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FF:1311-23C1

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Name:adrenal gland, neonate N00
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:developmental
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissueadrenal gland
dev stage0 day neonate
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  DRS008795
Library accession numbers

Library idMethodExp. accession idRun accession id
{{{library_id}}} {{{accession_numbers}}}
Accession ID Mm9

Library idBAMCTSS
{{{library_id}}}
Download raw sequence, BAM & CTSS
Mm9
BAMCTSS
[{{{mm9bam}}} download][{{{mm9ctss}}} donwload]
Mm10
BAMCTSS
[{{{mm10bam}}} download][{{{mm10ctss}}} donwload]


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

CNhs11191

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0.0695
10 0
100 0
1000 0.111
1001 0.167
1002 0.351
1003 --0.0087
1004 0
1005 0
1006 0.166
1007 0.039
1008 0
1009 0.295
101 0.0227
1010 0
1011 0.0399
1012 0.0917
1013 0.0601
1014 0.476
1015 --0.102
1016 0.188
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0228
1022 0.108
1023 0.0483
1024 0.111
1025 0.0306
1026 0.0483
1027 0
1028 0
1029 0.239
103 0.293
1030 0.0483
1031 0.276
1032 0.0175
1033 0
1034 0.0917
1035 0.0483
1036 --0.0289
1037 0
1038 --0.0119
1039 0.129
104 0
1040 0.226
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: CNhs11191

Jaspar motif P-value
MA0002.2 0.0202
MA0003.1 0.673
MA0004.1 0.0319
MA0006.1 0.668
MA0007.1 0.534
MA0009.1 0.0259
MA0014.1 0.986
MA0017.1 0.0159
MA0018.2 0.111
MA0019.1 0.551
MA0024.1 0.654
MA0025.1 0.286
MA0027.1 0.0963
MA0028.1 7.79166e-4
MA0029.1 0.00299
MA0030.1 0.435
MA0031.1 0.748
MA0035.2 0.438
MA0038.1 0.801
MA0039.2 0.0715
MA0040.1 0.114
MA0041.1 0.233
MA0042.1 0.691
MA0043.1 0.108
MA0046.1 5.42554e-4
MA0047.2 0.506
MA0048.1 0.593
MA0050.1 0.84
MA0051.1 0.275
MA0052.1 0.615
MA0055.1 0.093
MA0057.1 0.223
MA0058.1 0.0517
MA0059.1 0.00721
MA0060.1 8.81034e-4
MA0061.1 0.0769
MA0062.2 8.53495e-8
MA0065.2 0.208
MA0066.1 0.507
MA0067.1 0.58
MA0068.1 0.401
MA0069.1 0.408
MA0070.1 0.112
MA0071.1 0.139
MA0072.1 0.335
MA0073.1 0.877
MA0074.1 0.308
MA0076.1 0.00351
MA0077.1 0.64
MA0078.1 0.201
MA0079.2 0.112
MA0080.2 1.00844e-7
MA0081.1 0.0579
MA0083.1 0.526
MA0084.1 0.0436
MA0087.1 0.0515
MA0088.1 0.144
MA0090.1 0.564
MA0091.1 0.956
MA0092.1 0.876
MA0093.1 0.0598
MA0099.2 0.352
MA0100.1 0.0359
MA0101.1 0.0946
MA0102.2 0.949
MA0103.1 2.88637e-8
MA0104.2 0.00182
MA0105.1 0.00924
MA0106.1 0.996
MA0107.1 0.205
MA0108.2 0.208
MA0111.1 0.879
MA0112.2 0.303
MA0113.1 0.96
MA0114.1 0.0129
MA0115.1 0.0959
MA0116.1 0.0925
MA0117.1 0.804
MA0119.1 0.603
MA0122.1 0.283
MA0124.1 0.515
MA0125.1 0.291
MA0131.1 0.477
MA0135.1 0.363
MA0136.1 2.03581e-10
MA0137.2 0.0698
MA0138.2 0.0271
MA0139.1 0.191
MA0140.1 0.116
MA0141.1 0.0392
MA0142.1 0.66
MA0143.1 0.42
MA0144.1 0.265
MA0145.1 0.783
MA0146.1 0.69
MA0147.1 3.80861e-4
MA0148.1 0.97
MA0149.1 0.496
MA0150.1 0.647
MA0152.1 0.114
MA0153.1 1.22581e-5
MA0154.1 0.869
MA0155.1 0.712
MA0156.1 1.82343e-6
MA0157.1 0.985
MA0159.1 0.0105
MA0160.1 0.59
MA0162.1 0.356
MA0163.1 0.982
MA0164.1 0.579
MA0258.1 0.409
MA0259.1 0.102



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: CNhs11191

Novel motif P-value
1 0.026
10 0.0924
100 0.757
101 0.627
102 0.85
103 0.67
104 0.427
105 0.295
106 0.751
107 0.164
108 0.289
109 0.0685
11 0.189
110 0.813
111 0.0625
112 0.969
113 0.823
114 0.824
115 0.737
116 0.121
117 0.0184
118 0.703
119 0.669
12 0.315
120 0.117
121 0.239
122 0.98
123 0.42
124 0.22
125 0.149
126 0.0496
127 0.805
128 0.137
129 0.476
13 0.0845
130 0.602
131 0.374
132 0.926
133 0.0933
134 0.78
135 0.0642
136 0.216
137 0.416
138 0.315
139 0.919
14 0.624
140 0.727
141 0.783
142 0.453
143 0.493
144 0.0453
145 0.631
146 0.951
147 0.697
148 0.204
149 0.19
15 0.199
150 0.777
151 0.64
152 0.314
153 0.394
154 0.974
155 0.162
156 0.285
157 0.937
158 0.506
159 0.0972
160 0.424
161 0.306
162 0.658
163 0.254
164 0.914
165 0.217
166 0.321
167 0.711
168 0.929
169 0.21
17 0.902
18 0.888
19 0.199
2 0.187
20 0.216
21 0.67
22 0.537
23 0.421
24 0.427
25 0.12
26 0.148
27 0.775
28 0.318
29 0.143
3 0.456
30 0.95
31 0.923
32 0.643
33 0.299
34 0.757
35 0.17
36 0.0602
37 0.661
38 0.552
39 0.785
4 0.513
40 0.0878
41 0.00445
42 0.536
43 0.772
44 0.381
45 0.55
46 0.421
47 0.3
48 0.293
49 0.39
5 0.512
50 0.612
51 0.94
52 0.823
53 0.518
54 0.758
55 0.00263
56 0.903
57 0.704
58 0.329
59 0.25
6 0.862
60 0.365
61 0.309
62 0.164
63 0.45
64 0.627
65 0.217
66 0.226
67 0.977
68 0.281
69 0.462
7 0.0817
70 0.0348
71 0.0213
72 0.482
73 0.783
74 0.812
75 0.15
76 0.897
77 0.797
78 0.923
79 0.523
8 0.583
80 0.406
81 0.88
82 0.16
83 0.112
84 0.958
85 0.241
86 0.692
87 9.1921e-5
88 0.76
89 0.0891
9 0.889
90 0.3
91 0.309
92 0.778
93 0.276
94 0.436
95 0.43
96 0.914
97 0.579
98 0.305
99 0.539



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: CNhs11191


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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000304 (mouse neonate N0 sample)
0011505 (mouse adrenal gland - neonate N00 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)

{{{1}}} Accession numbers
MethodSample accession id
{{{2}}} 
Library accession numbers

Library idMethodExp. accession idRun accession id
{{{4}}} {{{3}}}
Accession ID

Library idBAMCTSS
{{{4}}}