FF:11573-120E7: Difference between revisions

Latest revision as of 18:10, 4 June 2020

Name:	Meningeal Cells, donor2
Species:	Human (Homo sapiens)
Library ID:	CNhs12080
Sample type:	primary cells
Genomic View:	UCSC
RefEX:	Specific genes
FANTOM CAT:	1, 2, 3, 4
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

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

RNA information

lot number	NA
catalog number	SC1405
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00004872

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12080		CAGE		DRX008342		DRR009214

Accession ID Hg19

Library id		BAM		CTSS
CNhs12080		DRZ000639		DRZ002024

Accession ID Hg38

Library id		BAM		CTSS
CNhs12080		DRZ011989		DRZ013374

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		SAMD00004872

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
SRhi10002.ATGTCA		sRNA-Seq		DRX037002		DRR041368

Accession ID Hg19

Library id		BAM		CTSS
SRhi10002.ATGTCA		DRZ007010

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	-0.147
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	0.128
C11-cerebellum-medulla-pons-parietal-occipital-middle-medial	0
C110-leukemia-chronic-Eosinophils-acute-Whole-CD34-Lymphatic	0
C111-medulla-lung-trachea-testis-caudate-epididymis-throat	0
C112-gastric-pancreas-temporal-duodenum-small-extraskeletal-adrenal	0
C113-thyroid-throat-lung-lymph-small-colon-trachea	0
C114-teratocarcinoma-medulloblastoma-carcinosarcoma-iPS-anaplastic-acute-neuroblastoma	0
C115-pituitary-Neural-caudate-putamen-amygdala-medulla-hippocampus	0
C116-myeloma-xeroderma-tonsil-CD19-spleen-lymph-trachea	0
C117-serous-clear-kidney-neuroectodermal-mesothelioma-endometrial-Intestinal	0
C118-cerebellum-parietal-occipital-medial-middle-frontal-insula	0
C119-CD4-CD8-Natural-Neutrophils-CD14-Peripheral-CD19	0
C12-Mast-Basophils-immature-chorionic-mature-CD14-Eosinophils	0
C120-immature-salivary-tongue-skin-cervical-CD14-CD34	0
C121-NK-Natural-CD8-CD4-anaplastic-chronic-B	0
C122-chronic-Reticulocytes-skeletal-leukemia-acute-colon-Tracheal	0
C123-CD19-Natural-CD8-CD4-CD14-Peripheral-Basophils	0
C124-small-temporal-duodenum-colon-gall-signet-Hepatocyte	0
C125-mucinous-alveolar-mesothelioma-Smooth-lung-CD14-Nucleus	0
C126-gastrointestinal-argyrophil-smallcell-merkel-bile-insula-brain	0
C127-maxillary-small-hepatoblastoma-hepatocellular-alveolar-colon-argyrophil	0
C128-testicular-choriocarcinoma-H9-teratocarcinoma-pancreatic-iPS-HES3GFP	0
C129-liver-Hepatocyte-colon-duodenum-temporal-testicular-small	0
C13-Neutrophils-Eosinophils-CD14-Monocytederived-Whole-Peripheral-CD4	0
C130-iPS-HES3GFP-H9-teratocarcinoma-testicular-colon-Alveolar	0
C131-lung-trachea-Alveolar-thyroid-umbilical-throat-skin	0
C132-acute-small-Dendritic-Macrophage-CD14-Neutrophils-Monocytederived	0
C133-signet-gall-small-kidney-colon-ductal-adenocarcinoma	0
C134-skeletal-diaphragm-tongue-throat-Skeletal-skin-penis	0
C135-neuroblastoma-retinoblastoma-carcinoid-choriocarcinoma-testicular-acute-rectum	0
C136-Wilms-extraskeletal-anaplastic-rhabdomyosarcoma-cholangiocellular-nonsmall-neuroectodermal	0
C137-large-ductal-melanoma-cervical-Endothelial-Smooth-chronic	0
C138-diffuse-Burkitt-lymphangiectasia-lymphoma-acute-CD19-pineal	0
C139-astrocytoma-skin-salivary-gall-serous-Mallassezderived-renal	0
C14-Whole-blood-Reticulocytes-liver-Neutrophils-Eosinophils-spleen	0
C140-Renal-Endothelial-Hepatic-Lymphatic-heart-lung-spleen	0
C141-Hodgkin-acute-thymus-chronic-vein-CD4-B	0
C142-Preadipocyte-Fibroblast-hepatic-Ewing-Adipocyte-Olfactory-Hair	0
C143-Monocytederived-CD14-Macrophage-Dendritic-Basophils-CD14CD16-Osteoblast	0
C144-CD4-tonsil-NK-appendix-CD8-splenic-mycosis	0
C145-neuroblastoma-peripheral-neuroectodermal-neuroepithelioma-carcinoid-adult-extraskeletal	0
C146-lymphangiectasia-lymphoma-gall-lymph-tonsil-gastric-transitionalcell	0
C147-Neutrophils-Eosinophils-CD4-CD14-CD8-Natural-Peripheral	0
C148-kidney-small-epididymis-pancreas-serous-duodenum-temporal	0
C149-occipital-medial-brain-amygdala-parietal-cerebral-cerebellum	0
C15-anaplastic-small-skeletal-neuroblastoma-parietal-temporal-tongue	0
C150-merkel-carcinoid-nonsmall-gastrointestinal-argyrophil-pineal-small	0
C151-CD14-Natural-Basophils-CD8-Eosinophils-CD4-Mast	0
C152-peripheral-neuroectodermal-neuroepithelioma-neuroblastoma-testicular-carcinoid-lung	0
C153-rhabdomyosarcoma-liposarcoma-pancreatic-somatostatinoma-Reticulocytes-lymphoma-testicular	0
C154-adenocarcinoma-Mesenchymal-Cardiac-small-sacrococcigeal-Smooth-Prostate	0
C155-pituitary-placenta-nonsmall-cervical-smallcell-choriocarcinoma-epitheloid	0
C156-plasma-splenic-hereditary-B-large-xeroderma-b	0
C157-testicular-H9-testis-iPS-teratocarcinoma-colon-trachea	0
C158-adrenal-gastric-temporal-parietal-duodenum-caudate-putamen	0
C159-choriocarcinoma-pancreatic-placenta-chorionic-testicular-bronchioalveolar-seminal	0
C16-medial-amygdala-occipital-parietal-olfactory-putamen-brain	0
C160-medulla-Hepatocyte-retina-corpus-liver-pineal-cerebral	0
C161-mesothelioma-Mesothelial-acute-mesenchymal-extraskeletal-renal-placenta	0
C162-spinal-locus-medulla-substantia-thalamus-globus-diencephalon	0
C163-Skeletal-skeletal-Pericytes-Hepatic-rhabdomyosarcoma-throat-mesenchymal	0
C164-signet-corpus-optic-mucinous-substantia-salivary-choriocarcinoma	0
C165-epithelioid-Adipocyte-mesothelioma-myxofibrosarcoma-lung-gastric-Mesothelial	0
C166-Macrophage-Monocytederived-Dendritic-adipose-lymph-CD14-lung	0
C167-Basophils-Mast-Eosinophils-Neutrophils-Peripheral-Whole-CD4	0
C168-Mast-CD14-immature-Basophils-Eosinophils-CD34-Peripheral	0
C169-hereditary-adult-gall-lymphangiectasia-chronic-b-choriocarcinoma	0
C17-Mast-CD14-Monocytederived-Lymphatic-Smooth-mesenchymal-Macrophage	0
C170-epitheloid-cervical-Hep2-keratoacanthoma-adult-neuroblastoma-signet	0
C171-merkel-neuroblastoma-pineal-retinoblastoma-carcinoid-small-eye	0
C172-chorionic-skeletal-tongue-amniotic-liver-gastrointestinal-Pericytes	0.438
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	-0.0305
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19	-0.272
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	-0.341
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	0.0915
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	-0.191
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	-0.217
C223-Chondrocyte-basal-renal-Fibroblast-Smooth-spindle-Synoviocyte	0
C224-clear-serous-pleomorphic-choriocarcinoma-mesothelioma-amniotic-renal	0
C225-ductal-alveolar-giant-prostate-salivary-squamous-Tracheal	0
C226-Corneal-Keratinocyte-Esophageal-Urothelial-Mammary-Bronchial-Tracheal	0
C227-chorionic-amniotic-Mesenchymal-Placental-gastric-diaphragm-tongue	0
C228-colon-Intestinal-Prostate-hepatoblastoma-hepatocellular-testis-adult	0
C229-Mesenchymal-CD4-Melanocyte-acute-skeletal-left-heart	0
C23-CD4-CD8-Natural-Peripheral-Basophils-CD19-CD14	0
C230-aorta-normal-heart-penis-osteosarcoma-basal-lung	0
C231-Mesothelial-mesenchymal-mesothelioma-Fibroblast-Preadipocyte-leiomyoma-mycosis	0
C232-teratocarcinoma-HES3GFP-H9-iPS-testicular-neuroblastoma-cerebellum	0
C233-uterus-cervix-ovary-epididymis-colon-rectum-MCF7	0
C234-oral-epidermoid-malignant-cervical-ductal-lung-keratoacanthoma	0
C235-Intestinal-Prostate-liver-colon-small-kidney-pancreas	0
C236-CD14-Neutrophils-Monocytederived-renal-Eosinophils-testis-mesothelioma	0
C237-acute-breast-testicular-hepatoblastoma-chronic-argyrophil-Bronchial	0
C238-stomach-gall-breast-duodenum-temporal-MCF7-smallcell	0
C239-CD4-lymphangiectasia-CD8-NK-mycosis-Renal-hairy	0
C24-pineal-eye-retina-retinoblastoma-medulloblastoma-small-cerebral	0
C240-Adipocyte-Preadipocyte-Osteoblast-Chondrocyte-tenocyte-Synoviocyte-mesenchymal	0
C241-Reticulocytes-chronic-Tracheal-Hodgkin-Endothelial-Hair-thymus	0.214
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	-0.00465
C247-pons-locus-medulla-spinal-paracentral-medial-occipital	0
C248-iPS-Aortic-Hep2-amygdala-acute-medial-Myoblast	0
C249-nonsmall-small-smallcell-occipital-somatostatinoma-maxillary-medial	0
C25-small-colon-temporal-duodenum-liver-Hepatocyte-gall	0
C250-Mast-Neutrophils-CD14-Eosinophils-CD8-Peripheral-CD4	0
C251-gall-tonsil-trachea-CD14-salivary-throat-tongue	0
C252-hepatic-Olfactory-sacrococcigeal-leiomyoma-normal-Synoviocyte-glioblastoma	0
C253-spleen-rhabdomyosarcoma-Hepatocyte-small-uterus-liver-rectum	0
C254-prostate-rhabdomyosarcoma-seminal-Fibroblast-transitionalcell-Smooth-Iris	0
C255-Wilms-leiomyoblastoma-kidney-adrenal-MCF7-epithelioid-Mast	0
C256-occipital-caudate-amygdala-medial-thalamus-hippocampus-medulla	0
C257-pineal-insula-frontal-occipital-temporal-medial-paracentral	0
C258-hepatoblastoma-hepatocellular-signet-colon-Intestinal-Prostate-gastric	0
C259-Preadipocyte-Adipocyte-Fibroblast-Chondrocyte-tenocyte-normal-Ewing	0
C26-Eosinophils-Neutrophils-CD14-CD14CD16-Basophils-Monocytederived-Whole	0
C260-acute-chronic-Natural-NK-Basophils-biphenotypic-blood	0
C261-locus-medial-parietal-pons-diencephalon-olfactory-spinal	0
C262-breast-MCF7-skeletal-Reticulocytes-mucinous-hepatoblastoma-Wilms	0
C263-cervical-keratoacanthoma-tongue-skin-esophagus-throat-tonsil	0
C264-giant-keratoacanthoma-colon-fibrosarcoma-HES3GFP-Hep2-acute	0
C265-CD4-Eosinophils-CD14-Natural-CD19-Basophils-CD8	-0.0231
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	0.35
C282-acute-B-tonsil-CD19-submaxillary-lymph-throat	0
C283-tenocyte-Chondrocyte-mesenchymal-Macrophage-pleomorphic-Synoviocyte-cholangiocellular	0
C284-parietal-occipital-medial-temporal-olfactory-locus-hippocampus	0
C285-cervical-Hep2-small-colon-temporal-duodenum-bronchogenic	0
C286-cerebellum-occipital-optic-parietal-globus-caudate-medial	0
C287-Hepatocyte-Chondrocyte-Adipocyte-Synoviocyte-liver-tenocyte-mesenchymal	0
C288-Chondrocyte-Renal-Pericytes-Fibroblast-aorta-Smooth-Meningeal	0.363
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	0.157
C293-CD14-CD14CD16-Basophils-Peripheral-immature-Eosinophils-CD34	0
C294-CD14-Macrophage-Monocytederived-CD14CD16-Neutrophils-Basophils-Peripheral	0
C295-Fibroblast-Smooth-Myoblast-Chondrocyte-hepatic-Synoviocyte-Preadipocyte	0.409
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	0.157
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	0.272
C6-CD14-Eosinophils-Basophils-Peripheral-CD34-Natural-immature	0
C60-esophagus-tonsil-throat-tongue-uterus-cervix-cervical	0
C61-migratory-Dendritic-immature-Macrophage-xeroderma-cord-b	0
C62-Burkitt-tonsil-CD19-submaxillary-spleen-salivary-lymph	0
C63-neuroectodermal-neuroblastoma-carcinoid-peripheral-chronic-neuroepithelioma-acute	0
C64-Mast-chronic-acute-immature-chorionic-Basophils-Dendritic	0
C65-CD14-Eosinophils-Monocytederived-Basophils-immature-Macrophage-Neutrophils	0
C66-cerebellum-middle-occipital-parietal-medial-amygdala-hippocampus	0
C67-CD14-Monocytederived-Macrophage-dura-Dendritic-spleen-lung	0
C68-amniotic-chorionic-Placental-salivary-placenta-tongue-mesothelioma	0
C69-anaplastic-CD14-cord-hairy-mycosis-adult-NK	0
C7-CD14-Eosinophils-Neutrophils-Smooth-Basophils-Macrophage-Mast	0
C70-parotid-submaxillary-salivary-throat-trachea-aorta-tongue	0
C71-Monocytederived-Macrophage-CD14-Dendritic-Osteoblast-leiomyoma-Prostate	0
C72-skeletal-tongue-throat-heart-diaphragm-penis-left	0
C73-pineal-eye-retina-caudate-cerebellum-left-parietal	0
C74-splenic-B-b-plasma-xeroderma-lymphoma-hairy	0
C75-Eosinophils-Natural-CD8-Basophils-CD14-CD4-Peripheral	0
C76-argyrophil-gastrointestinal-temporal-duodenum-neuroblastoma-merkel-smallcell	0
C77-Saos2-osteosarcoma-Neutrophils-Natural-Chondrocyte-Basophils-CD8	0
C78-lymphoma-plasma-tonsil-appendix-lymph-seminal-trachea	0
C79-chorionic-Chondrocyte-Cardiac-Smooth-Fibroblast-Preadipocyte-Mesenchymal	0.396
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: CNhs12080

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.493
MA0003.1	MA0003.1	0.629
MA0004.1	MA0004.1	0.414
MA0006.1	MA0006.1	0.298
MA0007.1	MA0007.1	0.165
MA0009.1	MA0009.1	0.242
MA0014.1	MA0014.1	0.294
MA0017.1	MA0017.1	0.715
MA0018.2	MA0018.2	2.89333e-5
MA0019.1	MA0019.1	0.11
MA0024.1	MA0024.1	0.307
MA0025.1	MA0025.1	0.126
MA0027.1	MA0027.1	0.539
MA0028.1	MA0028.1	0.353
MA0029.1	MA0029.1	0.953
MA0030.1	MA0030.1	0.067
MA0031.1	MA0031.1	0.062
MA0035.2	MA0035.2	0.202
MA0038.1	MA0038.1	0.0026
MA0039.2	MA0039.2	0.719
MA0040.1	MA0040.1	0.129
MA0041.1	MA0041.1	0.162
MA0042.1	MA0042.1	0.502
MA0043.1	MA0043.1	0.0128
MA0046.1	MA0046.1	0.205
MA0047.2	MA0047.2	0.96
MA0048.1	MA0048.1	0.283
MA0050.1	MA0050.1	8.2498e-4
MA0051.1	MA0051.1	0.013
MA0052.1	MA0052.1	0.843
MA0055.1	MA0055.1	0.0351
MA0057.1	MA0057.1	0.391
MA0058.1	MA0058.1	0.761
MA0059.1	MA0059.1	0.874
MA0060.1	MA0060.1	1.17154e-6
MA0061.1	MA0061.1	0.0246
MA0062.2	MA0062.2	5.11586e-4
MA0065.2	MA0065.2	0.61
MA0066.1	MA0066.1	0.817
MA0067.1	MA0067.1	1.06363e-4
MA0068.1	MA0068.1	0.272
MA0069.1	MA0069.1	0.62
MA0070.1	MA0070.1	0.0594
MA0071.1	MA0071.1	0.377
MA0072.1	MA0072.1	0.979
MA0073.1	MA0073.1	0.981
MA0074.1	MA0074.1	0.868
MA0076.1	MA0076.1	0.103
MA0077.1	MA0077.1	0.794
MA0078.1	MA0078.1	0.837
MA0079.2	MA0079.2	0.714
MA0080.2	MA0080.2	4.44895e-6
MA0081.1	MA0081.1	0.172
MA0083.1	MA0083.1	0.013
MA0084.1	MA0084.1	0.822
MA0087.1	MA0087.1	0.615
MA0088.1	MA0088.1	0.944
MA0090.1	MA0090.1	0.00109
MA0091.1	MA0091.1	0.108
MA0092.1	MA0092.1	0.722
MA0093.1	MA0093.1	0.476
MA0099.2	MA0099.2	0.565
MA0100.1	MA0100.1	0.748
MA0101.1	MA0101.1	0.113
MA0102.2	MA0102.2	0.00312
MA0103.1	MA0103.1	0.032
MA0104.2	MA0104.2	0.696
MA0105.1	MA0105.1	0.0484
MA0106.1	MA0106.1	0.797
MA0107.1	MA0107.1	0.0671
MA0108.2	MA0108.2	1.93066e-5
MA0111.1	MA0111.1	0.299
MA0112.2	MA0112.2	0.404
MA0113.1	MA0113.1	0.0151
MA0114.1	MA0114.1	0.846
MA0115.1	MA0115.1	0.74
MA0116.1	MA0116.1	0.12
MA0117.1	MA0117.1	0.163
MA0119.1	MA0119.1	0.862
MA0122.1	MA0122.1	0.439
MA0124.1	MA0124.1	0.574
MA0125.1	MA0125.1	0.354
MA0131.1	MA0131.1	0.897
MA0135.1	MA0135.1	0.101
MA0136.1	MA0136.1	2.21654e-8
MA0137.2	MA0137.2	0.872
MA0138.2	MA0138.2	0.757
MA0139.1	MA0139.1	0.969
MA0140.1	MA0140.1	0.2
MA0141.1	MA0141.1	0.0476
MA0142.1	MA0142.1	0.383
MA0143.1	MA0143.1	0.834
MA0144.1	MA0144.1	0.82
MA0145.1	MA0145.1	0.845
MA0146.1	MA0146.1	0.0724
MA0147.1	MA0147.1	0.954
MA0148.1	MA0148.1	0.653
MA0149.1	MA0149.1	0.14
MA0150.1	MA0150.1	0.0131
MA0152.1	MA0152.1	0.221
MA0153.1	MA0153.1	0.826
MA0154.1	MA0154.1	0.704
MA0155.1	MA0155.1	0.0479
MA0156.1	MA0156.1	8.10114e-4
MA0157.1	MA0157.1	0.62
MA0159.1	MA0159.1	0.693
MA0160.1	MA0160.1	0.339
MA0162.1	MA0162.1	0.0682
MA0163.1	MA0163.1	0.429
MA0164.1	MA0164.1	0.471
MA0258.1	MA0258.1	0.144
MA0259.1	MA0259.1	0.78

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: CNhs12080

Novel motif	Logo	P-value
1	1	0.221
10	10	0.00318
100	100	0.335
101	101	0.204
102	102	0.0298
103	103	0.342
104	104	0.574
105	105	0.126
106	106	0.996
107	107	0.457
108	108	0.825
109	109	0.966
11	11	0.943
110	110	0.272
111	111	0.297
112	112	0.498
113	113	0.101
114	114	0.633
115	115	0.501
116	116	0.305
117	117	0.174
118	118	0.0433
119	119	0.226
12	12	0.404
120	120	0.457
121	121	0.925
122	122	0.446
123	123	0.00283
124	124	0.397
125	125	0.545
126	126	0.824
127	127	0.603
128	128	0.354
129	129	0.611
13	13	0.272
130	130	0.134
131	131	0.886
132	132	0.679
133	133	0.899
134	134	0.023
135	135	0.48
136	136	0.735
137	137	0.00376
138	138	0.094
139	139	0.181
14	14	0.322
140	140	0.547
141	141	0.55
142	142	0.979
143	143	0.322
144	144	0.568
145	145	0.698
146	146	0.0719
147	147	0.311
148	148	0.165
149	149	0.451
15	15	0.52
150	150	0.0594
151	151	0.328
152	152	0.833
153	153	0.312
154	154	0.00469
155	155	0.0121
156	156	0.828
157	157	0.69
158	158	0.0975
159	159	0.877
16	16	0.476
160	160	0.456
161	161	0.392
162	162	0.178
163	163	0.752
164	164	0.138
165	165	0.121
166	166	0.78
167	167	0.0619
168	168	0.586
169	169	0.218
17	17	0.536
18	18	0.126
19	19	0.248
2	2	0.195
20	20	0.246
21	21	0.397
22	22	0.172
23	23	0.947
24	24	0.284
25	25	0.782
26	26	0.82
27	27	0.182
28	28	0.0976
29	29	0.397
3	3	0.5
30	30	0.0436
31	31	0.713
32	32	9.33444e-6
33	33	0.727
34	34	0.129
35	35	0.369
36	36	0.112
37	37	0.319
38	38	0.477
39	39	0.233
4	4	0.84
40	40	0.609
41	41	0.716
42	42	0.979
43	43	0.598
44	44	0.559
45	45	0.321
46	46	0.79
47	47	0.723
48	48	0.818
49	49	0.574
5	5	0.545
50	50	0.642
51	51	0.803
52	52	0.968
53	53	0.264
54	54	0.923
55	55	0.44
56	56	0.669
57	57	0.666
58	58	0.125
59	59	0.342
6	6	0.343
60	60	0.652
61	61	0.896
62	62	0.183
63	63	0.503
64	64	0.451
65	65	0.0876
66	66	0.0407
67	67	0.928
68	68	0.97
69	69	0.413
7	7	0.901
70	70	0.376
71	71	0.234
72	72	0.223
73	73	0.797
74	74	0.573
75	75	0.516
76	76	0.0962
77	77	0.306
78	78	0.228
79	79	0.0468
8	8	0.236
80	80	0.122
81	81	0.0974
82	82	0.203
83	83	0.942
84	84	0.0507
85	85	0.71
86	86	0.162
87	87	0.901
88	88	0.57
89	89	0.252
9	9	0.216
90	90	0.216
91	91	0.313
92	92	0.755
93	93	0.47
94	94	0.929
95	95	0.481
96	96	0.171
97	97	0.389
98	98	0.923
99	99	9.39591e-4

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: CNhs12080

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000091 human leptomeningeal cell sample

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

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0000151 (secretory cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000499 (stromal cell)
0000327 (extracellular matrix secreting cell)
0000255 (eukaryotic cell)
0000708 (leptomeningeal cell)

UBERON: Anatomy
0002384 (connective tissue)
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)
0000119 (cell layer)
0003210 (blood-cerebrospinal fluid barrier)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000091 (human leptomeningeal cell sample)

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

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008234
+|DRA_sample_Accession=CAGE@SAMD00004872
-|accession_numbers=CAGE;DRX008342;DRR009214;DRZ000639;DRZ002024
+|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00004872
+|accession_numbers=CAGE;DRX008342;DRR009214;DRZ000639;DRZ002024;DRZ011989;DRZ013374
+|accession_numbers_RNASeq=sRNA-Seq;DRX037002;DRR041368;DRZ007010
 |ancestors_in_anatomy_facet=UBERON:0002384,UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062,UBERON:0000119,UBERON:0003210
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000151,CL:0002320,CL:0002371,CL:0000499,CL:0000327,CL:0000255,CL:0000708
@@ Line 9: / Line 11: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
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+|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000151;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000327;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000499;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000708
 |ffid_belonging_in_development=CL:0000134
 |fonse_cell_line=
@@ Line 40: / Line 44: @@
 |fonse_treatment_closure=
 |has_quality=
+|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Meningeal%2520Cells%252c%2520donor2.CNhs12080.11573-120E7.hg19.nobarcode.bam
+|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Meningeal%2520Cells%252c%2520donor2.CNhs12080.11573-120E7.hg19.ctss.bed.gz
+|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Meningeal%2520Cells%252c%2520donor2.CNhs12080.11573-120E7.hg19.nobarcode.rdna.fa.gz
+|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Meningeal%2520Cells%252c%2520donor2.CNhs12080.11573-120E7.hg38.nobarcode.bam
+|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Meningeal%2520Cells%252c%2520donor2.CNhs12080.11573-120E7.hg38.nobarcode.ctss.bed.gz
 |id=FF:11573-120E7
 |is_a=EFO:0002091;;FF:0000091
 |is_obsolete=
 |library_id=CNhs12080
-|library_ids=CNhs12080
+|library_id_phase_based=2:CNhs12080
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11573
+|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10002.ATGTCA.11573
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11573
+|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10002.ATGTCA.11573
 |name=Meningeal Cells, donor2
 |namespace=FANTOM5
@@ Line 50: / Line 65: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12080,LSID838,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=SRhi10002,,,
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@@ Line 64: / Line 80: @@
 |rna_rin=9.6
 |rna_sample_type=total RNA
-|rna_tube_id=120E7
+|rna_tube_id=1.20E+09
 |rna_weight_ug=10
+|rnaseq_library_id=SRhi10002.ATGTCA
 |sample_age=
 |sample_category=primary cells
@@ Line 89: / Line 106: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11573-120E7;search_select_hide=table117:FF:11573-120E7
 }}

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FF:11573-120E7: Difference between revisions

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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