FF:10732-110B3: Difference between revisions
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|top_motifs= | |top_motifs=HIF1A:2.10319958271;NKX3-1:1.71079580563;PAX4:1.22211574347;ATF6:1.18126229056;HOX{A4,D4}:1.17800940195;TOPORS:1.14126292358;GFI1:1.11983098654;PITX1..3:1.10890462677;PPARG:1.0451800397;ELK1,4_GABP{A,B1}:1.00265453323;DBP:0.981019179789;POU3F1..4:0.975862852472;EVI1:0.912564458502;NKX2-1,4:0.890868498022;HOXA9_MEIS1:0.885676629962;EN1,2:0.883886290131;ZNF143:0.804801289463;AHR_ARNT_ARNT2:0.757144307883;FOXP1:0.745271187923;NR6A1:0.740401219812;NKX2-3_NKX2-5:0.697789711335;UFEwm:0.683571373511;HOX{A5,B5}:0.668255860186;IKZF2:0.646151573846;TFDP1:0.614001443768;NFY{A,B,C}:0.577184443767;AIRE:0.542045362406;XBP1:0.538998092064;TAL1_TCF{3,4,12}:0.474022825737;bHLH_family:0.466208641949;ZIC1..3:0.456811107487;GTF2A1,2:0.429041611828;SOX17:0.421021722465;TEAD1:0.411348235294;MYBL2:0.37896600512;ZNF384:0.373970944797;E2F1..5:0.367659297558;STAT5{A,B}:0.348622006507;ZBTB16:0.348162410453;GFI1B:0.31394103943;BACH2:0.295900869882;VSX1,2:0.290406222336;PAX3,7:0.267355257357;TEF:0.247137018916;SRF:0.228824120434;NFIX:0.204514941537;MYB:0.198934967176;IKZF1:0.196797540606;TFAP2B:0.186816095795;STAT1,3:0.18510673459;STAT2,4,6:0.179584477408;MTF1:0.169589691098;NKX3-2:0.159323270043;ONECUT1,2:0.155465305351;FOS_FOS{B,L1}_JUN{B,D}:0.15409575551;ZNF148:0.150566071416;ADNP_IRX_SIX_ZHX:0.144863949068;POU5F1:0.140248389203;NRF1:0.13799645858;ZFP161:0.125467281904;NFE2:0.123184225989;HIC1:0.112603687697;PAX5:0.111684340752;NFKB1_REL_RELA:0.111237604275;PRDM1:0.104435255611;POU1F1:0.0995697972482;SP1:0.0957454880951;XCPE1{core}:0.0955000385464;RXR{A,B,G}:0.0760800172933;ZNF238:0.0664123261601;HLF:0.0619028439462;BREu{core}:0.0574504093383;MTE{core}:0.0397873521098;GLI1..3:0.0393361546561;ZNF423:0.0129317838006;FOSL2:0.00129498585933;AR:-0.0099037373975;RFX1:-0.0138856418958;MYFfamily:-0.0394794453042;NANOG{mouse}:-0.0456447906652;HES1:-0.0461639554314;HBP1_HMGB_SSRP1_UBTF:-0.0468349425543;FOXA2:-0.0474038992162;ATF4:-0.0569571037081;RUNX1..3:-0.0652457293307;FOXD3:-0.0868037922847;RXRA_VDR{dimer}:-0.0882840786422;ALX4:-0.0970632489954;POU6F1:-0.114065729606;MZF1:-0.114891096731;MAFB:-0.11888244363;ATF5_CREB3:-0.14307085513;HMGA1,2:-0.145812757415;NFE2L2:-0.145893741409;EBF1:-0.150636887954;NFE2L1:-0.160064256861;MED-1{core}:-0.16679331626;LHX3,4:-0.181719784752;ALX1:-0.186038022163;KLF4:-0.194804291606;EGR1..3:-0.20645981173;CREB1:-0.211427032436;TBP:-0.214296463297;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.21897202067;PAX8:-0.224300472012;JUN:-0.227840805517;SMAD1..7,9:-0.234327379091;HOX{A6,A7,B6,B7}:-0.249612971825;GTF2I:-0.258134222478;TLX1..3_NFIC{dimer}:-0.261326515825;SOX{8,9,10}:-0.262805492311;ARID5B:-0.26411569438;NR1H4:-0.274798394491;TFCP2:-0.289969054771;PAX2:-0.292819368077;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.293283454368;TBX4,5:-0.294853288034;FOXM1:-0.299512267589;ZBTB6:-0.299924686646;HNF1A:-0.3011050472;NKX6-1,2:-0.301509468453;NR5A1,2:-0.302165383287;MEF2{A,B,C,D}:-0.302233642656;MAZ:-0.312342755827;FOXN1:-0.322413838943;CDX1,2,4:-0.325346750766;HSF1,2:-0.347985443827;ELF1,2,4:-0.371426221681;HAND1,2:-0.371470405438;PATZ1:-0.378466232287;ATF2:-0.383308133811;CUX2:-0.385753906749;REST:-0.398735893011;CEBPA,B_DDIT3:-0.412065487529;SPI1:-0.436415643078;PDX1:-0.46078408471;IRF1,2:-0.46453613273;FOXL1:-0.477195540168;GATA6:-0.480057245366;EP300:-0.481560740832;PRRX1,2:-0.490479879044;TP53:-0.51034829983;RORA:-0.518178896485;TFAP4:-0.522339790613;POU2F1..3:-0.527888324206;LMO2:-0.534864957282;RBPJ:-0.537314380142;GCM1,2:-0.5396380816;CDC5L:-0.541845405104;ETS1,2:-0.542479588153;TFAP2{A,C}:-0.561273849073;DMAP1_NCOR{1,2}_SMARC:-0.580087289648;ZEB1:-0.583889461747;OCT4_SOX2{dimer}:-0.594210466867;YY1:-0.599065132455;LEF1_TCF7_TCF7L1,2:-0.60468004985;NFATC1..3:-0.630588645623;SPZ1:-0.633526165434;IRF7:-0.642506058466;NANOG:-0.651428309387;TLX2:-0.659555011179;CRX:-0.70596732794;FOX{F1,F2,J1}:-0.706189254743;HNF4A_NR2F1,2:-0.707137015473;SPIB:-0.712123455775;SOX2:-0.718469993585;GATA4:-0.720928369364;RFX2..5_RFXANK_RFXAP:-0.75423201534;NFIL3:-0.758834635552;NHLH1,2:-0.79422762111;PAX1,9:-0.820126115539;NR3C1:-0.823071393896;BPTF:-0.83630861948;SNAI1..3:-0.846196038555;SREBF1,2:-0.856470415385;T:-0.879713094017;FOXP3:-0.88591068494;PAX6:-0.886869467986;RREB1:-0.895969968298;FOX{D1,D2}:-0.909122260751;HMX1:-0.918148436862;MYOD1:-0.918717667066;SOX5:-0.946873426706;GZF1:-0.977263992096;NKX2-2,8:-0.994047540189;ESRRA:-1.00370527681;ESR1:-1.00740918957;PBX1:-1.04901816725;TGIF1:-1.05054521454;FOXQ1:-1.19773283518;FOXO1,3,4:-1.40869839092;FOX{I1,J2}:-2.60214621306 | ||
|comment= | |comment= | ||
|created_by= | |created_by= |
Revision as of 18:03, 14 March 2012
Name: | pagetoid sarcoma cell line:Hs 925.T |
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Species: | Human (Homo sapiens) |
Library ID: | {{{library_id}}} |
Sample type: | {{{sample_category}}} |
Genomic View: | UCSC |
CAGEd-oPOSSUM: | link |
ExpandAdditional information |
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ExpandDownload raw sequence, BAM & CTSS |
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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
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
no result for this sample
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: CNhs11856
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: CNhs11856
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: CNhs11856
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000003 cell line sample
FF:0000210 human sample
FF:0100400 sarcoma cell line sample
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
DOID: Disease
0050687 (cell type cancer)
1115 (sarcoma)
14566 (disease of cellular proliferation)
162 (cancer)
4 (disease)
UBERON: Anatomy
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000479 (tissue)
0001062 (anatomical entity)
0002384 (connective tissue)
FF: FANTOM5
NA
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