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FF:1254-43D6

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Name:adrenal gland, embryo E16
Species:Mouse (Mus musculus)
Library ID:CNhs11004
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 stage16 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  SAMD00005675
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11004 CAGE DRX008929 DRR009803
Accession ID Mm9

Library idBAMCTSS
CNhs11004 DRZ001228 DRZ002611
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

CNhs11004

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.115
1001 0.0405
1002 0.438
1003 --0.102
1004 0
1005 --0.0465
1006 0.0227
1007 --0.125
1008 0
1009 0.0773
101 0.0161
1010 0
1011 --0.0912
1012 0
1013 --0.0365
1014 0.451
1015 --0.021
1016 --0.0406
1017 0
1018 0
1019 0
102 0
1020 0
1021 --0.0487
1022 0
1023 0
1024 0.161
1025 0.115
1026 0
1027 0
1028 0
1029 0.105
103 0.303
1030 0
1031 0.292
1032 --0.0238
1033 0
1034 0
1035 0
1036 0.0542
1037 0
1038 --0.182
1039 0.0621
104 0
1040 0.0803
1041 0



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: CNhs11004

Jaspar motif P-value
MA0002.2 0.278
MA0003.1 0.239
MA0004.1 0.00293
MA0006.1 0.973
MA0007.1 0.529
MA0009.1 0.0704
MA0014.1 0.906
MA0017.1 0.137
MA0018.2 0.219
MA0019.1 0.489
MA0024.1 0.282
MA0025.1 0.0367
MA0027.1 0.0015
MA0028.1 0.0304
MA0029.1 6.63752e-6
MA0030.1 0.0345
MA0031.1 0.00575
MA0035.2 0.00956
MA0038.1 0.584
MA0039.2 0.993
MA0040.1 0.00446
MA0041.1 0.417
MA0042.1 0.245
MA0043.1 0.00544
MA0046.1 0.479
MA0047.2 0.0368
MA0048.1 0.737
MA0050.1 1.95275e-6
MA0051.1 1.58863e-8
MA0052.1 0.215
MA0055.1 0.172
MA0057.1 0.907
MA0058.1 0.0135
MA0059.1 0.636
MA0060.1 0.561
MA0061.1 0.392
MA0062.2 8.45735e-7
MA0065.2 0.223
MA0066.1 0.648
MA0067.1 0.0369
MA0068.1 0.00943
MA0069.1 0.037
MA0070.1 0.0855
MA0071.1 0.0431
MA0072.1 0.578
MA0073.1 0.581
MA0074.1 0.702
MA0076.1 0.00252
MA0077.1 0.288
MA0078.1 0.536
MA0079.2 0.831
MA0080.2 1.44226e-6
MA0081.1 0.0297
MA0083.1 0.512
MA0084.1 0.0877
MA0087.1 0.0701
MA0088.1 0.357
MA0090.1 0.645
MA0091.1 0.0426
MA0092.1 0.774
MA0093.1 0.00681
MA0099.2 0.735
MA0100.1 0.0419
MA0101.1 0.181
MA0102.2 0.0248
MA0103.1 6.20356e-7
MA0104.2 0.451
MA0105.1 0.0175
MA0106.1 0.576
MA0107.1 0.0478
MA0108.2 0.216
MA0111.1 0.849
MA0112.2 0.0539
MA0113.1 0.537
MA0114.1 0.821
MA0115.1 0.426
MA0116.1 0.0295
MA0117.1 0.847
MA0119.1 0.00995
MA0122.1 0.762
MA0124.1 0.47
MA0125.1 0.269
MA0131.1 0.0585
MA0135.1 0.603
MA0136.1 3.12613e-6
MA0137.2 0.0228
MA0138.2 0.129
MA0139.1 0.547
MA0140.1 4.84934e-7
MA0141.1 2.35033e-4
MA0142.1 0.833
MA0143.1 0.246
MA0144.1 0.367
MA0145.1 0.233
MA0146.1 0.832
MA0147.1 0.609
MA0148.1 0.149
MA0149.1 0.983
MA0150.1 0.76
MA0152.1 0.802
MA0153.1 0.0624
MA0154.1 0.0146
MA0155.1 0.245
MA0156.1 1.54569e-7
MA0157.1 0.00625
MA0159.1 0.92
MA0160.1 0.335
MA0162.1 0.182
MA0163.1 0.0133
MA0164.1 0.966
MA0258.1 0.198
MA0259.1 0.47



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: CNhs11004

Novel motif P-value
1 0.295
10 0.915
100 0.934
101 0.529
102 0.431
103 0.335
104 0.794
105 0.141
106 0.822
107 0.154
108 0.837
109 0.466
11 0.408
110 0.105
111 0.487
112 0.782
113 0.658
114 0.953
115 0.762
116 0.12
117 0.496
118 0.563
119 0.58
12 0.782
120 0.173
121 0.384
122 0.699
123 0.113
124 0.127
125 0.0702
126 0.181
127 0.349
128 0.615
129 0.28
13 0.718
130 0.168
131 0.396
132 0.336
133 0.269
134 0.17
135 0.0574
136 0.388
137 0.711
138 0.175
139 0.395
14 0.898
140 0.501
141 0.44
142 0.804
143 0.0869
144 0.053
145 0.796
146 0.508
147 0.396
148 0.205
149 0.0602
15 0.56
150 0.621
151 0.913
152 0.585
153 0.819
154 0.23
155 0.733
156 1.61369e-5
157 0.368
158 0.147
159 0.621
160 0.0754
161 0.742
162 0.733
163 0.795
164 0.612
165 0.183
166 0.403
167 0.402
168 0.38
169 0.0889
17 0.517
18 0.0366
19 0.0527
2 0.139
20 0.0482
21 0.196
22 0.105
23 0.793
24 0.679
25 0.725
26 0.816
27 0.581
28 0.166
29 0.98
3 0.341
30 0.451
31 0.675
32 0.331
33 0.604
34 0.404
35 0.74
36 0.897
37 0.462
38 0.885
39 0.378
4 0.614
40 0.364
41 0.00393
42 0.483
43 0.371
44 0.329
45 0.764
46 0.864
47 0.582
48 0.719
49 0.783
5 0.677
50 0.283
51 0.67
52 0.763
53 0.0575
54 0.794
55 0.119
56 0.298
57 0.523
58 0.379
59 0.0588
6 0.906
60 0.592
61 0.138
62 0.975
63 0.423
64 0.299
65 0.678
66 0.472
67 0.524
68 0.461
69 0.152
7 0.766
70 0.067
71 0.0841
72 0.445
73 0.577
74 0.583
75 0.384
76 0.259
77 0.288
78 0.424
79 0.9
8 0.191
80 0.351
81 0.525
82 0.0548
83 0.0754
84 0.556
85 0.772
86 0.745
87 0.0428
88 0.471
89 0.74
9 0.844
90 0.52
91 0.632
92 0.267
93 0.473
94 0.86
95 0.746
96 0.26
97 0.713
98 0.681
99 0.12



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: CNhs11004


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)
0000299 (mouse embryonic day 16 sample)
0011522 (mouse adrenal gland - embryo E16 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)