FF:10796-110I4: Difference between revisions
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|top_motifs= | |top_motifs=ZEB1:2.47400392585;HNF4A_NR2F1,2:2.34888053219;HNF1A:2.28806688633;SNAI1..3:2.15221118992;HOX{A6,A7,B6,B7}:1.81456950948;LMO2:1.70765597196;VSX1,2:1.69825512537;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.0166973959;NFY{A,B,C}:1.01097929983;ONECUT1,2:0.95233817632;ZNF148:0.890880623365;NR5A1,2:0.890773032726;RBPJ:0.88509657476;MYB:0.879544141167;CDX1,2,4:0.828567971028;ELK1,4_GABP{A,B1}:0.714969945247;E2F1..5:0.706814588843;XCPE1{core}:0.680258980624;ADNP_IRX_SIX_ZHX:0.643682476522;MYOD1:0.627074506715;FOXN1:0.598392142358;ESRRA:0.595828245718;FOXQ1:0.521597234206;POU6F1:0.509875426317;SP1:0.508025416508;PPARG:0.475357814087;PBX1:0.470007792587;RXRA_VDR{dimer}:0.453607490853;GATA6:0.452399946074;DBP:0.431573222839;IRF7:0.430868277974;PAX6:0.414902104966;ATF4:0.40854450089;ZNF143:0.400791246603;MTF1:0.399123347561;NRF1:0.396314846856;bHLH_family:0.394586475345;NR6A1:0.38630547349;BREu{core}:0.380704134191;IKZF1:0.376301280606;POU2F1..3:0.360159218327;FOX{F1,F2,J1}:0.358645161958;ATF5_CREB3:0.345489336756;GFI1:0.34399629714;PAX5:0.315618890565;RORA:0.304317697082;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.297296074826;POU5F1:0.275400209276;FOX{I1,J2}:0.264755327254;NANOG:0.260881020262;RFX2..5_RFXANK_RFXAP:0.210824137297;OCT4_SOX2{dimer}:0.178327222144;TP53:0.174727135125;YY1:0.158780888397;HOX{A5,B5}:0.134424737772;TFDP1:0.132664706873;PAX2:0.120732659604;LEF1_TCF7_TCF7L1,2:0.115272120223;STAT1,3:0.0996441506567;ARID5B:0.0919390917398;ZNF423:0.0756242438156;PDX1:0.0748898039494;CRX:0.0742520165319;TLX1..3_NFIC{dimer}:0.048335180033;CEBPA,B_DDIT3:0.0368356206797;FOXM1:0.028703450981;HAND1,2:0.0244033049919;HIF1A:0.0227345881974;PAX1,9:-0.0298609117195;TBX4,5:-0.0317643018167;EBF1:-0.0323661443313;MTE{core}:-0.0327059211509;SOX2:-0.0673999283196;TFAP2B:-0.0852880974456;TEAD1:-0.106440101699;ZFP161:-0.109072927324;FOS_FOS{B,L1}_JUN{B,D}:-0.113797212531;IKZF2:-0.119005260008;FOXD3:-0.119832126835;ELF1,2,4:-0.139204610443;IRF1,2:-0.145740039814;FOX{D1,D2}:-0.146386463824;FOSL2:-0.147804652059;NKX6-1,2:-0.16860300639;MED-1{core}:-0.181293809141;NFE2:-0.197872065003;TFCP2:-0.210290527282;SOX{8,9,10}:-0.214133296154;NKX2-3_NKX2-5:-0.222480794908;BACH2:-0.245671764286;HLF:-0.288134709845;DMAP1_NCOR{1,2}_SMARC:-0.301312002521;CUX2:-0.307034976288;MEF2{A,B,C,D}:-0.317244079001;NHLH1,2:-0.318398901144;NFKB1_REL_RELA:-0.324008142934;HOX{A4,D4}:-0.328745703537;PAX4:-0.336608893272;TFAP2{A,C}:-0.345967542133;HIC1:-0.347450455282;PRRX1,2:-0.35408689639;STAT2,4,6:-0.357790441106;PAX3,7:-0.360530218565;NR1H4:-0.360688354548;ATF6:-0.374610903836;ZBTB6:-0.396587161704;NFE2L2:-0.399971600095;ZBTB16:-0.410446634163;TAL1_TCF{3,4,12}:-0.42687322024;TBP:-0.427682770897;HSF1,2:-0.437413461767;EN1,2:-0.441143882505;ETS1,2:-0.464433387707;TEF:-0.479834693509;RFX1:-0.484503678319;LHX3,4:-0.51463810619;GTF2A1,2:-0.529222180585;CREB1:-0.530069056944;AR:-0.531633772207;GCM1,2:-0.542448080145;NKX3-2:-0.544175226122;REST:-0.546533217079;SPI1:-0.563865266223;PITX1..3:-0.569555096601;FOXP3:-0.581312216123;SPIB:-0.583030744558;FOXL1:-0.590694699325;STAT5{A,B}:-0.603621152942;FOXA2:-0.606222583958;SREBF1,2:-0.62891971017;BPTF:-0.636689558617;MYBL2:-0.644969028669;ESR1:-0.662583243085;SOX17:-0.670599345444;T:-0.685169481657;UFEwm:-0.723254205323;EP300:-0.731376261895;KLF4:-0.734704992462;PAX8:-0.759850963548;RUNX1..3:-0.761486951301;POU3F1..4:-0.763146601596;EVI1:-0.763576171908;SOX5:-0.76396257649;GTF2I:-0.784368065037;HES1:-0.803445048484;NFIX:-0.803613234775;CDC5L:-0.8110583153;NKX2-1,4:-0.811316811236;NKX3-1:-0.842703285189;JUN:-0.852115727529;FOXO1,3,4:-0.864847536143;SRF:-0.881980779753;EGR1..3:-0.882174967129;AHR_ARNT_ARNT2:-0.890429954777;MYFfamily:-0.947360761359;NFIL3:-0.950913304806;HMX1:-0.951090358925;ATF2:-0.987381800456;NANOG{mouse}:-0.991397485045;HOXA9_MEIS1:-1.00934183631;TFAP4:-1.02492465758;MAZ:-1.04291595914;GFI1B:-1.04661411924;RREB1:-1.09880238836;GATA4:-1.10350295132;ZNF384:-1.10843429932;TLX2:-1.12025374178;FOXP1:-1.12503552644;ZIC1..3:-1.14681204112;SPZ1:-1.17477835908;PRDM1:-1.17561355289;HBP1_HMGB_SSRP1_UBTF:-1.18338855083;GZF1:-1.21124058355;POU1F1:-1.24170030319;PATZ1:-1.26279002229;ALX4:-1.28745916716;TOPORS:-1.29961272996;MAFB:-1.32089559521;NKX2-2,8:-1.33167947431;HMGA1,2:-1.36316040604;NFE2L1:-1.3672423535;NR3C1:-1.40847061231;TGIF1:-1.41413733723;AIRE:-1.50399482167;GLI1..3:-1.59096549041;ZNF238:-1.69122023404;ALX1:-1.69753204325;NFATC1..3:-1.71617691505;MZF1:-1.72984156472;XBP1:-2.11050338869;SMAD1..7,9:-2.13569454047;RXR{A,B,G}:-2.41163328779 | ||
|comment= | |comment= | ||
|created_by= | |created_by= |
Revision as of 17:53, 14 March 2012
Name: | adenocarcinoma cell line:IM95m |
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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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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: CNhs11882
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: CNhs11882
Novel motif | Logo | P-value |
---|---|---|
1 | 1 | 0.86 |
10 | 10 | 0.95 |
100 | 100 | 0.896 |
101 | 101 | 0.376 |
102 | 102 | 0.909 |
103 | 103 | 0.67 |
104 | 104 | 0.717 |
105 | 105 | 0.279 |
106 | 106 | 0.0726 |
107 | 107 | 0.395 |
108 | 108 | 0.505 |
109 | 109 | 0.104 |
11 | 11 | 0.722 |
110 | 110 | 0.735 |
111 | 111 | 0.9 |
112 | 112 | 0.467 |
113 | 113 | 0.00944 |
114 | 114 | 0.746 |
115 | 115 | 0.624 |
116 | 116 | 0.105 |
117 | 117 | 0.65 |
118 | 118 | 0.297 |
119 | 119 | 0.55 |
12 | 12 | 0.877 |
120 | 120 | 0.961 |
121 | 121 | 0.732 |
122 | 122 | 0.274 |
123 | 123 | 0.0848 |
124 | 124 | 0.142 |
125 | 125 | 0.159 |
126 | 126 | 0.126 |
127 | 127 | 0.253 |
128 | 128 | 0.0565 |
129 | 129 | 0.505 |
13 | 13 | 0.0138 |
130 | 130 | 0.241 |
131 | 131 | 0.00541 |
132 | 132 | 0.0574 |
133 | 133 | 0.106 |
134 | 134 | 0.0284 |
135 | 135 | 0.0954 |
136 | 136 | 0.00627 |
137 | 137 | 0.494 |
138 | 138 | 0.35 |
139 | 139 | 0.313 |
14 | 14 | 0.888 |
140 | 140 | 0.829 |
141 | 141 | 0.659 |
142 | 142 | 0.967 |
143 | 143 | 0.0829 |
144 | 144 | 0.154 |
145 | 145 | 0.179 |
146 | 146 | 0.539 |
147 | 147 | 0.306 |
148 | 148 | 0.798 |
149 | 149 | 0.47 |
15 | 15 | 0.89 |
150 | 150 | 0.678 |
151 | 151 | 0.891 |
152 | 152 | 0.848 |
153 | 153 | 0.533 |
154 | 154 | 0.79 |
155 | 155 | 0.12 |
156 | 156 | 0.423 |
157 | 157 | 0.532 |
158 | 158 | 0.934 |
159 | 159 | 0.881 |
16 | 16 | 0.824 |
160 | 160 | 0.661 |
161 | 161 | 0.516 |
162 | 162 | 0.351 |
163 | 163 | 0.66 |
164 | 164 | 0.371 |
165 | 165 | 0.655 |
166 | 166 | 0.564 |
167 | 167 | 0.662 |
168 | 168 | 0.538 |
169 | 169 | 0.44 |
17 | 17 | 0.679 |
18 | 18 | 0.0672 |
19 | 19 | 0.303 |
2 | 2 | 0.823 |
20 | 20 | 0.553 |
21 | 21 | 0.68 |
22 | 22 | 0.673 |
23 | 23 | 0.0637 |
24 | 24 | 0.52 |
25 | 25 | 0.843 |
26 | 26 | 0.0147 |
27 | 27 | 0.645 |
28 | 28 | 0.527 |
29 | 29 | 0.413 |
3 | 3 | 0.535 |
30 | 30 | 0.277 |
31 | 31 | 0.841 |
32 | 32 | 0.0869 |
33 | 33 | 0.356 |
34 | 34 | 0.426 |
35 | 35 | 0.0198 |
36 | 36 | 0.436 |
37 | 37 | 0.346 |
38 | 38 | 0.264 |
39 | 39 | 0.836 |
4 | 4 | 0.792 |
40 | 40 | 0.164 |
41 | 41 | 0.115 |
42 | 42 | 0.988 |
43 | 43 | 0.497 |
44 | 44 | 0.505 |
45 | 45 | 0.852 |
46 | 46 | 0.456 |
47 | 47 | 0.981 |
48 | 48 | 0.993 |
49 | 49 | 0.257 |
5 | 5 | 0.547 |
50 | 50 | 0.705 |
51 | 51 | 0.851 |
52 | 52 | 0.485 |
53 | 53 | 0.273 |
54 | 54 | 0.837 |
55 | 55 | 0.552 |
56 | 56 | 0.77 |
57 | 57 | 0.448 |
58 | 58 | 0.511 |
59 | 59 | 0.286 |
6 | 6 | 0.279 |
60 | 60 | 0.92 |
61 | 61 | 0.135 |
62 | 62 | 0.866 |
63 | 63 | 0.841 |
64 | 64 | 0.653 |
65 | 65 | 0.528 |
66 | 66 | 0.00995 |
67 | 67 | 0.658 |
68 | 68 | 0.0394 |
69 | 69 | 0.73 |
7 | 7 | 0.124 |
70 | 70 | 0.141 |
71 | 71 | 0.632 |
72 | 72 | 0.91 |
73 | 73 | 0.246 |
74 | 74 | 0.113 |
75 | 75 | 0.894 |
76 | 76 | 0.286 |
77 | 77 | 0.764 |
78 | 78 | 0.0264 |
79 | 79 | 0.0124 |
8 | 8 | 0.57 |
80 | 80 | 0.369 |
81 | 81 | 0.181 |
82 | 82 | 3.79037e-5 |
83 | 83 | 0.719 |
84 | 84 | 0.199 |
85 | 85 | 0.202 |
86 | 86 | 0.873 |
87 | 87 | 0.0181 |
88 | 88 | 0.354 |
89 | 89 | 0.73 |
9 | 9 | 0.303 |
90 | 90 | 0.241 |
91 | 91 | 0.0129 |
92 | 92 | 0.154 |
93 | 93 | 0.756 |
94 | 94 | 0.0535 |
95 | 95 | 0.0336 |
96 | 96 | 0.343 |
97 | 97 | 0.805 |
98 | 98 | 0.467 |
99 | 99 | 0.659 |
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: CNhs11882
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000003 cell line sample
FF:0000210 human sample
FF:0100167 adenocarcinoma 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
CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000066 (epithelial cell)
0000255 (eukaryotic cell)
0000548 (animal cell)
DOID: Disease
0050687 (cell type cancer)
14566 (disease of cellular proliferation)
162 (cancer)
299 (adenocarcinoma)
305 (carcinoma)
4 (disease)
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