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FF:479-18E5

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Name:heart, embryo E17
Species:Mouse (Mus musculus)
Library ID:CNhs11025
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 stage17 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  SAMD00005239
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11025 CAGE DRX008977 DRR009851
Accession ID Mm9

Library idBAMCTSS
CNhs11025 DRZ001276 DRZ002659
Accession ID Mm10

Library idBAMCTSS
CNhs11025 DRZ012626 DRZ014009
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

CNhs11025

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0.379
100 0
1000 0.315
1001 0.388
1002 0.373
1003 -0.0436
1004 0
1005 -0.0591
1006 0.295
1007 0.00559
1008 0
1009 0.116
101 -0.00755
1010 0
1011 -0.0122
1012 0
1013 -0.217
1014 0.6
1015 0.0579
1016 0.0775
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0216
1022 0.628
1023 0
1024 0.244
1025 0
1026 0
1027 0
1028 0
1029 0.374
103 0.165
1030 0
1031 0.113
1032 0.0259
1033 -0.0153
1034 0
1035 0.652
1036 -0.0454
1037 0
1038 0.0935
1039 0.313
104 0
1040 0.113
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: CNhs11025
Jaspar motif P-value
MA0002.2 0.0554
MA0003.1 0.414
MA0004.1 0.334
MA0006.1 0.919
MA0007.1 0.604
MA0009.1 0.954
MA0014.1 0.463
MA0017.1 0.0755
MA0018.2 0.0257
MA0019.1 0.688
MA0024.1 0.249
MA0025.1 0.0552
MA0027.1 0.35
MA0028.1 0.388
MA0029.1 0.654
MA0030.1 0.0722
MA0031.1 0.0939
MA0035.2 0.334
MA0038.1 0.907
MA0039.2 0.0184
MA0040.1 0.0616
MA0041.1 0.184
MA0042.1 0.39
MA0043.1 0.045
MA0046.1 6.19788e-16
MA0047.2 0.0853
MA0048.1 0.00477
MA0050.1 6.88672e-4
MA0051.1 0.00829
MA0052.1 1.95786e-22
MA0055.1 0.00118
MA0057.1 0.93
MA0058.1 0.313
MA0059.1 0.804
MA0060.1 0.00567
MA0061.1 0.427
MA0062.2 2.19507e-5
MA0065.2 0.849
MA0066.1 0.612
MA0067.1 0.336
MA0068.1 0.276
MA0069.1 0.352
MA0070.1 0.528
MA0071.1 0.324
MA0072.1 0.23
MA0073.1 0.909
MA0074.1 0.317
MA0076.1 0.0146
MA0077.1 0.941
MA0078.1 0.373
MA0079.2 0.142
MA0080.2 0.0031
MA0081.1 0.664
MA0083.1 9.52521e-12
MA0084.1 0.621
MA0087.1 0.706
MA0088.1 0.731
MA0090.1 0.00201
MA0091.1 0.64
MA0092.1 0.447
MA0093.1 0.291
MA0099.2 7.22051e-6
MA0100.1 0.441
MA0101.1 0.0842
MA0102.2 0.00736
MA0103.1 1.19286e-4
MA0104.2 0.935
MA0105.1 0.128
MA0106.1 0.4
MA0107.1 0.0946
MA0108.2 0.589
MA0111.1 0.797
MA0112.2 0.00152
MA0113.1 0.501
MA0114.1 0.0213
MA0115.1 0.909
MA0116.1 0.352
MA0117.1 0.854
MA0119.1 0.0264
MA0122.1 0.674
MA0124.1 0.737
MA0125.1 0.581
MA0131.1 0.895
MA0135.1 0.0416
MA0136.1 3.34275e-4
MA0137.2 0.0219
MA0138.2 0.67
MA0139.1 0.407
MA0140.1 0.232
MA0141.1 2.43975e-9
MA0142.1 0.171
MA0143.1 0.753
MA0144.1 0.492
MA0145.1 0.512
MA0146.1 0.576
MA0147.1 0.846
MA0148.1 0.182
MA0149.1 0.261
MA0150.1 0.0224
MA0152.1 0.317
MA0153.1 8.1181e-11
MA0154.1 0.131
MA0155.1 0.199
MA0156.1 7.43122e-7
MA0157.1 0.34
MA0159.1 0.00523
MA0160.1 0.005
MA0162.1 0.14
MA0163.1 0.0859
MA0164.1 0.416
MA0258.1 0.0669
MA0259.1 0.141



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: CNhs11025
Novel motif P-value
1 0.184
10 0.399
100 0.798
101 0.61
102 0.847
103 0.595
104 0.818
105 0.56
106 0.995
107 0.407
108 0.923
109 0.307
11 0.877
110 0.0645
111 0.318
112 0.489
113 0.383
114 0.56
115 0.99
116 0.515
117 0.182
118 0.233
119 0.808
12 0.905
120 0.274
121 0.604
122 0.183
123 0.184
124 0.725
125 0.674
126 0.643
127 0.203
128 0.255
129 0.626
13 2.12805e-4
130 0.21
131 0.206
132 0.962
133 0.455
134 0.61
135 0.996
136 0.0203
137 0.585
138 0.104
139 0.716
14 0.979
140 0.244
141 0.495
142 0.751
143 0.665
144 0.0975
145 0.0814
146 0.374
147 0.738
148 0.722
149 0.329
15 0.806
150 0.131
151 0.521
152 0.776
153 0.905
154 0.688
155 0.316
156 8.8592e-7
157 0.717
158 0.214
159 0.0199
160 0.237
161 0.782
162 0.564
163 0.906
164 0.381
165 0.0983
166 0.594
167 0.832
168 0.494
169 1.28258e-4
17 0.726
18 0.234
19 0.173
2 0.449
20 0.133
21 0.904
22 0.235
23 0.427
24 0.587
25 0.972
26 0.00478
27 0.319
28 0.407
29 0.353
3 0.431
30 0.0103
31 0.826
32 0.914
33 0.126
34 0.883
35 0.894
36 0.154
37 0.0503
38 0.449
39 0.855
4 0.369
40 0.00891
41 0.955
42 0.918
43 0.354
44 0.422
45 0.115
46 0.465
47 0.788
48 0.524
49 0.219
5 0.287
50 0.453
51 0.984
52 0.727
53 0.503
54 0.706
55 0.109
56 0.953
57 0.103
58 0.989
59 0.165
6 0.163
60 0.81
61 0.721
62 0.967
63 0.36
64 0.938
65 0.52
66 0.364
67 0.459
68 0.477
69 0.441
7 0.069
70 0.275
71 0.00745
72 0.178
73 0.309
74 0.178
75 0.964
76 0.335
77 0.619
78 0.117
79 0.596
8 0.357
80 0.00839
81 0.631
82 0.604
83 0.951
84 0.591
85 0.132
86 0.679
87 3.08935e-6
88 0.339
89 0.121
9 0.529
90 0.4
91 0.0941
92 0.889
93 0.312
94 0.221
95 0.431
96 0.281
97 0.171
98 0.705
99 0.638



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: CNhs11025


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)
0000300 (mouse embryonic day 17 sample)
0011367 (mouse heart- embryo E17 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)