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FF:1349-25I2

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Name:heart, neonate N03
Species:Mouse (Mus musculus)
Library ID:CNhs11221
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 stage3 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  SAMD00005457
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11221 CAGE DRX008980 DRR009854
Accession ID Mm9

Library idBAMCTSS
CNhs11221 DRZ001279 DRZ002662
Accession ID Mm10

Library idBAMCTSS
CNhs11221 DRZ012629 DRZ014012
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

CNhs11221

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0.519
100 0
1000 0.477
1001 0.485
1002 0.202
1003 0.0694
1004 0
1005 -0.0389
1006 0.486
1007 0.0286
1008 0
1009 0.204
101 -0.0146
1010 0
1011 -0.0214
1012 0.0662
1013 -0.0931
1014 0.168
1015 -0.0417
1016 0.167
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0544
1022 0.732
1023 0
1024 0.272
1025 0
1026 0
1027 0
1028 0
1029 0.0266
103 0.174
1030 0
1031 0.206
1032 0.132
1033 0
1034 0
1035 0.633
1036 -0.194
1037 0
1038 0.194
1039 0.303
104 0
1040 0.122
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: CNhs11221
Jaspar motif P-value
MA0002.2 0.0067
MA0003.1 0.651
MA0004.1 0.0282
MA0006.1 0.259
MA0007.1 0.33
MA0009.1 0.721
MA0014.1 0.552
MA0017.1 0.119
MA0018.2 0.375
MA0019.1 0.755
MA0024.1 0.142
MA0025.1 0.922
MA0027.1 0.422
MA0028.1 0.0621
MA0029.1 0.576
MA0030.1 0.211
MA0031.1 0.114
MA0035.2 0.0987
MA0038.1 0.624
MA0039.2 0.0466
MA0040.1 0.0934
MA0041.1 0.446
MA0042.1 0.542
MA0043.1 0.708
MA0046.1 5.26522e-16
MA0047.2 0.183
MA0048.1 0.0551
MA0050.1 0.00155
MA0051.1 0.0384
MA0052.1 8.16666e-44
MA0055.1 3.86953e-4
MA0057.1 0.955
MA0058.1 0.0464
MA0059.1 0.104
MA0060.1 0.0015
MA0061.1 0.148
MA0062.2 5.24898e-7
MA0065.2 0.944
MA0066.1 0.716
MA0067.1 0.542
MA0068.1 0.145
MA0069.1 0.237
MA0070.1 1
MA0071.1 0.0467
MA0072.1 0.863
MA0073.1 0.951
MA0074.1 0.128
MA0076.1 0.00465
MA0077.1 0.458
MA0078.1 0.554
MA0079.2 0.575
MA0080.2 1.99029e-4
MA0081.1 0.621
MA0083.1 1.38686e-17
MA0084.1 0.847
MA0087.1 0.377
MA0088.1 0.268
MA0090.1 3.129e-5
MA0091.1 0.919
MA0092.1 0.497
MA0093.1 0.0322
MA0099.2 7.48963e-5
MA0100.1 0.0877
MA0101.1 0.186
MA0102.2 0.00745
MA0103.1 3.78641e-6
MA0104.2 0.0681
MA0105.1 0.0887
MA0106.1 0.796
MA0107.1 0.333
MA0108.2 0.645
MA0111.1 0.593
MA0112.2 0.0453
MA0113.1 0.884
MA0114.1 0.0127
MA0115.1 0.597
MA0116.1 0.0451
MA0117.1 0.989
MA0119.1 0.249
MA0122.1 0.314
MA0124.1 0.564
MA0125.1 0.418
MA0131.1 0.687
MA0135.1 0.176
MA0136.1 1.33612e-5
MA0137.2 0.0512
MA0138.2 0.997
MA0139.1 0.216
MA0140.1 0.251
MA0141.1 4.60659e-11
MA0142.1 0.0487
MA0143.1 0.85
MA0144.1 0.986
MA0145.1 0.615
MA0146.1 0.173
MA0147.1 0.0511
MA0148.1 0.234
MA0149.1 0.332
MA0150.1 0.161
MA0152.1 0.971
MA0153.1 4.26692e-11
MA0154.1 0.659
MA0155.1 0.214
MA0156.1 4.66318e-7
MA0157.1 0.195
MA0159.1 9.40527e-4
MA0160.1 1.79819e-5
MA0162.1 0.139
MA0163.1 0.165
MA0164.1 0.146
MA0258.1 0.204
MA0259.1 0.936



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: CNhs11221
Novel motif P-value
1 0.269
10 0.737
100 0.933
101 0.558
102 0.689
103 0.349
104 0.619
105 0.371
106 0.979
107 0.541
108 0.876
109 0.546
11 0.685
110 0.306
111 0.28
112 0.335
113 0.65
114 0.921
115 0.993
116 0.383
117 0.917
118 0.614
119 0.828
12 0.843
120 0.175
121 0.692
122 0.178
123 0.16
124 0.391
125 0.61
126 0.423
127 0.227
128 0.257
129 0.613
13 5.58485e-4
130 0.278
131 0.537
132 0.627
133 0.396
134 0.599
135 0.928
136 0.213
137 0.251
138 0.0669
139 0.547
14 0.405
140 0.495
141 0.355
142 0.776
143 0.247
144 0.248
145 0.469
146 0.624
147 0.693
148 0.798
149 0.201
15 0.799
150 0.133
151 0.535
152 0.253
153 0.859
154 0.863
155 0.0892
156 0.349
157 0.764
158 0.1
159 0.0196
160 0.513
161 0.817
162 0.453
163 0.423
164 0.723
165 0.0475
166 0.374
167 0.91
168 0.297
169 9.35689e-4
17 0.844
18 0.0517
19 0.0993
2 0.625
20 0.397
21 0.498
22 0.187
23 0.473
24 0.684
25 0.662
26 0.0407
27 0.27
28 0.33
29 0.412
3 0.902
30 0.0488
31 0.829
32 0.875
33 0.162
34 0.295
35 0.379
36 0.0634
37 0.0981
38 0.956
39 0.849
4 0.211
40 0.0144
41 0.813
42 0.408
43 0.471
44 0.882
45 0.424
46 0.683
47 0.866
48 0.847
49 0.306
5 0.828
50 0.769
51 0.919
52 0.482
53 0.527
54 0.964
55 0.112
56 0.719
57 0.388
58 0.989
59 0.112
6 0.0527
60 0.555
61 0.652
62 0.649
63 0.36
64 0.703
65 0.564
66 0.363
67 0.834
68 0.351
69 0.123
7 0.142
70 0.0663
71 0.211
72 0.136
73 0.131
74 0.752
75 0.176
76 0.832
77 0.788
78 0.148
79 0.878
8 0.876
80 0.0118
81 0.663
82 0.656
83 0.801
84 0.48
85 0.232
86 0.548
87 2.72525e-5
88 0.415
89 0.157
9 0.279
90 0.811
91 0.255
92 0.842
93 0.401
94 0.674
95 0.283
96 0.447
97 0.281
98 0.787
99 0.811



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: CNhs11221


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)
0000311 (mouse neonate N3 sample)
0011474 (mouse heart- neonate N03 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)