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FF:353-12F5

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Name:heart, embryo E12
Species:Mouse (Mus musculus)
Library ID:CNhs11015
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
tissueheart
dev stage12 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  SAMD00005925
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11015 CAGE DRX008972 DRR009846
Accession ID Mm9

Library idBAMCTSS
CNhs11015 DRZ001271 DRZ002654
Accession ID Mm10

Library idBAMCTSS
CNhs11015 DRZ012621 DRZ014004
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

CNhs11015

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0.0915
100 0
1000 0
1001 0.26
1002 0.465
1003 0.00475
1004 0
1005 -0.0389
1006 0.231
1007 0.0156
1008 0
1009 0.00751
101 0.0744
1010 0
1011 -0.0226
1012 0
1013 -0.217
1014 0.539
1015 0.226
1016 0.161
1017 0
1018 0
1019 0
102 0
1020 0
1021 0
1022 0.137
1023 0
1024 -0.0361
1025 0.0915
1026 0
1027 0
1028 0
1029 0.238
103 0.015
1030 0
1031 0.419
1032 -0.0166
1033 0.00343
1034 0
1035 0.422
1036 -0.0466
1037 0
1038 -0.0129
1039 0.00774
104 0
1040 0.0717
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: CNhs11015
Jaspar motif P-value
MA0002.2 0.0217
MA0003.1 0.523
MA0004.1 0.95
MA0006.1 0.81
MA0007.1 0.071
MA0009.1 0.855
MA0014.1 0.563
MA0017.1 0.0708
MA0018.2 0.155
MA0019.1 0.311
MA0024.1 8.73799e-5
MA0025.1 0.102
MA0027.1 0.0265
MA0028.1 0.853
MA0029.1 0.295
MA0030.1 0.0441
MA0031.1 0.0217
MA0035.2 0.0671
MA0038.1 0.831
MA0039.2 0.0128
MA0040.1 0.0868
MA0041.1 0.111
MA0042.1 0.205
MA0043.1 0.545
MA0046.1 8.38694e-13
MA0047.2 0.0152
MA0048.1 0.0274
MA0050.1 2.51774e-6
MA0051.1 0.00207
MA0052.1 4.11157e-13
MA0055.1 0.0158
MA0057.1 0.614
MA0058.1 0.645
MA0059.1 0.101
MA0060.1 0.316
MA0061.1 0.651
MA0062.2 0.00131
MA0065.2 0.174
MA0066.1 0.779
MA0067.1 0.15
MA0068.1 0.215
MA0069.1 0.209
MA0070.1 0.684
MA0071.1 0.919
MA0072.1 0.0927
MA0073.1 0.955
MA0074.1 0.626
MA0076.1 0.0798
MA0077.1 0.748
MA0078.1 0.22
MA0079.2 0.285
MA0080.2 0.00823
MA0081.1 0.844
MA0083.1 1.49213e-15
MA0084.1 0.77
MA0087.1 0.944
MA0088.1 0.326
MA0090.1 0.0119
MA0091.1 0.747
MA0092.1 0.71
MA0093.1 0.872
MA0099.2 5.48723e-8
MA0100.1 0.96
MA0101.1 0.104
MA0102.2 0.00928
MA0103.1 9.17424e-7
MA0104.2 0.262
MA0105.1 0.0151
MA0106.1 0.878
MA0107.1 0.124
MA0108.2 0.67
MA0111.1 0.499
MA0112.2 0.267
MA0113.1 0.465
MA0114.1 0.00365
MA0115.1 0.938
MA0116.1 0.889
MA0117.1 0.535
MA0119.1 0.0699
MA0122.1 0.924
MA0124.1 0.258
MA0125.1 0.826
MA0131.1 0.687
MA0135.1 0.23
MA0136.1 0.00841
MA0137.2 0.0393
MA0138.2 0.0411
MA0139.1 0.585
MA0140.1 7.87409e-4
MA0141.1 0.0257
MA0142.1 0.579
MA0143.1 0.554
MA0144.1 0.0707
MA0145.1 0.293
MA0146.1 0.559
MA0147.1 0.259
MA0148.1 0.0706
MA0149.1 0.0912
MA0150.1 0.00181
MA0152.1 0.658
MA0153.1 1.10387e-7
MA0154.1 0.711
MA0155.1 0.188
MA0156.1 1.14178e-5
MA0157.1 0.0442
MA0159.1 0.394
MA0160.1 0.846
MA0162.1 0.293
MA0163.1 0.0143
MA0164.1 0.816
MA0258.1 0.628
MA0259.1 0.473



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: CNhs11015
Novel motif P-value
1 0.742
10 0.923
100 0.905
101 0.757
102 0.298
103 0.329
104 0.565
105 0.846
106 0.775
107 0.924
108 0.8
109 0.984
11 0.195
110 0.269
111 0.607
112 0.392
113 0.503
114 0.938
115 0.535
116 0.651
117 0.396
118 0.457
119 0.357
12 0.388
120 0.372
121 0.845
122 0.289
123 0.0681
124 0.937
125 0.749
126 0.732
127 0.248
128 0.296
129 0.355
13 0.00201
130 0.244
131 0.458
132 0.315
133 0.692
134 0.587
135 0.721
136 0.0227
137 0.87
138 0.153
139 0.932
14 0.483
140 0.747
141 0.209
142 0.738
143 0.646
144 0.0878
145 0.0637
146 0.183
147 0.871
148 0.622
149 0.989
15 0.237
150 0.738
151 0.172
152 0.281
153 0.264
154 0.742
155 0.686
156 0.0143
157 0.435
158 0.431
159 0.171
160 0.274
161 0.66
162 0.77
163 0.564
164 0.394
165 0.197
166 0.37
167 0.765
168 0.686
169 0.113
17 0.234
18 0.525
19 0.178
2 0.526
20 0.146
21 0.444
22 0.634
23 0.196
24 0.472
25 0.328
26 0.0253
27 0.19
28 0.476
29 0.207
3 0.961
30 0.0936
31 0.758
32 0.482
33 0.135
34 0.772
35 0.91
36 0.156
37 0.66
38 0.173
39 0.351
4 0.573
40 0.00488
41 0.871
42 0.899
43 0.643
44 0.468
45 0.0729
46 0.643
47 0.586
48 0.414
49 0.818
5 0.943
50 0.485
51 0.975
52 0.786
53 0.552
54 0.833
55 0.201
56 0.999
57 0.287
58 0.638
59 0.4
6 0.194
60 0.722
61 0.415
62 0.569
63 0.865
64 0.469
65 0.168
66 0.614
67 0.607
68 0.789
69 0.212
7 0.56
70 0.0224
71 0.00663
72 0.0651
73 0.813
74 0.968
75 0.785
76 0.346
77 0.317
78 0.647
79 0.201
8 0.616
80 0.0119
81 0.771
82 0.981
83 0.934
84 0.968
85 0.883
86 0.763
87 4.15479e-5
88 0.315
89 0.128
9 0.974
90 0.706
91 0.256
92 0.998
93 0.636
94 0.182
95 0.646
96 0.394
97 0.14
98 0.307
99 0.663



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: CNhs11015


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)
0007100 (primary circulatory organ)
0000948 (heart)
0000479 (tissue)
0010314 (structure with developmental contribution from neural crest)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003103 (compound organ)
0010317 (germ layer / neural crest derived structure)
0004535 (cardiovascular system)
0001009 (circulatory 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)
0000295 (mouse embryonic day 12 sample)
0011318 (mouse heart- embryo E12 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:0004872 (splanchnic layer of lateral plate mesoderm)
UBERON:0004140 (primary heart field)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)