
167	167	0.043
168	168	0.511
169	169	0.0402
17	17	0.231
18	18	0.0926
19	19	0.0365
2	2	0.159
20	20	0.377
21	21	0.488
22	22	0.0856
23	23	0.123
24	24	0.991
25	25	0.659
26	26	0.0766
27	27	0.265
28	28	0.388
29	29	0.95
3	3	0.587
30	30	0.173
31	31	0.323
32	32	3.85586e-9
33	33	0.892
34	34	0.144
35	35	0.916
36	36	0.513
37	37	0.311
38	38	0.366
39	39	0.345
4	4	0.489
40	40	0.0943
41	41	0.683
42	42	0.837
43	43	0.218
44	44	0.298
45	45	0.211
46	46	0.135
47	47	0.426
48	48	0.286
49	49	0.216
5	5	0.658
50	50	0.393
51	51	0.272
52	52	0.208
53	53	0.989
54	54	0.31
55	55	0.36
56	56	0.291
57	57	0.388
58	58	0.948
59	59	0.0336
6	6	0.396
60	60	0.214
61	61	0.976
62	62	0.631
63	63	0.204
64	64	0.267
65	65	0.0385
66	66	0.915
67	67	0.467
68	68	0.0382
69	69	0.0681
7	7	0.656
70	70	0.0485
71	71	0.226
72	72	0.896
73	73	0.19
74	74	0.124
75	75	0.682
76	76	0.456
77	77	0.0371
78	78	0.771
79	79	0.00738
8	8	0.101
80	80	0.67
81	81	0.512
82	82	0.157
83	83	0.908
84	84	0.32
85	85	0.053
86	86	0.958
87	87	0.678
88	88	0.269
89	89	0.0826
9	9	0.127
90	90	0.429
91	91	0.302
92	92	0.224
93	93	0.473
94	94	0.412
95	95	0.566
96	96	0.769
97	97	0.315
98	98	0.62
99	99	0.011

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: CNhs12093

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000077 hepatic stellate cell sample
FF:0000210 human 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)
0000548 (animal cell)
0000151 (secretory cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000499 (stromal cell)
0000327 (extracellular matrix secreting cell)
0000255 (eukaryotic cell)
0000057 (fibroblast)
0000632 (hepatic stellate cell)

UBERON: Anatomy
0000468 (multi-cellular organism)
0002107 (liver)
0002100 (trunk)
0002384 (connective tissue)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0002368 (endocrine gland)
0005177 (trunk region element)
0002365 (exocrine gland)
0005172 (abdomen element)
0006925 (digestive gland)
0002530 (gland)
0010317 (germ layer / neural crest derived structure)
0005173 (abdominal segment element)
0002417 (abdominal segment of trunk)
0000949 (endocrine system)
0002330 (exocrine system)
0000916 (abdomen)
0002423 (hepatobiliary system)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000077 (hepatic stellate cell 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:0002107,UBERON:0002100,UBERON:0000483,UBERON:0002530,UBERON:0002384,UBERON:0000926,UBERON:0000479,UBERON:0001007,UBERON:0000077,UBERON:0002368,UBERON:0000466,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0004120,UBERON:0000025,UBERON:0004119,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0003914,UBERON:0007499,UBERON:0002050,UBERON:0005911,UBERON:0004921,UBERON:0005423,UBERON:0000477,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0000490,UBERON:0009569,UBERON:0005291,UBERON:0009854,UBERON:0003929,UBERON:0005177,UBERON:0002365,UBERON:0003104,UBERON:0005057,UBERON:0005172,UBERON:0006925,UBERON:0005256,UBERON:0001048,UBERON:0000925,UBERON:0006598,UBERON:0009497,UBERON:0004185,UBERON:0005173,UBERON:0000015,UBERON:0009856,UBERON:0002532,UBERON:0001555,UBERON:0002417,UBERON:0007026,UBERON:0001041,UBERON:0000949,UBERON:0002330,UBERON:0000916,UBERON:0002405,UBERON:0002423,UBERON:0009142,UBERON:0006235,UBERON:0006595,UBERON:0006603,UBERON:0008835,UBERON:0003894,UBERON:0004161,UBERON:0008836
+|DRA_sample_Accession=CAGE@SAMD00004864
-|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000055,CL:0000144,CL:0000723,CL:0000048,CL:0000548,CL:0000034,CL:0000151,CL:0000012,CL:0002320,CL:0000063,CL:0002371,CL:0000219,CL:0000499,CL:0000327,CL:0000004,CL:0000134,CL:0000255,CL:0000057,CL:0000632
+|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00004864
+|accession_numbers=CAGE;DRX008305;DRR009177;DRZ000602;DRZ001987;DRZ011952;DRZ013337
+|accession_numbers_RNASeq=sRNA-Seq;DRX037138;DRR041504;DRZ007146
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002107,UBERON:0002100,UBERON:0002384,UBERON:0000479,UBERON:0001007,UBERON:0004119,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0009569,UBERON:0002368,UBERON:0005177,UBERON:0002365,UBERON:0005172,UBERON:0006925,UBERON:0002530,UBERON:0010317,UBERON:0005173,UBERON:0002417,UBERON:0000949,UBERON:0002330,UBERON:0000916,UBERON:0002423
+|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000151,CL:0002320,CL:0002371,CL:0000499,CL:0000327,CL:0000255,CL:0000057,CL:0000632
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000210,FF:0000002,FF:0000101,FF:0000001,FF:0000077
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr1:203055129..203055147,-!p1@MYOG!2.21!161.71!MYOG;;chr11:61520075..61520136,+!p1@C11orf9!2.18!308.72!C11orf9;;chr4:174451370..174451387,-!p1@HAND2!2.13!135.25!HAND2;;chr8:11561684..11561751,+!p1@GATA4!1.79!60.27!GATA4;;chr2:19558373..19558392,-!p1@OSR1!1.65!116.14!OSR1;;chr18:19749541..19749557,+!p1@GATA6!1.59!114.67!GATA6;;chr18:19749386..19749404,+!p2@GATA6!1.59!52.92!GATA6;;chr19:46801639..46801699,+!p1@HIF3A!1.54!33.81!HIF3A;;chr11:46299539..46299620,+!p2@CREB3L1!1.49!49.98!CREB3L1;;chr7:19157248..19157268,-!p1@TWIST1!1.47!76.44!TWIST1;;chr11:46299199..46299233,+!p1@CREB3L1!1.40!122.02!CREB3L1;;chr11:32457075..32457095,-!p1@WT1!1.36!22.05!WT1;;chr16:86544113..86544145,+!p1@FOXF1!1.35!26.46!FOXF1;;chr17:1959369..1959388,+!p2@HIC1!1.32!51.45!HIC1;;chr5:92919375..92919438,+!p6@NR2F1!1.27!19.11!NR2F1;;chr17:26697276..26697303,-!p2@SEBOX,p2@VTN!1.27!17.64!SEBOX;;chr5:92918919..92918942,+!p1@NR2F1!1.26!74.97!NR2F1;;chr17:46675420..46675465,-!p3@HOXB6!1.21!17.64!HOXB6;;chr7:35293685..35293718,-!p1@TBX20!1.20!14.70!TBX20;;chr7:44143925..44143970,+!p1@AEBP1!1.16!296.96!AEBP1;;chr18:19749353..19749367,+!p4@GATA6!1.15!13.23!GATA6;;chr4:174450089..174450153,-!p2@HAND2!1.15!13.23!HAND2;;chr11:125034640..125034655,+!p1@PKNOX2!1.15!13.23!PKNOX2;;chr17:46655704..46655718,-!p2@HOXB4!1.11!17.64!HOXB4;;chr4:174451350..174451363,-!p3@HAND2!1.11!11.76!HAND2;;chr2:239148671..239148686,-!p1@HES6!1.09!41.16!HES6;;chr20:62680984..62680999,-!p1@SOX18!1.08!14.70!SOX18;;chr7:44143978..44143989,+!p2@AEBP1!1.05!19.11!AEBP1;;chr15:83953397..83953425,-!p1@BNC1!1.05!11.76!BNC1;;chr11:125034605..125034636,+!p2@PKNOX2!1.05!10.29!PKNOX2;;chr12:54447637..54447659,+!p4@HOXC4!1.05!10.29!HOXC4;;chr8:55370487..55370503,+!p1@SOX17!1.05!10.29!SOX17;;chrY:21906594..21906622,-!p1@KDM5D!1.05!10.29!KDM5D;;chr20:48599506..48599526,+!p1@SNAI1!1.02!61.74!SNAI1;;chr12:54447599..54447630,+!p3@HOXC4!1.02!11.76!HOXC4;;chr17:46622070..46622109,-!p1@HOXB2!1.00!20.58!HOXB2;;chr18:19749517..19749531,+!p3@GATA6!1.00!16.17!GATA6;;chr7:150945754..150945789,-!p2@SMARCD3!0.99!27.93!SMARCD3;;chr11:63684602..63684664,-!p1@RCOR2!0.99!17.64!RCOR2;;chr11:125034586..125034604,+!p3@PKNOX2!0.99!8.82!PKNOX2;;chr6:134210243..134210257,+!p1@TCF21!0.99!8.82!TCF21;;chr9:126774018..126774055,+!p1@LHX2!0.99!8.82!LHX2;;chr16:31076332..31076388,-!p3@ZNF668!0.99!8.82!ZNF668;;chr7:44143997..44144008,+!p3@AEBP1!0.95!10.29!AEBP1;;chr11:46299186..46299195,+!p3@CREB3L1!0.95!8.82!CREB3L1;;chr17:1958388..1958404,+!p1@HIC1!0.93!49.98!HIC1;;chr2:239756671..239756732,+!p1@TWIST2!0.93!24.99!TWIST2;;chr7:42276787..42276815,-!p1@GLI3!0.93!20.58!GLI3;;chr18:77155922..77155939,+!p1@NFATC1!0.92!20.58!NFATC1;;chr7:19157043..19157088,-!p2@TWIST1!0.92!19.11!TWIST1;;chrX:107018969..107019024,-!p6@TSC22D3!0.92!10.29!TSC22D3;;chr15:67430351..67430366,+!p10@SMAD3!0.92!7.35!SMAD3;;chr16:1031762..1031781,+!p1@SOX8!0.92!7.35!SOX8;;chr17:46655672..46655697,-!p3@HOXB4!0.92!7.35!HOXB4;;chr11:17741111..17741124,+!p1@MYOD1!0.92!7.35!MYOD1;;chr11:46299443..46299459,+!p4@CREB3L1!0.92!7.35!CREB3L1;;chr7:27153454..27153469,-!p2@HOXA3!0.92!7.35!HOXA3;;chr17:38498594..38498661,+!p2@RARA!0.91!24.99!RARA;;chr5:92919100..92919135,+!p3@NR2F1!0.91!8.82!NR2F1;;chr19:13134772..13134822,+!p2@NFIX!0.89!10.29!NFIX;;chr19:13106214..13106382,+!p1@NFIX!0.88!161.71!NFIX;;chr12:57504975..57505019,-!p2@STAT6!0.88!27.93!STAT6;;chr17:46622114..46622138,-!p4@HOXB2!0.88!10.29!HOXB2;;chr17:46621937..46621966,-!p2@HOXB2!0.86!17.64!HOXB2;;chr20:2673383..2673441,+!p1@EBF4!0.86!10.29!EBF4;;chr1:221052840..221052875,+!p4@HLX!0.85!7.35!HLX;;chr16:8962853..8962878,-!p1@CARHSP1!0.84!373.40!CARHSP1;;chr5:92918894..92918912,+!p2@NR2F1!0.84!20.58!NR2F1;;chr8:106330656..106330684,+!p1@ZFPM2!0.84!16.17!ZFPM2;;chr9:16870659..16870675,-!p2@BNC2!0.84!7.35!BNC2;;chr9:130966497..130966541,-!p4@CIZ1!0.84!5.88!CIZ1;;chr2:5832508..5832524,+!p1@SOX11!0.84!5.88!SOX11;;chr19:46800289..46800327,+!p2@HIF3A!0.84!5.88!HIF3A;;chr1:40105299..40105326,-!p1@HEYL!0.84!5.88!HEYL;;chr12:124873357..124873401,-!p1@NCOR2!0.83!72.03!NCOR2;;chr1:8484142..8484232,-!p10@RERE!0.82!16.17!RERE;;chr8:72756213..72756243,-!p5@MSC!0.82!7.35!MSC;;chr19:31840130..31840160,-!p2@TSHZ3!0.81!8.82!TSHZ3;;chr8:48650715..48650735,-!p1@CEBPD!0.80!733.57!CEBPD;;chr3:52001448..52001478,-!p2@PCBP4!0.80!79.38!PCBP4;;chr17:46621101..46621143,-!p7@HOXB2!0.80!7.35!HOXB2;;chr5:92918956..92918969,+!p4@NR2F1!0.80!5.88!NR2F1;;chr8:49833978..49833996,-!p1@SNAI2!0.79!116.14!SNAI2;;chr7:149470641..149470694,-!p1@ZNF467!0.79!24.99!ZNF467;;chr20:42543506..42543549,+!p2@TOX2!0.79!13.23!TOX2;;chr16:67881588..67881612,-!p2@CENPT!0.79!7.35!CENPT;;chr7:44143738..44143760,+!p4@AEBP1!0.79!5.88!AEBP1;;chr8:72756637..72756664,-!p3@MSC!0.79!5.88!MSC;;chr17:3571863..3571881,-!p1@TAX1BP3!0.78!391.04!TAX1BP3;;chr15:37392703..37392717,-!p8@MEIS2!0.78!7.35!MEIS2;;chr5:92920456..92920488,+!p9@NR2F1!0.78!5.88!NR2F1;;chr11:47279248..47279264,+!p3@NR1H3!0.78!5.88!NR1H3;;chrX:106960285..106960299,-!p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+|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000057;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000151;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000327;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000499;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000632;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000949;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001007;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002107;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002365;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002368;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002423;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0003929;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0005911;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0007499;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0009854
+|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/Hepatic%2520Stellate%2520Cells%2520%2528lipocyte%2529%252c%2520donor2.CNhs12093.11604-120I2.hg19.nobarcode.bam
+|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Hepatic%2520Stellate%2520Cells%2520%2528lipocyte%2529%252c%2520donor2.CNhs12093.11604-120I2.hg19.ctss.bed.gz
+|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Hepatic%2520Stellate%2520Cells%2520%2528lipocyte%2529%252c%2520donor2.CNhs12093.11604-120I2.hg19.nobarcode.rdna.fa.gz
+|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Hepatic%2520Stellate%2520Cells%2520%2528lipocyte%2529%252c%2520donor2.CNhs12093.11604-120I2.hg38.nobarcode.bam
+|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Hepatic%2520Stellate%2520Cells%2520%2528lipocyte%2529%252c%2520donor2.CNhs12093.11604-120I2.hg38.nobarcode.ctss.bed.gz
 |id=FF:11604-120I2
-|is_a=EFO:0002091;;FF:0000002;;FF:0000077;;FF:0000210
+|is_a=EFO:0002091;;FF:0000077;;FF:0000210
+|is_obsolete=
+|library_id=CNhs12093
+|library_id_phase_based=2:CNhs12093
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11604
+|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10009.AGTTCC.11604
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11604
+|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10009.AGTTCC.11604
 |name=Hepatic Stellate Cells (lipocyte), donor2
 |namespace=FANTOM5
@@ Line 42: / Line 65: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12093,LSID839,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=SRhi10009,,,
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 |rna_box=120
 |rna_catalog_number=SC5305
@@ Line 56: / Line 82: @@
 |rna_tube_id=120I2
 |rna_weight_ug=10
+|rnaseq_library_id=SRhi10009.AGTTCC
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=N/A
 |sample_cell_line=
@@ Line 77: / Line 105: @@
 |sample_tissue=liver
 |top_motifs=RXRA_VDR{dimer}:3.91450360805;TFAP4:2.55536102845;GLI1..3:2.22161766621;ESR1:2.15961476932;ZNF423:2.05301844071;ZNF238:1.93604989398;TFCP2:1.91721790367;GTF2A1,2:1.916024747;TAL1_TCF{3,4,12}:1.84144645238;EBF1:1.80467478197;ZNF148:1.79781609595;SRF:1.66823037426;HOX{A5,B5}:1.58296086085;SMAD1..7,9:1.49499045328;TLX1..3_NFIC{dimer}:1.43507708392;ZIC1..3:1.41424553699;HES1:1.38085986038;NR5A1,2:1.37376516118;TEAD1:1.30153158915;RXR{A,B,G}:1.24848936015;TFAP2{A,C}:1.18363591099;PBX1:1.14242547449;PAX5:1.11137234307;GZF1:1.09839233237;RREB1:1.07160266186;IKZF1:1.04318865799;TBP:1.04307583296;HOXA9_MEIS1:1.02212000939;XCPE1{core}:0.948013525281;HIC1:0.946048052209;HOX{A6,A7,B6,B7}:0.893991345832;GTF2I:0.877727148179;LMO2:0.837743086406;HAND1,2:0.836364347116;TP53:0.781395190262;REST:0.719642586056;PATZ1:0.716969870095;ATF6:0.700395820152;MEF2{A,B,C,D}:0.672193926486;SOX17:0.634169981815;ESRRA:0.618928737826;FOXM1:0.58635587293;TOPORS:0.578859642129;NR6A1:0.556192812191;MAZ:0.54906190341;TFAP2B:0.509043263399;UFEwm:0.498060446939;GCM1,2:0.494200849829;NR3C1:0.485344814308;CRX:0.473956309081;NANOG:0.455806087818;XBP1:0.449236205918;ZBTB6:0.439067965711;LHX3,4:0.419673662622;KLF4:0.405787947316;NHLH1,2:0.403812583468;LEF1_TCF7_TCF7L1,2:0.401121488346;GFI1B:0.376531709964;SP1:0.319394818629;bHLH_family:0.298861452277;NKX3-1:0.289607355288;TBX4,5:0.270216771716;SPZ1:0.241037293849;HNF4A_NR2F1,2:0.239988142209;EP300:0.23848092917;MTE{core}:0.196998068597;HNF1A:0.194088406681;PAX1,9:0.192550695552;NANOG{mouse}:0.191382100729;SOX5:0.168853839917;ONECUT1,2:0.148160075538;STAT5{A,B}:0.134893857892;GFI1:0.0803249043207;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.0640079631892;NKX2-3_NKX2-5:0.0600863165524;MZF1:0.0579114979286;GATA6:0.0368494434058;DBP:0.0329894206404;MAFB:0.0269775676132;AR:0.0269577712466;POU2F1..3:0.00343143814264;STAT2,4,6:-0.00506946796134;MYOD1:-0.00772430362975;MTF1:-0.01368620801;SNAI1..3:-0.0656121403059;NR1H4:-0.0672204944829;SOX{8,9,10}:-0.0896840090315;RFX1:-0.0942579116195;EGR1..3:-0.10688215291;RORA:-0.113586722286;MED-1{core}:-0.123915403938;HMX1:-0.124055577716;JUN:-0.138662987448;BACH2:-0.138912889875;NFIL3:-0.146670028993;NFE2L2:-0.149723509629;HSF1,2:-0.157826498839;NFATC1..3:-0.171600149258;FOS_FOS{B,L1}_JUN{B,D}:-0.176469613715;EN1,2:-0.184879259243;MYFfamily:-0.191559678786;NKX2-2,8:-0.202493823601;HLF:-0.203571698659;ALX4:-0.219515876366;PAX6:-0.219628825505;RUNX1..3:-0.222083909963;NFE2:-0.246687989599;NFKB1_REL_RELA:-0.258845420045;CDX1,2,4:-0.274734913997;CDC5L:-0.284733211444;YY1:-0.293743164754;FOX{F1,F2,J1}:-0.311318415171;ETS1,2:-0.312466724134;POU6F1:-0.321948195117;NKX3-2:-0.3265849723;NFE2L1:-0.330432116905;MYBL2:-0.344758304661;TLX2:-0.352068683299;POU3F1..4:-0.353213606261;PPARG:-0.356715756577;HOX{A4,D4}:-0.377218841625;FOXP3:-0.400221250068;PAX3,7:-0.433031064413;NFIX:-0.435030916713;SPIB:-0.447789376481;FOSL2:-0.466354525156;PRRX1,2:-0.471026566804;GATA4:-0.479196666254;ZNF384:-0.545881077371;PAX8:-0.582253297533;POU5F1:-0.603360064659;ZNF143:-0.612086880227;CEBPA,B_DDIT3:-0.612333482513;NFY{A,B,C}:-0.614577668933;PRDM1:-0.625025861785;NKX2-1,4:-0.635222517302;FOX{D1,D2}:-0.661990808998;TGIF1:-0.667643153472;FOXA2:-0.713926818308;PAX2:-0.721525052824;CUX2:-0.7319962867;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.748013876263;OCT4_SOX2{dimer}:-0.766647402612;ATF2:-0.775595860976;EVI1:-0.782628603343;E2F1..5:-0.78888921245;SPI1:-0.830195205363;IRF1,2:-0.833434729299;ZEB1:-0.859591567925;FOXL1:-0.902275104404;HMGA1,2:-0.990775256019;AIRE:-0.999686035273;T:-1.00208408841;BREu{core}:-1.04499100931;SOX2:-1.04527987345;NKX6-1,2:-1.04642881467;ARID5B:-1.0796648157;ATF4:-1.08166318574;RFX2..5_RFXANK_RFXAP:-1.10683137143;MYB:-1.11573262518;PITX1..3:-1.12688073068;ZFP161:-1.14980445948;FOXQ1:-1.20174235682;IRF7:-1.26744057001;HIF1A:-1.27386384815;POU1F1:-1.27750020989;BPTF:-1.29517157651;TFDP1:-1.30996154089;DMAP1_NCOR{1,2}_SMARC:-1.3208400799;ADNP_IRX_SIX_ZHX:-1.33135978509;FOXP1:-1.34824564558;AHR_ARNT_ARNT2:-1.36302343203;VSX1,2:-1.36463220413;NRF1:-1.39943082213;FOXO1,3,4:-1.399665455;RBPJ:-1.40888628966;HBP1_HMGB_SSRP1_UBTF:-1.41192481721;ATF5_CREB3:-1.41716175954;ALX1:-1.41884012125;CREB1:-1.4262370049;FOXD3:-1.486620304;ELF1,2,4:-1.50014106125;SREBF1,2:-1.56744980221;IKZF2:-1.57028777479;STAT1,3:-1.58936629089;FOX{I1,J2}:-1.60580203384;ELK1,4_GABP{A,B1}:-1.73420567401;TEF:-1.75349022418;ZBTB16:-1.90630618586;PDX1:-2.02380708477;PAX4:-2.02440681639;FOXN1:-2.32374163712
+|xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11604-120I2;search_select_hide=table117:FF:11604-120I2
 }}

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FF:11604-120I2: Difference between revisions

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Latest revision as of 18:11, 4 June 2020

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