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FF:505-44H7

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Name:ovary, embryo E18
Species:Mouse (Mus musculus)
Library ID:CNhs11040
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
tissueovary
dev stage18 days embryo
sexfemale
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  SAMD00005985
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11040 CAGE DRX009051 DRR009925
Accession ID Mm9

Library idBAMCTSS
CNhs11040 DRZ001350 DRZ002733
Accession ID Mm10

Library idBAMCTSS
CNhs11040 DRZ012700 DRZ014083
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

CNhs11040

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.0569
1001 0
1002 0.675
1003 0.211
1004 0.68
1005 0
1006 0.106
1007 0.0241
1008 0
1009 0.225
101 -0.0356
1010 0
1011 0.0179
1012 0
1013 -0.146
1014 0.316
1015 0.24
1016 0.382
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0225
1022 0.0028
1023 0
1024 0.0798
1025 0.132
1026 0.103
1027 0
1028 0
1029 -0.106
103 0.501
1030 0
1031 0.733
1032 0.0286
1033 0
1034 0
1035 0
1036 0.119
1037 0
1038 0.0715
1039 -0.0594
104 0
1040 0.241
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: CNhs11040
Jaspar motif P-value
MA0002.2 0.0619
MA0003.1 0.296
MA0004.1 0.997
MA0006.1 0.99
MA0007.1 0.771
MA0009.1 0.487
MA0014.1 0.748
MA0017.1 0.0674
MA0018.2 0.00434
MA0019.1 0.355
MA0024.1 1.99906e-5
MA0025.1 0.182
MA0027.1 0.129
MA0028.1 0.115
MA0029.1 0.406
MA0030.1 0.0917
MA0031.1 0.131
MA0035.2 0.284
MA0038.1 0.391
MA0039.2 0.34
MA0040.1 0.124
MA0041.1 0.373
MA0042.1 0.313
MA0043.1 0.195
MA0046.1 0.646
MA0047.2 0.00862
MA0048.1 0.318
MA0050.1 0.211
MA0051.1 0.0627
MA0052.1 0.0746
MA0055.1 0.0147
MA0057.1 0.937
MA0058.1 0.888
MA0059.1 0.856
MA0060.1 0.0011
MA0061.1 0.879
MA0062.2 1.47984e-4
MA0065.2 0.196
MA0066.1 0.299
MA0067.1 0.0126
MA0068.1 0.232
MA0069.1 0.93
MA0070.1 0.174
MA0071.1 0.224
MA0072.1 0.0397
MA0073.1 0.95
MA0074.1 0.214
MA0076.1 0.273
MA0077.1 0.635
MA0078.1 0.0698
MA0079.2 0.0383
MA0080.2 4.02079e-6
MA0081.1 0.116
MA0083.1 0.00785
MA0084.1 0.746
MA0087.1 0.107
MA0088.1 0.482
MA0090.1 0.446
MA0091.1 0.598
MA0092.1 0.743
MA0093.1 0.99
MA0099.2 0.00456
MA0100.1 0.131
MA0101.1 0.283
MA0102.2 0.441
MA0103.1 0.00322
MA0104.2 0.851
MA0105.1 0.638
MA0106.1 0.285
MA0107.1 0.213
MA0108.2 0.00621
MA0111.1 0.598
MA0112.2 0.369
MA0113.1 0.925
MA0114.1 0.0618
MA0115.1 0.0116
MA0116.1 0.508
MA0117.1 0.00822
MA0119.1 0.68
MA0122.1 0.916
MA0124.1 0.374
MA0125.1 0.473
MA0131.1 0.882
MA0135.1 0.107
MA0136.1 1.88809e-6
MA0137.2 0.109
MA0138.2 0.147
MA0139.1 0.984
MA0140.1 0.487
MA0141.1 0.101
MA0142.1 0.0182
MA0143.1 0.556
MA0144.1 0.23
MA0145.1 0.869
MA0146.1 0.223
MA0147.1 0.723
MA0148.1 0.0121
MA0149.1 0.0177
MA0150.1 4.29206e-5
MA0152.1 0.0824
MA0153.1 0.701
MA0154.1 0.654
MA0155.1 0.05
MA0156.1 0.00421
MA0157.1 0.353
MA0159.1 0.0178
MA0160.1 0.0466
MA0162.1 0.376
MA0163.1 0.0626
MA0164.1 0.998
MA0258.1 0.0166
MA0259.1 0.559



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: CNhs11040
Novel motif P-value
1 0.118
10 0.175
100 0.85
101 0.668
102 0.692
103 0.117
104 0.535
105 0.887
106 0.0808
107 0.747
108 0.752
109 0.664
11 0.488
110 0.611
111 0.133
112 0.91
113 0.533
114 0.0775
115 0.735
116 0.397
117 0.125
118 0.739
119 0.103
12 0.709
120 0.366
121 0.795
122 0.778
123 0.0988
124 0.312
125 0.0359
126 0.851
127 0.0225
128 0.045
129 0.271
13 0.825
130 0.438
131 0.321
132 0.72
133 0.86
134 0.828
135 0.233
136 0.0986
137 0.659
138 0.32
139 0.0248
14 0.307
140 0.425
141 0.536
142 0.122
143 0.429
144 0.15
145 0.829
146 0.865
147 0.821
148 0.574
149 0.514
15 0.0406
150 0.491
151 0.213
152 0.44
153 0.357
154 0.434
155 0.598
156 0.175
157 0.24
158 0.0356
159 0.0283
160 0.143
161 0.718
162 0.418
163 0.0401
164 0.188
165 0.201
166 0.0509
167 0.134
168 0.435
169 0.238
17 0.503
18 0.102
19 0.157
2 0.324
20 0.597
21 0.521
22 0.375
23 0.404
24 0.72
25 0.103
26 0.739
27 0.839
28 0.124
29 0.47
3 0.533
30 0.523
31 0.473
32 0.283
33 0.794
34 0.485
35 0.0206
36 0.23
37 0.554
38 0.923
39 0.436
4 0.528
40 0.932
41 0.109
42 0.765
43 0.266
44 0.261
45 0.577
46 0.293
47 0.337
48 0.367
49 0.0445
5 0.238
50 0.104
51 0.854
52 0.989
53 0.684
54 0.465
55 0.569
56 0.465
57 0.294
58 0.273
59 0.308
6 0.589
60 0.499
61 0.694
62 0.0652
63 0.787
64 0.959
65 0.533
66 0.717
67 0.983
68 0.273
69 0.706
7 0.54
70 0.0284
71 0.379
72 0.672
73 0.829
74 0.821
75 0.44
76 0.363
77 0.804
78 0.175
79 0.539
8 0.256
80 0.128
81 0.312
82 0.787
83 0.432
84 0.232
85 0.0514
86 0.814
87 0.59
88 0.664
89 0.502
9 0.866
90 0.0047
91 0.47
92 0.291
93 0.799
94 0.0598
95 0.968
96 0.137
97 0.904
98 0.759
99 0.111



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: CNhs11040


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)
0000992 (female gonad)
0000991 (gonad)
0003134 (female reproductive organ)
0000479 (tissue)
0005156 (reproductive structure)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003133 (reproductive organ)
0002323 (body cavity)
0000464 (anatomical space)
0004458 (body cavity or lining)
0010317 (germ layer / neural crest derived structure)
0003100 (female organism)
0000474 (female reproductive system)

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)
0011378 (mouse ovary- 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:0009117 (indifferent gonad)
UBERON:0002532 (epiblast (generic))
UBERON:0006603 (presumptive mesoderm)
UBERON:0005564 (gonad primordium)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)