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|top_motifs=RBPJ:4.25919516702;RXRA_VDR{dimer}:4.12893177232;ATF6:3.61726463184;MYOD1:2.49185903256;ARID5B:2.47151932486;bHLH_family:2.40192884841;PDX1:2.32512006577;NR1H4:2.25770758508;STAT5{A,B}:2.04368114181;SNAI1..3:2.0212193343;ZEB1:1.95438069817;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.70281369139;LMO2:1.55742102128;EN1,2:1.55714526855;TLX2:1.50485484499;FOXO1,3,4:1.40372685608;MAFB:1.31240611134;CDX1,2,4:1.28242163745;GCM1,2:1.20912169238;NR5A1,2:1.16399698299;FOXM1:1.12771598044;SPZ1:1.12188456626;STAT1,3:1.11361839106;CEBPA,B_DDIT3:1.08820414305;FOXA2:1.05518801179;AR:1.05068397574;ALX4:0.938221404891;ESR1:0.917541145621;YY1:0.871422345597;HOX{A4,D4}:0.821110282742;FOX{D1,D2}:0.79051726605;FOXN1:0.766184257787;PBX1:0.75498581656;NANOG{mouse}:0.753871097324;GATA6:0.734722198695;NKX3-2:0.678802617319;PAX1,9:0.668990834681;TEF:0.630535905584;NR6A1:0.620243562127;HLF:0.58015940856;HOX{A5,B5}:0.576134598259;PAX6:0.534411035968;MYBL2:0.528951554123;HNF1A:0.481810498446;BPTF:0.478356562426;TOPORS:0.469630870725;RXR{A,B,G}_{NR1H2,PPAR}dimers:0.443606822019;ESRRA:0.411034781168;PAX8:0.362408022594;ZNF148:0.347477970016;HAND1,2:0.336559429634;GTF2A1,2:0.325854265993;FOXQ1:0.290471228325;NFE2:0.280018933706;GZF1:0.278856885248;STAT2,4,6:0.259112115177;CREB1:0.235408524814;HBP1_HMGB_SSRP1_UBTF:0.226234888491;TFAP4:0.21131985125;NHLH1,2:0.200723650774;ONECUT1,2:0.198392998668;ZNF238:0.193526123935;DMAP1_NCOR{1,2}_SMARC:0.161272885454;T:0.154963313665;TFAP2B:0.143303416761;TGIF1:0.121441175388;ETS1,2:0.119533514875;SMAD1..7,9:0.116046668487;NFKB1_REL_RELA:0.105514506458;PPARG:0.103840538651;HSF1,2:0.0888758294466;ELF1,2,4:0.0731084725909;NANOG:0.0580326780748;NKX2-2,8:0.0539603233994;DBP:0.0460023723557;ZBTB6:0.0452119278309;TAL1_TCF{3,4,12}:0.0415537901051;ATF4:0.0297258217203;HOXA9_MEIS1:0.0248848767968;NFIX:0.0136228901423;TBP:0.0134712390014;HMGA1,2:0.0027689064673;HMX1:-0.0151477618878;SPIB:-0.0459380481551;POU6F1:-0.054477344548;ADNP_IRX_SIX_ZHX:-0.0612069819981;BACH2:-0.0770463727389;NFE2L2:-0.0816263305489;RUNX1..3:-0.0930216135485;ATF5_CREB3:-0.0941962133511;POU1F1:-0.109067184017;CRX:-0.128935568145;LEF1_TCF7_TCF7L1,2:-0.131715103619;HIC1:-0.155964022899;IRF1,2:-0.177015852015;MTF1:-0.185659168548;FOX{F1,F2,J1}:-0.185989472194;MYFfamily:-0.20447924082;UFEwm:-0.211187398276;AIRE:-0.212642968085;POU2F1..3:-0.24345131748;RORA:-0.251284480479;TEAD1:-0.25444873707;TP53:-0.26234734961;HNF4A_NR2F1,2:-0.277586782657;MTE{core}:-0.279575025644;ALX1:-0.280918582937;SOX5:-0.289328462405;AHR_ARNT_ARNT2:-0.301317980486;ZIC1..3:-0.307034523137;ZBTB16:-0.332130220556;RFX2..5_RFXANK_RFXAP:-0.370451708014;TLX1..3_NFIC{dimer}:-0.37374732653;NFATC1..3:-0.375267017706;MED-1{core}:-0.390619720192;RFX1:-0.394132665485;LHX3,4:-0.407602546092;SOX17:-0.418240623851;ELK1,4_GABP{A,B1}:-0.426512913215;GTF2I:-0.437118130047;PATZ1:-0.443527891595;RXR{A,B,G}:-0.46291845712;PAX5:-0.475868597909;XCPE1{core}:-0.478210459653;ZFP161:-0.481458378853;REST:-0.488973865461;NFIL3:-0.490070806318;FOXD3:-0.496324676941;SPI1:-0.522331662512;ZNF143:-0.532794655982;FOS_FOS{B,L1}_JUN{B,D}:-0.540177802488;HES1:-0.557944339676;IKZF1:-0.558517723792;SREBF1,2:-0.599161345933;FOXP1:-0.601034094071;SP1:-0.604431223463;ZNF423:-0.609270823898;MEF2{A,B,C,D}:-0.637561012571;VSX1,2:-0.642168064263;TFAP2{A,C}:-0.642404393966;PRDM1:-0.663630378502;MYB:-0.682766363424;BREu{core}:-0.712769118087;ATF2:-0.729279306104;NRF1:-0.742111966862;FOX{I1,J2}:-0.742380656802;NKX3-1:-0.74619839008;PITX1..3:-0.75963384562;IRF7:-0.781676769376;CUX2:-0.787393971342;NKX6-1,2:-0.815790834995;SOX2:-0.850625283861;PRRX1,2:-0.913999614046;MAZ:-0.942645704455;EGR1..3:-0.949036459151;PAX4:-0.964964987721;OCT4_SOX2{dimer}:-0.99255601801;FOSL2:-0.992753295457;NFE2L1:-0.996382513181;POU5F1:-0.999707386219;MZF1:-1.00374956751;JUN:-1.00646198705;PAX2:-1.03420718086;GATA4:-1.07367597396;RREB1:-1.07641285917;GLI1..3:-1.10061896648;KLF4:-1.11505226318;HIF1A:-1.14679371483;TFCP2:-1.1468508639;SRF:-1.18835480946;EP300:-1.19873322026;CDC5L:-1.23087931156;NKX2-1,4:-1.25837049611;ZNF384:-1.31059420254;EBF1:-1.3116543191;EVI1:-1.31210531441;POU3F1..4:-1.34602622424;NR3C1:-1.39671269514;E2F1..5:-1.44561304556;IKZF2:-1.45640909537;GFI1B:-1.4947033209;SOX{8,9,10}:-1.50203018941;TFDP1:-1.52089892263;NFY{A,B,C}:-1.59753967312;NKX2-3_NKX2-5:-1.62634094296;TBX4,5:-1.72176166766;FOXP3:-2.01619852063;GFI1:-2.12074890767;FOXL1:-2.15305424285
 
}}
 
}}

Revision as of 06:20, 15 February 2012


Name:pancreas, adult, biol_rep1
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissuepancreas
dev stageadult
sexmale
ageNA
cell typeCELL MIXTURE - tissue sample
cell lineNA
companyNA
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typeNA
extraction protocol (Details)NA
Download raw sequence, BAM & CTSS
Mm9
BAMCTSS
[{{{mm9bam}}} download][{{{mm9ctss}}} donwload]
Mm10
BAMCTSS
[{{{mm10bam}}} download][{{{mm10ctss}}} 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.
Analyst:NA

link to dataset.
data

CNhs10486

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0
1001 --0.0275
1002 --0.0468
1003 0.00645
1004 0
1005 --0.0372
1006 --0.0359
1007 --0.0264
1008 0
1009 --0.0572
101 --0.0417
1010 0
1011 --0.298
1012 0
1013 0.699
1014 --0.0851
1015 --0.315
1016 --0.453
1017 0
1018 0
1019 0
102 0
1020 0
1021 0
1022 0.957
1023 0
1024 0.0598
1025 0
1026 0
1027 0
1028 0
1029 --0.176
103 --0.0719
1030 0
1031 --0.495
1032 --0.11
1033 --0.0752
1034 1.206
1035 0
1036 0.00746
1037 0
1038 0.0167
1039 0.26
104 0
1040 --0.0865
1041 0.367



Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.
Analyst:NA

link to dataset.
data
no result for this sample


TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample


JASPAR motifsSummary:Association of JASPAR motif to the promoter expression in this sample. Pearson's correlation between the number of TFBSs estimated by using the position-weight matrix for each promoter and its expression is expressed as Z-score by taking the ones based on random position-weight matrix, and the tail probability of the normal distribution corresponding to the Z-score is taken as the resulting P-value. Lower P-value indicates more (non-random) association of the motif to promoter expression
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs10486

Jaspar motif P-value
MA0002.2 0.037
MA0003.1 0.381
MA0004.1 0.235
MA0006.1 0.341
MA0007.1 0.194
MA0009.1 0.815
MA0014.1 0.391
MA0017.1 0.129
MA0018.2 0.0204
MA0019.1 0.902
MA0024.1 1.2182e-4
MA0025.1 0.816
MA0027.1 0.993
MA0028.1 0.338
MA0029.1 0.748
MA0030.1 0.926
MA0031.1 0.312
MA0035.2 0.0138
MA0038.1 0.019
MA0039.2 0.687
MA0040.1 0.771
MA0041.1 0.144
MA0042.1 0.509
MA0043.1 0.0354
MA0046.1 1.83062e-8
MA0047.2 7.3634e-4
MA0048.1 0.415
MA0050.1 0.874
MA0051.1 0.726
MA0052.1 5.15674e-4
MA0055.1 0.395
MA0057.1 0.4
MA0058.1 0.309
MA0059.1 0.0137
MA0060.1 1.90313e-8
MA0061.1 0.677
MA0062.2 0.534
MA0065.2 0.00487
MA0066.1 0.456
MA0067.1 0.35
MA0068.1 0.0877
MA0069.1 0.443
MA0070.1 0.72
MA0071.1 0.109
MA0072.1 0.0444
MA0073.1 0.628
MA0074.1 0.107
MA0076.1 0.399
MA0077.1 0.75
MA0078.1 0.246
MA0079.2 0.514
MA0080.2 0.679
MA0081.1 0.455
MA0083.1 0.00197
MA0084.1 0.724
MA0087.1 0.0797
MA0088.1 0.101
MA0090.1 0.306
MA0091.1 0.00139
MA0092.1 0.406
MA0093.1 0.244
MA0099.2 0.762
MA0100.1 0.192
MA0101.1 0.826
MA0102.2 0.192
MA0103.1 7.75027e-6
MA0104.2 0.195
MA0105.1 0.281
MA0106.1 0.159
MA0107.1 0.691
MA0108.2 0.00394
MA0111.1 0.687
MA0112.2 2.61834e-5
MA0113.1 0.401
MA0114.1 0.331
MA0115.1 0.504
MA0116.1 0.365
MA0117.1 0.332
MA0119.1 0.494
MA0122.1 0.38
MA0124.1 0.284
MA0125.1 0.86
MA0131.1 0.406
MA0135.1 0.891
MA0136.1 0.448
MA0137.2 0.0272
MA0138.2 0.51
MA0139.1 0.249
MA0140.1 0.0381
MA0141.1 0.00533
MA0142.1 0.0759
MA0143.1 0.867
MA0144.1 0.0982
MA0145.1 0.0394
MA0146.1 0.113
MA0147.1 0.0701
MA0148.1 1.16122e-5
MA0149.1 0.0225
MA0150.1 0.275
MA0152.1 0.836
MA0153.1 0.00438
MA0154.1 0.019
MA0155.1 0.388
MA0156.1 0.81
MA0157.1 0.145
MA0159.1 0.0186
MA0160.1 0.0221
MA0162.1 0.258
MA0163.1 0.00214
MA0164.1 0.447
MA0258.1 0.00599
MA0259.1 0.924



FANTOM5 phase1 novel unique motifsSummary: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 in 169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs10486

Novel motif P-value
1 0.0447
10 0.139
100 0.458
101 0.769
102 0.87
103 0.0466
104 0.35
105 0.963
106 0.0474
107 0.255
108 0.973
109 0.0679
11 0.111
110 0.0527
111 0.00188
112 0.0451
113 0.623
114 0.0569
115 0.574
116 0.515
117 0.241
118 0.98
119 0.035
12 0.851
120 0.476
121 0.657
122 0.228
123 0.716
124 0.809
125 0.156
126 0.193
127 0.362
128 0.0286
129 0.0687
13 0.0732
130 0.561
131 0.68
132 0.651
133 0.25
134 0.75
135 0.825
136 0.736
137 0.226
138 0.354
139 0.0257
14 0.759
140 0.0201
141 0.45
142 0.401
143 0.546
144 0.284
145 0.0972
146 0.254
147 0.927
148 0.149
149 0.434
15 0.228
150 0.363
151 0.358
152 0.0445
153 0.523
154 0.999
155 0.116
156 0.224
157 0.495
158 0.157
159 0.548
160 0.249
161 0.369
162 0.703
163 0.525
164 0.108
165 0.152
166 0.506
167 0.528
168 0.901
169 0.0121
17 0.132
18 0.471
19 0.104
2 0.354
20 0.947
21 0.992
22 0.337
23 0.352
24 0.211
25 0.624
26 0.0535
27 0.332
28 0.563
29 0.458
3 0.259
30 0.998
31 0.328
32 0.38
33 0.843
34 0.861
35 0.122
36 0.111
37 0.0349
38 0.378
39 0.618
4 0.103
40 0.472
41 0.447
42 0.273
43 0.211
44 0.119
45 0.613
46 0.102
47 0.253
48 0.252
49 0.117
5 0.305
50 0.99
51 0.67
52 0.543
53 0.923
54 0.627
55 0.315
56 0.31
57 0.7
58 0.216
59 0.035
6 0.61
60 0.122
61 0.226
62 0.152
63 0.158
64 0.374
65 0.0802
66 0.598
67 0.437
68 0.204
69 0.33
7 0.123
70 0.011
71 0.0415
72 0.373
73 0.0444
74 0.541
75 0.185
76 0.85
77 0.0972
78 0.125
79 0.00625
8 0.0963
80 0.769
81 0.255
82 0.0513
83 0.576
84 0.622
85 0.0214
86 0.0265
87 0.179
88 0.477
89 0.264
9 0.734
90 0.079
91 0.311
92 0.109
93 0.132
94 0.724
95 0.696
96 0.353
97 0.00542
98 0.355
99 0.399



de novo motifs identified by HOMER in promoters active in this sampleSummary:The result of HOMER in this sample is shown.
Analyst:NA
library id: CNhs10486


FANTOM5 (FF) ontology


Direct parent terms

is_a relathionship
{{{is_a}}}

part_of relathionship
{{{part_of}}}

has_quality relathionship
{{{has_quality}}}

Ancestor terms (non development)Summary:Connected ontology terms with is_a, part_of or located_in relationship
Analyst: Hideya Kawaji

link to source data
data

UBERON: Anatomy
0000061 (anatomical structure)
0000062 (organ)
0000077 (mixed endoderm/mesoderm-derived structure)
0000160 (intestine)
0000464 (anatomical space)
0000465 (material anatomical entity)
0000466 (immaterial anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000475 (organism subdivision)
0000479 (tissue)
0000480 (anatomical group)
0000481 (multi-tissue structure)
0000922 (embryo)
0000923 (germ layer)
0000925 (endoderm)
0000926 (mesoderm)
0000949 (endocrine system)
0001007 (digestive system)
0001041 (foregut)
0001045 (midgut)
0001048 (primordium)
0001062 (anatomical entity)
0001264 (pancreas)
0001555 (digestive tract)
0002050 (embryonic structure)
0002075 (viscus)
0002100 (trunk)
0002108 (small intestine)
0002114 (duodenum)
0002323 (body cavity)
0002532 (epiblast (generic))
0002553 (anatomical cavity)
0003104 (mesenchyme)
0003921 (pancreas primordium)
0003922 (pancreatic epithelial bud)
0003923 (dorsal pancreatic bud)
0004119 (endoderm-derived structure)
0004120 (mesoderm-derived structure)
0004185 (endodermal part of digestive tract)
0004458 (body cavity or lining)
0004921 (subdivision of digestive tract)
0005177 (trunk region element)
0005409 (gastrointestinal system)
0005423 (developing anatomical structure)
0007023 (adult organism)
0007026 (primitive gut)
0009142 (entire embryonic mesenchyme)

FF: FANTOM5
NA

Ancestor terms (development)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship
Analyst: Hideya Kawaji

link to source data
data

NA