FF:12225-129F2: Difference between revisions
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|top_motifs= | |top_motifs=GATA6:2.27712496324;MYB:2.26122923227;E2F1..5:1.73829194726;ALX1:1.63545220319;POU2F1..3:1.55027386693;ELF1,2,4:1.47134997852;DMAP1_NCOR{1,2}_SMARC:1.2371981594;FOX{I1,J2}:1.18090026922;PBX1:1.17513699817;SPIB:1.13879415937;STAT1,3:1.12532873695;TLX2:1.11080348018;YY1:1.05432857063;NFY{A,B,C}:1.03799480185;NANOG:0.95758896826;RXR{A,B,G}_{NR1H2,PPAR}dimers:0.950322943624;BREu{core}:0.941146298835;ELK1,4_GABP{A,B1}:0.937976777848;RUNX1..3:0.893789039383;NANOG{mouse}:0.80132385514;RFX2..5_RFXANK_RFXAP:0.767055234055;ZNF143:0.724678355373;FOXP3:0.675468925188;CDX1,2,4:0.652613303476;HAND1,2:0.652048306981;ETS1,2:0.630117413345;SPI1:0.624564853209;NR6A1:0.613635897869;OCT4_SOX2{dimer}:0.610144652133;NFIL3:0.605437278274;PAX4:0.580607735411;HIF1A:0.537801025312;ARID5B:0.517237005518;NR5A1,2:0.504927057388;NRF1:0.489582768629;FOXA2:0.482544754882;PAX6:0.466066515278;RFX1:0.462260582359;NKX6-1,2:0.459426623199;AIRE:0.457581130791;IRF1,2:0.448553785811;POU1F1:0.391519091378;CREB1:0.368707031713;FOXN1:0.35731482802;FOXP1:0.350034968328;CUX2:0.341134603502;STAT5{A,B}:0.333374555284;NKX2-3_NKX2-5:0.290640915861;GFI1:0.27290496278;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.256502044182;PITX1..3:0.232737391295;POU3F1..4:0.228112628384;POU5F1:0.202629627949;SOX{8,9,10}:0.179756290472;MYBL2:0.161015790752;IKZF2:0.154537567398;RBPJ:0.154313466002;ATF5_CREB3:0.137346784085;HBP1_HMGB_SSRP1_UBTF:0.131895728065;bHLH_family:0.119466785309;SOX2:0.0887175245848;MEF2{A,B,C,D}:0.0586054739266;ZEB1:0.0482884414247;HOXA9_MEIS1:0.0463671304453;PAX2:0.0460930897741;TGIF1:0.0250643526175;LEF1_TCF7_TCF7L1,2:0.019498197212;NKX2-1,4:0.00426251822354;T:0.00154553509912;PRRX1,2:-0.0148348496976;DBP:-0.031712711575;NKX2-2,8:-0.0450243892993;XBP1:-0.0451063248141;TBP:-0.0460253109525;ATF4:-0.0474328931396;IRF7:-0.0553817110415;RXR{A,B,G}:-0.0608509631331;AR:-0.0683286616311;GCM1,2:-0.0932128050317;PAX8:-0.110465902864;SOX5:-0.128284559188;SNAI1..3:-0.132469623991;HES1:-0.1343480452;NFKB1_REL_RELA:-0.137054703705;NKX3-1:-0.14825464683;MYOD1:-0.150224122148;CRX:-0.163995035682;FOX{D1,D2}:-0.192517763345;FOX{F1,F2,J1}:-0.246068340614;FOXO1,3,4:-0.247254379152;NHLH1,2:-0.263385469361;TOPORS:-0.275485845335;TEF:-0.282875921865;SREBF1,2:-0.287416355462;HNF4A_NR2F1,2:-0.321623681552;RORA:-0.32579497227;LMO2:-0.357595785846;HNF1A:-0.358594976605;EVI1:-0.378259497775;PAX5:-0.378722018785;ZNF148:-0.381538083382;PDX1:-0.391112729354;VSX1,2:-0.406271538956;BPTF:-0.410498711983;REST:-0.421147008059;ZBTB16:-0.452988650336;GZF1:-0.456992130011;MYFfamily:-0.462512914488;CEBPA,B_DDIT3:-0.466613982096;FOXQ1:-0.467982188518;ESRRA:-0.480480836816;TFAP4:-0.497060657327;ESR1:-0.515836042577;PPARG:-0.523218187114;ZFP161:-0.532357683392;NFE2:-0.554681663998;HOX{A4,D4}:-0.558053333798;RXRA_VDR{dimer}:-0.570359577068;ATF2:-0.597941624905;SOX17:-0.604129041225;LHX3,4:-0.610493019701;EP300:-0.619368796825;FOSL2:-0.621773868458;ZNF238:-0.626048724805;NFATC1..3:-0.627909068766;SRF:-0.662477506993;TAL1_TCF{3,4,12}:-0.67551868362;AHR_ARNT_ARNT2:-0.68259884558;HLF:-0.684102453854;MZF1:-0.685237535681;PAX3,7:-0.685430534812;HIC1:-0.685532316105;FOS_FOS{B,L1}_JUN{B,D}:-0.688238034193;FOXD3:-0.691687721283;HSF1,2:-0.696307090937;MTF1:-0.70436609148;BACH2:-0.726099421144;TFDP1:-0.738387580784;HOX{A5,B5}:-0.770611593107;EBF1:-0.773836780079;MAFB:-0.774894839474;HMX1:-0.780294032583;EN1,2:-0.810562574538;POU6F1:-0.81278724361;FOXL1:-0.830211325771;PRDM1:-0.857430691612;STAT2,4,6:-0.862081840918;JUN:-0.865234980011;TBX4,5:-0.8652870814;HOX{A6,A7,B6,B7}:-0.873741117235;TFAP2B:-0.888409960862;NFE2L2:-0.894134440867;MTE{core}:-0.897245464494;ZNF423:-0.931697602811;PATZ1:-0.937108415271;GLI1..3:-0.942535222437;ADNP_IRX_SIX_ZHX:-0.95708530842;ALX4:-0.957182245539;SP1:-0.963133759366;ONECUT1,2:-0.973299876775;GTF2I:-0.979099146363;KLF4:-0.983070574105;GATA4:-0.984377273291;SMAD1..7,9:-0.993246500611;TFAP2{A,C}:-0.997040948333;XCPE1{core}:-1.03413298737;MAZ:-1.03469485342;ZBTB6:-1.06075434236;TLX1..3_NFIC{dimer}:-1.06599841845;FOXM1:-1.07260994374;EGR1..3:-1.08183954457;NFE2L1:-1.10588159291;TP53:-1.14089530894;NFIX:-1.15601605887;MED-1{core}:-1.18254562541;GTF2A1,2:-1.18639551775;UFEwm:-1.1933827259;CDC5L:-1.23009931138;ZIC1..3:-1.25578228712;TEAD1:-1.26049646998;ATF6:-1.26134494367;IKZF1:-1.26695610954;PAX1,9:-1.30393888873;ZNF384:-1.33468604414;GFI1B:-1.39677622162;NKX3-2:-1.41457867517;HMGA1,2:-1.41824991798;NR1H4:-1.48874136042;RREB1:-1.50109665083;TFCP2:-1.83282749254;SPZ1:-1.83589339203;NR3C1:-1.8624468977 | ||
|comment= | |comment= | ||
|created_by= | |created_by= | ||
Revision as of 17:38, 14 March 2012
| Name: | CD34+ stem cells - adult bone marrow derived, donor1 |
|---|---|
| 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: CNhs12588
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: CNhs12588
| Novel motif | Logo | P-value |
|---|---|---|
| 1 | 1 | 0.429 |
| 10 | 10 | 0.0192 |
| 100 | 100 | 0.411 |
| 101 | 101 | 0.424 |
| 102 | 102 | 0.899 |
| 103 | 103 | 0.908 |
| 104 | 104 | 0.819 |
| 105 | 105 | 0.614 |
| 106 | 106 | 0.279 |
| 107 | 107 | 0.0343 |
| 108 | 108 | 0.0763 |
| 109 | 109 | 0.26 |
| 11 | 11 | 0.157 |
| 110 | 110 | 0.284 |
| 111 | 111 | 0.6 |
| 112 | 112 | 0.972 |
| 113 | 113 | 0.883 |
| 114 | 114 | 0.918 |
| 115 | 115 | 0.336 |
| 116 | 116 | 0.644 |
| 117 | 117 | 0.0201 |
| 118 | 118 | 0.0974 |
| 119 | 119 | 0.19 |
| 12 | 12 | 0.244 |
| 120 | 120 | 0.597 |
| 121 | 121 | 0.237 |
| 122 | 122 | 0.949 |
| 123 | 123 | 0.12 |
| 124 | 124 | 0.49 |
| 125 | 125 | 0.0188 |
| 126 | 126 | 0.291 |
| 127 | 127 | 0.338 |
| 128 | 128 | 0.594 |
| 129 | 129 | 0.0753 |
| 13 | 13 | 0.00665 |
| 130 | 130 | 0.664 |
| 131 | 131 | 0.224 |
| 132 | 132 | 0.243 |
| 133 | 133 | 0.366 |
| 134 | 134 | 0.76 |
| 135 | 135 | 0.481 |
| 136 | 136 | 0.0579 |
| 137 | 137 | 0.105 |
| 138 | 138 | 0.558 |
| 139 | 139 | 0.707 |
| 14 | 14 | 0.992 |
| 140 | 140 | 0.242 |
| 141 | 141 | 0.445 |
| 142 | 142 | 0.582 |
| 143 | 143 | 0.321 |
| 144 | 144 | 0.614 |
| 145 | 145 | 0.555 |
| 146 | 146 | 0.293 |
| 147 | 147 | 0.0101 |
| 148 | 148 | 0.662 |
| 149 | 149 | 0.227 |
| 15 | 15 | 0.863 |
| 150 | 150 | 0.955 |
| 151 | 151 | 0.802 |
| 152 | 152 | 0.211 |
| 153 | 153 | 0.353 |
| 154 | 154 | 0.77 |
| 155 | 155 | 0.013 |
| 156 | 156 | 0.939 |
| 157 | 157 | 0.0825 |
| 158 | 158 | 0.408 |
| 159 | 159 | 0.0558 |
| 16 | 16 | 0.415 |
| 160 | 160 | 0.7 |
| 161 | 161 | 0.422 |
| 162 | 162 | 0.921 |
| 163 | 163 | 0.301 |
| 164 | 164 | 0.145 |
| 165 | 165 | 0.345 |
| 166 | 166 | 0.305 |
| 167 | 167 | 0.243 |
| 168 | 168 | 0.909 |
| 169 | 169 | 0.651 |
| 17 | 17 | 0.221 |
| 18 | 18 | 0.0322 |
| 19 | 19 | 0.617 |
| 2 | 2 | 0.239 |
| 20 | 20 | 0.443 |
| 21 | 21 | 0.968 |
| 22 | 22 | 0.573 |
| 23 | 23 | 1.04664e-4 |
| 24 | 24 | 0.517 |
| 25 | 25 | 0.0726 |
| 26 | 26 | 0.345 |
| 27 | 27 | 0.998 |
| 28 | 28 | 0.859 |
| 29 | 29 | 0.0285 |
| 3 | 3 | 0.246 |
| 30 | 30 | 0.0687 |
| 31 | 31 | 0.201 |
| 32 | 32 | 0.015 |
| 33 | 33 | 0.225 |
| 34 | 34 | 0.981 |
| 35 | 35 | 0.76 |
| 36 | 36 | 0.0363 |
| 37 | 37 | 0.274 |
| 38 | 38 | 0.792 |
| 39 | 39 | 0.264 |
| 4 | 4 | 0.808 |
| 40 | 40 | 0.0994 |
| 41 | 41 | 0.69 |
| 42 | 42 | 0.239 |
| 43 | 43 | 0.611 |
| 44 | 44 | 0.942 |
| 45 | 45 | 0.257 |
| 46 | 46 | 0.885 |
| 47 | 47 | 0.103 |
| 48 | 48 | 0.0991 |
| 49 | 49 | 0.915 |
| 5 | 5 | 0.462 |
| 50 | 50 | 0.71 |
| 51 | 51 | 0.984 |
| 52 | 52 | 0.146 |
| 53 | 53 | 0.484 |
| 54 | 54 | 0.21 |
| 55 | 55 | 0.383 |
| 56 | 56 | 0.714 |
| 57 | 57 | 0.672 |
| 58 | 58 | 0.444 |
| 59 | 59 | 0.929 |
| 6 | 6 | 0.394 |
| 60 | 60 | 0.383 |
| 61 | 61 | 0.0724 |
| 62 | 62 | 0.397 |
| 63 | 63 | 0.519 |
| 64 | 64 | 0.216 |
| 65 | 65 | 0.062 |
| 66 | 66 | 0.675 |
| 67 | 67 | 0.952 |
| 68 | 68 | 0.134 |
| 69 | 69 | 0.381 |
| 7 | 7 | 0.112 |
| 70 | 70 | 0.103 |
| 71 | 71 | 0.156 |
| 72 | 72 | 0.221 |
| 73 | 73 | 0.97 |
| 74 | 74 | 0.5 |
| 75 | 75 | 0.0475 |
| 76 | 76 | 0.169 |
| 77 | 77 | 0.0594 |
| 78 | 78 | 0.692 |
| 79 | 79 | 0.14 |
| 8 | 8 | 0.291 |
| 80 | 80 | 0.797 |
| 81 | 81 | 0.983 |
| 82 | 82 | 0.859 |
| 83 | 83 | 0.0222 |
| 84 | 84 | 0.409 |
| 85 | 85 | 0.045 |
| 86 | 86 | 0.562 |
| 87 | 87 | 0.0372 |
| 88 | 88 | 0.486 |
| 89 | 89 | 0.162 |
| 9 | 9 | 0.743 |
| 90 | 90 | 0.257 |
| 91 | 91 | 0.476 |
| 92 | 92 | 0.0475 |
| 93 | 93 | 0.903 |
| 94 | 94 | 0.708 |
| 95 | 95 | 0.0809 |
| 96 | 96 | 0.833 |
| 97 | 97 | 0.569 |
| 98 | 98 | 0.758 |
| 99 | 99 | 0.079 |
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: CNhs12588
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000002 in vivo cell sample
FF:0000026 human CD34-positive hematopoietic stem 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
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
