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FF:1283-20G3

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Name:heart, embryo E18
Species:Mouse (Mus musculus)
Library ID:CNhs11030
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 stage18 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  SAMD00004713
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11030 CAGE DRX008978 DRR009852
Accession ID Mm9

Library idBAMCTSS
CNhs11030 DRZ001277 DRZ002660
Accession ID Mm10

Library idBAMCTSS
CNhs11030 DRZ012627 DRZ014010
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

CNhs11030

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0.369
100 0
1000 0.329
1001 0.38
1002 0.263
1003 --0.123
1004 0
1005 --0.148
1006 0.361
1007 --0.00391
1008 0
1009 0.217
101 --0.05
1010 0
1011 --0.108
1012 0
1013 --0.113
1014 0.229
1015 --0.00234
1016 0.191
1017 0
1018 0
1019 0
102 0
1020 0
1021 --0.0487
1022 0.57
1023 0
1024 0.356
1025 0.0421
1026 0.103
1027 0.0422
1028 0
1029 0.14
103 0.155
1030 0
1031 0.256
1032 0.0588
1033 0
1034 0
1035 0.566
1036 --0.0697
1037 0
1038 0.118
1039 0.299
104 0
1040 0.17
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: CNhs11030

Jaspar motif P-value
MA0002.2 0.00894
MA0003.1 0.648
MA0004.1 0.0712
MA0006.1 0.429
MA0007.1 0.69
MA0009.1 0.964
MA0014.1 0.407
MA0017.1 0.0588
MA0018.2 0.236
MA0019.1 0.88
MA0024.1 0.194
MA0025.1 0.332
MA0027.1 0.529
MA0028.1 0.111
MA0029.1 0.687
MA0030.1 0.105
MA0031.1 0.154
MA0035.2 0.127
MA0038.1 0.567
MA0039.2 0.707
MA0040.1 0.0956
MA0041.1 0.355
MA0042.1 0.501
MA0043.1 0.0961
MA0046.1 6.63961e-18
MA0047.2 0.225
MA0048.1 0.0453
MA0050.1 0.0031
MA0051.1 0.0197
MA0052.1 1.07261e-39
MA0055.1 2.72853e-5
MA0057.1 0.827
MA0058.1 0.153
MA0059.1 0.336
MA0060.1 0.326
MA0061.1 0.334
MA0062.2 3.76435e-7
MA0065.2 0.772
MA0066.1 0.539
MA0067.1 0.641
MA0068.1 0.412
MA0069.1 0.325
MA0070.1 0.853
MA0071.1 0.158
MA0072.1 0.223
MA0073.1 0.954
MA0074.1 0.467
MA0076.1 0.00242
MA0077.1 0.679
MA0078.1 0.629
MA0079.2 0.569
MA0080.2 9.12248e-4
MA0081.1 0.682
MA0083.1 2.98134e-21
MA0084.1 0.488
MA0087.1 0.307
MA0088.1 0.448
MA0090.1 5.04937e-6
MA0091.1 0.717
MA0092.1 0.472
MA0093.1 0.0851
MA0099.2 3.07508e-5
MA0100.1 0.48
MA0101.1 0.363
MA0102.2 0.00942
MA0103.1 1.65091e-5
MA0104.2 0.233
MA0105.1 0.881
MA0106.1 0.849
MA0107.1 0.521
MA0108.2 0.151
MA0111.1 0.527
MA0112.2 0.0137
MA0113.1 0.741
MA0114.1 0.00176
MA0115.1 0.446
MA0116.1 0.273
MA0117.1 0.645
MA0119.1 0.0241
MA0122.1 0.388
MA0124.1 0.839
MA0125.1 0.519
MA0131.1 0.988
MA0135.1 0.231
MA0136.1 1.29563e-4
MA0137.2 0.0697
MA0138.2 0.685
MA0139.1 0.399
MA0140.1 0.232
MA0141.1 3.16984e-10
MA0142.1 0.0291
MA0143.1 0.493
MA0144.1 0.905
MA0145.1 0.785
MA0146.1 0.211
MA0147.1 0.23
MA0148.1 0.304
MA0149.1 0.316
MA0150.1 0.0391
MA0152.1 0.641
MA0153.1 2.34209e-11
MA0154.1 0.131
MA0155.1 0.0635
MA0156.1 1.53933e-6
MA0157.1 0.56
MA0159.1 0.00245
MA0160.1 6.95184e-5
MA0162.1 0.0566
MA0163.1 0.98
MA0164.1 0.177
MA0258.1 0.198
MA0259.1 0.561



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: CNhs11030

Novel motif P-value
1 0.258
10 0.754
100 0.744
101 0.54
102 0.923
103 0.441
104 0.698
105 0.259
106 0.889
107 0.589
108 0.641
109 0.293
11 0.78
110 0.184
111 0.273
112 0.167
113 0.509
114 0.727
115 0.954
116 0.343
117 0.932
118 0.561
119 0.459
12 0.407
120 0.0615
121 0.79
122 0.198
123 0.455
124 0.305
125 0.83
126 0.675
127 0.225
128 0.353
129 0.422
13 6.45798e-5
130 0.739
131 0.766
132 0.801
133 0.433
134 0.781
135 0.953
136 0.209
137 0.209
138 0.14
139 0.988
14 0.445
140 0.703
141 0.552
142 0.735
143 0.425
144 0.235
145 0.124
146 0.554
147 0.937
148 0.883
149 0.099
15 0.926
150 0.216
151 0.269
152 0.362
153 0.621
154 0.721
155 0.0439
156 0.355
157 0.849
158 0.259
159 0.0524
160 0.296
161 0.696
162 0.672
163 0.894
164 0.505
165 0.0198
166 0.415
167 0.647
168 0.37
169 3.5324e-4
17 0.779
18 0.0195
19 0.0787
2 0.776
20 0.366
21 0.63
22 0.172
23 0.71
24 0.885
25 0.82
26 0.0108
27 0.263
28 0.221
29 0.835
3 0.946
30 0.0541
31 0.732
32 0.457
33 0.394
34 0.231
35 0.445
36 0.117
37 0.128
38 0.949
39 0.899
4 0.306
40 0.0193
41 0.863
42 0.588
43 0.482
44 0.835
45 0.24
46 0.886
47 0.98
48 0.702
49 0.382
5 0.775
50 0.315
51 0.801
52 0.732
53 0.847
54 0.896
55 0.224
56 0.919
57 0.383
58 0.909
59 0.0304
6 0.0498
60 0.681
61 0.872
62 0.557
63 0.207
64 0.752
65 0.775
66 0.354
67 0.959
68 0.458
69 0.15
7 0.104
70 0.0423
71 0.0118
72 0.118
73 0.15
74 0.299
75 0.435
76 0.961
77 0.42
78 0.314
79 0.434
8 0.912
80 0.0508
81 0.522
82 0.974
83 0.706
84 0.63
85 0.169
86 0.552
87 4.07694e-5
88 0.46
89 0.0465
9 0.168
90 0.909
91 0.132
92 0.485
93 0.273
94 0.637
95 0.169
96 0.414
97 0.23
98 0.609
99 0.881



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: CNhs11030


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)
0000302 (mouse embryonic day 18 sample)
0011515 (mouse heart- 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: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)