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{{f5samples
{{f5samples
|DRA_sample_Accession=CAGE@SAMD00005891
|DRA_sample_Accession=CAGE@SAMD00005891
|accession_numbers=CAGE;DRX007882;DRR008754;DRZ000179;DRZ001564
|accession_numbers=CAGE;DRX007882;DRR008754;DRZ000179;DRZ001564;DRZ011529;DRZ012914
|ancestors_in_anatomy_facet=
|ancestors_in_anatomy_facet=
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000066,CL:0000255
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000066,CL:0000255
Line 40: Line 40:
|fonse_treatment_closure=
|fonse_treatment_closure=
|has_quality=
|has_quality=
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/epitheloid%2520carcinoma%2520cell%2520line%253a%2520HelaS3%2520ENCODE%252c%2520biol_rep1.CNhs12325.10815-111B5.hg19.nobarcode.bam
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/epitheloid%2520carcinoma%2520cell%2520line%253a%2520HelaS3%2520ENCODE%252c%2520biol_rep1.CNhs12325.10815-111B5.hg19.ctss.bed.gz
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/epitheloid%2520carcinoma%2520cell%2520line%253a%2520HelaS3%2520ENCODE%252c%2520biol_rep1.CNhs12325.10815-111B5.hg19.nobarcode.rdna.fa.gz
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.cell_line.hCAGE/epitheloid%2520carcinoma%2520cell%2520line%253a%2520HelaS3%2520ENCODE%252c%2520biol_rep1.CNhs12325.10815-111B5.hg38.nobarcode.bam
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.cell_line.hCAGE/epitheloid%2520carcinoma%2520cell%2520line%253a%2520HelaS3%2520ENCODE%252c%2520biol_rep1.CNhs12325.10815-111B5.hg38.nobarcode.ctss.bed.gz
|id=FF:10815-111B5
|id=FF:10815-111B5
|is_a=EFO:0002091;;FF:0011472
|is_a=EFO:0002091;;FF:0011472
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|library_id=CNhs12325
|library_id=CNhs12325
|library_id_phase_based=2:CNhs12325
|library_id_phase_based=2:CNhs12325
|name="epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep1"
|microRNAs=
|microRNAs_nn=
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;10815
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;10815
|name=epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep1
|namespace=FANTOM5
|namespace=FANTOM5
|part_of=
|part_of=
|profile_cagescan=,,,
|profile_cagescan=,,,
|profile_hcage="CNhs12325,LSID913,release011,COMPLETED"
|profile_hcage=CNhs12325,LSID913,release011,COMPLETED
|profile_rnaseq=
|profile_rnaseq=
|profile_srnaseq=",,,"
|profile_srnaseq=,,,
|refex=http://refex.dbcls.jp/genelist.php?lang
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Line 89: Line 99:
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|top_motifs=ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:2.14952121247;E2F1..5:1.97048122569;FOXD3:1.66725221359;ELK1,4_GABP{A,B1}:1.51501290189;YY1:1.48694692831;NFY{A,B,C}:1.3958210405;FOXQ1:1.37176949599;PITX1..3:1.36345349252;ZNF143:1.30297748185;HOX{A6,A7,B6,B7}:1.28737933867;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.26919241033;TFDP1:1.23739219526;ESRRA:1.15221271079;TOPORS:1.12628103504;NRF1:1.10167114362;POU2F1..3:1.09062211436;ZNF148:1.04344284586;MYB:1.03103971824;bHLH_family:1.02181878413;AIRE:0.981607582385;PAX8:0.89249533351;ZBTB16:0.886447207952;NR5A1,2:0.868342710845;NR6A1:0.837139198133;TEF:0.816235726017;PPARG:0.803118810256;FOX{I1,J2}:0.793900144953;POU3F1..4:0.792025134995;GFI1:0.771811871384;VSX1,2:0.759980328746;ARID5B:0.736404665759;SOX{8,9,10}:0.710305216463;HNF4A_NR2F1,2:0.619264674755;PAX1,9:0.607702829915;NKX3-2:0.594640695386;FOXN1:0.508167880096;FOXP1:0.486700468297;POU1F1:0.482536017456;CDX1,2,4:0.473422014736;IKZF1:0.471660083112;FOXM1:0.462254982996;HBP1_HMGB_SSRP1_UBTF:0.438059197223;BREu{core}:0.435096075722;CUX2:0.413789961006;PAX3,7:0.405390108059;NFIX:0.366624279527;ELF1,2,4:0.366045421443;PAX4:0.349707444934;NKX2-1,4:0.344783049682;EVI1:0.343438407529;STAT5{A,B}:0.335269326167;HOXA9_MEIS1:0.309670011126;TLX2:0.303564247576;ZNF384:0.301079254473;RFX2..5_RFXANK_RFXAP:0.295928648727;PBX1:0.291462572791;NKX3-1:0.249571883241;NFE2L2:0.244656783965;HES1:0.241542428541;RORA:0.237840317758;SNAI1..3:0.224831879888;TEAD1:0.22406168165;HSF1,2:0.21891532701;ZEB1:0.214216443049;OCT4_SOX2{dimer}:0.206680976745;FOXA2:0.194930475925;CDC5L:0.185688658417;PDX1:0.180589913613;MYOD1:0.156219644075;ALX1:0.145845467296;UFEwm:0.130532093057;GCM1,2:0.128028239204;NR1H4:0.12143213003;TBX4,5:0.104541877288;ATF5_CREB3:0.0768675644776;NKX6-1,2:0.0764467424395;IRF7:0.0706461861426;NFE2L1:0.0615952683637;HOX{A5,B5}:0.0516206046689;PRRX1,2:0.023681021549;FOXL1:0.017936136984;FOX{F1,F2,J1}:-0.000878984018486;NFE2:-0.00687820290691;CEBPA,B_DDIT3:-0.0204030354501;GTF2A1,2:-0.0238463291874;IKZF2:-0.0328353324875;BPTF:-0.0631298968686;AHR_ARNT_ARNT2:-0.0635413542976;AR:-0.0704071793165;BACH2:-0.0855207460534;POU6F1:-0.0864946266332;RXRA_VDR{dimer}:-0.0883817469914;HNF1A:-0.0902818715955;GFI1B:-0.107096031699;CREB1:-0.118027066185;EN1,2:-0.120156947737;ZNF423:-0.127049769662;HLF:-0.13967521776;PAX2:-0.144712667972;DBP:-0.147780961419;GATA6:-0.148715674254;LMO2:-0.173482595432;KLF4:-0.174545177469;FOS_FOS{B,L1}_JUN{B,D}:-0.185258148394;ESR1:-0.198605101639;EP300:-0.220956841478;MYBL2:-0.226663602345;ONECUT1,2:-0.228482764007;ZBTB6:-0.229519784204;TLX1..3_NFIC{dimer}:-0.239804858161;RFX1:-0.245666907282;GZF1:-0.254795694028;JUN:-0.267580159009;HOX{A4,D4}:-0.296046297584;LHX3,4:-0.297303194072;ATF4:-0.312619663837;FOSL2:-0.317376871901;POU5F1:-0.332301054587;LEF1_TCF7_TCF7L1,2:-0.345470799649;FOXO1,3,4:-0.35218855877;TBP:-0.353701822193;PAX5:-0.386882649179;RBPJ:-0.389091937711;MEF2{A,B,C,D}:-0.405070617447;HIF1A:-0.40974924137;NFKB1_REL_RELA:-0.411629560591;FOXP3:-0.440217662787;SPIB:-0.451985789355;STAT2,4,6:-0.45372576311;MTF1:-0.453773921176;ZFP161:-0.463680705144;NANOG:-0.471052791531;RXR{A,B,G}:-0.477491041121;TP53:-0.484479748434;HAND1,2:-0.48691041142;SOX5:-0.513390225547;NR3C1:-0.523849809856;SPI1:-0.548685631019;EBF1:-0.554518099624;DMAP1_NCOR{1,2}_SMARC:-0.56034257566;NFIL3:-0.574316852502;MED-1{core}:-0.578031831008;HIC1:-0.585700279219;GTF2I:-0.614220459803;FOX{D1,D2}:-0.617824004051;CRX:-0.623164735329;XCPE1{core}:-0.6322729962;SREBF1,2:-0.638750695595;HMGA1,2:-0.642733416461;GLI1..3:-0.653306172557;RUNX1..3:-0.657936174059;IRF1,2:-0.667830540742;ADNP_IRX_SIX_ZHX:-0.668241286788;ALX4:-0.679129125467;PAX6:-0.684295812649;GATA4:-0.706824488922;REST:-0.709191145793;TFAP2B:-0.715184833067;TAL1_TCF{3,4,12}:-0.723793623075;STAT1,3:-0.756066394596;SOX2:-0.79194507576;ETS1,2:-0.811572768784;NKX2-3_NKX2-5:-0.815583069984;PRDM1:-0.852223650594;TFAP2{A,C}:-0.864192440032;RREB1:-0.901697842045;NKX2-2,8:-0.909639516016;NHLH1,2:-0.921053562486;SOX17:-0.921859197366;SP1:-0.930323655799;ZIC1..3:-0.935589358822;PATZ1:-0.970028657375;EGR1..3:-0.999563353087;MYFfamily:-1.03980730703;MAZ:-1.08207348806;XBP1:-1.08215442952;SRF:-1.09012020469;TFCP2:-1.09207056449;ATF2:-1.13587848064;ZNF238:-1.14990025174;NANOG{mouse}:-1.15317968598;NFATC1..3:-1.28043777082;T:-1.29279748632;MZF1:-1.29608592694;ATF6:-1.30297655627;MTE{core}:-1.30504244266;MAFB:-1.34316132169;TGIF1:-1.39299748478;TFAP4:-1.46725303281;SMAD1..7,9:-1.74895544139;SPZ1:-1.95557361612;HMX1:-2.26897926699
|xref=
|xref=
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:10815-111B5;search_select_hide=table117:FF:10815-111B5
}}
}}

Latest revision as of 15:06, 3 June 2020

Name:epitheloid carcinoma cell line: HelaS3 ENCODE, biol_rep1
Species:Human (Homo sapiens)
Library ID:CNhs12325
Sample type:cell lines
Genomic View: UCSC
RefEX:Specific genes
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissuecervix
dev stageNA
sexfemale
ageNA
cell typeepithelial cell
cell lineHelaS3
companyNA
collaborationCarrie Davis (Cold spring Harbor Laboratories)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00005891
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12325 CAGE DRX007882 DRR008754
Accession ID Hg19

Library idBAMCTSS
CNhs12325 DRZ000179 DRZ001564
Accession ID Hg38

Library idBAMCTSS
CNhs12325 DRZ011529 DRZ012914
Download raw sequence, BAM & CTSS
Hg19
FastaBAMCTSS
downloaddownloaddonwload
Hg38
BAMCTSS
downloaddonwload


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. <br>Analyst:NA <br><br>link to dataset.<br>data

Coexpression clusterscore
C0-CD14-Eosinophils-Neutrophils-Basophils-CD34-immature-Peripheral0
C1-testis-epididymis-embryonic-medulla-pituitary-trachea-caudate0
C10-occipital-temporal-parietal-brain-duodenum-Neurons-Neural0
C100-rhabdomyosarcoma-gastric-pineal-Wilms-cervical-mesodermal-endometrial0
C101-small-cerebellum-maxillary-colon-parietal-epididymis-merkel0
C102-neuroblastoma-testicular-pituitary-carcinosarcoma-rectum-acantholytic-iPS0
C103-CD4-CD8-Natural-Peripheral-Whole-Neutrophils-Basophils0
C104-Mast-Basophils-immature-CD14-CD34-eye-Natural0
C105-heart-skeletal-occipital-hippocampus-acute-Sebocyte-penis0.127
C106-Hep2-epitheloid-placenta-cervical-rectal-anaplastic-glassy0.315
C107-Neutrophils-CD14-Eosinophils-Monocytederived-Whole-Peripheral-blood0
C108-breast-hepatoblastoma-MCF7-parotid-salivary-submaxillary-prostate0
C109-Reticulocytes-non-acute-Hodgkin-Burkitt-retinoblastoma-lymphoma0.652
C11-cerebellum-medulla-pons-parietal-occipital-middle-medial0
C110-leukemia-chronic-Eosinophils-acute-Whole-CD34-Lymphatic0
C111-medulla-lung-trachea-testis-caudate-epididymis-throat0
C112-gastric-pancreas-temporal-duodenum-small-extraskeletal-adrenal0
C113-thyroid-throat-lung-lymph-small-colon-trachea0
C114-teratocarcinoma-medulloblastoma-carcinosarcoma-iPS-anaplastic-acute-neuroblastoma0
C115-pituitary-Neural-caudate-putamen-amygdala-medulla-hippocampus0
C116-myeloma-xeroderma-tonsil-CD19-spleen-lymph-trachea0
C117-serous-clear-kidney-neuroectodermal-mesothelioma-endometrial-Intestinal0
C118-cerebellum-parietal-occipital-medial-middle-frontal-insula0
C119-CD4-CD8-Natural-Neutrophils-CD14-Peripheral-CD190
C12-Mast-Basophils-immature-chorionic-mature-CD14-Eosinophils0
C120-immature-salivary-tongue-skin-cervical-CD14-CD340
C121-NK-Natural-CD8-CD4-anaplastic-chronic-B0
C122-chronic-Reticulocytes-skeletal-leukemia-acute-colon-Tracheal0
C123-CD19-Natural-CD8-CD4-CD14-Peripheral-Basophils0
C124-small-temporal-duodenum-colon-gall-signet-Hepatocyte0
C125-mucinous-alveolar-mesothelioma-Smooth-lung-CD14-Nucleus0
C126-gastrointestinal-argyrophil-smallcell-merkel-bile-insula-brain0
C127-maxillary-small-hepatoblastoma-hepatocellular-alveolar-colon-argyrophil0
C128-testicular-choriocarcinoma-H9-teratocarcinoma-pancreatic-iPS-HES3GFP0
C129-liver-Hepatocyte-colon-duodenum-temporal-testicular-small0
C13-Neutrophils-Eosinophils-CD14-Monocytederived-Whole-Peripheral-CD40
C130-iPS-HES3GFP-H9-teratocarcinoma-testicular-colon-Alveolar0
C131-lung-trachea-Alveolar-thyroid-umbilical-throat-skin0
C132-acute-small-Dendritic-Macrophage-CD14-Neutrophils-Monocytederived0
C133-signet-gall-small-kidney-colon-ductal-adenocarcinoma0
C134-skeletal-diaphragm-tongue-throat-Skeletal-skin-penis0
C135-neuroblastoma-retinoblastoma-carcinoid-choriocarcinoma-testicular-acute-rectum0
C136-Wilms-extraskeletal-anaplastic-rhabdomyosarcoma-cholangiocellular-nonsmall-neuroectodermal0
C137-large-ductal-melanoma-cervical-Endothelial-Smooth-chronic0
C138-diffuse-Burkitt-lymphangiectasia-lymphoma-acute-CD19-pineal0
C139-astrocytoma-skin-salivary-gall-serous-Mallassezderived-renal0
C14-Whole-blood-Reticulocytes-liver-Neutrophils-Eosinophils-spleen0
C140-Renal-Endothelial-Hepatic-Lymphatic-heart-lung-spleen0
C141-Hodgkin-acute-thymus-chronic-vein-CD4-B0
C142-Preadipocyte-Fibroblast-hepatic-Ewing-Adipocyte-Olfactory-Hair0
C143-Monocytederived-CD14-Macrophage-Dendritic-Basophils-CD14CD16-Osteoblast0
C144-CD4-tonsil-NK-appendix-CD8-splenic-mycosis0
C145-neuroblastoma-peripheral-neuroectodermal-neuroepithelioma-carcinoid-adult-extraskeletal0
C146-lymphangiectasia-lymphoma-gall-lymph-tonsil-gastric-transitionalcell0
C147-Neutrophils-Eosinophils-CD4-CD14-CD8-Natural-Peripheral0
C148-kidney-small-epididymis-pancreas-serous-duodenum-temporal0
C149-occipital-medial-brain-amygdala-parietal-cerebral-cerebellum0
C15-anaplastic-small-skeletal-neuroblastoma-parietal-temporal-tongue0
C150-merkel-carcinoid-nonsmall-gastrointestinal-argyrophil-pineal-small0
C151-CD14-Natural-Basophils-CD8-Eosinophils-CD4-Mast0
C152-peripheral-neuroectodermal-neuroepithelioma-neuroblastoma-testicular-carcinoid-lung0
C153-rhabdomyosarcoma-liposarcoma-pancreatic-somatostatinoma-Reticulocytes-lymphoma-testicular0
C154-adenocarcinoma-Mesenchymal-Cardiac-small-sacrococcigeal-Smooth-Prostate0
C155-pituitary-placenta-nonsmall-cervical-smallcell-choriocarcinoma-epitheloid0
C156-plasma-splenic-hereditary-B-large-xeroderma-b0
C157-testicular-H9-testis-iPS-teratocarcinoma-colon-trachea0
C158-adrenal-gastric-temporal-parietal-duodenum-caudate-putamen0
C159-choriocarcinoma-pancreatic-placenta-chorionic-testicular-bronchioalveolar-seminal0
C16-medial-amygdala-occipital-parietal-olfactory-putamen-brain0
C160-medulla-Hepatocyte-retina-corpus-liver-pineal-cerebral0
C161-mesothelioma-Mesothelial-acute-mesenchymal-extraskeletal-renal-placenta0
C162-spinal-locus-medulla-substantia-thalamus-globus-diencephalon0
C163-Skeletal-skeletal-Pericytes-Hepatic-rhabdomyosarcoma-throat-mesenchymal0
C164-signet-corpus-optic-mucinous-substantia-salivary-choriocarcinoma0
C165-epithelioid-Adipocyte-mesothelioma-myxofibrosarcoma-lung-gastric-Mesothelial0
C166-Macrophage-Monocytederived-Dendritic-adipose-lymph-CD14-lung0
C167-Basophils-Mast-Eosinophils-Neutrophils-Peripheral-Whole-CD40
C168-Mast-CD14-immature-Basophils-Eosinophils-CD34-Peripheral0
C169-hereditary-adult-gall-lymphangiectasia-chronic-b-choriocarcinoma0
C17-Mast-CD14-Monocytederived-Lymphatic-Smooth-mesenchymal-Macrophage0
C170-epitheloid-cervical-Hep2-keratoacanthoma-adult-neuroblastoma-signet0.612
C171-merkel-neuroblastoma-pineal-retinoblastoma-carcinoid-small-eye0
C172-chorionic-skeletal-tongue-amniotic-liver-gastrointestinal-Pericytes0
C173-Adipocyte-mature-skin-left-Hepatocyte-Osteoblast-adipose0
C174-CD14-Neutrophils-Smooth-mesothelioma-embryonic-Monocytederived-Eosinophils0
C175-Eosinophils-Neutrophils-CD4-Basophils-CD19-CD8-Natural0
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19-0.0749
C177-melanoma-Melanocyte-mesenchymal-retina-Mallassezderived-Gingival-squamous0
C178-spleen-liver-Hepatocyte-b-lymph-vein-thymus0
C179-CD19-Peripheral-lymphoma-blood-lymph-spleen-tonsil0
C18-CD4-CD8-thymus-Whole-Peripheral-Natural-blood0
C180-skeletal-heart-Hepatocyte-acute-occipital-hippocampus-middle0.165
C181-liposarcoma-somatostatinoma-neuroblastoma-mesothelioma-nonsmall-small-Alveolar0
C182-renal-mature-mesothelioma-lung-Mammary-Adipocyte-acute0
C183-acute-non-CD34-diffuse-CD133-myeloma-Burkitt0
C184-somatostatinoma-smallcell-nonsmall-small-gastrointestinal-pineal-thyroid0
C185-small-adrenal-gastric-Mesenchymal-acute-HES3GFP-testis0
C186-squamous-papillotubular-large-Tracheal-oral-Small-epidermoid0
C187-migratory-immature-Dendritic-CD19-CD14-Monocytederived-Macrophage0
C188-left-heart-tongue-skeletal-Skeletal-diaphragm-throat0
C189-b-splenic-tonsil-CD19-lymph-appendix-spleen0
C19-embryonic-testis-cord-chronic-CD14-NK-mesothelioma0.0401
C190-colon-small-rectum-duodenum-appendix-temporal-oral0
C191-leiomyoblastoma-Mast-parietal-acute-bone-neuroepithelioma-embryonic0
C192-Neutrophils-CD14-Peripheral-Eosinophils-CD8-Natural-CD40
C193-Mesenchymal-Adipocyte-mature-Cardiac-heart-CD14CD16-CD140
C194-MCF7-breast-prostate-Intestinal-diffuse-Wilms-Alveolar0
C195-Small-Gingival-Bronchial-Smooth-mesenchymal-Urothelial-Tracheal0
C196-testicular-iPS-H9-teratocarcinoma-HES3GFP-choriocarcinoma-endometrial0
C197-tongue-esophagus-tonsil-salivary-cervix-nasal-Gingival0
C198-Mesenchymal-Hair-Hepatic-Fibroblast-Smooth-tenocyte-Pericytes0
C199-glioblastoma-B-osteosarcoma-Fibroblast-heart-rhabdomyosarcoma-myxofibrosarcoma0
C2-Eosinophils-Neutrophils-CD14-Whole-Basophils-Peripheral-Mast0
C20-heart-left-skeletal-diaphragm-tongue-umbilical-throat0
C200-seminal-Cardiac-Smooth-Hair-submaxillary-Neutrophils-mixed-0.0382
C201-colon-small-adenocarcinoma-duodenum-temporal-signet-gall0
C202-salivary-skin-penis-tongue-uterus-cervical-immature0
C203-acute-NK-chronic-CD133-lymphoma-immature-Dendritic0
C204-Smooth-nasal-CD4-CD19-CD8-CD14-CD340
C205-mycosis-cord-hairy-xeroderma-CD4-B-b0
C206-melanoma-somatostatinoma-nonsmall-small-neuroblastoma-smallcell-pituitary0
C207-Corneal-Keratinocyte-Esophageal-Mammary-Bronchial-Urothelial-Sebocyte0
C208-skin-amniotic-papillotubular-salivary-umbilical-Alveolar-serous0
C209-acute-myelodysplastic-CD34-granulocyte-CD133-liver-spleen0
C21-cord-mycosis-hairy-xeroderma-adult-CD4-anaplastic0
C210-Burkitt-lymphoma-appendix-acute-diffuse-CD19-tonsil0
C211-small-Hepatocyte-liver-colon-temporal-duodenum-kidney0
C212-chronic-acute-Whole-Reticulocytes-leukemia-blood-CD340
C213-CD14-Natural-CD8-CD4-Basophils-Eosinophils-Peripheral0
C214-Neurons-Neural-duodenum-temporal-occipital-parietal-brain0
C215-chronic-acute-peripheral-Hepatocyte-osteosarcoma-NK-immature0
C216-osteosarcoma-Smooth-Mesenchymal-large-neuroectodermal-acute-CD340
C217-carcinoid-neuroectodermal-mature-mesodermal-colon-acute-occipital0
C218-tonsil-lymph-CD19-spleen-colon-appendix-salivary0
C219-nasal-Basophils-amniotic-Melanocyte-CD14-Osteoblast-duodenum0
C22-CD4-CD8-Natural-Basophils-CD14-Peripheral-CD190
C220-Adipocyte-mature-left-breast-skin-liver-adipose0
C221-alveolar-Osteoblast-Myoblast-mesenchymal-liposarcoma-Smooth-hepatocellular0
C222-Melanocyte-Tracheal-Neutrophils-seminal-Smooth-Hair-Chondrocyte-0.0147
C223-Chondrocyte-basal-renal-Fibroblast-Smooth-spindle-Synoviocyte0
C224-clear-serous-pleomorphic-choriocarcinoma-mesothelioma-amniotic-renal0
C225-ductal-alveolar-giant-prostate-salivary-squamous-Tracheal0
C226-Corneal-Keratinocyte-Esophageal-Urothelial-Mammary-Bronchial-Tracheal0
C227-chorionic-amniotic-Mesenchymal-Placental-gastric-diaphragm-tongue0
C228-colon-Intestinal-Prostate-hepatoblastoma-hepatocellular-testis-adult0
C229-Mesenchymal-CD4-Melanocyte-acute-skeletal-left-heart0.0401
C23-CD4-CD8-Natural-Peripheral-Basophils-CD19-CD140
C230-aorta-normal-heart-penis-osteosarcoma-basal-lung0
C231-Mesothelial-mesenchymal-mesothelioma-Fibroblast-Preadipocyte-leiomyoma-mycosis0
C232-teratocarcinoma-HES3GFP-H9-iPS-testicular-neuroblastoma-cerebellum0
C233-uterus-cervix-ovary-epididymis-colon-rectum-MCF70
C234-oral-epidermoid-malignant-cervical-ductal-lung-keratoacanthoma0
C235-Intestinal-Prostate-liver-colon-small-kidney-pancreas0
C236-CD14-Neutrophils-Monocytederived-renal-Eosinophils-testis-mesothelioma0
C237-acute-breast-testicular-hepatoblastoma-chronic-argyrophil-Bronchial0
C238-stomach-gall-breast-duodenum-temporal-MCF7-smallcell0
C239-CD4-lymphangiectasia-CD8-NK-mycosis-Renal-hairy0
C24-pineal-eye-retina-retinoblastoma-medulloblastoma-small-cerebral0
C240-Adipocyte-Preadipocyte-Osteoblast-Chondrocyte-tenocyte-Synoviocyte-mesenchymal0
C241-Reticulocytes-chronic-Tracheal-Hodgkin-Endothelial-Hair-thymus0.587
C242-acute-Chondrocyte-myelodysplastic-granulocyte-biphenotypic-Fibroblast-stomach0
C243-Chondrocyte-trachea-Synoviocyte-mesodermal-renal-Fibroblast-Ewing0
C244-CD14-Monocytederived-Hepatocyte-heart-Neutrophils-acute-Macrophage0
C245-prostate-penis-salivary-esophagus-kidney-Neutrophils-Pancreatic0
C246-Neutrophils-Eosinophils-Whole-CD14-CD14CD16-Basophils-migratory0
C247-pons-locus-medulla-spinal-paracentral-medial-occipital0
C248-iPS-Aortic-Hep2-amygdala-acute-medial-Myoblast0
C249-nonsmall-small-smallcell-occipital-somatostatinoma-maxillary-medial0
C25-small-colon-temporal-duodenum-liver-Hepatocyte-gall0
C250-Mast-Neutrophils-CD14-Eosinophils-CD8-Peripheral-CD40
C251-gall-tonsil-trachea-CD14-salivary-throat-tongue0
C252-hepatic-Olfactory-sacrococcigeal-leiomyoma-normal-Synoviocyte-glioblastoma0
C253-spleen-rhabdomyosarcoma-Hepatocyte-small-uterus-liver-rectum0
C254-prostate-rhabdomyosarcoma-seminal-Fibroblast-transitionalcell-Smooth-Iris0
C255-Wilms-leiomyoblastoma-kidney-adrenal-MCF7-epithelioid-Mast0
C256-occipital-caudate-amygdala-medial-thalamus-hippocampus-medulla0
C257-pineal-insula-frontal-occipital-temporal-medial-paracentral0
C258-hepatoblastoma-hepatocellular-signet-colon-Intestinal-Prostate-gastric0
C259-Preadipocyte-Adipocyte-Fibroblast-Chondrocyte-tenocyte-normal-Ewing0.0401
C26-Eosinophils-Neutrophils-CD14-CD14CD16-Basophils-Monocytederived-Whole0
C260-acute-chronic-Natural-NK-Basophils-biphenotypic-blood0
C261-locus-medial-parietal-pons-diencephalon-olfactory-spinal0
C262-breast-MCF7-skeletal-Reticulocytes-mucinous-hepatoblastoma-Wilms0
C263-cervical-keratoacanthoma-tongue-skin-esophagus-throat-tonsil0
C264-giant-keratoacanthoma-colon-fibrosarcoma-HES3GFP-Hep2-acute0
C265-CD4-Eosinophils-CD14-Natural-CD19-Basophils-CD80
C266-acute-chronic-leukemia-small-choriocarcinoma-hepatoma-Mast0
C267-pancreatic-placenta-choriocarcinoma-testicular-teratocarcinoma-chorionic-clear0
C268-Mallassezderived-Urothelial-Gingival-Small-Bronchial-Tracheal-Prostate0
C269-Basophils-Mast-Eosinophils-mature-CD14-chorionic-CD40
C27-pancreas-temporal-duodenum-salivary-ductus-umbilical-lung0
C270-CD4-Fibroblast-acute-iPS-Aortic-CD34-Smooth0.0287
C271-pineal-spinal-locus-globus-medulla-thalamus-cerebellum0
C272-CD19-CD4-CD8-Whole-Peripheral-lymph-tonsil0
C273-Neutrophils-CD14-Eosinophils-Monocytederived-CD4-Natural-Mast0
C274-CD14-Mast-immature-Basophils-mature-vagina-Hepatocyte0
C275-pons-medulla-cerebellum-locus-thalamus-diencephalon-spinal0
C276-mesothelioma-kidney-renal-small-clear-cerebellum-Renal0
C277-mesothelioma-epithelioid-thyroid-extraskeletal-alveolar-glioblastoma-adenocarcinoma0
C278-amygdala-hippocampus-insula-medial-putamen-temporal-olfactory0
C279-parietal-cerebellum-occipital-temporal-middle-duodenum-medial0
C28-thymus-acute-vein-Hodgkin-chronic-throat-Dendritic0
C280-Mast-Natural-CD19-CD8-Eosinophils-CD34-CD40
C281-Hodgkin-Reticulocytes-chronic-NK-acute-retinoblastoma-small0.643
C282-acute-B-tonsil-CD19-submaxillary-lymph-throat0
C283-tenocyte-Chondrocyte-mesenchymal-Macrophage-pleomorphic-Synoviocyte-cholangiocellular0
C284-parietal-occipital-medial-temporal-olfactory-locus-hippocampus0
C285-cervical-Hep2-small-colon-temporal-duodenum-bronchogenic0
C286-cerebellum-occipital-optic-parietal-globus-caudate-medial0
C287-Hepatocyte-Chondrocyte-Adipocyte-Synoviocyte-liver-tenocyte-mesenchymal0
C288-Chondrocyte-Renal-Pericytes-Fibroblast-aorta-Smooth-Meningeal0
C289-chorionic-skeletal-heart-Mast-amniotic-granulosa-left0
C29-mature-adipose-Adipocyte-breast-Lymphatic-vein-heart0
C290-Eosinophils-CD14-Basophils-Mast-CD4-CD8-immature0
C291-spinal-substantia-retina-medulla-tongue-skeletal-trachea0
C292-Mesenchymal-skin-umbilical-Adipocyte-mesenchymal-Chondrocyte-skeletal0
C293-CD14-CD14CD16-Basophils-Peripheral-immature-Eosinophils-CD340
C294-CD14-Macrophage-Monocytederived-CD14CD16-Neutrophils-Basophils-Peripheral0
C295-Fibroblast-Smooth-Myoblast-Chondrocyte-hepatic-Synoviocyte-Preadipocyte0
C296-gall-small-mesothelioma-acute-bronchioalveolar-epidermoid-mixed0
C297-Eosinophils-CD4-Basophils-Natural-Neutrophils-CD8-Peripheral0
C298-small-optic-substantia-thalamus-diencephalon-globus-occipital0
C299-CD14CD16-Eosinophils-Neutrophils-CD14-Whole-Basophils-blood0
C3-occipital-temporal-insula-medial-postcentral-frontal-amygdala0
C30-thyroid-throat-mesothelioma-mucinous-trachea-chorionic-mesenchymal0
C300-CD4-CD8-NK-Natural-blood-mycosis-Basophils0
C301-Smooth-mesenchymal-Endothelial-Hepatic-basal-hepatic-chorionic0
C302-acute-peripheral-Neutrophils-NK-myelodysplastic-CD34-carcinoid0
C303-CD14-Basophils-Peripheral-Eosinophils-CD14CD16-Neutrophils-Whole0
C305-heart-skeletal-smooth-left-bladder-penis-esophagus0
C31-skeletal-tongue-diaphragm-throat-penis-skin-trachea0
C32-middle-occipital-parietal-hippocampus-amygdala-medial-olfactory0
C33-Reticulocytes-liver-Whole-blood-chronic-acute-spleen0
C34-placenta-chorionic-choriocarcinoma-mesothelioma-Wilms-Smooth-bile0
C35-caudate-putamen-diencephalon-nucleus-globus-thalamus-insula0
C36-B-b-splenic-plasma-xeroderma-adrenal-Burkitt0
C37-salivary-submaxillary-parotid-seminal-tongue-ductus-trachea0
C38-extraskeletal-rhabdomyosarcoma-adrenal-rectal-mesothelioma-lung-Wilms0
C39-epididymis-ductus-seminal-testis-acute-thyroid-CD1330
C4-optic-corpus-substantia-medulla-spinal-thalamus-globus0
C40-eye-retina-Lens-pineal-tongue-retinoblastoma-small0
C41-retina-eye-medulla-Retinal-medulloblastoma-kidney-pineal0
C42-small-lung-maxillary-pharyngeal-Mesenchymal-Wilms-colon0
C43-ductus-seminal-duodenum-temporal-gall-prostate-bladder0
C44-Dendritic-CD19-CD133-granulocyte-acute-thymus-immature0
C45-testicular-choriocarcinoma-H9-teratocarcinoma-Wilms-pancreatic-iPS0
C46-acute-Hodgkin-thymus-CD8-chronic-CD4-merkel0
C47-CD19-Burkitt-acute-xeroderma-tonsil-lymphoma-appendix0
C48-smooth-bladder-esophagus-colon-penis-aorta-uterus0
C49-H9-iPS-testicular-HES3GFP-teratocarcinoma-hepatoblastoma-choriocarcinoma0
C5-Hepatocyte-liver-hepatocellular-Intestinal-kidney-small-pancreas0
C50-chorionic-placenta-amniotic-migratory-smallcell-chronic-choriocarcinoma0
C51-kidney-mesothelioma-renal-signet-gall-lung-pancreas0
C52-adult-NK-chronic-cord-testis-embryonic-myeloma0
C53-medulloblastoma-pineal-retinoblastoma-small-retina-eye-pituitary0
C54-Dendritic-Macrophage-Monocytederived-CD14-leiomyoma-adipose-immature0
C55-hepatocellular-Intestinal-liver-Prostate-fibrosarcoma-Hepatocyte-hepatoblastoma0
C56-heart-left-umbilical-skeletal-penis-diaphragm-tongue0
C57-Neutrophils-Eosinophils-Whole-CD4-CD8-CD19-Natural0
C58-Melanocyte-melanoma-retina-Retinal-eye-migratory-H90
C59-Smooth-Fibroblast-Mesenchymal-tenocyte-Ewing-skin-hepatic0
C6-CD14-Eosinophils-Basophils-Peripheral-CD34-Natural-immature0
C60-esophagus-tonsil-throat-tongue-uterus-cervix-cervical0
C61-migratory-Dendritic-immature-Macrophage-xeroderma-cord-b0
C62-Burkitt-tonsil-CD19-submaxillary-spleen-salivary-lymph0
C63-neuroectodermal-neuroblastoma-carcinoid-peripheral-chronic-neuroepithelioma-acute0
C64-Mast-chronic-acute-immature-chorionic-Basophils-Dendritic0
C65-CD14-Eosinophils-Monocytederived-Basophils-immature-Macrophage-Neutrophils0
C66-cerebellum-middle-occipital-parietal-medial-amygdala-hippocampus0
C67-CD14-Monocytederived-Macrophage-dura-Dendritic-spleen-lung0
C68-amniotic-chorionic-Placental-salivary-placenta-tongue-mesothelioma0
C69-anaplastic-CD14-cord-hairy-mycosis-adult-NK0
C7-CD14-Eosinophils-Neutrophils-Smooth-Basophils-Macrophage-Mast0
C70-parotid-submaxillary-salivary-throat-trachea-aorta-tongue0
C71-Monocytederived-Macrophage-CD14-Dendritic-Osteoblast-leiomyoma-Prostate0
C72-skeletal-tongue-throat-heart-diaphragm-penis-left0
C73-pineal-eye-retina-caudate-cerebellum-left-parietal0
C74-splenic-B-b-plasma-xeroderma-lymphoma-hairy0
C75-Eosinophils-Natural-CD8-Basophils-CD14-CD4-Peripheral0
C76-argyrophil-gastrointestinal-temporal-duodenum-neuroblastoma-merkel-smallcell0
C77-Saos2-osteosarcoma-Neutrophils-Natural-Chondrocyte-Basophils-CD80
C78-lymphoma-plasma-tonsil-appendix-lymph-seminal-trachea0
C79-chorionic-Chondrocyte-Cardiac-Smooth-Fibroblast-Preadipocyte-Mesenchymal0
C8-Natural-CD8-Basophils-CD4-CD14-Peripheral-CD340
C80-immature-migratory-CD14-Dendritic-splenic-cord-Mast0
C81-trachea-salivary-throat-aorta-eye-submaxillary-parotid0
C82-Basophils-CD14-Eosinophils-Natural-Peripheral-immature-CD340
C83-choriocarcinoma-pancreatic-placenta-chorionic-HES3GFP-testicular-amniotic0
C84-choriocarcinoma-pancreatic-Wilms-Mallassezderived-thymus-salivary-colon0
C85-neuroblastoma-carcinoid-retinoblastoma-small-pineal-rhabdomyosarcoma-medulloblastoma0
C86-colon-carcinoid-small-neuroectodermal-giant-large-neuroepithelioma0
C87-retinoblastoma-left-nonsmall-heart-small-diaphragm-bronchogenic0
C88-Melanocyte-melanoma-Macrophage-Mesenchymal-migratory-Dendritic-Monocytederived0
C89-small-retinoblastoma-medulloblastoma-iPS-acantholytic-eye-bronchogenic0
C9-skeletal-diaphragm-tongue-throat-penis-heart-left0
C90-neuroectodermal-peripheral-neuroepithelioma-neuroblastoma-carcinoid-parietal-putamen0
C91-Fibroblast-Smooth-mesenchymal-Mesothelial-Small-Preadipocyte-Hair0
C92-CD14CD16-CD14-Eosinophils-Basophils-Neutrophils-Macrophage-Whole0
C93-chronic-acute-leukemia-acantholytic-medulloblastoma-testis-papillotubular0
C94-smallcell-adrenal-lung-nonsmall-small-somatostatinoma-teratocarcinoma0
C95-lung-aorta-trachea-penis-Alveolar-throat-endometrioid0
C96-non-acute-tonsil-spleen-Burkitt-lymphoma-appendix0
C97-small-smallcell-gastrointestinal-argyrophil-putamen-duodenum-brain0
C98-CD8-Natural-Basophils-blood-CD4-Peripheral-Whole0
C99-hairy-mycosis-submaxillary-salivary-cord-kidney-parotid0



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



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

JASPAR motifs<b>Summary:</b>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<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs12325

Jaspar motifP-value
MA0002.20.0145
MA0003.10.203
MA0004.10.132
MA0006.10.679
MA0007.10.819
MA0009.10.351
MA0014.10.712
MA0017.10.628
MA0018.20.883
MA0019.10.516
MA0024.14.27319e-7
MA0025.10.0842
MA0027.10.718
MA0028.11.5202e-7
MA0029.10.0188
MA0030.10.48
MA0031.10.43
MA0035.20.00573
MA0038.10.138
MA0039.20.0389
MA0040.10.325
MA0041.10.414
MA0042.10.697
MA0043.10.754
MA0046.10.2
MA0047.20.957
MA0048.10.00334
MA0050.10.198
MA0051.10.603
MA0052.12.64262e-4
MA0055.14.33986e-5
MA0057.10.641
MA0058.10.0437
MA0059.10.0169
MA0060.13.6555e-14
MA0061.10.0554
MA0062.22.68214e-5
MA0065.20.0319
MA0066.10.765
MA0067.10.19
MA0068.10.0406
MA0069.10.651
MA0070.10.253
MA0071.10.148
MA0072.10.117
MA0073.10.273
MA0074.10.553
MA0076.11.48551e-6
MA0077.10.743
MA0078.10.179
MA0079.20.268
MA0080.25.82978e-8
MA0081.10.336
MA0083.10.00303
MA0084.10.663
MA0087.10.705
MA0088.10.00197
MA0090.10.514
MA0091.10.0444
MA0092.10.403
MA0093.10.0893
MA0099.20.0455
MA0100.10.354
MA0101.10.175
MA0102.20.409
MA0103.10.183
MA0104.28.63587e-4
MA0105.10.799
MA0106.10.963
MA0107.10.0277
MA0108.20.316
MA0111.10.548
MA0112.20.325
MA0113.10.871
MA0114.10.0434
MA0115.10.00786
MA0116.10.368
MA0117.10.762
MA0119.10.172
MA0122.10.581
MA0124.10.564
MA0125.10.6
MA0131.10.0547
MA0135.10.0863
MA0136.10.0065
MA0137.20.226
MA0138.20.0347
MA0139.10.392
MA0140.10.00158
MA0141.10.0831
MA0142.10.951
MA0143.10.0998
MA0144.10.305
MA0145.10.803
MA0146.10.142
MA0147.16.82615e-4
MA0148.10.791
MA0149.10.024
MA0150.10.771
MA0152.10.496
MA0153.10.709
MA0154.10.304
MA0155.10.077
MA0156.10.832
MA0157.10.422
MA0159.10.573
MA0160.10.113
MA0162.10.977
MA0163.10.0282
MA0164.10.617
MA0258.10.572
MA0259.10.0571



FANTOM5 phase1 novel unique motifs<b>Summary:</b>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<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs12325

Novel motifP-value
10.131
100.0463
1000.0497
1010.895
1020.94
1030.188
1040.932
1050.369
1060.0523
1070.105
1080.444
1090.0349
110.796
1100.193
1110.552
1120.00609
1130.0216
1140.715
1150.787
1160.433
1170.058
1180.829
1190.873
120.912
1200.465
1210.621
1220.569
1230.457
1240.29
1250.665
1260.898
1270.888
1280.0127
1290.407
134.79676e-5
1300.109
1310.0682
1320.948
1330.281
1340.25
1350.0751
1360.0201
1370.177
1380.596
1390.532
140.349
1400.7
1410.32
1420.446
1430.683
1440.768
1450.407
1460.375
1470.42
1480.525
1490.0894
150.954
1500.666
1510.888
1520.0895
1530.249
1540.87
1550.523
1560.529
1570.347
1580.166
1590.278
160.6
1600.866
1610.186
1620.343
1630.923
1640.573
1650.679
1660.312
1670.139
1680.487
1690.621
170.709
180.105
190.488
20.0985
200.03
210.763
220.689
230.0012
240.269
250.542
260.36
270.218
280.553
290.0316
30.903
300.0669
310.295
320.202
330.386
340.158
350.879
360.132
370.522
380.715
390.826
40.345
400.0554
410.175
420.559
430.591
440.87
450.327
460.861
470.4
480.434
490.867
50.466
500.907
510.408
520.145
530.66
540.518
550.0476
560.646
570.453
580.833
590.46
60.492
600.234
610.154
620.836
630.545
640.641
650.145
661.06875e-6
670.707
680.778
690.641
70.122
700.247
710.034
720.404
730.919
740.594
750.0361
760.178
770.755
780.212
790.461
80.457
800.0378
810.699
820.0506
830.501
840.508
850.0795
860.67
870.0428
880.587
890.13
90.246
900.074
910.00601
920.0984
930.901
940.265
950.0351
960.216
970.654
980.663
990.605



de novo motifs identified by HOMER in promoters active in this sample<b>Summary:</b>The result of HOMER in this sample is shown.<br><b>Analyst:</b>NA <br> library id: CNhs12325


FANTOM5 (FF) ontology

Direct parent terms


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

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0000066 (epithelial cell)
0000255 (eukaryotic cell)

DOID: Disease
4 (disease)
162 (cancer)
14566 (disease of cellular proliferation)
0050687 (cell type cancer)
305 (carcinoma)

FF: FANTOM5
0000102 (sample by type)
0000003 (cell line sample)
0000210 (human sample)
0000101 (sample by species)
0000001 (sample)
0100297 (carcinoma cell line sample)
0101120 (epithelial cell line sample)
0011472 (human epitheloid carcinoma cell line: HelaS3 ENCODE sample)

Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
NA

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