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{{f5samples
{{f5samples
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|DRA_sample_Accession=CAGE@SAMD00005170
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|accession_numbers=CAGE;DRX007788;DRR008660;DRZ000085;DRZ001470;DRZ011435;DRZ012820
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|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0001737,UBERON:0000064,UBERON:0004119,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000063,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0000072,UBERON:0010317,UBERON:0000065,UBERON:0001004,UBERON:0001557
|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
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|fonse_treatment_closure=FF:0000625,FF:0000632,FF:0000639,FF:0011134,FF:11894-125E4
|fonse_treatment_closure=FF:0000625,FF:0000632,FF:0000639,FF:0011134,FF:11894-125E4
|has_quality=
|has_quality=
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|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/Hep-2%2520cells%2520treated%2520with%2520Streptococci%2520strain%2520JRS4%252c%2520biol_rep1.CNhs13478.11894-125E4.hg19.ctss.bed.gz
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/Hep-2%2520cells%2520treated%2520with%2520Streptococci%2520strain%2520JRS4%252c%2520biol_rep1.CNhs13478.11894-125E4.hg19.nobarcode.rdna.fa.gz
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.cell_line.hCAGE/Hep-2%2520cells%2520treated%2520with%2520Streptococci%2520strain%2520JRS4%252c%2520biol_rep1.CNhs13478.11894-125E4.hg38.nobarcode.bam
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.cell_line.hCAGE/Hep-2%2520cells%2520treated%2520with%2520Streptococci%2520strain%2520JRS4%252c%2520biol_rep1.CNhs13478.11894-125E4.hg38.nobarcode.ctss.bed.gz
|id=FF:11894-125E4
|id=FF:11894-125E4
|is_a=EFO:0002091;;FF:0011134
|is_a=EFO:0002091;;FF:0011134
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|library_id=CNhs13478
|library_id=CNhs13478
|library_id_phase_based=2:CNhs13478
|library_id_phase_based=2:CNhs13478
|microRNAs=
|microRNAs_nn=
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11894
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11894
|name=Hep-2 cells treated with Streptococci strain JRS4, biol_rep1
|name=Hep-2 cells treated with Streptococci strain JRS4, biol_rep1
|namespace=
|namespace=
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|profile_rnaseq=
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Line 90: Line 100:
|top_motifs=ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.96146599585;HES1:1.84384225587;FOXQ1:1.66176322348;E2F1..5:1.55200980964;ESRRA:1.53499155208;NR5A1,2:1.47317969871;FOXM1:1.33248571484;PPARG:1.28903526227;ELK1,4_GABP{A,B1}:1.14985498036;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.12141516455;YY1:0.966405704251;bHLH_family:0.90525608562;HIF1A:0.793611477784;NR6A1:0.731328064981;ZNF143:0.723984212349;NRF1:0.694462422964;NKX3-1:0.687817888892;HOX{A6,A7,B6,B7}:0.671680050668;PAX1,9:0.608212437306;NFY{A,B,C}:0.607625683924;ARID5B:0.605722042048;MYB:0.603798841982;HNF4A_NR2F1,2:0.603641451959;FOXD3:0.572239791365;EP300:0.570254141163;NKX3-2:0.566087567053;NFE2L1:0.517319889938;ZEB1:0.503380773948;FOXN1:0.501251400928;IKZF1:0.486099672952;SNAI1..3:0.480565199065;PAX8:0.442555167171;PAX5:0.419781480783;TEAD1:0.413124261386;TBX4,5:0.394545179742;ZBTB16:0.379855476449;IKZF2:0.348487852382;IRF7:0.334383380947;UFEwm:0.330735540867;GCM1,2:0.310746586525;CREB1:0.303561164357;MYOD1:0.288542164763;GFI1:0.287366834182;HOXA9_MEIS1:0.283194995053;POU3F1..4:0.27722421711;TP53:0.271931984563;POU1F1:0.254818363261;ZNF148:0.231439204032;PAX2:0.229016203645;GTF2A1,2:0.168445938065;FOX{F1,F2,J1}:0.161411556105;ALX4:0.141166932364;HOX{A5,B5}:0.135624093949;ATF5_CREB3:0.129572368824;RXR{A,B,G}:0.129156400885;HLF:0.117531451332;VSX1,2:0.102023649756;MYBL2:0.0878024435129;OCT4_SOX2{dimer}:0.082264312568;BACH2:0.0732428150258;HAND1,2:0.0652451279799;NFE2:0.0566242632324;NFE2L2:0.0515076757951;CDC5L:0.046026053031;RFX2..5_RFXANK_RFXAP:0.043710975854;LHX3,4:0.043459084862;TFDP1:0.0238898604659;PITX1..3:0.0144212979736;HSF1,2:0.000151200844005;TEF:-0.0125635194609;RORA:-0.0147838680369;GFI1B:-0.0166888647734;EN1,2:-0.022678903936;FOS_FOS{B,L1}_JUN{B,D}:-0.0353905763576;GLI1..3:-0.0429768651324;TBP:-0.0472501338611;HNF1A:-0.0515870385566;CDX1,2,4:-0.0559988469277;ZNF423:-0.0720903139421;LEF1_TCF7_TCF7L1,2:-0.0738189120308;ZNF384:-0.08064408537;MEF2{A,B,C,D}:-0.0816029923765;MTF1:-0.0937159680725;ONECUT1,2:-0.0946682462415;CUX2:-0.102133402107;ATF6:-0.103820695261;FOXP3:-0.105594818453;ESR1:-0.11252573196;SOX{8,9,10}:-0.113077041903;PRRX1,2:-0.122054486967;PAX4:-0.1701605415;NR1H4:-0.173833645188;ELF1,2,4:-0.175235391623;ZBTB6:-0.180563314551;SREBF1,2:-0.189970770244;HOX{A4,D4}:-0.19267373803;ALX1:-0.196152007748;STAT2,4,6:-0.196764024916;LMO2:-0.202857028532;NR3C1:-0.203928290053;NANOG:-0.206636546773;PDX1:-0.216783533633;PAX3,7:-0.221433109988;NFKB1_REL_RELA:-0.234176629356;BREu{core}:-0.241592240157;NKX2-2,8:-0.242129465505;CEBPA,B_DDIT3:-0.251954391005;GZF1:-0.252029271381;FOXL1:-0.252485312778;NKX6-1,2:-0.263143030021;TLX1..3_NFIC{dimer}:-0.268584696106;ATF4:-0.282537035876;FOSL2:-0.305401793647;PBX1:-0.311066535075;STAT5{A,B}:-0.31891577695;AHR_ARNT_ARNT2:-0.323460805926;MAFB:-0.332962477559;AIRE:-0.340016456215;JUN:-0.351017291324;IRF1,2:-0.366689393621;EBF1:-0.38429523301;KLF4:-0.386394764688;NKX2-1,4:-0.426565931132;RBPJ:-0.427912498759;HBP1_HMGB_SSRP1_UBTF:-0.434032933059;PAX6:-0.436829339293;HIC1:-0.443988275727;DBP:-0.44806147477;NFIL3:-0.457597120791;SPIB:-0.457616931664;TFCP2:-0.485137409159;HMGA1,2:-0.49035219223;FOX{I1,J2}:-0.49374604123;ADNP_IRX_SIX_ZHX:-0.495389824302;GTF2I:-0.49780035724;RFX1:-0.498099188569;GATA6:-0.522199475337;BPTF:-0.523671672949;ZFP161:-0.535013572383;FOXP1:-0.539884784904;POU2F1..3:-0.542534988271;EVI1:-0.551248337649;T:-0.557882473877;SRF:-0.558543733757;CRX:-0.564656077691;SPI1:-0.617237395864;RXRA_VDR{dimer}:-0.648424230498;TFAP2B:-0.671565266861;SP1:-0.68487934896;SOX5:-0.694825350379;TFAP2{A,C}:-0.698445384393;AR:-0.700779746523;RUNX1..3:-0.704022237358;SOX17:-0.704244634538;FOXA2:-0.711704665724;TOPORS:-0.722917982193;NFATC1..3:-0.746021275997;TFAP4:-0.760813703872;ETS1,2:-0.768828172319;MED-1{core}:-0.76937811795;EGR1..3:-0.820048342089;NKX2-3_NKX2-5:-0.822164366439;XCPE1{core}:-0.82301509056;GATA4:-0.834813646418;REST:-0.851408937131;FOX{D1,D2}:-0.853476936002;DMAP1_NCOR{1,2}_SMARC:-0.888532277693;NHLH1,2:-0.892075983351;ZNF238:-0.92512313282;TAL1_TCF{3,4,12}:-0.930767038934;ATF2:-0.949615790923;POU6F1:-0.949922169675;SOX2:-0.95261668456;ZIC1..3:-0.964360236676;FOXO1,3,4:-0.973024181432;XBP1:-0.989318111656;POU5F1:-1.01350395746;MAZ:-1.03403136927;RREB1:-1.06610930211;MYFfamily:-1.10068880745;MTE{core}:-1.13926383654;PRDM1:-1.19161956402;MZF1:-1.26449697154;NFIX:-1.27399556276;PATZ1:-1.29202580971;SMAD1..7,9:-1.30411342839;TGIF1:-1.317275746;STAT1,3:-1.33149751431;TLX2:-1.39654741363;NANOG{mouse}:-1.48372951898;HMX1:-1.49442868737;SPZ1:-1.92865538494
|top_motifs=ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.96146599585;HES1:1.84384225587;FOXQ1:1.66176322348;E2F1..5:1.55200980964;ESRRA:1.53499155208;NR5A1,2:1.47317969871;FOXM1:1.33248571484;PPARG:1.28903526227;ELK1,4_GABP{A,B1}:1.14985498036;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.12141516455;YY1:0.966405704251;bHLH_family:0.90525608562;HIF1A:0.793611477784;NR6A1:0.731328064981;ZNF143:0.723984212349;NRF1:0.694462422964;NKX3-1:0.687817888892;HOX{A6,A7,B6,B7}:0.671680050668;PAX1,9:0.608212437306;NFY{A,B,C}:0.607625683924;ARID5B:0.605722042048;MYB:0.603798841982;HNF4A_NR2F1,2:0.603641451959;FOXD3:0.572239791365;EP300:0.570254141163;NKX3-2:0.566087567053;NFE2L1:0.517319889938;ZEB1:0.503380773948;FOXN1:0.501251400928;IKZF1:0.486099672952;SNAI1..3:0.480565199065;PAX8:0.442555167171;PAX5:0.419781480783;TEAD1:0.413124261386;TBX4,5:0.394545179742;ZBTB16:0.379855476449;IKZF2:0.348487852382;IRF7:0.334383380947;UFEwm:0.330735540867;GCM1,2:0.310746586525;CREB1:0.303561164357;MYOD1:0.288542164763;GFI1:0.287366834182;HOXA9_MEIS1:0.283194995053;POU3F1..4:0.27722421711;TP53:0.271931984563;POU1F1:0.254818363261;ZNF148:0.231439204032;PAX2:0.229016203645;GTF2A1,2:0.168445938065;FOX{F1,F2,J1}:0.161411556105;ALX4:0.141166932364;HOX{A5,B5}:0.135624093949;ATF5_CREB3:0.129572368824;RXR{A,B,G}:0.129156400885;HLF:0.117531451332;VSX1,2:0.102023649756;MYBL2:0.0878024435129;OCT4_SOX2{dimer}:0.082264312568;BACH2:0.0732428150258;HAND1,2:0.0652451279799;NFE2:0.0566242632324;NFE2L2:0.0515076757951;CDC5L:0.046026053031;RFX2..5_RFXANK_RFXAP:0.043710975854;LHX3,4:0.043459084862;TFDP1:0.0238898604659;PITX1..3:0.0144212979736;HSF1,2:0.000151200844005;TEF:-0.0125635194609;RORA:-0.0147838680369;GFI1B:-0.0166888647734;EN1,2:-0.022678903936;FOS_FOS{B,L1}_JUN{B,D}:-0.0353905763576;GLI1..3:-0.0429768651324;TBP:-0.0472501338611;HNF1A:-0.0515870385566;CDX1,2,4:-0.0559988469277;ZNF423:-0.0720903139421;LEF1_TCF7_TCF7L1,2:-0.0738189120308;ZNF384:-0.08064408537;MEF2{A,B,C,D}:-0.0816029923765;MTF1:-0.0937159680725;ONECUT1,2:-0.0946682462415;CUX2:-0.102133402107;ATF6:-0.103820695261;FOXP3:-0.105594818453;ESR1:-0.11252573196;SOX{8,9,10}:-0.113077041903;PRRX1,2:-0.122054486967;PAX4:-0.1701605415;NR1H4:-0.173833645188;ELF1,2,4:-0.175235391623;ZBTB6:-0.180563314551;SREBF1,2:-0.189970770244;HOX{A4,D4}:-0.19267373803;ALX1:-0.196152007748;STAT2,4,6:-0.196764024916;LMO2:-0.202857028532;NR3C1:-0.203928290053;NANOG:-0.206636546773;PDX1:-0.216783533633;PAX3,7:-0.221433109988;NFKB1_REL_RELA:-0.234176629356;BREu{core}:-0.241592240157;NKX2-2,8:-0.242129465505;CEBPA,B_DDIT3:-0.251954391005;GZF1:-0.252029271381;FOXL1:-0.252485312778;NKX6-1,2:-0.263143030021;TLX1..3_NFIC{dimer}:-0.268584696106;ATF4:-0.282537035876;FOSL2:-0.305401793647;PBX1:-0.311066535075;STAT5{A,B}:-0.31891577695;AHR_ARNT_ARNT2:-0.323460805926;MAFB:-0.332962477559;AIRE:-0.340016456215;JUN:-0.351017291324;IRF1,2:-0.366689393621;EBF1:-0.38429523301;KLF4:-0.386394764688;NKX2-1,4:-0.426565931132;RBPJ:-0.427912498759;HBP1_HMGB_SSRP1_UBTF:-0.434032933059;PAX6:-0.436829339293;HIC1:-0.443988275727;DBP:-0.44806147477;NFIL3:-0.457597120791;SPIB:-0.457616931664;TFCP2:-0.485137409159;HMGA1,2:-0.49035219223;FOX{I1,J2}:-0.49374604123;ADNP_IRX_SIX_ZHX:-0.495389824302;GTF2I:-0.49780035724;RFX1:-0.498099188569;GATA6:-0.522199475337;BPTF:-0.523671672949;ZFP161:-0.535013572383;FOXP1:-0.539884784904;POU2F1..3:-0.542534988271;EVI1:-0.551248337649;T:-0.557882473877;SRF:-0.558543733757;CRX:-0.564656077691;SPI1:-0.617237395864;RXRA_VDR{dimer}:-0.648424230498;TFAP2B:-0.671565266861;SP1:-0.68487934896;SOX5:-0.694825350379;TFAP2{A,C}:-0.698445384393;AR:-0.700779746523;RUNX1..3:-0.704022237358;SOX17:-0.704244634538;FOXA2:-0.711704665724;TOPORS:-0.722917982193;NFATC1..3:-0.746021275997;TFAP4:-0.760813703872;ETS1,2:-0.768828172319;MED-1{core}:-0.76937811795;EGR1..3:-0.820048342089;NKX2-3_NKX2-5:-0.822164366439;XCPE1{core}:-0.82301509056;GATA4:-0.834813646418;REST:-0.851408937131;FOX{D1,D2}:-0.853476936002;DMAP1_NCOR{1,2}_SMARC:-0.888532277693;NHLH1,2:-0.892075983351;ZNF238:-0.92512313282;TAL1_TCF{3,4,12}:-0.930767038934;ATF2:-0.949615790923;POU6F1:-0.949922169675;SOX2:-0.95261668456;ZIC1..3:-0.964360236676;FOXO1,3,4:-0.973024181432;XBP1:-0.989318111656;POU5F1:-1.01350395746;MAZ:-1.03403136927;RREB1:-1.06610930211;MYFfamily:-1.10068880745;MTE{core}:-1.13926383654;PRDM1:-1.19161956402;MZF1:-1.26449697154;NFIX:-1.27399556276;PATZ1:-1.29202580971;SMAD1..7,9:-1.30411342839;TGIF1:-1.317275746;STAT1,3:-1.33149751431;TLX2:-1.39654741363;NANOG{mouse}:-1.48372951898;HMX1:-1.49442868737;SPZ1:-1.92865538494
|xref=
|xref=
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11894-125E4;search_select_hide=table117:FF:11894-125E4
}}
}}

Latest revision as of 18:27, 4 June 2020

Name:Hep-2 cells treated with Streptococci strain JRS4, biol_rep1
Species:Human (Homo sapiens)
Library ID:CNhs13478
Sample type:cell lines
Genomic View: UCSC
RefEX:Specific genes
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissueNA
dev stageNA
sexmale
age56
cell typeunclassifiable
cell lineHep-2
companyNA
collaborationChristine Wells (University of Queensland)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot number2a
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00005170
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs13478 CAGE DRX007788 DRR008660
Accession ID Hg19

Library idBAMCTSS
CNhs13478 DRZ000085 DRZ001470
Accession ID Hg38

Library idBAMCTSS
CNhs13478 DRZ011435 DRZ012820
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-penis0.0218
C106-Hep2-epitheloid-placenta-cervical-rectal-anaplastic-glassy0.787
C107-Neutrophils-CD14-Eosinophils-Monocytederived-Whole-Peripheral-blood0
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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: CNhs13478

Jaspar motifP-value
MA0002.20.222
MA0003.10.71
MA0004.10.0752
MA0006.10.636
MA0007.10.447
MA0009.10.396
MA0014.10.562
MA0017.10.266
MA0018.20.54
MA0019.10.684
MA0024.11.16985e-7
MA0025.10.0767
MA0027.10.704
MA0028.11.12474e-5
MA0029.10.308
MA0030.10.256
MA0031.10.17
MA0035.20.928
MA0038.10.74
MA0039.20.0336
MA0040.10.426
MA0041.10.441
MA0042.10.624
MA0043.10.251
MA0046.10.96
MA0047.20.936
MA0048.10.0366
MA0050.10.08
MA0051.10.786
MA0052.10.0287
MA0055.13.53118e-5
MA0057.10.233
MA0058.10.0245
MA0059.10.00597
MA0060.10.241
MA0061.10.446
MA0062.20.00839
MA0065.20.00749
MA0066.10.468
MA0067.10.6
MA0068.10.00175
MA0069.10.234
MA0070.10.726
MA0071.10.033
MA0072.10.613
MA0073.10.288
MA0074.10.393
MA0076.11.05532e-4
MA0077.10.942
MA0078.10.209
MA0079.20.343
MA0080.21.44105e-7
MA0081.10.376
MA0083.10.0281
MA0084.10.612
MA0087.10.368
MA0088.10.0457
MA0090.10.00308
MA0091.10.6
MA0092.10.616
MA0093.10.0521
MA0099.20.64
MA0100.10.53
MA0101.10.508
MA0102.20.656
MA0103.10.0132
MA0104.20.00151
MA0105.10.536
MA0106.10.511
MA0107.10.238
MA0108.20.373
MA0111.10.564
MA0112.20.00358
MA0113.10.73
MA0114.10.00512
MA0115.10.0925
MA0116.10.136
MA0117.10.793
MA0119.10.69
MA0122.10.988
MA0124.10.783
MA0125.10.337
MA0131.10.599
MA0135.10.984
MA0136.18.15887e-4
MA0137.20.04
MA0138.20.0866
MA0139.10.459
MA0140.10.663
MA0141.18.93392e-4
MA0142.10.867
MA0143.10.121
MA0144.10.499
MA0145.10.74
MA0146.10.108
MA0147.14.85518e-4
MA0148.10.232
MA0149.10.0427
MA0150.10.732
MA0152.10.646
MA0153.10.112
MA0154.10.972
MA0155.10.461
MA0156.10.116
MA0157.10.259
MA0159.10.0448
MA0160.10.0047
MA0162.10.0799
MA0163.10.00628
MA0164.10.402
MA0258.10.351
MA0259.10.0396



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: CNhs13478

Novel motifP-value
10.0599
100.0498
1000.0156
1010.155
1020.74
1030.795
1040.923
1050.36
1060.126
1070.23
1080.728
1096.53345e-4
110.588
1100.189
1110.765
1120.659
1130.00327
1140.416
1150.804
1160.138
1170.0803
1180.0654
1190.307
120.832
1200.0608
1210.397
1220.187
1230.287
1240.605
1250.727
1260.53
1270.2
1280.00125
1290.548
135.28612e-5
1300.821
1310.433
1320.605
1330.233
1340.902
1350.0423
1360.00834
1370.317
1380.512
1390.144
140.654
1400.506
1410.279
1420.853
1430.346
1440.39
1450.369
1460.742
1470.567
1480.331
1490.4
150.584
1500.683
1510.665
1520.993
1530.704
1540.411
1550.351
1560.0874
1570.119
1580.19
1590.216
160.484
1600.255
1610.568
1620.623
1630.295
1640.0122
1650.619
1660.0667
1670.208
1680.434
1690.108
170.707
180.267
190.933
20.522
200.0562
210.123
220.855
230.00942
240.513
250.273
260.592
270.687
280.888
290.00484
30.965
300.291
310.639
320.31
330.132
340.235
350.954
360.0533
370.168
380.772
390.919
40.235
400.00381
410.161
420.802
430.688
440.0348
450.241
460.985
470.262
480.292
490.348
50.304
500.829
510.741
520.378
530.161
540.701
550.0387
560.907
570.431
580.99
590.788
60.581
600.671
610.0303
620.623
630.417
640.504
650.606
660.783
670.548
680.541
690.903
70.0174
700.642
710.0147
720.995
730.232
740.134
750.0615
760.126
770.361
780.0983
790.903
80.0566
800.0608
810.259
820.366
830.38
840.718
850.0314
860.977
870.0025
880.826
890.744
90.586
900.0349
910.0134
920.3
930.353
940.548
950.00316
960.535
970.785
980.733
990.398



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: CNhs13478


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)

UBERON: Anatomy
0000468 (multi-cellular organism)
0001737 (larynx)
0000064 (organ part)
0004119 (endoderm-derived structure)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000063 (organ segment)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0000072 (segment of respiratory tract)
0010317 (germ layer / neural crest derived structure)
0000065 (respiratory tract)
0001004 (respiratory system)
0001557 (upper respiratory tract)

FF: FANTOM5
0000102 (sample by type)
0000003 (cell line sample)
0000210 (human sample)
0000101 (sample by species)
0000001 (sample)
0000625 (experimental infection sample)
0000350 (experimentally modified sample)
0000632 (group A streptococci treatment sample)
0104978 (HEp-2 cell sample)
0000639 (Streptococcus strain JRS4 treatment sample)
0100297 (carcinoma cell line sample)
0101120 (epithelial cell line sample)
0011134 (human Hep-2 cells treated with Streptococci strain JRS4 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
UBERON:0008947 (respiratory primordium)
UBERON:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0010316 (germ layer / neural crest)

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