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Difference between revisions of "FF:12760-136B6"

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{{f5samples
 
{{f5samples
−
|id=FF:12760-136B6
+
|ancestors_in_anatomy_facet=UBERON:0000061,UBERON:0000062,UBERON:0000465,UBERON:0000467,UBERON:0000468,UBERON:0000479,UBERON:0000480,UBERON:0000922,UBERON:0000923,UBERON:0000926,UBERON:0001062,UBERON:0001434,UBERON:0001474,UBERON:0002050,UBERON:0002204,UBERON:0002384,UBERON:0002532,UBERON:0004120,UBERON:0004765,UBERON:0005423
−
|name=Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep2 (A2 T0)
 
−
|sample_id=12760
 
−
|rna_tube_id=136B6
 
−
|rna_box=136
 
−
|rna_position=B6
 
−
|sample_cell_lot=
 
−
|sample_cell_catalog=
 
−
|sample_company=
 
−
|rna_lot_number=
 
−
|rna_catalog_number=
 
−
|sample_species=Human (Homo sapiens)
 
−
|sample_strain=
 
−
|sample_dev_stage=
 
−
|sample_tissue=
 
−
|sample_donor(cell lot)=rep2
 
−
|sample_sex=female
 
−
|sample_age=
 
−
|sample_ethnicity=
 
−
|rna_rin=
 
−
|rna_od260/230=2.18
 
−
|rna_od260/280=2.09
 
−
|sample_cell_type=osteoblast
 
−
|sample_cell_line=Saos-2
 
−
|sample_collaboration=Kim Summers (Roslin Institute)
 
−
|sample_experimental_condition=Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification
 
−
|sample_disease=
 
−
|rna_sample_type=
 
−
|rna_extraction_protocol=OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0
 
−
|rna_weight_ug=10.87
 
−
|rna_concentration=0.91
 
−
|sample_note=
 
−
|profile_hcage=CNhs12859,LSID973,release012,COMPLETED
 
−
|profile_cagescan=,,,
 
−
|profile_srnaseq=,,,
 
−
|profile_rnaseq=,,,
 
 
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000004,CL:0000012,CL:0000034,CL:0000035,CL:0000048,CL:0000055,CL:0000062,CL:0000063,CL:0000134,CL:0000144,CL:0000219,CL:0000255,CL:0000335,CL:0000375,CL:0000548,CL:0000723,CL:0002320,CL:0002371
 
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000004,CL:0000012,CL:0000034,CL:0000035,CL:0000048,CL:0000055,CL:0000062,CL:0000063,CL:0000134,CL:0000144,CL:0000219,CL:0000255,CL:0000335,CL:0000375,CL:0000548,CL:0000723,CL:0002320,CL:0002371
−
|ancestors_in_anatomy_facet=UBERON:0000061,UBERON:0000062,UBERON:0000465,UBERON:0000467,UBERON:0000468,UBERON:0000479,UBERON:0000480,UBERON:0000922,UBERON:0000923,UBERON:0000926,UBERON:0001062,UBERON:0001434,UBERON:0001474,UBERON:0002050,UBERON:0002204,UBERON:0002384,UBERON:0002532,UBERON:0004120,UBERON:0004765,UBERON:0005423
 
 
|ancestors_in_disease_facet=
 
|ancestors_in_disease_facet=
−
|sample_description=
+
|comment=A2  T0
 +
|created_by=
 +
|creation_date=
 +
|def=
 
|fonse_cell_line=FF:0100385
 
|fonse_cell_line=FF:0100385
 
|fonse_cell_line_closure=FF:0100385
 
|fonse_cell_line_closure=FF:0100385
Line 66: Line 33:
 
|fonse_treatment=EFO:0000369,FF:0000332,FF:0000593,FF:12760-136B6
 
|fonse_treatment=EFO:0000369,FF:0000332,FF:0000593,FF:12760-136B6
 
|fonse_treatment_closure=EFO:0000369,FF:0000332,FF:0000593,FF:12760-136B6
 
|fonse_treatment_closure=EFO:0000369,FF:0000332,FF:0000593,FF:12760-136B6
−
|top_motifs=PDX1:2.71420605908;TFDP1:2.09281133555;VSX1,2:1.83718861584;HOX{A4,D4}:1.63537506329;NFY{A,B,C}:1.59149270321;NKX2-3_NKX2-5:1.58792111239;E2F1..5:1.52684168045;NRF1:1.3753150316;NKX3-1:1.34059693162;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.32624644011;ZNF384:1.2095071455;PITX1..3:1.20271536682;ZNF143:1.17966996568;POU1F1:1.17778368796;PRRX1,2:1.09385797379;HIC1:1.08892499643;TOPORS:1.03092838818;EVI1:1.01097659789;EN1,2:1.00742457964;NFIX:0.972374942907;NKX6-1,2:0.968265473944;BREu{core}:0.938339873335;YY1:0.899682378467;GFI1:0.861869750318;CDC5L:0.788583213401;MEF2{A,B,C,D}:0.774645394712;RXR{A,B,G}:0.77330885815;PAX8:0.754509997334;SOX17:0.743772641805;NKX2-1,4:0.73549613734;FOXQ1:0.728222681513;IKZF2:0.727151044681;HIF1A:0.711209255189;PAX6:0.695058448762;PAX3,7:0.680968263199;FOXD3:0.67984146901;CUX2:0.672975236211;HES1:0.653863009287;MZF1:0.628806908873;T:0.576098790214;PAX1,9:0.566936470776;NR1H4:0.555955401983;PAX4:0.552787649793;PAX2:0.523328669091;MYB:0.517014026961;ZFP161:0.511782631308;FOXM1:0.502196647674;TFAP2B:0.477166298001;RREB1:0.455530948378;AIRE:0.452118800326;ZNF423:0.448463120228;FOXA2:0.435984968897;SOX{8,9,10}:0.408954208165;ATF4:0.405997098471;SP1:0.396419255216;PBX1:0.394849321674;LHX3,4:0.391959174708;XCPE1{core}:0.388009822123;ZBTB16:0.385702323615;STAT5{A,B}:0.3826276238;CDX1,2,4:0.373895080199;NFE2L2:0.373784615645;TEF:0.370197603629;TEAD1:0.366614791962;AHR_ARNT_ARNT2:0.362517816927;FOXP1:0.361302811122;NR3C1:0.348588782154;POU3F1..4:0.314760916496;UFEwm:0.303996537454;ELK1,4_GABP{A,B1}:0.30310082923;NR5A1,2:0.302962748798;TGIF1:0.277426404623;NANOG:0.276690802098;POU6F1:0.254360179761;PATZ1:0.251351329059;LEF1_TCF7_TCF7L1,2:0.243785999939;EGR1..3:0.198420927826;PRDM1:0.192616196806;NR6A1:0.190630432021;GTF2I:0.189542199632;ONECUT1,2:0.18663055944;ZIC1..3:0.186217168203;ESR1:0.167519114696;KLF4:0.162543737955;ATF6:0.156330187004;JUN:0.145483329583;FOX{F1,F2,J1}:0.127049447291;RUNX1..3:0.116632158526;SREBF1,2:0.114687441601;STAT1,3:0.100194229964;MYBL2:0.0955178803421;GATA4:0.0756370600894;ZBTB6:0.0649386532856;ATF5_CREB3:0.0391913874369;CREB1:0.0170768887022;NFE2L1:0.00881544892719;OCT4_SOX2{dimer}:-0.00222430644259;MED-1{core}:-0.0191878841013;TBX4,5:-0.0263206906881;MTE{core}:-0.0322340085668;HOX{A5,B5}:-0.035462173424;GTF2A1,2:-0.048043655742;IKZF1:-0.0597883433338;ARID5B:-0.0616627365095;DBP:-0.0658243752017;FOXP3:-0.0690026415995;FOXN1:-0.0824887675871;RBPJ:-0.0899549926312;HNF1A:-0.100009552996;MYFfamily:-0.106097904704;XBP1:-0.111152623675;RFX1:-0.117728018216;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.131146841899;ESRRA:-0.134057550846;GFI1B:-0.142566574794;NFE2:-0.149557398446;MAZ:-0.149602927613;TFAP4:-0.156859125014;ALX4:-0.170449065604;GZF1:-0.174503961031;EBF1:-0.174904538908;HNF4A_NR2F1,2:-0.186254107878;FOXL1:-0.188243834325;BACH2:-0.20937490508;REST:-0.231874870267;CRX:-0.232483979801;bHLH_family:-0.243604141438;GLI1..3:-0.25001179718;RFX2..5_RFXANK_RFXAP:-0.251212190166;POU5F1:-0.252662923945;AR:-0.253557370791;FOSL2:-0.25914869082;IRF7:-0.26501547727;FOX{I1,J2}:-0.269469045817;RORA:-0.27364469387;GCM1,2:-0.286776307585;FOS_FOS{B,L1}_JUN{B,D}:-0.29695576459;DMAP1_NCOR{1,2}_SMARC:-0.297622434664;SOX5:-0.317105082548;NKX3-2:-0.317966003168;GATA6:-0.324678985752;ZNF238:-0.335830355222;TFCP2:-0.338932359204;ADNP_IRX_SIX_ZHX:-0.358987514919;HLF:-0.372716919453;TLX1..3_NFIC{dimer}:-0.374701937201;TFAP2{A,C}:-0.378815608946;HOXA9_MEIS1:-0.390481382785;SOX2:-0.416625805828;NHLH1,2:-0.438955543125;ELF1,2,4:-0.445177084925;SMAD1..7,9:-0.4597195042;RXRA_VDR{dimer}:-0.468785979958;NFIL3:-0.476457314082;TP53:-0.489444098372;NFKB1_REL_RELA:-0.49608558489;PAX5:-0.502853326236;SRF:-0.503967982841;MTF1:-0.520002021062;MYOD1:-0.527148276108;ZNF148:-0.528019029815;TAL1_TCF{3,4,12}:-0.52862483224;IRF1,2:-0.535958409356;SNAI1..3:-0.543362110545;SPIB:-0.549783666409;MAFB:-0.557412843889;SPI1:-0.570350067031;BPTF:-0.587047182847;SPZ1:-0.61447061436;LMO2:-0.653079078502;ZEB1:-0.653748487161;HAND1,2:-0.668497142314;POU2F1..3:-0.670762286279;ATF2:-0.705760257722;NKX2-2,8:-0.741962221432;ALX1:-0.751608902648;HMGA1,2:-0.770391221143;ETS1,2:-0.779958781901;NANOG{mouse}:-0.817700339313;PPARG:-0.819028518297;HMX1:-0.85176513836;FOX{D1,D2}:-0.86349801592;CEBPA,B_DDIT3:-0.876610061171;HOX{A6,A7,B6,B7}:-0.91385263909;STAT2,4,6:-0.955940557821;HBP1_HMGB_SSRP1_UBTF:-1.05558553167;FOXO1,3,4:-1.22625889201;HSF1,2:-1.2319651436;TBP:-1.25287166499;NFATC1..3:-1.26722244612;EP300:-1.33588564296;TLX2:-1.37007261095
 
−
|comment=A2  T0
 
−
|created_by=
 
−
|creation_date=
 
−
|def=
 
 
|has_quality=
 
|has_quality=
 +
|id=FF:12760-136B6
 
|is_a=EFO:0002091;;FF:0000210;;FF:0000593
 
|is_a=EFO:0002091;;FF:0000210;;FF:0000593
 +
|name=Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep2 (A2 T0)
 
|namespace=FANTOM5
 
|namespace=FANTOM5
 
|part_of=
 
|part_of=
 +
|profile_cagescan=,,,
 +
|profile_hcage=CNhs12859,LSID973,release012,COMPLETED
 +
|profile_rnaseq=,,,
 +
|profile_srnaseq=,,,
 +
|rna_box=136
 +
|rna_catalog_number=
 +
|rna_concentration=0.91
 +
|rna_extraction_protocol=OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0
 +
|rna_lot_number=
 +
|rna_od260/230=2.18
 +
|rna_od260/280=2.09
 +
|rna_position=B6
 +
|rna_rin=
 +
|rna_sample_type=
 +
|rna_tube_id=136B6
 +
|rna_weight_ug=10.87
 +
|sample_age=
 +
|sample_cell_catalog=
 +
|sample_cell_line=Saos-2
 +
|sample_cell_lot=
 +
|sample_cell_type=osteoblast
 +
|sample_collaboration=Kim Summers (Roslin Institute)
 +
|sample_company=
 +
|sample_description=
 +
|sample_dev_stage=
 +
|sample_disease=
 +
|sample_donor(cell lot)=rep2
 +
|sample_ethnicity=
 +
|sample_experimental_condition=Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification
 +
|sample_id=12760
 +
|sample_note=
 +
|sample_sex=female
 +
|sample_species=Human (Homo sapiens)
 +
|sample_strain=
 +
|sample_tissue=
 +
|top_motifs=PDX1:2.71420605908;TFDP1:2.09281133555;VSX1,2:1.83718861584;HOX{A4,D4}:1.63537506329;NFY{A,B,C}:1.59149270321;NKX2-3_NKX2-5:1.58792111239;E2F1..5:1.52684168045;NRF1:1.3753150316;NKX3-1:1.34059693162;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.32624644011;ZNF384:1.2095071455;PITX1..3:1.20271536682;ZNF143:1.17966996568;POU1F1:1.17778368796;PRRX1,2:1.09385797379;HIC1:1.08892499643;TOPORS:1.03092838818;EVI1:1.01097659789;EN1,2:1.00742457964;NFIX:0.972374942907;NKX6-1,2:0.968265473944;BREu{core}:0.938339873335;YY1:0.899682378467;GFI1:0.861869750318;CDC5L:0.788583213401;MEF2{A,B,C,D}:0.774645394712;RXR{A,B,G}:0.77330885815;PAX8:0.754509997334;SOX17:0.743772641805;NKX2-1,4:0.73549613734;FOXQ1:0.728222681513;IKZF2:0.727151044681;HIF1A:0.711209255189;PAX6:0.695058448762;PAX3,7:0.680968263199;FOXD3:0.67984146901;CUX2:0.672975236211;HES1:0.653863009287;MZF1:0.628806908873;T:0.576098790214;PAX1,9:0.566936470776;NR1H4:0.555955401983;PAX4:0.552787649793;PAX2:0.523328669091;MYB:0.517014026961;ZFP161:0.511782631308;FOXM1:0.502196647674;TFAP2B:0.477166298001;RREB1:0.455530948378;AIRE:0.452118800326;ZNF423:0.448463120228;FOXA2:0.435984968897;SOX{8,9,10}:0.408954208165;ATF4:0.405997098471;SP1:0.396419255216;PBX1:0.394849321674;LHX3,4:0.391959174708;XCPE1{core}:0.388009822123;ZBTB16:0.385702323615;STAT5{A,B}:0.3826276238;CDX1,2,4:0.373895080199;NFE2L2:0.373784615645;TEF:0.370197603629;TEAD1:0.366614791962;AHR_ARNT_ARNT2:0.362517816927;FOXP1:0.361302811122;NR3C1:0.348588782154;POU3F1..4:0.314760916496;UFEwm:0.303996537454;ELK1,4_GABP{A,B1}:0.30310082923;NR5A1,2:0.302962748798;TGIF1:0.277426404623;NANOG:0.276690802098;POU6F1:0.254360179761;PATZ1:0.251351329059;LEF1_TCF7_TCF7L1,2:0.243785999939;EGR1..3:0.198420927826;PRDM1:0.192616196806;NR6A1:0.190630432021;GTF2I:0.189542199632;ONECUT1,2:0.18663055944;ZIC1..3:0.186217168203;ESR1:0.167519114696;KLF4:0.162543737955;ATF6:0.156330187004;JUN:0.145483329583;FOX{F1,F2,J1}:0.127049447291;RUNX1..3:0.116632158526;SREBF1,2:0.114687441601;STAT1,3:0.100194229964;MYBL2:0.0955178803421;GATA4:0.0756370600894;ZBTB6:0.0649386532856;ATF5_CREB3:0.0391913874369;CREB1:0.0170768887022;NFE2L1:0.00881544892719;OCT4_SOX2{dimer}:-0.00222430644259;MED-1{core}:-0.0191878841013;TBX4,5:-0.0263206906881;MTE{core}:-0.0322340085668;HOX{A5,B5}:-0.035462173424;GTF2A1,2:-0.048043655742;IKZF1:-0.0597883433338;ARID5B:-0.0616627365095;DBP:-0.0658243752017;FOXP3:-0.0690026415995;FOXN1:-0.0824887675871;RBPJ:-0.0899549926312;HNF1A:-0.100009552996;MYFfamily:-0.106097904704;XBP1:-0.111152623675;RFX1:-0.117728018216;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.131146841899;ESRRA:-0.134057550846;GFI1B:-0.142566574794;NFE2:-0.149557398446;MAZ:-0.149602927613;TFAP4:-0.156859125014;ALX4:-0.170449065604;GZF1:-0.174503961031;EBF1:-0.174904538908;HNF4A_NR2F1,2:-0.186254107878;FOXL1:-0.188243834325;BACH2:-0.20937490508;REST:-0.231874870267;CRX:-0.232483979801;bHLH_family:-0.243604141438;GLI1..3:-0.25001179718;RFX2..5_RFXANK_RFXAP:-0.251212190166;POU5F1:-0.252662923945;AR:-0.253557370791;FOSL2:-0.25914869082;IRF7:-0.26501547727;FOX{I1,J2}:-0.269469045817;RORA:-0.27364469387;GCM1,2:-0.286776307585;FOS_FOS{B,L1}_JUN{B,D}:-0.29695576459;DMAP1_NCOR{1,2}_SMARC:-0.297622434664;SOX5:-0.317105082548;NKX3-2:-0.317966003168;GATA6:-0.324678985752;ZNF238:-0.335830355222;TFCP2:-0.338932359204;ADNP_IRX_SIX_ZHX:-0.358987514919;HLF:-0.372716919453;TLX1..3_NFIC{dimer}:-0.374701937201;TFAP2{A,C}:-0.378815608946;HOXA9_MEIS1:-0.390481382785;SOX2:-0.416625805828;NHLH1,2:-0.438955543125;ELF1,2,4:-0.445177084925;SMAD1..7,9:-0.4597195042;RXRA_VDR{dimer}:-0.468785979958;NFIL3:-0.476457314082;TP53:-0.489444098372;NFKB1_REL_RELA:-0.49608558489;PAX5:-0.502853326236;SRF:-0.503967982841;MTF1:-0.520002021062;MYOD1:-0.527148276108;ZNF148:-0.528019029815;TAL1_TCF{3,4,12}:-0.52862483224;IRF1,2:-0.535958409356;SNAI1..3:-0.543362110545;SPIB:-0.549783666409;MAFB:-0.557412843889;SPI1:-0.570350067031;BPTF:-0.587047182847;SPZ1:-0.61447061436;LMO2:-0.653079078502;ZEB1:-0.653748487161;HAND1,2:-0.668497142314;POU2F1..3:-0.670762286279;ATF2:-0.705760257722;NKX2-2,8:-0.741962221432;ALX1:-0.751608902648;HMGA1,2:-0.770391221143;ETS1,2:-0.779958781901;NANOG{mouse}:-0.817700339313;PPARG:-0.819028518297;HMX1:-0.85176513836;FOX{D1,D2}:-0.86349801592;CEBPA,B_DDIT3:-0.876610061171;HOX{A6,A7,B6,B7}:-0.91385263909;STAT2,4,6:-0.955940557821;HBP1_HMGB_SSRP1_UBTF:-1.05558553167;FOXO1,3,4:-1.22625889201;HSF1,2:-1.2319651436;TBP:-1.25287166499;NFATC1..3:-1.26722244612;EP300:-1.33588564296;TLX2:-1.37007261095
 
}}
 
}}

Revision as of 06:20, 21 March 2012


Name:Saos-2 osteosarcoma treated with ascorbic acid and BGP to induce calcification, 00hr00min, biol_rep2 (A2 T0)
Species:Human (Homo sapiens)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainNA
tissueNA
dev stageNA
sexfemale
ageNA
cell typeosteoblast
cell lineSaos-2
companyNA
collaborationKim Summers (Roslin Institute)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typeNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0
Download raw sequence, BAM & CTSS
Hg19
BAMCTSS
[{{{hg19bam}}} download][{{{hg19ctss}}} donwload]
Hg38
BAMCTSS
[{{{hg38bam}}} download][{{{hg38ctss}}} donwload]





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 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
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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 sampleSummary:Ranked list of repeat family 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 no result for this sample


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 this sample. Pearson's correlation between the number of TFBSs estimated by using the position-weight matrix for each promoter and its expression is expressed as Z-score by taking the ones based on random position-weight matrix, and the tail probability of the normal distribution corresponding to the Z-score is taken as the resulting P-value. Lower P-value indicates more (non-random) association of the motif to promoter expression
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs12859

Jaspar motif P-value
MA0002.2 0.318
MA0003.1 0.205
MA0004.1 0.651
MA0006.1 0.478
MA0007.1 0.555
MA0009.1 0.465
MA0014.1 0.488
MA0017.1 0.0027
MA0018.2 0.0175
MA0019.1 0.67
MA0024.1 2.98201e-6
MA0025.1 0.893
MA0027.1 0.431
MA0028.1 0.511
MA0029.1 0.928
MA0030.1 0.58
MA0031.1 0.291
MA0035.2 0.165
MA0038.1 0.00588
MA0039.2 0.562
MA0040.1 0.112
MA0041.1 0.0299
MA0042.1 0.212
MA0043.1 0.971
MA0046.1 0.658
MA0047.2 0.0992
MA0048.1 0.152
MA0050.1 0.011
MA0051.1 0.169
MA0052.1 0.0015
MA0055.1 0.145
MA0057.1 0.48
MA0058.1 0.606
MA0059.1 0.957
MA0060.1 4.2783e-12
MA0061.1 0.0152
MA0062.2 0.92
MA0065.2 0.00402
MA0066.1 0.178
MA0067.1 0.393
MA0068.1 0.976
MA0069.1 0.726
MA0070.1 0.00941
MA0071.1 0.543
MA0072.1 0.752
MA0073.1 0.622
MA0074.1 0.523
MA0076.1 0.49
MA0077.1 0.12
MA0078.1 0.954
MA0079.2 0.55
MA0080.2 2.61347e-11
MA0081.1 0.0219
MA0083.1 0.275
MA0084.1 0.561
MA0087.1 0.38
MA0088.1 0.63
MA0090.1 0.763
MA0091.1 0.133
MA0092.1 0.13
MA0093.1 0.516
MA0099.2 1.69684e-6
MA0100.1 0.351
MA0101.1 0.0289
MA0102.2 0.00211
MA0103.1 0.0359
MA0104.2 0.459
MA0105.1 0.00324
MA0106.1 0.106
MA0107.1 0.00511
MA0108.2 0.189
MA0111.1 0.989
MA0112.2 0.00101
MA0113.1 0.677
MA0114.1 0.0759
MA0115.1 0.597
MA0116.1 0.012
MA0117.1 0.478
MA0119.1 0.0926
MA0122.1 0.347
MA0124.1 0.647
MA0125.1 0.0282
MA0131.1 0.393
MA0135.1 0.275
MA0136.1 8.40873e-12
MA0137.2 0.0483
MA0138.2 0.0759
MA0139.1 0.2
MA0140.1 0.125
MA0141.1 0.38
MA0142.1 0.21
MA0143.1 0.869
MA0144.1 0.0515
MA0145.1 0.064
MA0146.1 0.137
MA0147.1 0.52
MA0148.1 0.0375
MA0149.1 0.988
MA0150.1 0.0872
MA0152.1 0.392
MA0153.1 0.15
MA0154.1 0.0209
MA0155.1 0.35
MA0156.1 9.8592e-4
MA0157.1 0.0537
MA0159.1 0.0141
MA0160.1 0.205
MA0162.1 0.135
MA0163.1 4.57296e-4
MA0164.1 0.973
MA0258.1 0.0256
MA0259.1 0.329



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 in 169 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: CNhs12859

Novel motif P-value
1 0.325
10 0.897
100 0.529
101 0.55
102 0.521
103 0.0305
104 0.647
105 0.219
106 6.49749e-4
107 0.0406
108 0.957
109 0.14
11 0.114
110 0.325
111 0.274
112 0.072
113 0.249
114 0.0272
115 0.81
116 0.916
117 0.674
118 0.43
119 0.0549
12 0.933
120 0.974
121 0.605
122 0.523
123 0.152
124 0.177
125 0.0938
126 0.274
127 0.744
128 0.00775
129 0.248
13 0.419
130 0.0548
131 0.243
132 0.22
133 0.301
134 0.793
135 0.119
136 0.392
137 0.183
138 0.869
139 0.00134
14 0.308
140 0.554
141 0.648
142 0.843
143 0.0132
144 0.656
145 0.067
146 0.266
147 0.907
148 0.111
149 0.097
15 0.318
150 0.727
151 0.152
152 0.0354
153 0.147
154 0.692
155 0.441
156 0.594
157 0.418
158 0.454
159 0.623
16 0.333
160 0.439
161 0.716
162 0.872
163 0.856
164 0.684
165 0.221
166 0.536
167 0.186
168 0.163
169 0.0306
17 0.214
18 0.192
19 0.162
2 0.286
20 0.291
21 0.993
22 0.199
23 0.0185
24 0.965
25 0.81
26 0.662
27 0.0442
28 0.963
29 0.668
3 0.0784
30 0.467
31 0.621
32 0.412
33 0.424
34 0.357
35 0.257
36 0.208
37 0.125
38 0.284
39 0.208
4 0.71
40 0.313
41 0.201
42 0.181
43 0.139
44 0.255
45 0.121
46 0.231
47 0.268
48 0.449
49 0.158
5 0.256
50 0.368
51 0.619
52 0.215
53 0.43
54 0.373
55 0.0632
56 0.419
57 0.908
58 0.13
59 0.304
6 0.661
60 0.0404
61 0.989
62 0.0758
63 0.142
64 0.491
65 0.0316
66 0.233
67 0.901
68 0.706
69 0.975
7 0.538
70 0.00903
71 0.251
72 0.0683
73 0.0748
74 0.213
75 0.539
76 0.462
77 0.137
78 0.564
79 0.0752
8 0.39
80 0.0582
81 0.428
82 0.0405
83 0.356
84 0.56
85 0.00242
86 0.417
87 0.907
88 0.274
89 0.0282
9 0.228
90 0.295
91 0.484
92 0.0831
93 0.525
94 0.0407
95 0.38
96 0.216
97 0.647
98 0.292
99 0.485



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: CNhs12859


FANTOM5 (FF) ontology

Direct parent terms


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)
0000034 (stem cell)
0000035 (single fate stem cell)
0000048 (multi fate stem cell)
0000055 (non-terminally differentiated cell)
0000062 (osteoblast)
0000134 (mesenchymal cell)
0000219 (motile cell)
0000255 (eukaryotic cell)
0000335 (mesenchyme condensation cell)
0000375 (osteoprogenitor cell)
0000548 (animal cell)
0000723 (somatic stem cell)
0002320 (connective tissue cell)
0002371 (somatic cell)

UBERON: Anatomy
0000061 (anatomical structure)
0000062 (organ)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000479 (tissue)
0000480 (anatomical group)
0000922 (embryo)
0000923 (germ layer)
0000926 (mesoderm)
0001062 (anatomical entity)
0001434 (skeletal system)
0001474 (bone element)
0002050 (embryonic structure)
0002204 (musculoskeletal system)
0002384 (connective tissue)
0002532 (epiblast (generic))
0004120 (mesoderm-derived structure)
0004765 (skeletal element)
0005423 (developing anatomical structure)

FF: FANTOM5
NA

Ancestor terms (development)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship
Analyst: Hideya Kawaji

link to source data
data
NA

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