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FF:30-1C3

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Name:skin, adult
Species:Mouse (Mus musculus)
Library ID:CNhs10492
Sample type:developmental
Genomic View: UCSC
MicroRNAs:Including candidate novel miRNAs(CAGE samples)
Excluding candidate novel miRNAs(CAGE samples)
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissueskin
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

Accession numbers
MethodSample accession id
CAGE  SAMD00005423
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10492 CAGE DRX009077 DRR009951
Accession ID Mm9

Library idBAMCTSS
CNhs10492 DRZ001376 DRZ002759
Accession ID Mm10

Library idBAMCTSS
CNhs10492 DRZ012726 DRZ014109
Download raw sequence, BAM & CTSS
Mm9
FastaBAMCTSS
downloaddownloaddonwload
Mm10
BAMCTSS
downloaddonwload


Relative expression to median (log10)


Transcription factors with enriched expression in this sampleRanked list of transcription factor promoter expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.



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

CNhs10492

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.473
1001 0.136
1002 0.0663
1003 0.218
1004 0
1005 --0.0223
1006 0.238
1007 0.0784
1008 0
1009 0.297
101 0.0114
1010 0
1011 0.175
1012 0
1013 --0.0926
1014 --0.0874
1015 --0.173
1016 --0.0295
1017 0
1018 0.681
1019 0
102 0
1020 0
1021 0.0663
1022 0.321
1023 0
1024 0.23
1025 0
1026 0.0368
1027 0
1028 0
1029 0.114
103 0.527
1030 0
1031 --0.13
1032 --0.09
1033 0
1034 0.124
1035 0.0663
1036 --0.0797
1037 0
1038 0.0969
1039 --0.121
104 0
1040 0.15
1041 1.044



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



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: CNhs10492

Jaspar motif P-value
MA0002.2 0.438
MA0003.1 0.369
MA0004.1 0.698
MA0006.1 0.0954
MA0007.1 0.833
MA0009.1 0.076
MA0014.1 0.477
MA0017.1 4.37132e-5
MA0018.2 0.128
MA0019.1 0.65
MA0024.1 0.00868
MA0025.1 0.14
MA0027.1 0.149
MA0028.1 4.22556e-4
MA0029.1 0.247
MA0030.1 0.0898
MA0031.1 0.0893
MA0035.2 0.0232
MA0038.1 0.0201
MA0039.2 0.0035
MA0040.1 0.0346
MA0041.1 0.738
MA0042.1 0.478
MA0043.1 0.912
MA0046.1 2.75812e-11
MA0047.2 0.79
MA0048.1 0.0113
MA0050.1 0.182
MA0051.1 0.0373
MA0052.1 1.71127e-17
MA0055.1 3.20498e-4
MA0057.1 0.151
MA0058.1 0.401
MA0059.1 0.0216
MA0060.1 0.292
MA0061.1 0.926
MA0062.2 1.03053e-4
MA0065.2 0.456
MA0066.1 0.396
MA0067.1 0.691
MA0068.1 0.679
MA0069.1 0.649
MA0070.1 0.675
MA0071.1 0.0846
MA0072.1 0.783
MA0073.1 0.987
MA0074.1 0.295
MA0076.1 8.14632e-4
MA0077.1 0.0246
MA0078.1 0.0373
MA0079.2 0.0248
MA0080.2 0.0998
MA0081.1 0.163
MA0083.1 0.00474
MA0084.1 0.221
MA0087.1 0.515
MA0088.1 0.503
MA0090.1 0.0241
MA0091.1 0.594
MA0092.1 0.737
MA0093.1 0.678
MA0099.2 4.11232e-17
MA0100.1 0.016
MA0101.1 0.821
MA0102.2 0.0775
MA0103.1 0.0732
MA0104.2 0.0445
MA0105.1 0.125
MA0106.1 0.0185
MA0107.1 0.32
MA0108.2 1.97277e-44
MA0111.1 0.773
MA0112.2 0.435
MA0113.1 0.198
MA0114.1 1.74484e-4
MA0115.1 0.00109
MA0116.1 0.332
MA0117.1 0.961
MA0119.1 0.906
MA0122.1 0.933
MA0124.1 0.274
MA0125.1 0.014
MA0131.1 0.25
MA0135.1 0.0355
MA0136.1 0.00569
MA0137.2 0.792
MA0138.2 0.339
MA0139.1 0.34
MA0140.1 0.0161
MA0141.1 0.00979
MA0142.1 0.367
MA0143.1 0.00939
MA0144.1 0.589
MA0145.1 0.0213
MA0146.1 0.32
MA0147.1 0.0253
MA0148.1 0.656
MA0149.1 0.323
MA0150.1 0.435
MA0152.1 0.0308
MA0153.1 1.99923e-8
MA0154.1 0.164
MA0155.1 0.673
MA0156.1 0.035
MA0157.1 0.0165
MA0159.1 0.129
MA0160.1 0.0493
MA0162.1 0.609
MA0163.1 0.112
MA0164.1 0.197
MA0258.1 0.9
MA0259.1 0.209



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: CNhs10492

Novel motif P-value
1 0.792
10 0.521
100 0.84
101 0.623
102 0.685
103 0.433
104 0.187
105 0.196
106 0.0382
107 0.0258
108 0.625
109 0.449
11 0.458
110 0.738
111 0.482
112 0.307
113 0.509
114 0.743
115 0.0458
116 0.617
117 0.276
118 0.0452
119 0.306
12 0.615
120 0.219
121 0.481
122 0.438
123 0.675
124 0.681
125 0.38
126 0.957
127 0.474
128 0.146
129 0.955
13 0.0417
130 0.525
131 0.404
132 0.953
133 0.629
134 0.928
135 0.298
136 0.301
137 0.997
138 0.663
139 0.702
14 0.267
140 0.537
141 0.386
142 0.423
143 0.266
144 0.837
145 0.966
146 0.726
147 0.155
148 0.129
149 0.948
15 0.434
150 0.442
151 0.34
152 0.0215
153 0.963
154 0.442
155 0.53
156 2.62513e-13
157 0.0234
158 0.864
159 0.889
160 0.491
161 0.155
162 0.53
163 0.344
164 0.417
165 0.605
166 0.478
167 0.00995
168 0.887
169 0.0369
17 0.0956
18 0.185
19 0.392
2 0.0543
20 0.154
21 0.498
22 0.298
23 0.188
24 0.741
25 0.564
26 0.0507
27 0.977
28 0.826
29 0.102
3 0.687
30 0.0489
31 0.501
32 0.537
33 0.333
34 0.659
35 0.0215
36 0.0221
37 0.515
38 0.776
39 0.16
4 0.253
40 0.483
41 0.656
42 0.783
43 0.945
44 0.352
45 0.188
46 0.569
47 0.94
48 0.962
49 0.337
5 0.853
50 0.624
51 0.812
52 0.0655
53 0.149
54 0.626
55 0.987
56 0.571
57 0.712
58 0.826
59 0.292
6 0.897
60 0.116
61 0.958
62 0.836
63 0.466
64 0.299
65 0.699
66 0.873
67 0.925
68 0.51
69 0.312
7 0.643
70 0.485
71 0.714
72 0.574
73 0.16
74 0.652
75 0.173
76 0.00151
77 0.0413
78 0.00586
79 0.0911
8 0.238
80 0.897
81 0.832
82 0.848
83 0.832
84 0.147
85 0.153
86 0.34
87 0.271
88 0.496
89 0.417
9 0.351
90 0.503
91 0.995
92 0.73
93 0.847
94 0.637
95 0.803
96 0.439
97 0.00445
98 0.291
99 0.316



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: CNhs10492


FANTOM5 (FF) ontology


Direct parent terms


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
0000468 (multi-cellular organism)
0007023 (adult organism)
0000014 (zone of skin)
0001003 (skin epidermis)
0002097 (skin of body)
0002199 (integument)
0007029 (surface)
0000483 (epithelium)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0000119 (cell layer)
0003102 (surface structure)
0007376 (outer epithelium)
0010371 (ecto-epithelium)
0010317 (germ layer / neural crest derived structure)
0002416 (integumental system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011308 (mouse skin- adult sample)

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

link to source data
data

UBERON:0002532 (epiblast (generic))
UBERON:0006601 (presumptive ectoderm)
UBERON:0010316 (germ layer / neural crest)