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FF:1390-42D2

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Name:heart, neonate N30
Species:Mouse (Mus musculus)
Library ID:CNhs11202
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 stage30 days neonate
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  SAMD00004670
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11202 CAGE DRX008985 DRR009859
Accession ID Mm9

Library idBAMCTSS
CNhs11202 DRZ001284 DRZ002667
Accession ID Mm10

Library idBAMCTSS
CNhs11202 DRZ012634 DRZ014017
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

CNhs11202

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0.848
100 0
1000 0.733
1001 0.667
1002 --0.039
1003 0.0655
1004 0
1005 0
1006 0.656
1007 --0.0785
1008 0
1009 0.287
101 --0.126
1010 0
1011 --0.0604
1012 0.0547
1013 --0.112
1014 --0.0383
1015 --0.164
1016 --0.0438
1017 0
1018 0
1019 0
102 0
1020 0
1021 0
1022 0.916
1023 0
1024 0.633
1025 0
1026 0.147
1027 0
1028 0
1029 --0.029
103 0
1030 0.0547
1031 0.0537
1032 0.145
1033 --0.0118
1034 0
1035 0.317
1036 --0.401
1037 0
1038 0.202
1039 0.791
104 0
1040 0.21
1041 0.187



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: CNhs11202

Jaspar motif P-value
MA0002.2 0.327
MA0003.1 0.278
MA0004.1 0.0711
MA0006.1 0.121
MA0007.1 0.465
MA0009.1 0.786
MA0014.1 0.55
MA0017.1 0.907
MA0018.2 0.254
MA0019.1 0.206
MA0024.1 1.68837e-5
MA0025.1 0.0251
MA0027.1 0.952
MA0028.1 0.00944
MA0029.1 0.815
MA0030.1 0.571
MA0031.1 0.141
MA0035.2 9.76753e-8
MA0038.1 0.742
MA0039.2 0.172
MA0040.1 0.811
MA0041.1 0.96
MA0042.1 0.753
MA0043.1 0.571
MA0046.1 2.83545e-15
MA0047.2 0.26
MA0048.1 0.49
MA0050.1 0.169
MA0051.1 0.0257
MA0052.1 2.41372e-62
MA0055.1 0.469
MA0057.1 0.642
MA0058.1 0.0396
MA0059.1 0.0189
MA0060.1 1.95587e-7
MA0061.1 0.76
MA0062.2 2.40375e-6
MA0065.2 0.00686
MA0066.1 0.998
MA0067.1 0.75
MA0068.1 0.562
MA0069.1 0.295
MA0070.1 0.449
MA0071.1 3.15288e-4
MA0072.1 0.209
MA0073.1 0.563
MA0074.1 0.138
MA0076.1 8.11758e-4
MA0077.1 0.983
MA0078.1 0.284
MA0079.2 0.0471
MA0080.2 0.0427
MA0081.1 0.903
MA0083.1 6.5391e-10
MA0084.1 0.982
MA0087.1 0.281
MA0088.1 0.946
MA0090.1 1.30313e-5
MA0091.1 0.757
MA0092.1 0.255
MA0093.1 0.0504
MA0099.2 0.327
MA0100.1 0.0375
MA0101.1 0.677
MA0102.2 0.256
MA0103.1 0.00198
MA0104.2 0.00613
MA0105.1 0.597
MA0106.1 0.518
MA0107.1 0.869
MA0108.2 0.158
MA0111.1 0.928
MA0112.2 2.05695e-5
MA0113.1 0.0547
MA0114.1 0.733
MA0115.1 0.201
MA0116.1 0.243
MA0117.1 0.51
MA0119.1 0.0818
MA0122.1 0.0259
MA0124.1 0.398
MA0125.1 0.643
MA0131.1 0.24
MA0135.1 0.752
MA0136.1 0.00123
MA0137.2 0.373
MA0138.2 0.00613
MA0139.1 0.76
MA0140.1 5.0249e-4
MA0141.1 4.34077e-9
MA0142.1 0.0509
MA0143.1 0.163
MA0144.1 0.377
MA0145.1 0.0337
MA0146.1 0.0135
MA0147.1 0.00794
MA0148.1 0.395
MA0149.1 0.607
MA0150.1 0.00838
MA0152.1 0.333
MA0153.1 1.05449e-9
MA0154.1 0.0259
MA0155.1 0.368
MA0156.1 0.0226
MA0157.1 0.0338
MA0159.1 1.28034e-6
MA0160.1 3.38247e-6
MA0162.1 0.147
MA0163.1 0.842
MA0164.1 0.161
MA0258.1 0.0038
MA0259.1 0.099



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: CNhs11202

Novel motif P-value
1 0.213
10 0.626
100 0.698
101 0.571
102 0.958
103 0.661
104 0.508
105 0.098
106 0.161
107 0.173
108 0.9
109 0.23
11 0.432
110 0.249
111 0.258
112 0.867
113 0.853
114 0.127
115 0.933
116 0.811
117 0.778
118 0.758
119 0.122
12 0.769
120 0.07
121 0.0333
122 0.972
123 0.446
124 0.484
125 0.743
126 0.679
127 0.322
128 0.608
129 0.148
13 6.17536e-4
130 0.77
131 0.433
132 0.702
133 0.792
134 0.617
135 0.93
136 0.888
137 0.315
138 0.249
139 0.245
14 0.102
140 0.742
141 0.504
142 0.852
143 0.147
144 0.42
145 0.468
146 0.443
147 0.82
148 0.313
149 8.49759e-4
15 0.245
150 0.604
151 0.293
152 0.03
153 0.76
154 0.95
155 0.0386
156 0.0451
157 0.842
158 0.0894
159 0.328
160 0.248
161 0.762
162 0.827
163 0.123
164 0.401
165 0.00137
166 0.219
167 0.446
168 0.294
169 2.90633e-4
17 0.132
18 0.103
19 0.0317
2 0.339
20 0.766
21 0.262
22 0.023
23 0.429
24 0.752
25 0.789
26 0.192
27 0.922
28 0.827
29 0.514
3 0.427
30 0.7
31 0.496
32 0.634
33 0.454
34 0.155
35 0.73
36 0.463
37 0.00794
38 0.625
39 0.357
4 0.562
40 0.754
41 0.806
42 0.857
43 0.181
44 0.653
45 0.345
46 0.789
47 0.966
48 0.603
49 0.239
5 0.237
50 0.927
51 0.599
52 0.228
53 0.701
54 0.375
55 0.832
56 0.525
57 0.644
58 0.576
59 0.0482
6 0.087
60 0.127
61 0.93
62 0.609
63 0.104
64 0.822
65 0.427
66 0.216
67 0.487
68 0.802
69 0.0594
7 0.129
70 0.638
71 0.173
72 0.754
73 0.0239
74 0.273
75 0.968
76 0.653
77 0.272
78 0.026
79 0.762
8 0.929
80 0.859
81 0.623
82 0.167
83 0.272
84 0.0493
85 0.00281
86 0.617
87 0.459
88 0.891
89 0.0843
9 0.12
90 0.63
91 0.489
92 0.348
93 0.548
94 0.83
95 0.13
96 0.937
97 0.293
98 0.24
99 0.936



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: CNhs11202


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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000310 (mouse neonate N30 sample)
0011476 (mouse heart- neonate N30 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)