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FF:1262-18F5

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Name:adrenal gland, embryo E18
Species:Mouse (Mus musculus)
Library ID:CNhs11026
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
tissueadrenal gland
dev stage18 days embryo
sexmixture
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  SAMD00005611
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11026 CAGE DRX008931 DRR009805
Accession ID Mm9

Library idBAMCTSS
CNhs11026 DRZ001230 DRZ002613
Accession ID Mm10

Library idBAMCTSS
CNhs11026 DRZ012580 DRZ013963
Download raw sequence, BAM & CTSS
Mm9
FastaBAMCTSS
downloaddownloaddonwload
Mm10
BAMCTSS
downloaddonwload


Relative expression to median (log10)


Transcription factors with enriched expression in this sample
Ranked 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 sample
Ranked 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

CNhs11026

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0.0595
10 0
100 0
1000 0.0522
1001 0.0246
1002 0.221
1003 -0.12
1004 0
1005 0
1006 0.132
1007 9.728956e-4
1008 0
1009 0.148
101 -0.00691
1010 0
1011 -0.0929
1012 0.0166
1013 0.0717
1014 0.313
1015 -0.0481
1016 -0.0358
1017 0
1018 0
1019 0
102 0
1020 0
1021 -0.00821
1022 0
1023 0
1024 0.061
1025 0
1026 0.0315
1027 0
1028 0
1029 0.0289
103 0.162
1030 0
1031 0.134
1032 -0.00893
1033 0
1034 0
1035 0
1036 -0.0143
1037 0
1038 -0.119
1039 0.196
104 0
1040 0.00921
1041 0



Repeat families with enriched expression in this sample
Summary: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 motifs
Summary: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: CNhs11026
Jaspar motif P-value
MA0002.2 0.022
MA0003.1 0.434
MA0004.1 0.00832
MA0006.1 0.833
MA0007.1 0.816
MA0009.1 0.0255
MA0014.1 0.218
MA0017.1 0.0285
MA0018.2 0.864
MA0019.1 0.562
MA0024.1 0.864
MA0025.1 0.446
MA0027.1 0.00498
MA0028.1 0.202
MA0029.1 0.00103
MA0030.1 0.481
MA0031.1 0.54
MA0035.2 0.807
MA0038.1 0.327
MA0039.2 0.657
MA0040.1 0.0413
MA0041.1 0.00973
MA0042.1 0.258
MA0043.1 0.277
MA0046.1 0.0477
MA0047.2 0.238
MA0048.1 0.0178
MA0050.1 0.887
MA0051.1 0.22
MA0052.1 0.0147
MA0055.1 0.339
MA0057.1 0.262
MA0058.1 0.136
MA0059.1 0.467
MA0060.1 0.994
MA0061.1 0.642
MA0062.2 0.411
MA0065.2 0.612
MA0066.1 0.929
MA0067.1 0.547
MA0068.1 0.143
MA0069.1 0.0837
MA0070.1 0.0131
MA0071.1 0.0259
MA0072.1 0.0358
MA0073.1 0.969
MA0074.1 0.418
MA0076.1 0.355
MA0077.1 0.796
MA0078.1 0.839
MA0079.2 0.721
MA0080.2 1.11528e-6
MA0081.1 0.121
MA0083.1 0.0972
MA0084.1 0.119
MA0087.1 0.0257
MA0088.1 0.0912
MA0090.1 0.244
MA0091.1 0.461
MA0092.1 0.947
MA0093.1 0.0299
MA0099.2 0.975
MA0100.1 0.0646
MA0101.1 0.172
MA0102.2 0.201
MA0103.1 1.25243e-9
MA0104.2 0.138
MA0105.1 0.364
MA0106.1 0.497
MA0107.1 0.0257
MA0108.2 0.247
MA0111.1 0.336
MA0112.2 0.0525
MA0113.1 0.56
MA0114.1 0.586
MA0115.1 0.171
MA0116.1 0.198
MA0117.1 0.592
MA0119.1 0.0141
MA0122.1 0.245
MA0124.1 0.765
MA0125.1 0.185
MA0131.1 0.467
MA0135.1 0.461
MA0136.1 1.22874e-4
MA0137.2 0.627
MA0138.2 0.221
MA0139.1 0.87
MA0140.1 0.028
MA0141.1 7.30535e-6
MA0142.1 0.847
MA0143.1 0.176
MA0144.1 0.963
MA0145.1 0.568
MA0146.1 0.798
MA0147.1 0.0786
MA0148.1 0.498
MA0149.1 0.216
MA0150.1 0.306
MA0152.1 0.78
MA0153.1 0.00169
MA0154.1 0.0446
MA0155.1 0.768
MA0156.1 0.00395
MA0157.1 0.283
MA0159.1 0.253
MA0160.1 0.0423
MA0162.1 0.254
MA0163.1 0.026
MA0164.1 0.997
MA0258.1 0.532
MA0259.1 0.371



FANTOM5 phase1 novel unique motifs
Summary: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: CNhs11026
Novel motif P-value
1 0.157
10 0.798
100 0.734
101 0.885
102 0.402
103 0.35
104 0.901
105 0.175
106 0.0905
107 0.962
108 0.12
109 0.921
11 0.717
110 0.0673
111 0.209
112 0.749
113 0.567
114 0.59
115 0.809
116 0.652
117 0.521
118 0.568
119 0.889
12 0.874
120 0.12
121 0.354
122 0.542
123 0.122
124 0.249
125 0.585
126 0.048
127 0.655
128 0.0261
129 0.81
13 0.685
130 0.427
131 0.398
132 0.571
133 0.208
134 0.163
135 0.0745
136 0.977
137 0.59
138 0.217
139 0.926
14 0.775
140 0.503
141 0.726
142 0.882
143 0.439
144 0.148
145 0.684
146 0.887
147 0.473
148 0.424
149 0.152
15 0.82
150 0.463
151 0.733
152 0.514
153 0.536
154 0.194
155 0.671
156 8.51262e-5
157 0.42
158 0.36
159 0.831
160 0.298
161 0.977
162 0.902
163 0.262
164 0.562
165 0.809
166 0.649
167 0.629
168 0.309
169 0.101
17 0.891
18 0.181
19 0.112
2 0.432
20 0.395
21 0.645
22 0.141
23 0.59
24 0.294
25 0.41
26 0.27
27 0.982
28 0.33
29 0.763
3 0.492
30 0.766
31 0.974
32 0.728
33 0.411
34 0.76
35 0.307
36 0.958
37 0.257
38 0.864
39 0.623
4 0.392
40 0.847
41 6.07432e-5
42 0.932
43 0.805
44 0.205
45 0.178
46 0.417
47 0.688
48 0.782
49 0.527
5 0.621
50 0.516
51 0.835
52 0.178
53 0.395
54 0.862
55 0.00934
56 0.825
57 0.44
58 0.268
59 0.83
6 0.375
60 0.068
61 0.304
62 0.377
63 0.813
64 0.606
65 0.556
66 0.356
67 0.913
68 0.586
69 0.323
7 0.218
70 0.0101
71 0.768
72 0.703
73 0.294
74 0.925
75 0.489
76 0.979
77 0.229
78 0.442
79 0.901
8 0.536
80 0.36
81 0.644
82 0.0908
83 0.138
84 0.374
85 0.198
86 0.856
87 0.0171
88 0.964
89 0.29
9 0.512
90 0.72
91 0.205
92 0.535
93 0.403
94 0.787
95 0.118
96 0.481
97 0.962
98 0.619
99 0.41



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

library id: CNhs11026


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)
0000922 (embryo)
0002369 (adrenal gland)
0002100 (trunk)
0000479 (tissue)
0010314 (structure with developmental contribution from neural crest)
0000062 (organ)
0000475 (organism subdivision)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0002368 (endocrine gland)
0005177 (trunk region element)
0005172 (abdomen element)
0002530 (gland)
0006858 (adrenal/interrenal gland)
0010317 (germ layer / neural crest derived structure)
0005173 (abdominal segment element)
0002417 (abdominal segment of trunk)
0000949 (endocrine system)
0000916 (abdomen)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000302 (mouse embryonic day 18 sample)
0011518 (adrenal gland - embryo E18 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:0006603 (presumptive mesoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)