FF:14326-155E6: Difference between revisions

Latest revision as of 19:06, 4 June 2020

Name:	Fibroblast - skin spinal muscular atrophy, donor1 (nuclear fraction)
Species:	Human (Homo sapiens)
Library ID:	CNhs12404
Sample type:	fractionations and perturbations
Genomic View:	UCSC
RefEX:	Specific genes
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	skin
dev stage	NA
sex	M
age	3 year old child
cell type	fibroblast
cell line	NA
company	Coriell
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

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

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005054

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12404		CAGE		DRX008039		DRR008911

Accession ID Hg19

Library id		BAM		CTSS
CNhs12404		DRZ000336		DRZ001721

Accession ID Hg38

Library id		BAM		CTSS
CNhs12404		DRZ011686		DRZ013071

Download raw sequence, BAM & CTSS

Hg19

Fasta	BAM	CTSS
download	download	donwload

Hg38

BAM	CTSS
download	donwload

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	-0.111
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	0.357
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	0.702
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
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
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19	0.166
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	-0.894
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	0.4
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	-0.16
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	-0.114
C223-Chondrocyte-basal-renal-Fibroblast-Smooth-spindle-Synoviocyte	0.632
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	0.12
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
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	0.0704
C251-gall-tonsil-trachea-CD14-salivary-throat-tongue	0
C252-hepatic-Olfactory-sacrococcigeal-leiomyoma-normal-Synoviocyte-glioblastoma	0.0978
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	0.4
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	-0.0885
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	0.0978
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	0.084
C281-Hodgkin-Reticulocytes-chronic-NK-acute-retinoblastoma-small	0.208
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	0.355
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	0.442
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	0.245
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	1.045
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	0.303
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	0.68
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	1.085
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: CNhs12404

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00521
MA0003.1	MA0003.1	0.00159
MA0004.1	MA0004.1	0.0646
MA0006.1	MA0006.1	0.8
MA0007.1	MA0007.1	0.478
MA0009.1	MA0009.1	0.315
MA0014.1	MA0014.1	0.309
MA0017.1	MA0017.1	0.00163
MA0018.2	MA0018.2	0.424
MA0019.1	MA0019.1	0.802
MA0024.1	MA0024.1	0.35
MA0025.1	MA0025.1	0.0616
MA0027.1	MA0027.1	0.554
MA0028.1	MA0028.1	0.0502
MA0029.1	MA0029.1	0.475
MA0030.1	MA0030.1	0.169
MA0031.1	MA0031.1	0.113
MA0035.2	MA0035.2	5.46741e-5
MA0038.1	MA0038.1	0.906
MA0039.2	MA0039.2	0.136
MA0040.1	MA0040.1	0.518
MA0041.1	MA0041.1	0.339
MA0042.1	MA0042.1	0.777
MA0043.1	MA0043.1	0.362
MA0046.1	MA0046.1	0.198
MA0047.2	MA0047.2	0.396
MA0048.1	MA0048.1	4.61887e-4
MA0050.1	MA0050.1	0.285
MA0051.1	MA0051.1	0.103
MA0052.1	MA0052.1	0.261
MA0055.1	MA0055.1	0.0922
MA0057.1	MA0057.1	0.948
MA0058.1	MA0058.1	0.0195
MA0059.1	MA0059.1	0.0454
MA0060.1	MA0060.1	0.576
MA0061.1	MA0061.1	9.87221e-4
MA0062.2	MA0062.2	0.31
MA0065.2	MA0065.2	4.4943e-4
MA0066.1	MA0066.1	0.0959
MA0067.1	MA0067.1	0.949
MA0068.1	MA0068.1	0.218
MA0069.1	MA0069.1	0.0145
MA0070.1	MA0070.1	0.287
MA0071.1	MA0071.1	0.0607
MA0072.1	MA0072.1	0.0923
MA0073.1	MA0073.1	0.822
MA0074.1	MA0074.1	0.358
MA0076.1	MA0076.1	0.0111
MA0077.1	MA0077.1	0.14
MA0078.1	MA0078.1	0.17
MA0079.2	MA0079.2	0.125
MA0080.2	MA0080.2	5.1445e-9
MA0081.1	MA0081.1	0.055
MA0083.1	MA0083.1	8.87447e-4
MA0084.1	MA0084.1	0.676
MA0087.1	MA0087.1	0.115
MA0088.1	MA0088.1	0.708
MA0090.1	MA0090.1	0.00104
MA0091.1	MA0091.1	0.492
MA0092.1	MA0092.1	0.731
MA0093.1	MA0093.1	0.0779
MA0099.2	MA0099.2	0.153
MA0100.1	MA0100.1	0.541
MA0101.1	MA0101.1	0.00277
MA0102.2	MA0102.2	0.528
MA0103.1	MA0103.1	7.25543e-6
MA0104.2	MA0104.2	0.00117
MA0105.1	MA0105.1	9.81814e-4
MA0106.1	MA0106.1	0.5
MA0107.1	MA0107.1	2.4981e-4
MA0108.2	MA0108.2	0.297
MA0111.1	MA0111.1	0.0765
MA0112.2	MA0112.2	0.12
MA0113.1	MA0113.1	0.731
MA0114.1	MA0114.1	0.0012
MA0115.1	MA0115.1	0.174
MA0116.1	MA0116.1	0.681
MA0117.1	MA0117.1	0.533
MA0119.1	MA0119.1	0.487
MA0122.1	MA0122.1	0.369
MA0124.1	MA0124.1	0.3
MA0125.1	MA0125.1	0.172
MA0131.1	MA0131.1	0.19
MA0135.1	MA0135.1	0.553
MA0136.1	MA0136.1	3.35283e-5
MA0137.2	MA0137.2	0.564
MA0138.2	MA0138.2	0.374
MA0139.1	MA0139.1	0.22
MA0140.1	MA0140.1	0.00712
MA0141.1	MA0141.1	0.0133
MA0142.1	MA0142.1	0.0723
MA0143.1	MA0143.1	0.774
MA0144.1	MA0144.1	0.863
MA0145.1	MA0145.1	0.479
MA0146.1	MA0146.1	0.671
MA0147.1	MA0147.1	0.0331
MA0148.1	MA0148.1	0.0805
MA0149.1	MA0149.1	0.268
MA0150.1	MA0150.1	0.104
MA0152.1	MA0152.1	0.0998
MA0153.1	MA0153.1	0.861
MA0154.1	MA0154.1	0.0758
MA0155.1	MA0155.1	0.325
MA0156.1	MA0156.1	0.248
MA0157.1	MA0157.1	0.0471
MA0159.1	MA0159.1	0.316
MA0160.1	MA0160.1	0.00276
MA0162.1	MA0162.1	0.34
MA0163.1	MA0163.1	0.478
MA0164.1	MA0164.1	0.449
MA0258.1	MA0258.1	0.0489
MA0259.1	MA0259.1	0.793

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: CNhs12404

Novel motif	Logo	P-value
1	1	0.126
10	10	0.714
100	100	0.709
101	101	0.53
102	102	0.164
103	103	0.0885
104	104	0.519
105	105	0.5
106	106	0.00716
107	107	0.166
108	108	0.632
109	109	0.0874
11	11	0.141
110	110	0.865
111	111	0.0374
112	112	0.453
113	113	0.0235
114	114	0.526
115	115	0.387
116	116	0.945
117	117	0.834
118	118	0.796
119	119	0.29
12	12	0.826
120	120	0.497
121	121	0.786
122	122	0.0323
123	123	0.00968
124	124	0.0587
125	125	0.584
126	126	0.211
127	127	0.432
128	128	0.0251
129	129	0.274
13	13	0.611
130	130	0.729
131	131	0.335
132	132	0.784
133	133	0.912
134	134	0.793
135	135	0.766
136	136	0.15
137	137	0.527
138	138	0.566
139	139	0.103
14	14	0.602
140	140	0.652
141	141	0.403
142	142	0.813
143	143	0.0852
144	144	0.962
145	145	0.952
146	146	0.0688
147	147	0.229
148	148	0.0161
149	149	0.529
15	15	0.0256
150	150	0.753
151	151	0.047
152	152	0.31
153	153	0.962
154	154	0.555
155	155	0.0156
156	156	0.783
157	157	0.646
158	158	0.455
159	159	0.169
16	16	0.449
160	160	0.29
161	161	0.126
162	162	0.888
163	163	0.856
164	164	0.728
165	165	0.337
166	166	0.0412
167	167	0.508
168	168	0.801
169	169	0.502
17	17	0.68
18	18	0.8
19	19	0.914
2	2	0.525
20	20	0.875
21	21	0.24
22	22	0.731
23	23	0.797
24	24	0.335
25	25	0.153
26	26	0.909
27	27	0.269
28	28	0.746
29	29	0.815
3	3	0.563
30	30	0.69
31	31	0.466
32	32	5.79542e-4
33	33	0.569
34	34	0.609
35	35	0.656
36	36	0.0439
37	37	0.748
38	38	0.297
39	39	0.815
4	4	0.777
40	40	0.0209
41	41	0.207
42	42	0.337
43	43	0.235
44	44	0.271
45	45	0.226
46	46	0.352
47	47	0.159
48	48	0.358
49	49	0.142
5	5	0.552
50	50	0.776
51	51	0.414
52	52	0.409
53	53	0.31
54	54	0.394
55	55	0.765
56	56	0.337
57	57	0.61
58	58	0.14
59	59	0.258
6	6	0.811
60	60	0.0684
61	61	0.427
62	62	0.127
63	63	0.395
64	64	0.216
65	65	0.318
66	66	0.382
67	67	0.826
68	68	0.787
69	69	0.359
7	7	0.082
70	70	0.0196
71	71	0.625
72	72	0.409
73	73	0.53
74	74	0.0575
75	75	0.652
76	76	0.9
77	77	0.792
78	78	0.0803
79	79	0.0457
8	8	0.0611
80	80	0.216
81	81	0.438
82	82	0.428
83	83	0.0501
84	84	0.279
85	85	0.193
86	86	0.745
87	87	0.0895
88	88	0.605
89	89	0.567
9	9	0.694
90	90	0.192
91	91	0.917
92	92	0.419
93	93	0.442
94	94	0.214
95	95	0.379
96	96	0.977
97	97	0.839
98	98	0.035
99	99	0.212

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: CNhs12404

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
FF:0000670 human Fibroblast - skin spinal muscular atrophy, nuclear fraction 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)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000255 (eukaryotic cell)
0000057 (fibroblast)
0002620 (skin fibroblast)

UBERON: Anatomy
0000468 (multi-cellular organism)
0002097 (skin of body)
0002199 (integument)
0002384 (connective tissue)
0000479 (tissue)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003102 (surface structure)
0002416 (integumental system)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000057 (fibroblast sample)
0000250 (human fibroblast of skin sample)
0000001 (sample)
0000408 (cellular fractionation sample)
0000350 (experimentally modified sample)
0000251 (human fibroblast - skin spinal muscular atrophy sample)
0000406 (nuclear fraction sample)
0000670 (human Fibroblast - skin spinal muscular atrophy, nuclear fraction 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
+|DRA_sample_Accession=CAGE@SAMD00005054
+|accession_numbers=CAGE;DRX008039;DRR008911;DRZ000336;DRZ001721;DRZ011686;DRZ013071
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002097,UBERON:0002199,UBERON:0002384,UBERON:0000479,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003102,UBERON:0002416
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0002320,CL:0002371,CL:0000255,CL:0000057,CL:0002620
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr1:197886461..197886558,+!p1@LHX9!2.39!243.35!LHX9;;chr7:19157248..19157268,-!p1@TWIST1!1.92!217.60!TWIST1;;chr9:132427883..132427951,+!p2@PRRX2!1.75!55.28!PRRX2;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.72!50.99!HOXC5;;chr15:57511609..57511651,+!p2@TCF12!1.66!72.95!TCF12;;chr15:37392534..37392562,-!p10@MEIS2!1.50!33.83!MEIS2;;chr5:72744594..72744609,-!p1@FOXD1!1.42!113.09!FOXD1;;chr4:174451370..174451387,-!p1@HAND2!1.42!25.24!HAND2;;chr15:37392616..37392638,-!p2@MEIS2!1.36!66.64!MEIS2;;chr2:176969097..176969109,+!p3@HOXD11!1.34!20.70!HOXD11;;chrY:21906594..21906622,-!p1@KDM5D!1.34!20.70!KDM5D;;chr15:37392703..37392717,-!p8@MEIS2!1.33!28.78!MEIS2;;chr15:37392724..37392757,-!p1@MEIS2!1.27!79.26!MEIS2;;chr2:19558373..19558392,-!p1@OSR1!1.27!47.96!OSR1;;chr8:93074803..93074845,-!p1@RUNX1T1!1.27!17.67!RUNX1T1;;chr6:10415276..10415341,-!p2@TFAP2A!1.24!20.19!TFAP2A;;chr7:27192185..27192209,-!p1@HOXA3!1.23!15.90!HOXA3;;chr21:36260773..36260804,-!p7@RUNX1!1.22!21.20!RUNX1;;chr5:321810..321877,+!p1@AHRR!1.21!48.47!AHRR;;chr1:170632285..170632309,+!p1@PRRX1!1.20!16.66!PRRX1;;chr5:2751762..2751784,-!p1@IRX2!1.20!14.89!IRX2;;chr19:13134772..13134822,+!p2@NFIX!1.19!21.20!NFIX;;chr10:63809106..63809127,+!p1@ARID5B!1.18!188.82!ARID5B;;chr9:132427972..132428056,+!p1@PRRX2!1.18!18.43!PRRX2;;chr10:119303078..119303169,+!p2@EMX2!1.18!14.14!EMX2;;chr2:102091566..102091581,-!p1@RFX8!1.17!13.88!RFX8;;chr2:239756671..239756732,+!p1@TWIST2!1.16!43.17!TWIST2;;chr2:176969124..176969155,+!p5@HOXD11!1.15!13.13!HOXD11;;chr19:45971246..45971265,+!p1@FOSB!1.11!218.36!FOSB;;chr12:54410639..54410659,+!p2@HOXC4,p2@HOXC5,p2@HOXC6!1.09!11.36!HOXC5;;chr14:24837368..24837401,+!p1@NFATC4!1.07!25.75!NFATC4;;chr7:44143925..44143970,+!p1@AEBP1!1.06!236.03!AEBP1;;chr15:37392576..37392589,-!p12@MEIS2!1.06!12.87!MEIS2;;chr19:47523058..47523114,+!p1@NPAS1!1.05!10.35!NPAS1;;chr11:46299199..46299233,+!p1@CREB3L1!1.04!52.76!CREB3L1;;chr11:46299539..46299620,+!p2@CREB3L1!1.04!16.91!CREB3L1;;chr3:147111198..147111225,+!p4@ZIC1!1.04!9.84!ZIC1;;chr15:37390850..37390909,-!p3@MEIS2!1.03!19.44!MEIS2;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!1.03!10.35!GLIS1;;chr1:170633348..170633399,+!p2@PRRX1!1.02!13.13!PRRX1;;chr15:37390482..37390572,-!p7@MEIS2!1.02!13.13!MEIS2;;chr2:177001290..177001315,+!p1@HOXD3!1.02!9.59!HOXD3;;chr3:147111231..147111281,+!p3@ZIC1!1.02!9.59!ZIC1;;chr12:115121962..115121987,-!p1@TBX3!1.01!79.26!TBX3;;chr2:239756739..239756755,+!p2@TWIST2!1.01!16.16!TWIST2;;chr11:46316699..46316719,+!p10@CREB3L1!1.00!9.09!CREB3L1;;chr12:114843940..114843955,-!p2@TBX5!1.00!9.09!TBX5;;chr2:200322654..200322707,-!p2@SATB2!0.99!12.87!SATB2;;chr20:50179368..50179392,-!p2@NFATC2!0.99!11.36!NFATC2;;chr15:37392593..37392607,-!p13@MEIS2!0.99!10.60!MEIS2;;chr1:197886421..197886432,+!p2@LHX9!0.99!8.84!LHX9;;chr12:114845810..114845824,-!p1@TBX5!0.99!8.84!TBX5;;chr14:61116183..61116208,-!p1@SIX1!0.98!33.07!SIX1;;chr7:137686763..137686784,-!p5@CREB3L2!0.98!15.15!CREB3L2;;chr5:158527139..158527161,-!p5@EBF1!0.97!8.33!EBF1;;chr8:93074848..93074871,-!p3@RUNX1T1!0.97!8.33!RUNX1T1;;chrY:2803415..2803468,+!p1@ZFY!0.97!8.33!ZFY;;chr10:114710244..114710257,+!p3@TCF7L2!0.96!22.47!TCF7L2;;chr7:44143978..44143989,+!p2@AEBP1!0.96!15.15!AEBP1;;chr20:55204351..55204377,+!p1@TFAP2C!0.96!10.35!TFAP2C;;chr5:3595977..3595999,+!p1@IRX1!0.96!8.08!IRX1;;chr2:176969228..176969260,+!p1@HOXD11!0.96!8.08!HOXD11;;chr6:19837592..19837621,+!p1@ID4!0.95!49.48!ID4;;chr10:63809077..63809089,+!p5@ARID5B!0.95!17.42!ARID5B;;chr7:27213893..27213954,-!p1@HOXA10!0.95!7.83!HOXA10;;chr6:144329384..144329405,-!p1@PLAGL1!0.94!92.39!PLAGL1;;chr14:62162258..62162269,+!p2@HIF1A!0.93!75.73!HIF1A;;chr10:63661437..63661465,+!p2@ARID5B!0.92!145.15!ARID5B;;chr3:114343768..114343822,-!p1@ZBTB20!0.92!33.57!ZBTB20;;chr6:85474299..85474324,-!p1@TBX18!0.92!13.38!TBX18;;chr15:37390374..37390422,-!p9@MEIS2!0.92!9.09!MEIS2;;chr2:176969179..176969226,+!p2@HOXD11!0.92!7.32!HOXD11;;chr5:158526917..158526932,-!p1@EBF1!0.91!18.43!EBF1;;chr5:158526459..158526481,-!p2@EBF1!0.91!9.59!EBF1;;chr6:134210243..134210257,+!p1@TCF21!0.91!7.07!TCF21;;chr10:119302232..119302265,+!p1@EMX2!0.91!7.07!EMX2;;chr10:28034739..28034756,-!p1@MKX!0.91!7.07!MKX;;chr12:54402745..54402788,+!p1@HOXC8!0.91!7.07!HOXC8;;chr12:66218598..66218645,+!p2@HMGA2!0.90!33.32!HMGA2;;chr8:67525443..67525459,-!p2@MYBL1!0.90!10.60!MYBL1;;chr12:53614115..53614154,-!p1@RARG!0.89!37.61!RARG;;chr18:22932080..22932170,-!p1@ZNF521!0.89!30.04!ZNF521;;chr7:42276787..42276815,-!p1@GLI3!0.89!18.93!GLI3;;chr6:100912785..100912822,-!p1@SIM1!0.89!6.82!SIM1;;chr11:65687222..65687240,+!p7@DRAP1!0.88!8.58!DRAP1;;chr4:174450089..174450153,-!p2@HAND2!0.88!6.56!HAND2;;chr7:150945754..150945789,-!p2@SMARCD3!0.87!20.95!SMARCD3;;chr1:200379104..200379128,-!p2@ZNF281!0.87!16.41!ZNF281;;chr1:197886665..197886732,+!p3@LHX9!0.86!6.31!LHX9;;chr7:27224842..27224872,-!p1@HOXA11!0.86!6.31!HOXA11;;chr12:80085061..80085119,-!p6@PAWR!0.85!10.10!PAWR;;chr3:141121847..141121868,+!p5@ZBTB38!0.85!9.59!ZBTB38;;chr3:21792585..21792625,-!p2@ZNF385D!0.85!6.82!ZNF385D;;chr2:102091144..102091183,-!p2@RFX8!0.85!6.06!RFX8;;chr7:27205136..27205164,-!p1@HOXA9!0.85!6.06!HOXA9;;chr12:124873357..124873401,-!p1@NCOR2!0.84!73.96!NCOR2;;chr6:10412600..10412637,-!p1@TFAP2A!0.84!10.10!TFAP2A;;chr14:62162285..62162296,+!p3@HIF1A!0.83!32.31!HIF1A;;chr21:36259445..36259519,-!p4@RUNX1!0.83!16.91!RUNX1;;chr5:72743793..72743855,-!p4@FOXD1!0.83!6.82!FOXD1;;chr18:53068911..53068935,-!p4@TCF4!0.83!6.56!TCF4;;chr10:119302645..119302712,+!p3@EMX2!0.82!5.55!EMX2;;chr8:93115274..93115323,-!p4@RUNX1T1!0.82!5.55!RUNX1T1;;chr1:119530857..119530884,-!p4@TBX15!0.82!5.55!TBX15;;chr2:121493425..121493474,+!p1@GLI2!0.81!12.62!GLI2;;chr16:54964740..54964789,+!p1@IRX5!0.81!8.08!IRX5;;chr2:208031943..208031978,-!p5@KLF7!0.81!7.57!KLF7;;chr9:16870659..16870675,-!p2@BNC2!0.80!6.56!BNC2;;chr17:46682321..46682362,-!p1@HOXB6!0.80!5.30!HOXB6;;chr5:158527104..158527135,-!p4@EBF1!0.80!5.30!EBF1;;chr6:85474198..85474212,-!p3@TBX18!0.80!5.30!TBX18;;chrX:128657457..128657475,-!p1@SMARCA1!0.79!64.37!SMARCA1;;chr1:158979792..158979814,+!p2@IFI16!0.79!54.02!IFI16;;chr10:63809013..63809041,+!p3@ARID5B!0.79!31.05!ARID5B;;chr3:71630980..71631110,-!p3@FOXP1!0.79!19.18!FOXP1;;chr12:66218255..66218304,+!p3@HMGA2!0.79!14.89!HMGA2;;chr4:95128841..95128865,+!p4@SMARCAD1!0.79!11.36!SMARCAD1;;chr15:37392094..37392116,-!p6@MEIS2!0.79!6.56!MEIS2;;chr7:19157043..19157088,-!p2@TWIST1!0.78!13.63!TWIST1;;chr10:70320074..70320106,+!p1@TET1!0.78!10.60!TET1;;chr7:27224795..27224840,-!p2@HOXA11!0.78!5.05!HOXA11;;chr8:106330656..106330684,+!p1@ZFPM2!0.77!13.88!ZFPM2;;chr15:37391271..37391376,-!p5@MEIS2!0.77!9.59!MEIS2;;chr5:43067636..43067674,+!p6@ZNF131!0.77!6.82!ZNF131;;chr11:12696071..12696086,+!p3@TEAD1!0.77!6.56!TEAD1;;chr3:157823517..157823562,-!p1@SHOX2!0.77!5.30!SHOX2;;chr10:63809134..63809145,+!p6@ARID5B!0.76!11.86!ARID5B;;chr18:56532100..56532130,+!p1@ZNF532!0.76!9.34!ZNF532;;chr15:37391588..37391604,-!p11@MEIS2!0.76!6.31!MEIS2;;chr2:176973498..176973524,+!p1@HOXD10!0.76!4.80!HOXD10;;chr3:138665969..138665993,-!p2@FOXL2!0.76!4.80!FOXL2;;chr8:93115584..93115642,-!p5@RUNX1T1!0.76!4.80!RUNX1T1;;chr14:62162224..62162254,+!p1@HIF1A!0.75!745.94!HIF1A;;chr11:65686802..65686818,+!p6@DRAP1!0.75!8.58!DRAP1;;chr2:121493492..121493537,+!p2@GLI2!0.75!8.08!GLI2;;chr21:36260295..36260310,-!p3@RUNX1!0.75!7.83!RUNX1;;chr3:128206762..128206781,-!p2@GATA2!0.74!31.05!GATA2;;chr5:72744445..72744466,-!p2@FOXD1!0.74!7.83!FOXD1;;chr1:170632959..170632987,+!p4@PRRX1!0.74!5.05!PRRX1;;chr1:119530636..119530653,-!p2@TBX15!0.74!4.54!TBX15;;chr1:119530706..119530736,-!p3@TBX15!0.74!4.54!TBX15;;chr1:170632250..170632277,+!p7@PRRX1!0.74!4.54!PRRX1;;chr15:80843484..80843499,+!p5@ARNT2!0.74!4.54!ARNT2;;chr16:31076332..31076388,-!p3@ZNF668!0.74!4.54!ZNF668;;chr5:2751785..2751808,-!p2@IRX2!0.74!4.54!IRX2;;chr3:138665937..138665968,-!p1@FOXL2!0.74!4.54!FOXL2;;chr3:42695180..42695201,+!p2@ZBTB47!0.74!4.54!ZBTB47;;chr5:137801160..137801176,+!p1@EGR1!0.73!486.19!EGR1;;chr1:158979872..158979898,+!p3@IFI16!0.73!14.89!IFI16;;chr20:51588873..51588953,+!p1@TSHZ2!0.73!6.06!TSHZ2;;chr3:150126759..150126784,+!p2@TSC22D2!0.72!21.71!TSC22D2;;chr8:99956662..99956684,+!p1@OSR2!0.72!6.82!OSR2;;chr22:19748231..19748317,+!p1@TBX1!0.72!4.29!TBX1;;chr2:102091590..102091601,-!p5@RFX8!0.72!4.29!RFX8;;chr2:172950227..172950249,+!p2@DLX1!0.72!4.29!DLX1;;chr2:172967242..172967265,-!p2@DLX2!0.72!4.29!DLX2;;chr13:37494275..37494304,-!p2@SMAD9!0.72!4.29!SMAD9;;chr1:119530493..119530572,-!p1@TBX15!0.72!4.29!TBX15;;chr1:170633194..170633205,+!p18@PRRX1!0.72!4.29!PRRX1;;chr19:13135582..13135600,+!p3@NFIX!0.72!4.29!NFIX;;chr2:208394817..208394834,+!p3@CREB1!0.71!18.68!CREB1;;chr20:30193083..30193098,+!p1@ID1!0.70!371.33!ID1;;chr11:65687362..65687436,+!p3@DRAP1!0.70!20.70!DRAP1;;chr6:28411241..28411284,-!p1@ZSCAN23!0.70!14.14!ZSCAN23;;chr6:100912752..100912778,-!p2@SIM1!0.70!4.04!SIM1;;chr7:27205106..27205134,-!p2@HOXA9!0.70!4.04!HOXA9;;chr12:54410948..54410992,+!p3@HOXC5!0.70!4.04!HOXC5;;chr18:52969674..52969685,-!p24@TCF4!0.70!4.04!TCF4;;chr19:13135386..13135435,+!p4@NFIX!0.70!4.04!NFIX;;chr4:111558135..111558198,-!p2@PITX2!0.70!4.04!PITX2;;chr2:66662281..66662308,+!p1@MEIS1!0.69!14.89!MEIS1;;chr5:72744562..72744573,-!p3@FOXD1!0.69!5.05!FOXD1;;chr1:170633262..170633285,+!p3@PRRX1!0.69!4.54!PRRX1;;chr14:75745523..75745537,+!p1@FOS!0.68!529.10!FOS;;chr2:208031542..208031595,-!p2@KLF7!0.68!30.80!KLF7;;chr14:73360799..73360817,-!p1@DPF3!0.68!14.89!DPF3;;chr18:53254566..53254567,-!p8@TCF4!0.68!6.56!TCF4;;chr10:119302508..119302559,+!p5@EMX2!0.68!3.79!EMX2;;chr12:54422217..54422239,+!p3@HOXC6!0.68!3.79!HOXC6;;chr2:85981107..85981120,+!p3@ATOH8!0.68!3.79!ATOH8;;chr1:170632723..170632739,+!p8@PRRX1!0.68!3.79!PRRX1;;chr15:37393449..37393528,-!p4@MEIS2!0.67!11.11!MEIS2;;chr19:11909329..11909394,+!p1@ZNF491!0.67!8.33!ZNF491;;chr1:151431811..151431832,-!p3@POGZ!0.67!6.56!POGZ;;chr12:115122005..1151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@@ Line 38: / Line 41: @@
 |fonse_treatment_closure=
 |has_quality=
+|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.fractionation.hCAGE/Fibroblast%2520-%2520skin%2520spinal%2520muscular%2520atrophy%252c%2520donor1%2520%2528nuclear%2520fraction%2529.CNhs12404.14326-155E6.hg19.nobarcode.bam
+|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.fractionation.hCAGE/Fibroblast%2520-%2520skin%2520spinal%2520muscular%2520atrophy%252c%2520donor1%2520%2528nuclear%2520fraction%2529.CNhs12404.14326-155E6.hg19.ctss.bed.gz
+|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.fractionation.hCAGE/Fibroblast%2520-%2520skin%2520spinal%2520muscular%2520atrophy%252c%2520donor1%2520%2528nuclear%2520fraction%2529.CNhs12404.14326-155E6.hg19.nobarcode.rdna.fa.gz
+|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.fractionation.hCAGE/Fibroblast%2520-%2520skin%2520spinal%2520muscular%2520atrophy%252c%2520donor1%2520%2528nuclear%2520fraction%2529.CNhs12404.14326-155E6.hg38.nobarcode.bam
+|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.fractionation.hCAGE/Fibroblast%2520-%2520skin%2520spinal%2520muscular%2520atrophy%252c%2520donor1%2520%2528nuclear%2520fraction%2529.CNhs12404.14326-155E6.hg38.nobarcode.ctss.bed.gz
 |id=FF:14326-155E6
 |is_a=FF:0000670
 |is_obsolete=
+|library_id=CNhs12404
+|library_id_phase_based=2:CNhs12404
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;14326
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;14326
 |name=Fibroblast - skin spinal muscular atrophy, donor1 (nuclear fraction)
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12404,LSID914,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|refex=http://refex.dbcls.jp/genelist.php?lang
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 |rna_box=155
 |rna_catalog_number=custom
@@ Line 58: / Line 75: @@
 |rna_rin=
 |rna_sample_type=total RNA
-|rna_tube_id=155E6
+|rna_tube_id=1.55E+08
 |rna_weight_ug=23.65983
 |sample_age=3 year old child
+|sample_category=fractionations and perturbations
 |sample_cell_catalog=N/A
 |sample_cell_line=
@@ Line 82: / Line 100: @@
 |top_motifs=HBP1_HMGB_SSRP1_UBTF:2.35502431607;NKX3-1:1.9925040014;HIF1A:1.94656707998;ALX4:1.89628423387;XBP1:1.84545341271;NKX3-2:1.66593480388;GATA4:1.64599337219;SRF:1.56321229382;TOPORS:1.55588556089;TEAD1:1.530584385;KLF4:1.51508675712;MZF1:1.49281950222;GZF1:1.44595172798;NR3C1:1.44210721247;EN1,2:1.43553551646;PRDM1:1.37844894571;HOX{A5,B5}:1.36029033164;EVI1:1.34778702497;UFEwm:1.33884899257;ESR1:1.32811413257;HSF1,2:1.31231577022;AHR_ARNT_ARNT2:1.30683274548;STAT1,3:1.3041400044;GCM1,2:1.2560426208;ZNF384:1.17323849686;RXR{A,B,G}:1.16927186769;GFI1B:1.15556251917;ZNF238:1.12619592776;MYBL2:1.03859996097;HMGA1,2:0.975150804245;PAX8:0.97448978275;GFI1:0.967330294364;SOX17:0.95584796716;NKX2-1,4:0.918880679997;GTF2A1,2:0.880391882773;GTF2I:0.866072032246;NANOG{mouse}:0.86088772349;TEF:0.854176147249;EP300:0.841419794953;ELK1,4_GABP{A,B1}:0.780697791399;BPTF:0.778799553722;TFAP4:0.727131846093;ATF6:0.712857174937;NR1H4:0.705450201206;NFE2L1:0.688467838893;ZIC1..3:0.671942534724;GLI1..3:0.659633166429;RXRA_VDR{dimer}:0.656057666117;RREB1:0.649481268055;FOXL1:0.605113024615;NKX2-2,8:0.600337384474;TAL1_TCF{3,4,12}:0.581953996811;NFIX:0.581537599738;TFDP1:0.563887247275;ARID5B:0.554787619565;ZBTB16:0.52880667689;EBF1:0.517834617184;HMX1:0.516423851104;ZNF143:0.514185997281;YY1:0.508760920533;MAZ:0.504881909942;MYB:0.501707288837;TP53:0.499332886617;TLX1..3_NFIC{dimer}:0.492985754656;E2F1..5:0.491244132146;ZBTB6:0.483646782541;RFX1:0.482037583605;NRF1:0.472148523691;SPZ1:0.44798394209;MTE{core}:0.446853874767;POU3F1..4:0.438907732279;XCPE1{core}:0.426881954258;AIRE:0.423355197772;TFAP2{A,C}:0.419615241092;MAFB:0.409302739446;HLF:0.401858437722;FOXP1:0.380219299126;STAT5{A,B}:0.373712578314;IKZF1:0.37295673821;CDX1,2,4:0.367044639086;MED-1{core}:0.361498691288;PATZ1:0.346598266;FOX{I1,J2}:0.337449331541;FOXN1:0.323074061121;HOX{A4,D4}:0.318557803151;CREB1:0.316022729759;POU1F1:0.305294458159;CEBPA,B_DDIT3:0.282961083172;NFATC1..3:0.250965172777;PRRX1,2:0.248276424839;PAX2:0.244665699935;NFE2:0.230259744347;PPARG:0.226729662022;BACH2:0.222938768293;NFE2L2:0.200504929238;ATF4:0.199336872565;NFY{A,B,C}:0.194226112084;SP1:0.185470617873;FOS_FOS{B,L1}_JUN{B,D}:0.180944918185;ATF5_CREB3:0.170827607475;ZFP161:0.166858334948;PAX3,7:0.14458318836;CRX:0.133954725522;DMAP1_NCOR{1,2}_SMARC:0.0990191265702;ELF1,2,4:0.0922114799794;MEF2{A,B,C,D}:0.0817255890372;PAX5:0.0427991400323;HAND1,2:0.0427799414655;TBX4,5:0.0387787654335;POU5F1:0.0378625832721;MYFfamily:0.00908136591144;TFAP2B:0.00138105419931;TLX2:-0.000589182428062;TBP:-0.0216027578055;RUNX1..3:-0.0303839102891;IRF1,2:-0.0535130996387;PAX4:-0.0605341665815;FOSL2:-0.0661267540537;HIC1:-0.0849915555811;PAX1,9:-0.092686771565;ONECUT1,2:-0.105713647718;EGR1..3:-0.111191274277;POU2F1..3:-0.116105377746;ZNF148:-0.130702448208;RBPJ:-0.141699535619;HES1:-0.148176636026;AR:-0.158416065324;HOXA9_MEIS1:-0.165455122536;SOX5:-0.166645252528;RFX2..5_RFXANK_RFXAP:-0.17199222138;HOX{A6,A7,B6,B7}:-0.184159000626;SMAD1..7,9:-0.201698076912;CDC5L:-0.203338472245;FOX{D1,D2}:-0.206809831944;FOXD3:-0.213154272211;TFCP2:-0.227030940348;FOXO1,3,4:-0.231336024198;PDX1:-0.248024404566;LEF1_TCF7_TCF7L1,2:-0.259268272331;FOXP3:-0.266405243251;NKX2-3_NKX2-5:-0.266972529177;TGIF1:-0.271835250781;LHX3,4:-0.275036055253;ATF2:-0.276358540914;SOX2:-0.283447768064;ZNF423:-0.293003731656;ALX1:-0.302236973861;STAT2,4,6:-0.304651673844;FOXA2:-0.310025882975;PITX1..3:-0.324215380746;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.327696024721;SPI1:-0.328292493578;HNF1A:-0.330958568748;DBP:-0.361020643771;ETS1,2:-0.387704636538;T:-0.389002042339;NR6A1:-0.428780312333;NHLH1,2:-0.431366184296;ADNP_IRX_SIX_ZHX:-0.44812095059;SREBF1,2:-0.449923716056;HNF4A_NR2F1,2:-0.452699211179;NKX6-1,2:-0.497353933333;NFKB1_REL_RELA:-0.536956804126;JUN:-0.549937204011;SOX{8,9,10}:-0.552090070811;IRF7:-0.561694283544;POU6F1:-0.565246456941;PBX1:-0.573867981636;SPIB:-0.594354672831;MTF1:-0.663022470932;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.668141303038;REST:-0.668540435395;FOXM1:-0.693665287732;OCT4_SOX2{dimer}:-0.768287606708;CUX2:-0.787696703853;bHLH_family:-0.805182951929;BREu{core}:-0.911512361616;GATA6:-0.957668122404;VSX1,2:-1.02130307977;FOXQ1:-1.02161958712;IKZF2:-1.02538016108;NFIL3:-1.09107055025;ZEB1:-1.13797101555;SNAI1..3:-1.20880205461;LMO2:-1.21582062788;ESRRA:-1.21688493018;NR5A1,2:-1.2261167828;FOX{F1,F2,J1}:-1.24173726343;PAX6:-1.27709341061;NANOG:-1.35414840008;RORA:-1.38718878171;MYOD1:-1.62757638117
 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:14326-155E6;search_select_hide=table117:FF:14326-155E6
 }}

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FF:14326-155E6: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:06, 4 June 2020

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	Mozilla Cavendish skin modified by DaSch for the Web Community Wiki GitHub project page – Report a bug – Skin version: 2.6.0