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|fonse_treatment=
|fonse_treatment_closure=
|fonse_treatment_closure=
|top_motifs=
|top_motifs=UFEwm:3.45576589677;ALX4:3.44084096562;NKX2-2,8:3.29312062069;HMGA1,2:3.29050626169;EVI1:3.13805424835;TAL1_TCF{3,4,12}:2.57451948664;KLF4:2.34771133235;GLI1..3:2.3284872242;FOXL1:2.32389508032;NR3C1:2.23016755176;AIRE:2.18109441132;ESR1:2.13354365148;GATA4:1.85324745425;PRDM1:1.85070301798;ZIC1..3:1.82730215118;FOXD3:1.80443099375;TOPORS:1.70737718026;HES1:1.6199016451;NFE2L1:1.56741113579;ZNF384:1.46408163546;MYBL2:1.45292592858;TEAD1:1.39831979109;RXR{A,B,G}:1.39706326227;HIF1A:1.37032720376;NKX3-1:1.35822484835;NR6A1:1.31224560131;RXRA_VDR{dimer}:1.30467729591;ZBTB16:1.28489630155;HMX1:1.24929018109;NKX2-1,4:1.1496249486;GZF1:1.14927929783;HSF1,2:1.14279297858;LHX3,4:1.09755260571;HOX{A4,D4}:0.943967968125;TLX1..3_NFIC{dimer}:0.859780034477;MAFB:0.810179127591;NKX3-2:0.80650696901;SRF:0.794183018035;ARID5B:0.784046440476;TBX4,5:0.774885674936;TP53:0.763958233319;ZBTB6:0.751643542081;NANOG{mouse}:0.727320772197;IKZF1:0.701817511949;HOX{A5,B5}:0.681262363729;ZNF423:0.680248960207;ZNF238:0.657013161886;TFCP2:0.639917181324;TFAP2{A,C}:0.619532645787;HAND1,2:0.602314867681;PAX1,9:0.58851094671;PITX1..3:0.587857552603;PAX4:0.57313500725;ATF6:0.561180550498;XBP1:0.559505166416;EBF1:0.521552784961;GTF2I:0.521379471319;PPARG:0.456704383278;PATZ1:0.43680295441;NKX6-1,2:0.424374267185;SPZ1:0.420269537082;CDX1,2,4:0.384902655318;FOXP1:0.379886402036;NFATC1..3:0.348111805907;GCM1,2:0.331411433795;SOX17:0.301657702915;PAX5:0.299521746809;IRF1,2:0.298927397029;RREB1:0.290208726173;EN1,2:0.286202178637;BPTF:0.284333497651;TFAP4:0.269173903087;CDC5L:0.267047961292;HIC1:0.25398313425;MAZ:0.233038950989;TFAP2B:0.224712330463;MTE{core}:0.218673076012;FOXO1,3,4:0.214450477359;FOXM1:0.158901535456;SMAD1..7,9:0.145929763849;XCPE1{core}:0.129302172517;IKZF2:0.113619243665;MTF1:0.0925247924988;YY1:0.083361083052;T:0.0707488678451;ALX1:0.0366128648945;TEF:0.0349778657848;GTF2A1,2:0.0186151265916;ONECUT1,2:0.0133618978516;PAX8:0.00879583704973;HLF:0.00834689001276;DMAP1_NCOR{1,2}_SMARC:0.0021088809745;SOX5:-0.00620281862978;BACH2:-0.0202653901257;NFE2L2:-0.0342448766744;POU5F1:-0.0457787516821;MYB:-0.0574070602301;MYFfamily:-0.0841350990287;AHR_ARNT_ARNT2:-0.13910136713;DBP:-0.155397415385;MZF1:-0.167450354101;FOXP3:-0.167578724991;NFE2:-0.172953302516;STAT2,4,6:-0.188965832525;PAX2:-0.190248675678;FOXA2:-0.226961659327;TBP:-0.271193170443;ZFP161:-0.287232279701;NR1H4:-0.301769902337;STAT5{A,B}:-0.337318135652;EGR1..3:-0.33966749917;FOS_FOS{B,L1}_JUN{B,D}:-0.349875348771;REST:-0.355685623397;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.379839439584;SNAI1..3:-0.393839124258;FOX{I1,J2}:-0.410468183431;CEBPA,B_DDIT3:-0.413270183678;ZNF148:-0.413358983447;SP1:-0.426327662162;AR:-0.435058035472;POU6F1:-0.437769017714;NFKB1_REL_RELA:-0.451570288711;HNF4A_NR2F1,2:-0.45307772912;ZNF143:-0.464813880868;NR5A1,2:-0.468392323262;TFDP1:-0.48404877044;MEF2{A,B,C,D}:-0.48517082984;ELK1,4_GABP{A,B1}:-0.48670207766;HNF1A:-0.487326143076;IRF7:-0.487511968145;RFX1:-0.491096773221;TLX2:-0.49191553425;FOSL2:-0.510958516428;POU1F1:-0.525494540806;RFX2..5_RFXANK_RFXAP:-0.528418471587;RBPJ:-0.546452648486;POU3F1..4:-0.548528568143;GFI1B:-0.557727981577;RUNX1..3:-0.559140375116;FOX{D1,D2}:-0.574923195095;GFI1:-0.576126232664;MED-1{core}:-0.580492616909;NRF1:-0.581319860082;LMO2:-0.585149075186;ADNP_IRX_SIX_ZHX:-0.598370677434;PDX1:-0.623692775334;bHLH_family:-0.637453786541;ATF4:-0.68377111266;SPI1:-0.706204756944;NFIX:-0.716894259953;E2F1..5:-0.742679242523;SPIB:-0.777848784846;ETS1,2:-0.778463889282;CREB1:-0.798402295379;HOX{A6,A7,B6,B7}:-0.816795607738;ATF5_CREB3:-0.844158991109;BREu{core}:-0.84506545911;NFIL3:-0.87413441287;FOXN1:-0.885219222103;ZEB1:-0.887697843783;PAX6:-0.892697130097;OCT4_SOX2{dimer}:-0.910568805364;SREBF1,2:-0.931774141249;ELF1,2,4:-0.936050403518;LEF1_TCF7_TCF7L1,2:-0.937653372275;NHLH1,2:-0.951650456329;ATF2:-0.961863569469;SOX2:-0.984564108433;PAX3,7:-1.04517938547;CUX2:-1.12449172286;NKX2-3_NKX2-5:-1.1397751285;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-1.15390435371;HOXA9_MEIS1:-1.23255868742;NFY{A,B,C}:-1.23888702592;TGIF1:-1.24279121128;STAT1,3:-1.25104815452;EP300:-1.32183789619;POU2F1..3:-1.349571558;MYOD1:-1.3836703195;JUN:-1.45537176292;PRRX1,2:-1.48412274992;ESRRA:-1.51967948993;RORA:-1.55852894079;SOX{8,9,10}:-1.56036800076;FOXQ1:-1.56914128863;HBP1_HMGB_SSRP1_UBTF:-1.57028336548;GATA6:-1.57219723847;FOX{F1,F2,J1}:-1.61854335132;VSX1,2:-1.6768573339;CRX:-1.68832120894;PBX1:-1.72964260891;NANOG:-1.95886553551
|comment=
|comment=
|created_by=
|created_by=

Revision as of 17:47, 14 March 2012


Name:Olfactory epithelial cells, donor2
Species:Human (Homo sapiens)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainNA
tissueANATOMICAL SYSTEM
dev stageNA
sexfemale
age66
cell typeCELL MIXTURE - tissue sample
cell lineNA
companyNA
collaborationChristine Wells (University of Queensland)
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
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. <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: CNhs13817



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: CNhs13817



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: CNhs13817


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

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