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FF:420-27D2

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Name:whole body, embryo E14.5
Species:Mouse (Mus musculus)
Library ID:CNhs10578
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
tissuewhole body
dev stage14.5 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  SAMD00005313
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10578 CAGE DRX009145 DRR010019
Accession ID Mm9

Library idBAMCTSS
CNhs10578 DRZ001444 DRZ002827
Accession ID Mm10

Library idBAMCTSS
CNhs10578 DRZ012794 DRZ014177
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

CNhs10578

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0.0945
10 0
100 0.0945
1000 0.0473
1001 --0.0631
1002 0.143
1003 0.163
1004 0.0945
1005 --0.00321
1006 0.0324
1007 0.0249
1008 0
1009 0.108
101 0.0567
1010 0
1011 0.0929
1012 0.0945
1013 --0.168
1014 0.298
1015 0.14
1016 0.264
1017 0
1018 0.345
1019 0
102 0
1020 0
1021 0
1022 0.0241
1023 0
1024 0.162
1025 0.295
1026 0
1027 0.238
1028 0
1029 0.163
103 0.375
1030 0
1031 0.446
1032 --0.138
1033 0.0969
1034 0
1035 0.0945
1036 0.144
1037 0
1038 0.0122
1039 --0.0533
104 0
1040 0.129
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: CNhs10578

Jaspar motif P-value
MA0002.2 0.00191
MA0003.1 0.843
MA0004.1 0.162
MA0006.1 0.608
MA0007.1 0.0474
MA0009.1 0.435
MA0014.1 0.0536
MA0017.1 1.97993e-5
MA0018.2 0.00842
MA0019.1 0.355
MA0024.1 0.00707
MA0025.1 0.0303
MA0027.1 0.253
MA0028.1 1.60344e-6
MA0029.1 0.356
MA0030.1 0.261
MA0031.1 0.00139
MA0035.2 0.234
MA0038.1 0.00459
MA0039.2 0.393
MA0040.1 0.121
MA0041.1 0.124
MA0042.1 0.421
MA0043.1 0.284
MA0046.1 0.0019
MA0047.2 0.1
MA0048.1 0.0494
MA0050.1 6.90341e-7
MA0051.1 1.92338e-6
MA0052.1 1.18698e-5
MA0055.1 0.00291
MA0057.1 0.507
MA0058.1 0.0652
MA0059.1 0.0237
MA0060.1 2.64699e-8
MA0061.1 0.148
MA0062.2 2.0728e-14
MA0065.2 4.32013e-5
MA0066.1 0.188
MA0067.1 0.0562
MA0068.1 0.704
MA0069.1 0.517
MA0070.1 0.497
MA0071.1 0.00252
MA0072.1 0.0148
MA0073.1 0.743
MA0074.1 0.0309
MA0076.1 1.73752e-6
MA0077.1 0.781
MA0078.1 0.175
MA0079.2 0.32
MA0080.2 2.20951e-7
MA0081.1 0.0455
MA0083.1 2.37049e-5
MA0084.1 0.637
MA0087.1 0.0754
MA0088.1 0.133
MA0090.1 0.631
MA0091.1 0.774
MA0092.1 0.772
MA0093.1 0.193
MA0099.2 0.00274
MA0100.1 0.0288
MA0101.1 0.00463
MA0102.2 0.498
MA0103.1 0.00821
MA0104.2 0.276
MA0105.1 0.942
MA0106.1 0.0525
MA0107.1 0.0203
MA0108.2 6.65393e-14
MA0111.1 0.326
MA0112.2 0.0024
MA0113.1 0.0886
MA0114.1 5.62932e-4
MA0115.1 0.0106
MA0116.1 0.456
MA0117.1 0.183
MA0119.1 0.817
MA0122.1 0.867
MA0124.1 0.78
MA0125.1 0.00313
MA0131.1 0.814
MA0135.1 0.553
MA0136.1 2.22206e-11
MA0137.2 2.34562e-4
MA0138.2 0.325
MA0139.1 0.0205
MA0140.1 2.29924e-6
MA0141.1 3.3893e-7
MA0142.1 0.879
MA0143.1 0.198
MA0144.1 0.00304
MA0145.1 0.253
MA0146.1 0.00972
MA0147.1 0.361
MA0148.1 0.137
MA0149.1 0.00145
MA0150.1 0.00346
MA0152.1 0.318
MA0153.1 0.0592
MA0154.1 0.0859
MA0155.1 0.714
MA0156.1 3.10263e-11
MA0157.1 0.00438
MA0159.1 5.26744e-4
MA0160.1 3.98178e-5
MA0162.1 0.931
MA0163.1 0.0235
MA0164.1 0.824
MA0258.1 0.00205
MA0259.1 0.587



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: CNhs10578

Novel motif P-value
1 0.0794
10 0.0609
100 0.693
101 0.972
102 0.0877
103 0.0565
104 0.767
105 0.896
106 0.383
107 0.509
108 0.542
109 0.0466
11 0.0528
110 0.142
111 0.0127
112 0.00981
113 0.883
114 0.00555
115 0.896
116 0.633
117 0.0047
118 0.297
119 0.215
12 0.592
120 0.502
121 0.411
122 0.895
123 0.912
124 0.795
125 0.121
126 0.0538
127 0.546
128 0.856
129 0.352
13 0.00733
130 0.388
131 0.098
132 0.916
133 0.45
134 0.673
135 0.831
136 0.00195
137 0.504
138 0.965
139 0.0157
14 0.606
140 0.837
141 0.112
142 0.34
143 0.142
144 0.304
145 0.165
146 0.968
147 0.606
148 0.199
149 0.163
15 0.0248
150 0.678
151 0.131
152 0.15
153 0.462
154 0.709
155 0.123
156 1.42572e-9
157 0.673
158 0.0632
159 0.335
160 0.563
161 0.186
162 0.555
163 0.247
164 0.0184
165 0.104
166 0.338
167 0.195
168 0.27
169 0.0856
17 0.145
18 0.391
19 0.829
2 0.253
20 0.0539
21 0.645
22 0.38
23 0.993
24 0.0213
25 0.277
26 0.311
27 0.799
28 0.425
29 0.0274
3 0.175
30 0.16
31 0.807
32 0.728
33 0.0833
34 0.936
35 0.153
36 0.0704
37 0.014
38 0.143
39 0.525
4 0.793
40 0.0465
41 0.0883
42 0.475
43 0.232
44 0.0334
45 0.866
46 0.434
47 0.318
48 0.0793
49 0.114
5 0.56
50 0.708
51 0.712
52 0.856
53 0.387
54 0.943
55 0.845
56 0.902
57 0.523
58 0.35
59 0.566
6 0.602
60 0.252
61 0.101
62 0.169
63 0.391
64 0.531
65 0.153
66 0.972
67 0.596
68 0.498
69 0.561
7 0.304
70 0.00247
71 0.104
72 0.186
73 0.00169
74 0.847
75 0.00618
76 0.0201
77 0.459
78 0.0961
79 0.526
8 0.116
80 0.542
81 0.738
82 0.0866
83 0.121
84 0.396
85 0.144
86 0.47
87 0.0153
88 0.672
89 0.82
9 0.814
90 0.0606
91 0.638
92 0.486
93 0.109
94 0.927
95 0.00307
96 0.787
97 0.426
98 0.5
99 0.588



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: CNhs10578


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)
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)

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)
0000296 (mouse embryonic day 14 sample)
0011343 (mouse whole body- embryo E14.5 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

FF:0000294 (mouse embryonic day 11 sample)