FF:12181-129A3: Difference between revisions
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|top_motifs= | |top_motifs=GATA6:3.60081030334;FOXO1,3,4:2.72126461122;FOXD3:2.27381208158;SPI1:2.26754567866;TOPORS:2.22056175066;ETS1,2:2.2173054452;SPIB:2.07972117766;ELF1,2,4:1.8325127222;RUNX1..3:1.72825577137;FOX{F1,F2,J1}:1.67075339677;DMAP1_NCOR{1,2}_SMARC:1.59546627006;NANOG{mouse}:1.5757638099;FOX{D1,D2}:1.55309084997;FOXP3:1.46342515848;T:1.45465930236;TFAP4:1.43011398649;STAT5{A,B}:1.31067636867;SPZ1:1.29224030041;STAT1,3:1.26914429856;IRF7:1.22397442636;ALX1:1.19585321848;CDX1,2,4:1.15749121509;BPTF:1.13521749554;IKZF2:1.06224908813;HMX1:1.03178414437;IRF1,2:0.97247643086;CEBPA,B_DDIT3:0.939105119922;POU5F1:0.938700659944;TLX2:0.933226513877;TFCP2:0.924405379894;FOXP1:0.907952316601;ZNF148:0.898961311717;PITX1..3:0.859418417286;POU2F1..3:0.814862426052;RXRA_VDR{dimer}:0.803461711816;MYFfamily:0.764804177428;EVI1:0.670457054138;SMAD1..7,9:0.620009498392;NR1H4:0.59988905871;FOXN1:0.554331670555;PAX3,7:0.538444841771;RREB1:0.532639248961;STAT2,4,6:0.531670681327;EP300:0.517300042397;NFE2L2:0.502949272872;ZNF423:0.499409968893;PDX1:0.483779419549;TGIF1:0.452489185438;NR6A1:0.444479684889;NFIL3:0.439527026369;FOXA2:0.43895881978;NKX2-2,8:0.429908786184;MYOD1:0.419183309108;SREBF1,2:0.411752731476;PAX2:0.401636807928;MZF1:0.331560345223;NFATC1..3:0.243319527723;MAZ:0.237363466651;NKX3-2:0.227530658778;BREu{core}:0.223782103753;ZEB1:0.179196657423;LMO2:0.174553134867;RFX2..5_RFXANK_RFXAP:0.163877903376;CUX2:0.0963289040112;AIRE:0.0948210760625;GATA4:0.0938462185857;SNAI1..3:0.0868640157596;CRX:0.0736692351299;OCT4_SOX2{dimer}:0.0729499418848;XCPE1{core}:0.0590018692361;ZBTB16:0.0186804475228;PPARG:0.0165255944903;NFIX:-0.0117411556101;ZNF238:-0.0210377736146;TAL1_TCF{3,4,12}:-0.0366726849286;NFKB1_REL_RELA:-0.0648097474932;ATF5_CREB3:-0.0957545467742;GLI1..3:-0.103899688481;HBP1_HMGB_SSRP1_UBTF:-0.110272326943;NKX3-1:-0.119270980001;MYB:-0.135042421373;FOX{I1,J2}:-0.143485216508;ALX4:-0.153530833489;SRF:-0.185067992211;SP1:-0.225484239274;NFE2:-0.230264745857;REST:-0.244809022826;RBPJ:-0.28249769634;CREB1:-0.31998655435;DBP:-0.331981068089;HLF:-0.335090915423;POU1F1:-0.385116550642;KLF4:-0.423730103176;TFAP2{A,C}:-0.442364559841;NR5A1,2:-0.471136048368;PATZ1:-0.491673895961;HNF4A_NR2F1,2:-0.496442167026;NKX2-1,4:-0.509275143896;NHLH1,2:-0.511562978241;ZFP161:-0.529545997593;NKX6-1,2:-0.545913133062;RXR{A,B,G}:-0.562844893391;ATF2:-0.574893096429;BACH2:-0.579226702396;MTF1:-0.581952852381;ESR1:-0.651649514966;PAX4:-0.659455572257;EGR1..3:-0.667895023607;PBX1:-0.696948580112;POU3F1..4:-0.704972625154;FOSL2:-0.715924674851;GTF2I:-0.716101332986;TFAP2B:-0.721990341985;ARID5B:-0.740750163444;PRDM1:-0.748552567958;FOS_FOS{B,L1}_JUN{B,D}:-0.751041377671;UFEwm:-0.751654498154;ELK1,4_GABP{A,B1}:-0.754116623361;NFE2L1:-0.755249344609;HOXA9_MEIS1:-0.755855452551;HIC1:-0.761923921782;LEF1_TCF7_TCF7L1,2:-0.788741914689;HNF1A:-0.789180087446;MED-1{core}:-0.797297471725;AR:-0.844063464736;RFX1:-0.877362331203;TBX4,5:-0.884581775155;YY1:-0.895274945052;MAFB:-0.921967702437;NR3C1:-0.965304297336;ZNF143:-0.966597632507;MEF2{A,B,C,D}:-0.986673374845;PRRX1,2:-0.995394889896;FOXQ1:-1.00392536923;JUN:-1.02160709189;MTE{core}:-1.0294138575;GZF1:-1.04846556176;SOX5:-1.05481799278;ATF4:-1.06945893125;POU6F1:-1.07775440434;PAX6:-1.11323697411;ADNP_IRX_SIX_ZHX:-1.11732616312;NRF1:-1.151783637;TLX1..3_NFIC{dimer}:-1.16641114457;NFY{A,B,C}:-1.18585049551;RORA:-1.21215985281;E2F1..5:-1.22545662967;TBP:-1.24402268163;HAND1,2:-1.25999507858;RXR{A,B,G}_{NR1H2,PPAR}dimers:-1.26542553485;SOX2:-1.27816068364;EN1,2:-1.27861374169;NKX2-3_NKX2-5:-1.30873765153;HES1:-1.31395724545;ZBTB6:-1.31678375922;HMGA1,2:-1.32696795061;EBF1:-1.33255222871;LHX3,4:-1.34361898891;ZIC1..3:-1.35230031497;GCM1,2:-1.35680368209;VSX1,2:-1.37455874238;ZNF384:-1.37580543965;SOX{8,9,10}:-1.39437541587;XBP1:-1.40165476144;GFI1:-1.42332786491;TP53:-1.4508285208;PAX5:-1.45138913926;FOXL1:-1.48606189551;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-1.5193882242;HIF1A:-1.58111757664;ONECUT1,2:-1.59689993795;AHR_ARNT_ARNT2:-1.6222686073;PAX8:-1.62934815754;GTF2A1,2:-1.63394109827;NANOG:-1.66881977415;TEAD1:-1.69205273096;FOXM1:-1.69962340949;GFI1B:-1.74381449236;ESRRA:-1.77468695791;MYBL2:-1.78234894449;HOX{A4,D4}:-1.79510269469;HOX{A6,A7,B6,B7}:-1.83287175377;HOX{A5,B5}:-1.95544094491;CDC5L:-2.05387101984;ATF6:-2.06303052188;HSF1,2:-2.07506958709;bHLH_family:-2.20971444287;PAX1,9:-2.37268258866;TFDP1:-2.37981177561;SOX17:-2.62151506916;TEF:-2.63285698698;IKZF1:-2.72344718941 | ||
|comment= | |comment= | ||
|created_by= | |created_by= | ||
Revision as of 17:52, 14 March 2012
| Name: | Whole blood (ribopure), donor090309, donation3 |
|---|---|
| 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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| Download 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: CNhs11948
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: CNhs11948
| Novel motif | Logo | P-value |
|---|---|---|
| 1 | 1 | 0.134 |
| 10 | 10 | 0.0499 |
| 100 | 100 | 0.643 |
| 101 | 101 | 0.181 |
| 102 | 102 | 0.504 |
| 103 | 103 | 0.339 |
| 104 | 104 | 0.717 |
| 105 | 105 | 0.349 |
| 106 | 106 | 0.0131 |
| 107 | 107 | 0.429 |
| 108 | 108 | 0.993 |
| 109 | 109 | 0.133 |
| 11 | 11 | 0.0808 |
| 110 | 110 | 0.347 |
| 111 | 111 | 0.255 |
| 112 | 112 | 0.0919 |
| 113 | 113 | 0.169 |
| 114 | 114 | 0.0444 |
| 115 | 115 | 0.634 |
| 116 | 116 | 0.604 |
| 117 | 117 | 0.0323 |
| 118 | 118 | 0.269 |
| 119 | 119 | 0.33 |
| 12 | 12 | 0.361 |
| 120 | 120 | 0.415 |
| 121 | 121 | 0.953 |
| 122 | 122 | 0.577 |
| 123 | 123 | 0.00978 |
| 124 | 124 | 0.267 |
| 125 | 125 | 0.203 |
| 126 | 126 | 0.547 |
| 127 | 127 | 0.276 |
| 128 | 128 | 0.0155 |
| 129 | 129 | 0.614 |
| 13 | 13 | 0.95 |
| 130 | 130 | 0.426 |
| 131 | 131 | 0.974 |
| 132 | 132 | 0.655 |
| 133 | 133 | 0.859 |
| 134 | 134 | 0.911 |
| 135 | 135 | 0.415 |
| 136 | 136 | 0.98 |
| 137 | 137 | 0.0112 |
| 138 | 138 | 0.048 |
| 139 | 139 | 0.00933 |
| 14 | 14 | 0.161 |
| 140 | 140 | 0.211 |
| 141 | 141 | 0.43 |
| 142 | 142 | 0.742 |
| 143 | 143 | 0.00313 |
| 144 | 144 | 0.614 |
| 145 | 145 | 0.166 |
| 146 | 146 | 0.968 |
| 147 | 147 | 0.131 |
| 148 | 148 | 0.0927 |
| 149 | 149 | 0.472 |
| 15 | 15 | 0.0776 |
| 150 | 150 | 0.747 |
| 151 | 151 | 0.195 |
| 152 | 152 | 0.194 |
| 153 | 153 | 0.515 |
| 154 | 154 | 0.74 |
| 155 | 155 | 0.253 |
| 156 | 156 | 0.756 |
| 157 | 157 | 0.268 |
| 158 | 158 | 0.471 |
| 159 | 159 | 0.187 |
| 16 | 16 | 0.363 |
| 160 | 160 | 0.453 |
| 161 | 161 | 0.226 |
| 162 | 162 | 0.861 |
| 163 | 163 | 0.472 |
| 164 | 164 | 0.183 |
| 165 | 165 | 0.109 |
| 166 | 166 | 0.86 |
| 167 | 167 | 0.846 |
| 168 | 168 | 0.237 |
| 169 | 169 | 0.0136 |
| 17 | 17 | 0.375 |
| 18 | 18 | 0.558 |
| 19 | 19 | 0.226 |
| 2 | 2 | 0.207 |
| 20 | 20 | 0.663 |
| 21 | 21 | 0.187 |
| 22 | 22 | 0.217 |
| 23 | 23 | 0.107 |
| 24 | 24 | 0.049 |
| 25 | 25 | 0.32 |
| 26 | 26 | 0.141 |
| 27 | 27 | 0.102 |
| 28 | 28 | 0.536 |
| 29 | 29 | 0.507 |
| 3 | 3 | 0.0644 |
| 30 | 30 | 0.863 |
| 31 | 31 | 0.545 |
| 32 | 32 | 0.966 |
| 33 | 33 | 0.75 |
| 34 | 34 | 0.247 |
| 35 | 35 | 0.2 |
| 36 | 36 | 0.51 |
| 37 | 37 | 0.153 |
| 38 | 38 | 0.362 |
| 39 | 39 | 0.943 |
| 4 | 4 | 0.79 |
| 40 | 40 | 0.471 |
| 41 | 41 | 0.257 |
| 42 | 42 | 0.247 |
| 43 | 43 | 0.146 |
| 44 | 44 | 0.207 |
| 45 | 45 | 0.523 |
| 46 | 46 | 0.0785 |
| 47 | 47 | 0.154 |
| 48 | 48 | 0.263 |
| 49 | 49 | 0.105 |
| 5 | 5 | 0.339 |
| 50 | 50 | 0.88 |
| 51 | 51 | 0.389 |
| 52 | 52 | 0.454 |
| 53 | 53 | 0.098 |
| 54 | 54 | 0.265 |
| 55 | 55 | 0.0867 |
| 56 | 56 | 0.301 |
| 57 | 57 | 0.628 |
| 58 | 58 | 0.0845 |
| 59 | 59 | 0.0533 |
| 6 | 6 | 0.751 |
| 60 | 60 | 0.0635 |
| 61 | 61 | 0.275 |
| 62 | 62 | 0.0213 |
| 63 | 63 | 0.527 |
| 64 | 64 | 0.313 |
| 65 | 65 | 0.184 |
| 66 | 66 | 0.347 |
| 67 | 67 | 0.179 |
| 68 | 68 | 0.552 |
| 69 | 69 | 0.178 |
| 7 | 7 | 0.284 |
| 70 | 70 | 0.063 |
| 71 | 71 | 0.114 |
| 72 | 72 | 0.248 |
| 73 | 73 | 0.231 |
| 74 | 74 | 0.986 |
| 75 | 75 | 0.0904 |
| 76 | 76 | 0.433 |
| 77 | 77 | 0.495 |
| 78 | 78 | 0.328 |
| 79 | 79 | 0.567 |
| 8 | 8 | 0.294 |
| 80 | 80 | 0.121 |
| 81 | 81 | 0.224 |
| 82 | 82 | 0.0152 |
| 83 | 83 | 0.481 |
| 84 | 84 | 0.195 |
| 85 | 85 | 0.165 |
| 86 | 86 | 0.127 |
| 87 | 87 | 0.556 |
| 88 | 88 | 0.712 |
| 89 | 89 | 0.546 |
| 9 | 9 | 0.282 |
| 90 | 90 | 0.0174 |
| 91 | 91 | 0.32 |
| 92 | 92 | 0.0559 |
| 93 | 93 | 0.478 |
| 94 | 94 | 0.201 |
| 95 | 95 | 0.322 |
| 96 | 96 | 0.068 |
| 97 | 97 | 0.671 |
| 98 | 98 | 0.0297 |
| 99 | 99 | 0.661 |
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: CNhs11948
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000002 in vivo cell sample
FF:0000210 human sample
FF:0000281 human whole blood 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
UBERON: Anatomy
0000061 (anatomical structure)
0000178 (blood)
0000179 (haemolymphatic fluid)
0000463 (organism substance)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000479 (tissue)
0000480 (anatomical group)
0001009 (circulatory system)
0001062 (anatomical entity)
0002193 (hemolymphoid system)
0002390 (hematopoietic system)
0004535 (cardiovascular system)
0007023 (adult organism)
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
