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FF:331-24E9

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Name:heart, embryo E11
Species:Mouse (Mus musculus)
Library ID:CNhs10586
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 stage11 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  SAMD00005670
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10586 CAGE DRX008971 DRR009845
Accession ID Mm9

Library idBAMCTSS
CNhs10586 DRZ001270 DRZ002653
Accession ID Mm10

Library idBAMCTSS
CNhs10586 DRZ012620 DRZ014003
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

CNhs10586

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0.0818
100 0
1000 -0.0355
1001 0.111
1002 0.299
1003 -0.104
1004 0
1005 -0.0765
1006 0.148
1007 -0.00469
1008 0
1009 0.00991
101 0.0599
1010 0
1011 0
1012 0
1013 -0.217
1014 0.266
1015 0.213
1016 0.194
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0219
1022 0.0818
1023 0
1024 -0.0578
1025 0
1026 0
1027 0
1028 0
1029 -0.0323
103 -0.0376
1030 0
1031 0.369
1032 -0.0808
1033 -0.0752
1034 0
1035 0.262
1036 -0.0341
1037 0
1038 -0.0594
1039 0.00245
104 0
1040 0.171
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: CNhs10586
Jaspar motif P-value
MA0002.2 0.0163
MA0003.1 0.74
MA0004.1 0.919
MA0006.1 0.992
MA0007.1 0.237
MA0009.1 0.74
MA0014.1 0.723
MA0017.1 0.00773
MA0018.2 0.351
MA0019.1 0.838
MA0024.1 4.52952e-7
MA0025.1 0.91
MA0027.1 0.0636
MA0028.1 0.168
MA0029.1 0.349
MA0030.1 0.386
MA0031.1 0.0705
MA0035.2 0.0105
MA0038.1 0.623
MA0039.2 0.146
MA0040.1 0.0831
MA0041.1 0.62
MA0042.1 0.58
MA0043.1 0.362
MA0046.1 4.94381e-12
MA0047.2 0.0915
MA0048.1 0.0979
MA0050.1 1.28295e-8
MA0051.1 0.00151
MA0052.1 4.1134e-23
MA0055.1 0.00658
MA0057.1 0.597
MA0058.1 0.689
MA0059.1 0.924
MA0060.1 4.65451e-6
MA0061.1 0.0974
MA0062.2 0.766
MA0065.2 0.0367
MA0066.1 0.521
MA0067.1 0.844
MA0068.1 0.177
MA0069.1 0.4
MA0070.1 0.615
MA0071.1 0.797
MA0072.1 0.251
MA0073.1 0.755
MA0074.1 0.433
MA0076.1 0.607
MA0077.1 0.493
MA0078.1 0.201
MA0079.2 0.128
MA0080.2 0.0194
MA0081.1 0.874
MA0083.1 1.64828e-18
MA0084.1 0.821
MA0087.1 0.945
MA0088.1 0.265
MA0090.1 0.00882
MA0091.1 0.504
MA0092.1 0.387
MA0093.1 0.872
MA0099.2 7.64459e-6
MA0100.1 0.505
MA0101.1 0.468
MA0102.2 0.0219
MA0103.1 7.07196e-7
MA0104.2 0.679
MA0105.1 0.0731
MA0106.1 0.261
MA0107.1 0.322
MA0108.2 0.148
MA0111.1 0.234
MA0112.2 0.233
MA0113.1 0.433
MA0114.1 3.60077e-4
MA0115.1 0.551
MA0116.1 0.00612
MA0117.1 0.332
MA0119.1 0.808
MA0122.1 0.534
MA0124.1 0.29
MA0125.1 0.179
MA0131.1 0.689
MA0135.1 0.239
MA0136.1 0.0572
MA0137.2 0.32
MA0138.2 0.0349
MA0139.1 0.063
MA0140.1 1.23982e-4
MA0141.1 0.198
MA0142.1 0.312
MA0143.1 0.36
MA0144.1 0.614
MA0145.1 0.108
MA0146.1 0.87
MA0147.1 0.977
MA0148.1 0.0716
MA0149.1 0.0809
MA0150.1 0.0067
MA0152.1 0.632
MA0153.1 4.53726e-8
MA0154.1 0.0315
MA0155.1 0.418
MA0156.1 0.0217
MA0157.1 0.0683
MA0159.1 0.748
MA0160.1 0.327
MA0162.1 0.574
MA0163.1 0.973
MA0164.1 0.665
MA0258.1 0.16
MA0259.1 0.61



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: CNhs10586
Novel motif P-value
1 0.258
10 0.299
100 0.773
101 0.83
102 0.643
103 0.012
104 0.49
105 0.645
106 0.174
107 0.368
108 0.949
109 0.712
11 0.14
110 0.886
111 0.95
112 0.173
113 0.863
114 0.207
115 0.482
116 0.163
117 0.456
118 0.816
119 0.103
12 0.463
120 0.172
121 0.767
122 0.578
123 0.0419
124 0.431
125 0.446
126 0.972
127 0.17
128 0.0327
129 0.205
13 0.077
130 0.393
131 0.406
132 0.577
133 0.596
134 0.683
135 0.833
136 0.458
137 0.579
138 0.147
139 0.58
14 0.617
140 0.338
141 0.142
142 0.93
143 0.237
144 0.225
145 0.547
146 0.426
147 0.75
148 0.226
149 0.856
15 0.178
150 0.836
151 0.0943
152 0.609
153 0.282
154 0.495
155 0.708
156 0.165
157 0.405
158 0.391
159 0.623
160 0.952
161 0.874
162 0.997
163 0.887
164 0.892
165 0.307
166 0.657
167 0.552
168 0.706
169 0.818
17 0.0882
18 0.149
19 0.87
2 0.583
20 0.146
21 0.556
22 0.879
23 0.0654
24 0.496
25 0.372
26 0.222
27 0.187
28 0.344
29 0.925
3 0.218
30 0.34
31 0.423
32 0.107
33 0.242
34 0.398
35 0.0692
36 0.0932
37 0.797
38 0.313
39 0.289
4 0.622
40 0.0108
41 0.751
42 0.349
43 0.191
44 0.831
45 0.406
46 0.476
47 0.294
48 0.284
49 0.157
5 0.676
50 0.681
51 0.61
52 0.849
53 0.49
54 0.529
55 0.46
56 0.613
57 0.829
58 0.422
59 0.668
6 0.105
60 0.599
61 0.654
62 0.192
63 0.364
64 0.377
65 0.148
66 0.604
67 0.714
68 0.247
69 0.405
7 0.913
70 0.00565
71 0.947
72 0.138
73 0.869
74 0.34
75 0.223
76 0.5
77 0.129
78 0.801
79 0.0299
8 0.506
80 0.0461
81 0.285
82 0.265
83 0.44
84 0.456
85 0.233
86 0.886
87 0.105
88 0.286
89 0.286
9 0.934
90 0.203
91 0.535
92 0.118
93 0.333
94 0.801
95 0.701
96 0.731
97 0.154
98 0.182
99 0.28



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: CNhs10586


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)
0000294 (mouse embryonic day 11 sample)
0011313 (mouse heart- embryo E11 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)