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FF:821-26I6

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Name:heart, neonate N20
Species:Mouse (Mus musculus)
Library ID:CNhs11127
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 stage20 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  SAMD00004919
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11127 CAGE DRX008983 DRR009857
Accession ID Mm9

Library idBAMCTSS
CNhs11127 DRZ001282 DRZ002665
Accession ID Mm10

Library idBAMCTSS
CNhs11127 DRZ012632 DRZ014015
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

CNhs11127

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0.904
100 0
1000 0.833
1001 0.629
1002 0.0322
1003 0.184
1004 0
1005 0
1006 0.574
1007 --0.0188
1008 0
1009 0.22
101 --0.114
1010 0
1011 7.48101e-4
1012 0.0135
1013 --0.0762
1014 --0.0281
1015 --0.176
1016 0.0569
1017 0
1018 0
1019 0
102 0
1020 0
1021 0
1022 0.817
1023 0
1024 0.547
1025 0
1026 0
1027 0
1028 0.0593
1029 --0.0396
103 0.0386
1030 0
1031 0.0541
1032 0.242
1033 --0.00724
1034 0
1035 0.577
1036 --0.307
1037 0
1038 0.201
1039 0.655
104 0
1040 0.136
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: CNhs11127

Jaspar motif P-value
MA0002.2 0.34
MA0003.1 0.324
MA0004.1 0.12
MA0006.1 0.183
MA0007.1 0.616
MA0009.1 0.565
MA0014.1 0.57
MA0017.1 0.978
MA0018.2 0.357
MA0019.1 0.286
MA0024.1 7.06249e-6
MA0025.1 0.28
MA0027.1 0.431
MA0028.1 0.0149
MA0029.1 0.87
MA0030.1 0.63
MA0031.1 0.841
MA0035.2 6.06957e-6
MA0038.1 0.133
MA0039.2 0.842
MA0040.1 0.754
MA0041.1 0.422
MA0042.1 0.401
MA0043.1 0.362
MA0046.1 4.28322e-16
MA0047.2 0.762
MA0048.1 0.587
MA0050.1 0.884
MA0051.1 0.396
MA0052.1 3.91204e-58
MA0055.1 0.463
MA0057.1 0.514
MA0058.1 0.0992
MA0059.1 0.13
MA0060.1 7.99355e-13
MA0061.1 0.552
MA0062.2 1.75611e-5
MA0065.2 0.0241
MA0066.1 0.815
MA0067.1 0.79
MA0068.1 0.305
MA0069.1 0.149
MA0070.1 0.713
MA0071.1 4.7318e-4
MA0072.1 0.403
MA0073.1 0.46
MA0074.1 0.175
MA0076.1 0.00205
MA0077.1 0.911
MA0078.1 0.736
MA0079.2 0.272
MA0080.2 0.00555
MA0081.1 0.978
MA0083.1 1.7e-14
MA0084.1 0.847
MA0087.1 0.299
MA0088.1 0.735
MA0090.1 2.85691e-5
MA0091.1 0.934
MA0092.1 0.315
MA0093.1 0.0958
MA0099.2 0.121
MA0100.1 0.0128
MA0101.1 0.472
MA0102.2 0.0429
MA0103.1 0.00274
MA0104.2 0.045
MA0105.1 0.582
MA0106.1 0.773
MA0107.1 0.703
MA0108.2 0.23
MA0111.1 0.943
MA0112.2 8.68989e-6
MA0113.1 0.214
MA0114.1 0.555
MA0115.1 0.2
MA0116.1 0.53
MA0117.1 0.45
MA0119.1 0.139
MA0122.1 0.0419
MA0124.1 0.775
MA0125.1 0.298
MA0131.1 0.322
MA0135.1 0.408
MA0136.1 3.68508e-4
MA0137.2 0.15
MA0138.2 0.0154
MA0139.1 0.624
MA0140.1 0.00161
MA0141.1 2.04288e-10
MA0142.1 0.0692
MA0143.1 0.279
MA0144.1 0.68
MA0145.1 0.0393
MA0146.1 0.0438
MA0147.1 0.0853
MA0148.1 0.982
MA0149.1 0.895
MA0150.1 0.0482
MA0152.1 0.385
MA0153.1 3.84587e-11
MA0154.1 0.0413
MA0155.1 0.277
MA0156.1 0.00405
MA0157.1 0.493
MA0159.1 2.07955e-6
MA0160.1 5.28826e-6
MA0162.1 0.149
MA0163.1 0.71
MA0164.1 0.13
MA0258.1 0.00111
MA0259.1 0.277



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: CNhs11127

Novel motif P-value
1 0.147
10 0.886
100 0.721
101 0.538
102 0.847
103 0.917
104 0.644
105 0.08
106 0.216
107 0.232
108 0.943
109 0.287
11 0.372
110 0.262
111 0.0878
112 0.803
113 0.806
114 0.0674
115 0.532
116 0.672
117 0.743
118 0.698
119 0.132
12 0.593
120 0.154
121 0.115
122 0.624
123 0.674
124 0.466
125 0.853
126 0.476
127 0.384
128 0.555
129 0.0707
13 0.00106
130 0.617
131 0.815
132 0.741
133 0.775
134 0.596
135 0.73
136 0.918
137 0.175
138 0.0914
139 0.0574
14 0.0804
140 0.56
141 0.63
142 0.941
143 0.41
144 0.491
145 0.474
146 0.57
147 0.587
148 0.461
149 7.67032e-4
15 0.238
150 0.495
151 0.177
152 0.0594
153 0.562
154 0.752
155 0.0243
156 0.0261
157 0.859
158 0.144
159 0.777
160 0.288
161 0.909
162 0.787
163 0.219
164 0.406
165 4.27339e-4
166 0.226
167 0.601
168 0.0818
169 7.45152e-5
17 0.167
18 0.181
19 0.0241
2 0.522
20 0.774
21 0.311
22 0.0223
23 0.423
24 0.978
25 0.679
26 0.133
27 0.9
28 0.806
29 0.371
3 0.422
30 0.587
31 0.579
32 0.957
33 0.646
34 0.229
35 0.886
36 0.224
37 0.00709
38 0.715
39 0.455
4 0.349
40 0.416
41 0.779
42 0.93
43 0.194
44 0.96
45 0.522
46 0.709
47 0.898
48 0.498
49 0.168
5 0.237
50 0.853
51 0.558
52 0.307
53 0.657
54 0.302
55 0.868
56 0.559
57 0.412
58 0.351
59 0.0339
6 0.0616
60 0.121
61 0.591
62 0.321
63 0.101
64 0.742
65 0.507
66 0.118
67 0.755
68 0.89
69 0.0154
7 0.0815
70 0.358
71 0.184
72 0.613
73 0.0437
74 0.613
75 0.811
76 0.897
77 0.387
78 0.0407
79 0.76
8 0.832
80 0.288
81 0.622
82 0.164
83 0.454
84 0.436
85 0.00271
86 0.713
87 0.425
88 0.631
89 0.0228
9 0.0741
90 0.881
91 0.419
92 0.199
93 0.356
94 0.789
95 0.276
96 0.473
97 0.919
98 0.293
99 0.933



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: CNhs11127


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)
0000308 (mouse neonate N20 sample)
0011427 (mouse heart- neonate N20 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)