FF:11410-118E6: Difference between revisions

Latest revision as of 17:59, 4 June 2020

Name:	Chondrocyte - de diff, donor3
Species:	Human (Homo sapiens)
Library ID:	CNhs12020
Sample type:	primary cells
Genomic View:	UCSC
RefEX:	Specific genes
FANTOM CAT:	1, 2, 3, 4, 5
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	cartilage
dev stage	56 years old adult
sex	male
age	56
cell type	chondroblast
cell line	NA
company	Cell Applications
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	2230
catalog number	CA402-R10a
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005966

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12020		CAGE		DRX008203		DRR009075

Accession ID Hg19

Library id		BAM		CTSS
CNhs12020		DRZ000500		DRZ001885

Accession ID Hg38

Library id		BAM		CTSS
CNhs12020		DRZ011850		DRZ013235

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		SAMD00005966

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
SRhi10012.GTGAAA		sRNA-Seq		DRX037197		DRR041563

Accession ID Hg19

Library id		BAM		CTSS
SRhi10012.GTGAAA		DRZ007205

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	0.2
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	-0.169
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	0.374
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	0.157
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	0.122
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	0.0587
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	0.716
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	0.173
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	0.449
C223-Chondrocyte-basal-renal-Fibroblast-Smooth-spindle-Synoviocyte	1.16
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	0.0587
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	0.74
C241-Reticulocytes-chronic-Tracheal-Hodgkin-Endothelial-Hair-thymus	-0.265
C242-acute-Chondrocyte-myelodysplastic-granulocyte-biphenotypic-Fibroblast-stomach	0
C243-Chondrocyte-trachea-Synoviocyte-mesodermal-renal-Fibroblast-Ewing	0.501
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	0.11
C251-gall-tonsil-trachea-CD14-salivary-throat-tongue	0
C252-hepatic-Olfactory-sacrococcigeal-leiomyoma-normal-Synoviocyte-glioblastoma	0.511
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	0.728
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	-0.228
C282-acute-B-tonsil-CD19-submaxillary-lymph-throat	0
C283-tenocyte-Chondrocyte-mesenchymal-Macrophage-pleomorphic-Synoviocyte-cholangiocellular	0.722
C284-parietal-occipital-medial-temporal-olfactory-locus-hippocampus	0.198
C285-cervical-Hep2-small-colon-temporal-duodenum-bronchogenic	0
C286-cerebellum-occipital-optic-parietal-globus-caudate-medial	0.198
C287-Hepatocyte-Chondrocyte-Adipocyte-Synoviocyte-liver-tenocyte-mesenchymal	0.841
C288-Chondrocyte-Renal-Pericytes-Fibroblast-aorta-Smooth-Meningeal	0.762
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	0.481
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	1.11
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	0.116
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	0.823
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	0.0616
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	0.501
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: CNhs12020

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0175
MA0003.1	MA0003.1	0.293
MA0004.1	MA0004.1	0.0998
MA0006.1	MA0006.1	0.106
MA0007.1	MA0007.1	0.516
MA0009.1	MA0009.1	0.329
MA0014.1	MA0014.1	0.333
MA0017.1	MA0017.1	0.876
MA0018.2	MA0018.2	0.00139
MA0019.1	MA0019.1	0.99
MA0024.1	MA0024.1	0.00553
MA0025.1	MA0025.1	0.0247
MA0027.1	MA0027.1	0.465
MA0028.1	MA0028.1	0.00298
MA0029.1	MA0029.1	0.689
MA0030.1	MA0030.1	0.0634
MA0031.1	MA0031.1	0.139
MA0035.2	MA0035.2	0.00456
MA0038.1	MA0038.1	0.0233
MA0039.2	MA0039.2	0.0209
MA0040.1	MA0040.1	0.882
MA0041.1	MA0041.1	0.41
MA0042.1	MA0042.1	0.906
MA0043.1	MA0043.1	8.34298e-4
MA0046.1	MA0046.1	0.144
MA0047.2	MA0047.2	0.741
MA0048.1	MA0048.1	0.0305
MA0050.1	MA0050.1	0.114
MA0051.1	MA0051.1	0.441
MA0052.1	MA0052.1	0.0961
MA0055.1	MA0055.1	0.777
MA0057.1	MA0057.1	0.184
MA0058.1	MA0058.1	0.0279
MA0059.1	MA0059.1	0.289
MA0060.1	MA0060.1	1.91328e-12
MA0061.1	MA0061.1	0.067
MA0062.2	MA0062.2	2.28332e-10
MA0065.2	MA0065.2	0.964
MA0066.1	MA0066.1	0.605
MA0067.1	MA0067.1	0.0032
MA0068.1	MA0068.1	0.325
MA0069.1	MA0069.1	0.15
MA0070.1	MA0070.1	0.614
MA0071.1	MA0071.1	0.581
MA0072.1	MA0072.1	0.0618
MA0073.1	MA0073.1	0.948
MA0074.1	MA0074.1	0.476
MA0076.1	MA0076.1	4.41516e-4
MA0077.1	MA0077.1	0.0404
MA0078.1	MA0078.1	0.762
MA0079.2	MA0079.2	0.783
MA0080.2	MA0080.2	1.48203e-9
MA0081.1	MA0081.1	0.00101
MA0083.1	MA0083.1	0.171
MA0084.1	MA0084.1	0.643
MA0087.1	MA0087.1	0.361
MA0088.1	MA0088.1	0.29
MA0090.1	MA0090.1	0.00531
MA0091.1	MA0091.1	0.321
MA0092.1	MA0092.1	0.523
MA0093.1	MA0093.1	0.0785
MA0099.2	MA0099.2	1.14115e-7
MA0100.1	MA0100.1	0.214
MA0101.1	MA0101.1	1.92003e-4
MA0102.2	MA0102.2	0.338
MA0103.1	MA0103.1	0.0326
MA0104.2	MA0104.2	0.0135
MA0105.1	MA0105.1	0.136
MA0106.1	MA0106.1	0.483
MA0107.1	MA0107.1	4.12988e-4
MA0108.2	MA0108.2	0.161
MA0111.1	MA0111.1	0.446
MA0112.2	MA0112.2	0.0105
MA0113.1	MA0113.1	0.578
MA0114.1	MA0114.1	0.68
MA0115.1	MA0115.1	0.726
MA0116.1	MA0116.1	0.274
MA0117.1	MA0117.1	0.351
MA0119.1	MA0119.1	0.478
MA0122.1	MA0122.1	0.366
MA0124.1	MA0124.1	0.211
MA0125.1	MA0125.1	0.117
MA0131.1	MA0131.1	0.278
MA0135.1	MA0135.1	0.218
MA0136.1	MA0136.1	1.76161e-12
MA0137.2	MA0137.2	0.474
MA0138.2	MA0138.2	0.345
MA0139.1	MA0139.1	0.521
MA0140.1	MA0140.1	0.00582
MA0141.1	MA0141.1	0.116
MA0142.1	MA0142.1	0.0218
MA0143.1	MA0143.1	0.661
MA0144.1	MA0144.1	0.832
MA0145.1	MA0145.1	0.253
MA0146.1	MA0146.1	0.193
MA0147.1	MA0147.1	0.0306
MA0148.1	MA0148.1	0.727
MA0149.1	MA0149.1	0.975
MA0150.1	MA0150.1	0.00136
MA0152.1	MA0152.1	0.0527
MA0153.1	MA0153.1	0.806
MA0154.1	MA0154.1	0.763
MA0155.1	MA0155.1	0.252
MA0156.1	MA0156.1	6.91475e-12
MA0157.1	MA0157.1	0.377
MA0159.1	MA0159.1	0.593
MA0160.1	MA0160.1	0.859
MA0162.1	MA0162.1	0.0844
MA0163.1	MA0163.1	0.0281
MA0164.1	MA0164.1	0.813
MA0258.1	MA0258.1	0.58
MA0259.1	MA0259.1	0.176

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: CNhs12020

Novel motif	Logo	P-value
1	1	0.703
10	10	0.564
100	100	0.949
101	101	0.22
102	102	0.123
103	103	0.689
104	104	0.891
105	105	0.0224
106	106	0.564
107	107	0.0461
108	108	0.157
109	109	0.602
11	11	0.775
110	110	0.995
111	111	0.692
112	112	0.99
113	113	0.781
114	114	0.278
115	115	0.00101
116	116	0.0111
117	117	0.346
118	118	0.734
119	119	0.474
12	12	0.147
120	120	0.662
121	121	0.266
122	122	0.0441
123	123	0.0376
124	124	0.0908
125	125	0.616
126	126	0.657
127	127	0.706
128	128	0.412
129	129	0.315
13	13	0.844
130	130	0.314
131	131	0.518
132	132	0.0229
133	133	0.588
134	134	0.329
135	135	0.695
136	136	0.368
137	137	0.278
138	138	0.501
139	139	0.19
14	14	0.341
140	140	0.348
141	141	0.313
142	142	0.617
143	143	0.645
144	144	0.331
145	145	0.806
146	146	0.0972
147	147	0.468
148	148	0.423
149	149	0.0075
15	15	0.51
150	150	0.485
151	151	0.797
152	152	0.0117
153	153	0.656
154	154	0.575
155	155	0.729
156	156	0.691
157	157	0.59
158	158	0.0378
159	159	0.899
16	16	0.0824
160	160	0.658
161	161	0.581
162	162	0.479
163	163	0.841
164	164	0.0386
165	165	0.426
166	166	0.00839
167	167	0.691
168	168	0.463
169	169	0.0228
17	17	0.807
18	18	0.707
19	19	0.00427
2	2	0.303
20	20	0.631
21	21	0.0366
22	22	0.16
23	23	0.531
24	24	0.0801
25	25	0.396
26	26	0.895
27	27	0.651
28	28	0.116
29	29	0.17
3	3	0.755
30	30	0.609
31	31	0.636
32	32	4.03407e-14
33	33	0.706
34	34	0.539
35	35	0.722
36	36	0.0143
37	37	0.262
38	38	0.636
39	39	0.496
4	4	0.515
40	40	0.13
41	41	0.199
42	42	0.658
43	43	0.906
44	44	0.189
45	45	0.76
46	46	0.725
47	47	0.329
48	48	0.856
49	49	0.554
5	5	0.927
50	50	0.568
51	51	0.807
52	52	0.86
53	53	0.0965
54	54	0.753
55	55	0.752
56	56	0.995
57	57	0.927
58	58	0.242
59	59	0.0549
6	6	0.308
60	60	0.747
61	61	0.434
62	62	0.613
63	63	0.321
64	64	0.482
65	65	0.403
66	66	0.0418
67	67	0.997
68	68	0.569
69	69	0.281
7	7	0.379
70	70	0.223
71	71	0.861
72	72	0.406
73	73	0.00421
74	74	0.277
75	75	0.68
76	76	0.33
77	77	6.89005e-4
78	78	0.104
79	79	9.56579e-4
8	8	0.164
80	80	0.0136
81	81	0.656
82	82	0.16
83	83	0.597
84	84	0.606
85	85	0.126
86	86	0.895
87	87	0.924
88	88	0.207
89	89	0.0731
9	9	0.816
90	90	0.228
91	91	0.742
92	92	0.577
93	93	0.831
94	94	0.848
95	95	0.479
96	96	0.897
97	97	0.67
98	98	0.845
99	99	0.0248

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: CNhs12020

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000246 human chondrocyte de-differentiated 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)
0000153 (GAG secreting cell)
0000667 (collagen secreting cell)
0000327 (extracellular matrix secreting cell)
0000447 (carbohydrate secreting cell)
0000255 (eukaryotic cell)
0000138 (chondrocyte)

UBERON: Anatomy
0002384 (connective tissue)
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000037 (human chondrocyte sample)
0000246 (human chondrocyte de-differentiated 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@SAMD00005966
+|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00005966
+|accession_numbers=CAGE;DRX008203;DRR009075;DRZ000500;DRZ001885;DRZ011850;DRZ013235
+|accession_numbers_RNASeq=sRNA-Seq;DRX037197;DRR041563;DRZ007205
 |ancestors_in_anatomy_facet=UBERON:0002384,UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000151,CL:0002320,CL:0002371,CL:0000499,CL:0000153,CL:0000667,CL:0000327,CL:0000447,CL:0000255,CL:0000138
@@ Line 7: / Line 11: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr5:134369879..134369898,-!p2@PITX1!1.99!96.90!PITX1;;chr5:134369905..134369972,-!p1@PITX1!1.74!82.13!PITX1;;chr7:19157248..19157268,-!p1@TWIST1!1.72!137.60!TWIST1;;chr9:96717629..96717644,-!p1@BARX1!1.69!48.38!BARX1;;chr9:132427883..132427951,+!p2@PRRX2!1.68!46.64!PRRX2;;chr1:170632285..170632309,+!p1@PRRX1!1.67!51.42!PRRX1;;chr9:132427972..132428056,+!p1@PRRX2!1.59!49.54!PRRX2;;chr14:61116183..61116208,-!p1@SIX1!1.58!135.43!SIX1;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.47!28.68!HOXC5;;chr2:85981107..85981120,+!p3@ATOH8!1.46!27.67!ATOH8;;chr2:45236540..45236577,-!p1@SIX2!1.46!27.52!SIX2;;chr17:48072574..48072597,-!p1@DLX3!1.43!25.78!DLX3;;chr6:1610293..1610310,+!p1@FOXC1!1.39!38.53!FOXC1;;chr12:52445218..52445237,+!p1@NR4A1!1.38!279.99!NR4A1;;chr19:13134772..13134822,+!p2@NFIX!1.36!32.01!NFIX;;chr6:1312325..1312340,+!p1@FOXQ1!1.30!30.71!FOXQ1;;chr3:21792682..21792720,-!p1@ZNF385D!1.30!18.83!ZNF385D;;chr17:59477233..59477263,+!p1@TBX2!1.29!56.92!TBX2;;chr6:19837592..19837621,+!p1@ID4!1.26!102.99!ID4;;chr5:158526917..158526932,-!p1@EBF1!1.24!40.12!EBF1;;chr14:24837368..24837401,+!p1@NFATC4!1.24!38.09!NFATC4;;chr2:85981073..85981091,+!p5@ATOH8!1.23!15.93!ATOH8;;chr11:46299199..46299233,+!p1@CREB3L1!1.19!74.74!CREB3L1;;chr1:170633348..170633399,+!p2@PRRX1!1.18!19.26!PRRX1;;chr12:54378923..54378966,+!p1@HOXC10!1.14!12.89!HOXC10;;chr10:63853436..63853442,+!p4@ARID5B!1.11!63.59!ARID5B;;chr7:19157043..19157088,-!p2@TWIST1!1.11!29.84!TWIST1;;chr2:85981222..85981259,+!p2@ATOH8!1.10!19.12!ATOH8;;chr7:27205136..27205164,-!p1@HOXA9!1.10!11.73!HOXA9;;chr17:59529743..59529798,+!p1@TBX4!1.09!11.44!TBX4;;chr7:27213893..27213954,-!p1@HOXA10!1.09!11.30!HOXA10;;chr12:53614115..53614154,-!p1@RARG!1.08!59.24!RARG;;chr7:27192185..27192209,-!p1@HOXA3!1.08!11.15!HOXA3;;chr7:27224842..27224872,-!p1@HOXA11!1.08!11.01!HOXA11;;chr3:21792585..21792625,-!p2@ZNF385D!1.07!12.02!ZNF385D;;chr7:27224795..27224840,-!p2@HOXA11!1.06!10.43!HOXA11;;chr6:85474299..85474324,-!p1@TBX18!1.05!18.40!TBX18;;chr17:59477275..59477286,+!p3@TBX2!1.05!13.76!TBX2;;chr18:22932080..22932170,-!p1@ZNF521!1.04!43.16!ZNF521;;chr12:54380404..54380433,+!p3@HOXC10!1.04!9.99!HOXC10;;chr1:170632959..170632987,+!p4@PRRX1!1.03!10.57!PRRX1;;chr10:63809013..63809041,+!p3@ARID5B!1.02!53.74!ARID5B;;chr1:170633262..170633285,+!p3@PRRX1!1.02!10.86!PRRX1;;chr1:44513995..44514031,+!p1@KLF17!1.02!9.56!KLF17;;chr12:54393880..54393962,+!p1@HOXC9!1.02!9.42!HOXC9;;chr7:27205106..27205134,-!p2@HOXA9!1.02!9.42!HOXA9;;chr2:176994408..176994492,+!p1@HOXD8!1.01!9.27!HOXD8;;chr12:54410639..54410659,+!p2@HOXC4,p2@HOXC5,p2@HOXC6!1.01!9.13!HOXC5;;chr1:119530706..119530736,-!p3@TBX15!1.01!9.13!TBX15;;chr15:66994663..66994680,+!p1@SMAD6!0.99!21.15!SMAD6;;chr6:1612248..1612281,+!p2@FOXC1!0.99!9.56!FOXC1;;chr9:96717678..96717689,-!p2@BARX1!0.98!8.55!BARX1;;chr1:23885981..23886002,-!p1@ID3!0.96!1448.03!ID3;;chr10:63809106..63809127,+!p1@ARID5B!0.94!107.77!ARID5B;;chr14:61116168..61116180,-!p2@SIX1!0.94!8.98!SIX1;;chr1:170632477..170632506,+!p6@PRRX1!0.94!7.68!PRRX1;;chr7:17338266..17338282,+!p1@AHR!0.93!84.30!AHR;;chr2:19558373..19558392,-!p1@OSR1!0.93!21.29!OSR1;;chr1:170633058..170633084,+!p5@PRRX1!0.92!7.24!PRRX1;;chr10:63809077..63809089,+!p5@ARID5B!0.91!16.08!ARID5B;;chr16:79634624..79634642,-!p1@MAF!0.90!28.53!MAF;;chr7:28448965..28448994,+!p2@CREB5!0.90!25.35!CREB5;;chr8:67525443..67525459,-!p2@MYBL1!0.90!10.57!MYBL1;;chr1:170632137..170632172,+!p10@PRRX1!0.90!6.95!PRRX1;;chr15:66994561..66994597,+!p2@SMAD6!0.89!16.80!SMAD6;;chr2:85980951..85981004,+!p1@ATOH8!0.89!11.30!ATOH8;;chr1:170632250..170632277,+!p7@PRRX1!0.88!6.66!PRRX1;;chr3:21792790..21792824,-!p4@ZNF385D!0.88!6.52!ZNF385D;;chr7:96654133..96654150,-!p1@DLX5!0.88!6.52!DLX5;;chr15:83953397..83953425,-!p1@BNC1!0.87!7.39!BNC1;;chr15:67458491..67458505,+!p18@SMAD3!0.87!6.37!SMAD3;;chr6:144329384..144329405,-!p1@PLAGL1!0.86!77.35!PLAGL1;;chr2:157189180..157189290,-!p1@NR4A2!0.86!34.62!NR4A2;;chr9:102584262..102584276,+!p1@NR4A3!0.86!14.48!NR4A3;;chr16:79633894..79633954,-!p3@MAF!0.86!12.46!MAF;;chr18:22932004..22932021,-!p2@ZNF521!0.86!6.23!ZNF521;;chr3:21792631..21792665,-!p3@ZNF385D!0.86!6.23!ZNF385D;;chr20:30193083..30193098,+!p1@ID1!0.85!527.82!ID1;;chr6:1389789..1389821,+!p1@FOXF2!0.85!8.55!FOXF2;;chr7:15726296..15726315,-!p1@MEOX2!0.85!6.08!MEOX2;;chr2:45236579..45236596,-!p2@SIX2!0.85!6.08!SIX2;;chr2:85980919..85980942,+!p4@ATOH8!0.84!6.37!ATOH8;;chr6:1612300..1612324,+!p3@FOXC1!0.84!5.94!FOXC1;;chr6:144289132..144289134,-!p3@PLAGL1!0.82!13.76!PLAGL1;;chr8:99956662..99956684,+!p1@OSR2!0.82!8.84!OSR2;;chr1:47903709..47903764,+!p1@BC169308!0.82!6.37!FOXD2;;chr2:85981027..85981047,+!p8@ATOH8!0.82!5.65!ATOH8;;chr8:49833948..49833973,-!p2@SNAI2!0.81!37.80!SNAI2;;chr17:15689487..15689505,+!p@chr17:15689487..15689505,+!0.81!9.56!MEIS3P1;;chrY:21906594..21906622,-!p1@KDM5D!0.81!5.50!KDM5D;;chr11:46299539..46299620,+!p2@CREB3L1!0.80!9.42!CREB3L1;;chr15:66994615..66994630,+!p3@SMAD6!0.79!7.68!SMAD6;;chr1:170632115..170632136,+!p9@PRRX1!0.79!5.21!PRRX1;;chr2:46524537..46524553,+!p1@EPAS1!0.78!546.07!EPAS1;;chr20:48599506..48599526,+!p1@SNAI1!0.78!34.91!SNAI1;;chr16:79634595..79634620,-!p2@MAF!0.78!9.70!MAF;;chr11:65687362..65687436,+!p3@DRAP1!0.77!24.48!DRAP1;;chr13:37494365..37494381,-!p1@SMAD9!0.77!8.98!SMAD9;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!0.77!5.21!GLIS1;;chr7:96654026..96654061,-!p2@DLX5!0.77!4.92!DLX5;;chr7:17338239..17338262,+!p2@AHR!0.76!39.11!AHR;;chr12:53625966..53626012,-!p2@RARG!0.76!13.47!RARG;;chr15:66994718..66994729,+!p4@SMAD6!0.76!4.78!SMAD6;;chr17:59477197..59477212,+!p2@TBX2!0.75!8.40!TBX2;;chr7:27196267..27196311,-!p1@HOXA7!0.75!4.64!HOXA7;;chr19:13106214..13106382,+!p1@NFIX!0.74!115.73!NFIX;;chr5:72744594..72744609,-!p1@FOXD1!0.74!22.74!FOXD1;;chr2:46602901..46602926,+!p7@EPAS1!0.74!6.23!EPAS1;;chr6:45296048..45296082,+!p1@RUNX2!0.74!5.21!RUNX2;;chr12:52448420..52448460,+!p5@NR4A1!0.74!4.49!NR4A1;;chr18:77155922..77155939,+!p1@NFATC1!0.73!13.04!NFATC1;;chr7:17369649..17369664,+!p4@AHR!0.73!5.50!AHR;;chr3:42695180..42695201,+!p2@ZBTB47!0.73!4.35!ZBTB47;;chr2:239756671..239756732,+!p1@TWIST2!0.72!15.06!TWIST2;;chr8:116681409..116681431,-!p2@TRPS1!0.72!12.60!TRPS1;;chr6:1612219..1612239,+!p8@FOXC1!0.72!4.20!FOXC1;;chr7:15725757..15725828,-!p5@MEOX2!0.72!4.20!MEOX2;;chr11:125034640..125034655,+!p1@PKNOX2!0.72!4.20!PKNOX2;;chr12:24102576..24102623,-!p2@SOX5!0.72!4.20!SOX5;;chr14:62162285..62162296,+!p3@HIF1A!0.71!24.04!HIF1A;;chr3:157823517..157823562,-!p1@SHOX2!0.71!4.49!SHOX2;;chr14:75894714..75894733,+!p1@JDP2!0.70!130.51!JDP2;;chr15:66994885..66994904,+!p7@SMAD6!0.70!4.06!SMAD6;;chr21:40032884..40032915,-!p2@ERG!0.70!4.06!ERG;;chr2:46612891..46612907,+!p10@EPAS1!0.70!4.06!EPAS1;;chr2:85981008..85981025,+!p7@ATOH8!0.70!4.06!ATOH8;;chr8:49833978..49833996,-!p1@SNAI2!0.69!92.27!SNAI2;;chr5:72744445..72744466,-!p2@FOXD1!0.69!6.95!FOXD1;;chr10:63851319..63851332,+!p11@ARID5B!0.69!4.35!ARID5B;;chr12:54379029..54379057,+!p2@HOXC10!0.69!3.91!HOXC10;;chr2:8822176..8822196,+!p1@ID2!0.68!620.38!ID2;;chr8:48650715..48650735,-!p1@CEBPD!0.68!562.29!CEBPD;;chr11:65687158..65687216,+!p4@DRAP1!0.68!24.77!DRAP1;;chr7:17338324..17338341,+!p3@AHR!0.68!14.19!AHR;;chr2:46602879..46602899,+!p8@EPAS1!0.68!4.78!EPAS1;;chr7:27196217..27196246,-!p2@HOXA7!0.68!3.77!HOXA7;;chr5:43067636..43067674,+!p6@ZNF131!0.67!5.21!ZNF131;;chr2:191878874..191878938,-!p1@STAT1!0.66!225.82!STAT1;;chr1:8938709..8938720,-!p3@ENO1!0.66!202.93!ENO1;;chr10:63809134..63809145,+!p6@ARID5B!0.66!9.13!ARID5B;;chr19:13136241..13136258,+!p7@NFIX!0.66!5.07!NFIX;;chr2:85980868..85980880,+!p12@ATOH8!0.66!3.62!ATOH8;;chr5:158527104..158527135,-!p4@EBF1!0.66!3.62!EBF1;;chr6:1389989..1390019,+!p2@FOXF2!0.66!3.62!FOXF2;;chr9:4300050..4300118,-!p1@GLIS3!0.65!26.22!GLIS3;;chr9:102584159..102584174,+!p2@NR4A3!0.65!6.81!NR4A3;;chr2:192015701..192015743,-!p1@STAT4!0.65!5.07!STAT4;;chr7:113726357..113726443,+!p1@FOXP2!0.64!6.37!FOXP2;;chr2:239756739..239756755,+!p2@TWIST2!0.64!6.23!TWIST2;;chr19:45260775..45260838,+!p5@BCL3!0.64!4.64!BCL3;;chr1:119530636..119530653,-!p2@TBX15!0.64!3.33!TBX15;;chr2:85981271..85981289,+!p9@ATOH8!0.64!3.33!ATOH8;;chr2:85981969..85982019,+!p6@ATOH8!0.64!3.33!ATOH8;;chr12:52448515..52448538,+!p9@NR4A1!0.64!3.33!NR4A1;;chr19:13135582..13135600,+!p3@NFIX!0.64!3.33!NFIX;;chr7:44143925..44143970,+!p1@AEBP1!0.63!87.34!AEBP1;;chr16:86600426..86600441,+!p1@FOXC2!0.63!8.98!FOXC2;;chr5:158526459..158526481,-!p2@EBF1!0.63!4.64!EBF1;;chr7:150974206..150974255,-!p1@SMARCD3!0.62!23.32!SMARCD3;;chr1:170632439..170632465,+!p11@PRRX1!0.62!3.19!PRRX1;;chr1:170632723..170632739,+!p8@PRRX1!0.62!3.19!PRRX1;;chr10:131762504..131762555,-!p1@EBF3!0.62!3.19!EBF3;;chr13:37494275..37494304,-!p2@SMAD9!0.62!3.19!SMAD9;;chr5:321810..321877,+!p1@AHRR!0.61!11.30!AHRR;;chr7:15726243..15726293,-!p2@MEOX2!0.61!3.04!MEOX2;;chr12:54394309..54394336,+!p2@HOXC9!0.61!3.04!HOXC9;;chr13:37494306..37494324,-!p4@SMAD9!0.61!3.04!SMAD9;;chr1:119530493..119530572,-!p1@TBX15!0.61!3.04!TBX15;;chr1:119530857..119530884,-!p4@TBX15!0.61!3.04!TBX15;;chr14:62162258..62162269,+!p2@HIF1A!0.60!34.33!HIF1A;;chr1:8934931..8934947,-!p4@ENO1!0.60!11.44!ENO1;;chr9:73029219..73029289,-!p2@KLF9!0.60!10.43!KLF9;;chr12:80085061..80085119,-!p6@PAWR!0.60!5.21!PAWR;;chr10:63809090..63809097,+!p7@ARID5B!0.60!4.49!ARID5B;;chr11:65687222..65687240,+!p7@DRAP1!0.60!4.06!DRAP1;;chr16:54320617..54320643,-!p3@IRX3!0.60!4.06!IRX3;;chr10:77161504..77161530,-!p1@ZNF503!0.59!47.51!ZNF503;;chr1:170632683..170632696,+!p12@PRRX1!0.59!2.90!PRRX1;;chr7:1577076..1577095,+!p5@MAFK!0.59!2.90!MAFK;;chr5:139487608..139487663,+!p3@PURA!0.58!6.81!PURA;;chr15:42749722..42749739,-!p2@ZFP106!0.58!5.65!ZFP106;;chr9:102584241..102584261,+!p4@NR4A3!0.58!4.78!NR4A3;;chr7:1577111..1577132,+!p4@MAFK!0.58!3.19!MAFK;;chr7:28220198..28220269,-!p2@JAZF1!0.57!29.98!JAZF1;;chr11:65686732..65686756,+!p2@DRAP1!0.57!13.76!DRAP1;;chr11:65667884..65667895,-!p2@FOSL1!0.57!12.75!FOSL1;;chr7:42276787..42276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+|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000138;;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:0000153;;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
 |ffid_belonging_in_development=CL:0000134
 |fonse_cell_line=
@@ Line 38: / Line 44: @@
 |fonse_treatment_closure=
 |has_quality=
+|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Chondrocyte%2520-%2520de%2520diff%252c%2520donor3.CNhs12020.11410-118E6.hg19.nobarcode.bam
+|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Chondrocyte%2520-%2520de%2520diff%252c%2520donor3.CNhs12020.11410-118E6.hg19.ctss.bed.gz
+|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Chondrocyte%2520-%2520de%2520diff%252c%2520donor3.CNhs12020.11410-118E6.hg19.nobarcode.rdna.fa.gz
+|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Chondrocyte%2520-%2520de%2520diff%252c%2520donor3.CNhs12020.11410-118E6.hg38.nobarcode.bam
+|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Chondrocyte%2520-%2520de%2520diff%252c%2520donor3.CNhs12020.11410-118E6.hg38.nobarcode.ctss.bed.gz
 |id=FF:11410-118E6
 |is_a=EFO:0002091;;FF:0000246
 |is_obsolete=
+|library_id=CNhs12020
+|library_id_phase_based=2:CNhs12020
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11410
+|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10012.GTGAAA.11410
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11410
+|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10012.GTGAAA.11410
 |name=Chondrocyte - de diff, donor3
 |namespace=FANTOM5
@@ Line 46: / Line 65: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12020,LSID837,release011,COMPLETED
-|profile_rnaseq=,,,
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 |rna_box=118
 |rna_catalog_number=CA402-R10a
@@ Line 58: / Line 80: @@
 |rna_rin=
 |rna_sample_type=total RNA
-|rna_tube_id=118E6
+|rna_tube_id=1.18E+08
 |rna_weight_ug=10
+|rnaseq_library_id=SRhi10012.GTGAAA
 |sample_age=56
+|sample_category=primary cells
 |sample_cell_catalog=N/A
 |sample_cell_line=
@@ Line 82: / Line 106: @@
 |top_motifs=FOXL1:2.75262907716;ALX4:2.23686427758;EVI1:1.94309507435;UFEwm:1.9101897632;ESR1:1.78202739107;RXR{A,B,G}:1.74447030985;HES1:1.7094161879;NKX3-1:1.41499340748;NR6A1:1.31435174266;ZNF238:1.30859213839;MAFB:1.29418188935;TFCP2:1.27273165584;ATF6:1.25063574598;SMAD1..7,9:1.20091878196;MYBL2:1.19663159459;HIF1A:1.17189887281;GLI1..3:1.13382935789;ZNF423:1.12603467462;HOX{A4,D4}:1.10694401276;HMGA1,2:1.0856574349;PPARG:1.05282662764;GCM1,2:1.04619617622;TEF:1.01952508311;MTF1:0.989575362929;NFE2L1:0.970464813604;TEAD1:0.967049799547;PRDM1:0.928486005779;TFAP4:0.903187306214;GFI1B:0.887821949864;AIRE:0.886372737095;HSF1,2:0.882476195084;GTF2A1,2:0.877677600114;PAX1,9:0.86974231968;TAL1_TCF{3,4,12}:0.855244209243;ZIC1..3:0.846173259281;MTE{core}:0.82799836302;KLF4:0.817783421373;NR1H4:0.804135524747;NKX2-2,8:0.79237891237;ZNF384:0.748046175389;NKX2-1,4:0.73139465193;TBP:0.727672921311;SPZ1:0.726972262325;HMX1:0.724133254482;GZF1:0.707539810831;HOX{A6,A7,B6,B7}:0.68095073575;XBP1:0.680906059333;IKZF1:0.676669061033;HIC1:0.657089846501;NR3C1:0.619293646671;TFAP2{A,C}:0.617618252456;GTF2I:0.60157614134;EBF1:0.599033589275;RREB1:0.59308319289;TFAP2B:0.590427732477;EN1,2:0.585531133382;TLX1..3_NFIC{dimer}:0.56539101956;BPTF:0.549646261968;NFATC1..3:0.515288640362;RXRA_VDR{dimer}:0.50924561629;RXR{A,B,G}_{NR1H2,PPAR}dimers:0.499508715599;MAZ:0.466970474088;ZBTB6:0.458537349587;XCPE1{core}:0.449235212832;PATZ1:0.419664543591;FOXD3:0.415069758376;STAT2,4,6:0.40721794778;NANOG{mouse}:0.405672438887;GATA4:0.404093769062;POU6F1:0.402572426788;HOX{A5,B5}:0.381231690666;PAX5:0.376883415646;HAND1,2:0.36120003597;TOPORS:0.36011116325;POU1F1:0.351372127357;YY1:0.295824510984;CDC5L:0.271233809433;POU5F1:0.246622740227;SOX5:0.246544444109;ESRRA:0.23259107218;ZNF148:0.231968642134;EP300:0.198491059117;HLF:0.19550561273;LHX3,4:0.189531835568;SRF:0.160683877897;MYFfamily:0.128798524631;MZF1:0.100788226528;TP53:0.0560785251799;REST:0.0531742498315;IRF1,2:0.0364280958858;NHLH1,2:0.033720471109;MYB:0.0285504857857;PAX4:0.0256853963587;NKX6-1,2:0.0104679975274;NFE2L2:0.00782671362951;AHR_ARNT_ARNT2:0.004384998201;ARID5B:0.00205704154509;VSX1,2:-0.0113009739217;STAT5{A,B}:-0.0310482006653;FOXO1,3,4:-0.0500661876804;SP1:-0.0630993360799;EGR1..3:-0.0739318171782;AR:-0.0785091015438;FOXP3:-0.101529315164;HNF1A:-0.109344440922;MED-1{core}:-0.118369160265;MEF2{A,B,C,D}:-0.128023570568;TBX4,5:-0.166522259144;RFX1:-0.179190763384;NR5A1,2:-0.180496727715;CEBPA,B_DDIT3:-0.18438631368;DMAP1_NCOR{1,2}_SMARC:-0.184949589285;BACH2:-0.197431797412;NKX3-2:-0.204170958538;FOX{I1,J2}:-0.207953319209;PAX6:-0.210546047841;CREB1:-0.222830810199;LMO2:-0.244575563174;PRRX1,2:-0.245031230423;FOS_FOS{B,L1}_JUN{B,D}:-0.252279888867;HBP1_HMGB_SSRP1_UBTF:-0.254602000638;STAT1,3:-0.284677480457;CDX1,2,4:-0.286070286295;TFDP1:-0.290640303961;FOXM1:-0.316173035938;ZBTB16:-0.328264994395;ONECUT1,2:-0.349162323453;FOXP1:-0.364716231883;FOX{D1,D2}:-0.37992685958;bHLH_family:-0.38540693172;NKX2-3_NKX2-5:-0.401333510163;HNF4A_NR2F1,2:-0.409338330805;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.420778177812;ZFP161:-0.422561676127;ELK1,4_GABP{A,B1}:-0.440212118888;ZNF143:-0.459485022243;NRF1:-0.461839382698;NFKB1_REL_RELA:-0.466851617843;NFE2:-0.466876492192;NFIX:-0.470381939427;PDX1:-0.479425966067;IKZF2:-0.489446310891;RUNX1..3:-0.49234401963;ATF4:-0.503931663951;NFIL3:-0.504812973296;ATF5_CREB3:-0.516382441011;FOSL2:-0.520364749738;SREBF1,2:-0.52250338841;BREu{core}:-0.542617147746;FOXA2:-0.562437525715;DBP:-0.581184723528;ATF2:-0.58547850306;SNAI1..3:-0.585815304582;LEF1_TCF7_TCF7L1,2:-0.591155892713;ADNP_IRX_SIX_ZHX:-0.596567840901;GFI1:-0.655335342819;E2F1..5:-0.665022864612;RFX2..5_RFXANK_RFXAP:-0.675481375069;FOX{F1,F2,J1}:-0.693026004556;HOXA9_MEIS1:-0.695848062462;SOX17:-0.704468632555;PAX3,7:-0.725917412617;JUN:-0.753666257778;IRF7:-0.769296119879;RBPJ:-0.7878629905;ETS1,2:-0.804418690395;SPI1:-0.839351889042;SPIB:-0.867882686479;PITX1..3:-0.886120356443;FOXN1:-0.904417707126;PAX8:-0.918909131802;ZEB1:-0.950734512729;ELF1,2,4:-0.968940987021;SOX2:-0.976725568823;T:-0.999572189398;POU3F1..4:-1.01737478427;FOXQ1:-1.10531938743;TLX2:-1.13253638956;CRX:-1.14716054917;PBX1:-1.20234675415;NFY{A,B,C}:-1.2116720638;PAX2:-1.22336618771;TGIF1:-1.22596969745;CUX2:-1.24843525417;GATA6:-1.46959036159;POU2F1..3:-1.47482966665;OCT4_SOX2{dimer}:-1.47683979413;ALX1:-1.52669045229;RORA:-1.53064129762;MYOD1:-1.5456326901;SOX{8,9,10}:-1.66229448934;NANOG:-1.72086660471
 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11410-118E6;search_select_hide=table117:FF:11410-118E6
 }}

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FF:11410-118E6: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 17:59, 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