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FF:1299-22I4

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Name:ovary, neonate N00
Species:Mouse (Mus musculus)
Library ID:CNhs11217
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 stage0 day neonate
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  SAMD00005795
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11217 CAGE DRX009052 DRR009926
Accession ID Mm9

Library idBAMCTSS
CNhs11217 DRZ001351 DRZ002734
Accession ID Mm10

Library idBAMCTSS
CNhs11217 DRZ012701 DRZ014084
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

CNhs11217

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.0499
1001 0.0547
1002 0.537
1003 0.179
1004 0.527
1005 0
1006 0.0655
1007 0.136
1008 0
1009 0.347
101 0.0293
1010 0
1011 --0.042
1012 0.015
1013 --0.141
1014 0.362
1015 0.172
1016 0.391
1017 0
1018 0
1019 0
102 0
1020 0
1021 0
1022 0
1023 0
1024 0.0829
1025 0.173
1026 0.122
1027 0
1028 0
1029 0.0828
103 0.536
1030 0
1031 0.686
1032 --0.0263
1033 0
1034 0.0655
1035 0
1036 0.046
1037 0
1038 0.127
1039 --0.126
104 0
1040 0.345
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: CNhs11217

Jaspar motif P-value
MA0002.2 3.0144e-4
MA0003.1 0.66
MA0004.1 0.814
MA0006.1 0.859
MA0007.1 0.507
MA0009.1 0.209
MA0014.1 0.402
MA0017.1 2.86546e-5
MA0018.2 0.203
MA0019.1 0.691
MA0024.1 0.00167
MA0025.1 0.0877
MA0027.1 0.197
MA0028.1 0.344
MA0029.1 0.704
MA0030.1 0.686
MA0031.1 0.914
MA0035.2 0.0603
MA0038.1 0.48
MA0039.2 0.803
MA0040.1 0.388
MA0041.1 0.414
MA0042.1 0.562
MA0043.1 0.707
MA0046.1 5.84093e-10
MA0047.2 0.072
MA0048.1 0.585
MA0050.1 0.855
MA0051.1 0.665
MA0052.1 0.707
MA0055.1 0.207
MA0057.1 0.394
MA0058.1 0.729
MA0059.1 0.201
MA0060.1 0.0247
MA0061.1 0.165
MA0062.2 0.0475
MA0065.2 0.00103
MA0066.1 0.0176
MA0067.1 0.473
MA0068.1 0.354
MA0069.1 0.479
MA0070.1 0.64
MA0071.1 0.034
MA0072.1 0.016
MA0073.1 0.928
MA0074.1 0.849
MA0076.1 0.664
MA0077.1 0.577
MA0078.1 0.0776
MA0079.2 0.0716
MA0080.2 1.25073e-5
MA0081.1 0.164
MA0083.1 0.0648
MA0084.1 0.424
MA0087.1 0.378
MA0088.1 0.074
MA0090.1 0.379
MA0091.1 0.306
MA0092.1 0.689
MA0093.1 0.819
MA0099.2 0.0326
MA0100.1 0.576
MA0101.1 0.595
MA0102.2 0.681
MA0103.1 0.00526
MA0104.2 0.348
MA0105.1 1.91924e-5
MA0106.1 0.437
MA0107.1 0.577
MA0108.2 0.862
MA0111.1 0.56
MA0112.2 7.61412e-5
MA0113.1 0.74
MA0114.1 2.17801e-4
MA0115.1 3.79332e-4
MA0116.1 0.00108
MA0117.1 0.164
MA0119.1 0.259
MA0122.1 0.657
MA0124.1 0.14
MA0125.1 0.945
MA0131.1 0.441
MA0135.1 0.781
MA0136.1 2.31749e-6
MA0137.2 0.187
MA0138.2 0.00978
MA0139.1 0.0188
MA0140.1 0.178
MA0141.1 0.00191
MA0142.1 0.00672
MA0143.1 0.895
MA0144.1 0.378
MA0145.1 0.141
MA0146.1 0.965
MA0147.1 0.286
MA0148.1 0.0131
MA0149.1 0.011
MA0150.1 0.00155
MA0152.1 0.182
MA0153.1 6.86507e-9
MA0154.1 0.0151
MA0155.1 0.641
MA0156.1 0.0368
MA0157.1 0.813
MA0159.1 0.00389
MA0160.1 0.00726
MA0162.1 0.382
MA0163.1 0.0428
MA0164.1 0.725
MA0258.1 6.30243e-4
MA0259.1 0.938



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: CNhs11217

Novel motif P-value
1 0.0385
10 0.081
100 0.884
101 0.585
102 0.727
103 0.132
104 0.557
105 0.594
106 0.127
107 0.884
108 0.727
109 0.221
11 0.117
110 0.319
111 0.0284
112 0.376
113 0.837
114 0.0111
115 0.392
116 0.97
117 0.0373
118 0.614
119 0.0893
12 0.524
120 0.278
121 0.643
122 0.897
123 0.204
124 0.114
125 0.259
126 0.503
127 0.0747
128 0.0484
129 0.381
13 0.374
130 0.345
131 0.433
132 0.809
133 0.444
134 0.976
135 0.213
136 0.536
137 0.898
138 0.172
139 0.0395
14 0.434
140 0.853
141 0.205
142 0.755
143 0.0894
144 0.2
145 0.619
146 0.561
147 0.573
148 0.638
149 0.491
15 0.0603
150 0.984
151 0.112
152 0.886
153 0.571
154 0.924
155 0.76
156 0.00122
157 0.306
158 0.121
159 0.988
160 0.906
161 0.301
162 0.915
163 0.151
164 0.235
165 0.153
166 0.0899
167 0.278
168 0.494
169 0.104
17 0.268
18 0.0947
19 0.916
2 0.719
20 0.746
21 0.887
22 0.766
23 0.268
24 0.732
25 0.151
26 0.514
27 0.501
28 0.239
29 0.138
3 0.131
30 0.868
31 0.444
32 0.762
33 0.938
34 0.994
35 0.0152
36 0.0179
37 0.159
38 0.622
39 0.755
4 0.675
40 0.231
41 0.0542
42 0.326
43 0.14
44 0.0546
45 0.981
46 0.176
47 0.089
48 0.143
49 0.0631
5 0.13
50 0.574
51 0.715
52 0.814
53 0.989
54 0.412
55 0.399
56 0.211
57 0.367
58 0.259
59 0.414
6 0.947
60 0.354
61 0.909
62 0.0439
63 0.278
64 0.362
65 0.183
66 0.929
67 0.934
68 0.0452
69 0.471
7 0.295
70 0.00301
71 0.0913
72 0.469
73 0.237
74 0.877
75 0.0332
76 0.956
77 0.335
78 0.161
79 0.89
8 0.0236
80 0.155
81 0.334
82 0.181
83 0.358
84 0.494
85 0.0346
86 0.13
87 0.313
88 0.83
89 0.203
9 0.806
90 0.0162
91 0.646
92 0.208
93 0.946
94 0.132
95 0.182
96 0.106
97 0.865
98 0.234
99 0.99



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: CNhs11217


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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000304 (mouse neonate N0 sample)
0011510 (mouse ovary, 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: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)