FF:11334-117F2: Difference between revisions
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|top_motifs= | |top_motifs=TP53:2.55845924808;TBX4,5:2.32894301797;PPARG:1.96964636673;ZEB1:1.88524599164;TEF:1.72845182751;HIF1A:1.52498732462;VSX1,2:1.43623527952;ONECUT1,2:1.40354248059;T:1.38759646471;SNAI1..3:1.35552468063;TFCP2:1.0845906586;TEAD1:1.06060866472;ADNP_IRX_SIX_ZHX:1.02082167568;PAX1,9:1.00918831884;XCPE1{core}:0.995964864099;TFAP2{A,C}:0.964302422492;ARID5B:0.940036072349;ZNF148:0.894065897043;MTF1:0.841723446542;MYOD1:0.838819319216;UFEwm:0.798806993454;NKX2-1,4:0.679858353924;GLI1..3:0.64752556863;POU6F1:0.611332199802;ELK1,4_GABP{A,B1}:0.60986097406;TFAP2B:0.593757615412;TLX2:0.57974938406;MAZ:0.556693755016;FOXQ1:0.526265908535;TFDP1:0.504634358708;SP1:0.503311479673;bHLH_family:0.502808240656;SOX17:0.502587571677;HLF:0.502246944309;NKX2-2,8:0.486995093658;LMO2:0.459926876673;CEBPA,B_DDIT3:0.439767522912;FOS_FOS{B,L1}_JUN{B,D}:0.426948964506;GZF1:0.425128465814;NKX2-3_NKX2-5:0.424398149109;NKX3-2:0.379995638156;EGR1..3:0.369374449862;TFAP4:0.337396402833;PAX4:0.32668362122;HAND1,2:0.317943430195;TOPORS:0.317408567326;MED-1{core}:0.304834815113;POU1F1:0.29882950457;PAX5:0.285315394798;HOX{A4,D4}:0.284549622623;NR5A1,2:0.267884143957;HMGA1,2:0.23997288168;KLF4:0.2379831007;FOSL2:0.220380057953;BACH2:0.219084600269;GTF2A1,2:0.198929399965;IKZF1:0.198568267126;HIC1:0.192701012338;HOX{A6,A7,B6,B7}:0.192370308594;FOXM1:0.190865279692;SPZ1:0.186092677121;TBP:0.181036624669;ZBTB6:0.179241398214;FOXN1:0.178773080894;AR:0.178474730932;ZNF423:0.173994861238;EVI1:0.172489975151;NKX3-1:0.167992436405;POU3F1..4:0.154564464968;PITX1..3:0.152402129955;PAX2:0.138060385564;RXR{A,B,G}:0.13270825572;EBF1:0.118414445613;NR3C1:0.112947427615;FOXL1:0.0975912626394;STAT5{A,B}:0.0872603710065;ATF4:0.0843080002864;MTE{core}:0.0691329045781;NFIL3:0.0664223092409;HMX1:0.0372568910081;ESR1:0.0358343943832;RXRA_VDR{dimer}:0.0308259741694;ZFP161:0.0238741252562;POU2F1..3:0.0116657388883;NFIX:0.0033497568876;SMAD1..7,9:-0.0200867252844;NR6A1:-0.0204551404248;ZIC1..3:-0.0222159784273;HSF1,2:-0.0329350130691;CRX:-0.0584149218673;CDC5L:-0.0806409651599;AIRE:-0.0852658860024;REST:-0.0856907844688;ALX4:-0.0951874883619;ZNF238:-0.0956029816743;ZBTB16:-0.104483991044;FOX{F1,F2,J1}:-0.107577856242;RBPJ:-0.124706807535;GFI1B:-0.131985728738;FOXO1,3,4:-0.136656466688;ZNF143:-0.13879871104;MYBL2:-0.168046102955;NFE2:-0.172204366111;NFKB1_REL_RELA:-0.183253834471;TLX1..3_NFIC{dimer}:-0.189073661772;NANOG{mouse}:-0.196753741204;HNF1A:-0.199161041023;MAFB:-0.203651591618;GTF2I:-0.212826126407;ELF1,2,4:-0.229281109027;CREB1:-0.239558092106;PAX8:-0.264952163559;LHX3,4:-0.299284632254;SPI1:-0.304572305753;ETS1,2:-0.318907942073;LEF1_TCF7_TCF7L1,2:-0.325886595919;SOX2:-0.326322826384;NANOG:-0.344758647285;ATF2:-0.350354962032;STAT2,4,6:-0.366805103203;HNF4A_NR2F1,2:-0.377934581337;RREB1:-0.387156852635;EN1,2:-0.39715489642;GATA6:-0.39864535783;PATZ1:-0.403761331019;IRF7:-0.406912380548;POU5F1:-0.432149863515;NRF1:-0.436441792028;FOXA2:-0.440677669753;EP300:-0.442633493386;FOXD3:-0.448605674075;NHLH1,2:-0.470648832709;JUN:-0.47917249094;OCT4_SOX2{dimer}:-0.482140630461;PRDM1:-0.489050277313;MYB:-0.501164059897;RORA:-0.505660581084;NR1H4:-0.51355535949;ATF5_CREB3:-0.518003152693;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.544513028629;ATF6:-0.546703760701;MYFfamily:-0.55191407975;MZF1:-0.553657787694;AHR_ARNT_ARNT2:-0.565399624645;FOXP1:-0.601661184974;CDX1,2,4:-0.601740132685;XBP1:-0.602112507807;SPIB:-0.607132199423;NKX6-1,2:-0.619874467092;BREu{core}:-0.640153612755;STAT1,3:-0.640551890018;PDX1:-0.657128214859;PAX6:-0.662257196146;ALX1:-0.671329101274;NFE2L2:-0.671708307379;ZNF384:-0.700627187758;HOX{A5,B5}:-0.714775612604;RUNX1..3:-0.716572527658;GATA4:-0.733911087092;CUX2:-0.734108669769;YY1:-0.743614743482;SRF:-0.749590506698;NFY{A,B,C}:-0.776653837463;BPTF:-0.789027093808;RFX1:-0.795370062428;PAX3,7:-0.809279279279;E2F1..5:-0.811704470146;RFX2..5_RFXANK_RFXAP:-0.819338454971;HES1:-0.835794157812;FOXP3:-0.840622918924;ESRRA:-0.854812718351;DMAP1_NCOR{1,2}_SMARC:-0.884932460713;FOX{D1,D2}:-0.886491733289;NFE2L1:-0.897176308994;SOX{8,9,10}:-0.898302111744;MEF2{A,B,C,D}:-0.903316903073;IKZF2:-0.932103851613;NFATC1..3:-0.972601077022;GCM1,2:-0.97629880824;IRF1,2:-0.977181352791;PRRX1,2:-0.996471820782;HOXA9_MEIS1:-1.08564021453;SREBF1,2:-1.09929954968;GFI1:-1.12868239879;DBP:-1.13751551923;TGIF1:-1.18357824658;HBP1_HMGB_SSRP1_UBTF:-1.19001772331;PBX1:-1.20448475469;FOX{I1,J2}:-1.2589163847;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-1.2720935329;SOX5:-1.29094861694;TAL1_TCF{3,4,12}:-1.35887373674 | ||
|comment= | |comment= | ||
|created_by= | |created_by= |
Revision as of 17:50, 14 March 2012
Name: | Small Airway Epithelial Cells, donor2 |
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Species: | Human (Homo sapiens) |
Library ID: | {{{library_id}}} |
Sample type: | {{{sample_category}}} |
Genomic View: | UCSC |
CAGEd-oPOSSUM: | link |
Additional information | ||||||||||||||||||||||||||||
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Sample information
RNA information
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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: CNhs11975
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: CNhs11975
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: CNhs11975
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000002 in vivo cell sample
FF:0000166 human small airway epithelial cell sample
FF:0000210 human 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
CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000066 (epithelial cell)
0000223 (endodermal cell)
0000255 (eukaryotic cell)
0000548 (animal cell)
0002076 (endo-epithelial cell)
0002321 (embryonic cell)
0002368 (respiratory epithelial cell)
0002371 (somatic cell)
UBERON: Anatomy
0000061 (anatomical structure)
0000065 (respiratory tract)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000480 (anatomical group)
0000922 (embryo)
0000923 (germ layer)
0000925 (endoderm)
0001004 (respiratory system)
0001062 (anatomical entity)
0002050 (embryonic structure)
0002532 (epiblast (generic))
0004119 (endoderm-derived structure)
0005423 (developing anatomical structure)
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