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FF:11634-122C5

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Name:Mouse Cardiac Myocytes, donor3
Species:Mouse (Mus musculus)
Library ID:CNhs12353
Sample type:primary cells
Genomic View: UCSC
MicroRNAs:Including candidate novel miRNAs(CAGE samples)
Excluding candidate novel miRNAs(CAGE samples)
CAGEd-oPOSSUM:link
Additional information
Sample information
strainNA
tissueheart
dev stageNA
sexNA
ageNA
cell typecardiac muscle cell
cell lineNA
companySciencell/3H
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numbercustom
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

Accession numbers
MethodSample accession id
CAGE  SAMD00005984
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12353 CAGE DRX008818 DRR009690
Accession ID Mm9

Library idBAMCTSS
CNhs12353 DRZ001115 DRZ002500
Accession ID Mm10

Library idBAMCTSS
CNhs12353 DRZ012465 DRZ013850
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

CNhs12353

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.244
1001 --0.0275
1002 0.673
1003 0.0916
1004 0
1005 0
1006 0.00843
1007 --0.223
1008 0
1009 0.606
101 --0.163
1010 0
1011 --0.263
1012 0
1013 0.139
1014 0
1015 --0.207
1016 --0.0744
1017 0
1018 0
1019 0
102 0
1020 0.664
1021 0.00778
1022 --0.0475
1023 0
1024 --0.14
1025 0
1026 0
1027 0
1028 0.181
1029 --0.115
103 0.308
1030 0
1031 0.577
1032 0.0656
1033 0
1034 0
1035 0
1036 --0.21
1037 0
1038 0.13
1039 --0.0678
104 0
1040 0.574
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: CNhs12353

Jaspar motif P-value
MA0002.2 0.473
MA0003.1 0.153
MA0004.1 0.586
MA0006.1 0.122
MA0007.1 0.038
MA0009.1 0.336
MA0014.1 0.245
MA0017.1 0.0866
MA0018.2 0.0258
MA0019.1 0.824
MA0024.1 8.30271e-11
MA0025.1 0.53
MA0027.1 0.331
MA0028.1 0.279
MA0029.1 0.645
MA0030.1 0.249
MA0031.1 0.901
MA0035.2 0.682
MA0038.1 0.0202
MA0039.2 0.203
MA0040.1 0.187
MA0041.1 0.466
MA0042.1 0.65
MA0043.1 0.101
MA0046.1 3.17186e-10
MA0047.2 0.105
MA0048.1 0.356
MA0050.1 0.00302
MA0051.1 0.0873
MA0052.1 1.93886e-5
MA0055.1 0.31
MA0057.1 0.147
MA0058.1 0.981
MA0059.1 0.224
MA0060.1 6.4272e-17
MA0061.1 0.183
MA0062.2 0.0738
MA0065.2 0.399
MA0066.1 0.342
MA0067.1 0.969
MA0068.1 0.189
MA0069.1 0.137
MA0070.1 0.831
MA0071.1 0.584
MA0072.1 0.981
MA0073.1 0.249
MA0074.1 0.679
MA0076.1 0.0476
MA0077.1 0.197
MA0078.1 0.482
MA0079.2 2.38233e-4
MA0080.2 0.275
MA0081.1 0.52
MA0083.1 1.19174e-11
MA0084.1 0.888
MA0087.1 0.943
MA0088.1 0.919
MA0090.1 9.38538e-8
MA0091.1 0.131
MA0092.1 0.143
MA0093.1 0.567
MA0099.2 2.5111e-5
MA0100.1 0.461
MA0101.1 0.143
MA0102.2 0.743
MA0103.1 2.62458e-4
MA0104.2 0.0548
MA0105.1 0.314
MA0106.1 8.08924e-4
MA0107.1 0.106
MA0108.2 0.071
MA0111.1 0.941
MA0112.2 0.011
MA0113.1 0.0293
MA0114.1 0.0594
MA0115.1 0.1
MA0116.1 0.431
MA0117.1 0.31
MA0119.1 0.159
MA0122.1 0.6
MA0124.1 0.231
MA0125.1 0.00137
MA0131.1 0.145
MA0135.1 0.962
MA0136.1 0.0688
MA0137.2 0.145
MA0138.2 0.393
MA0139.1 0.524
MA0140.1 0.984
MA0141.1 0.739
MA0142.1 0.169
MA0143.1 0.681
MA0144.1 0.0109
MA0145.1 0.0193
MA0146.1 0.0251
MA0147.1 0.0472
MA0148.1 0.252
MA0149.1 0.697
MA0150.1 0.0311
MA0152.1 0.197
MA0153.1 1.6401e-8
MA0154.1 0.0204
MA0155.1 0.142
MA0156.1 0.417
MA0157.1 0.159
MA0159.1 0.127
MA0160.1 0.575
MA0162.1 0.0938
MA0163.1 0.0363
MA0164.1 0.825
MA0258.1 0.444
MA0259.1 0.195



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: CNhs12353

Novel motif P-value
1 0.957
10 0.673
100 0.315
101 0.838
102 0.409
103 0.551
104 0.433
105 0.333
106 0.0102
107 0.168
108 0.584
109 0.0109
11 0.195
110 0.128
111 0.24
112 0.634
113 0.874
114 0.0706
115 0.851
116 0.0215
117 0.734
118 0.561
119 0.364
12 0.714
120 0.175
121 0.637
122 0.132
123 0.699
124 0.234
125 0.2
126 0.48
127 0.179
128 0.0339
129 0.407
13 0.204
130 0.989
131 0.113
132 0.737
133 0.716
134 0.844
135 0.712
136 0.116
137 0.781
138 0.882
139 0.393
14 0.813
140 0.367
141 0.262
142 0.499
143 0.173
144 0.241
145 0.123
146 0.669
147 0.413
148 0.653
149 0.00707
15 0.184
150 0.119
151 0.822
152 0.00978
153 0.481
154 0.809
155 0.799
156 0.796
157 0.713
158 0.435
159 0.108
160 0.221
161 0.245
162 0.731
163 0.232
164 0.159
165 0.276
166 0.343
167 0.387
168 0.619
169 0.0185
17 0.0327
18 0.304
19 0.0315
2 0.175
20 0.706
21 0.403
22 0.0343
23 0.0774
24 0.0708
25 0.325
26 0.156
27 0.453
28 0.955
29 0.26
3 0.24
30 0.864
31 0.533
32 0.291
33 0.687
34 0.7
35 0.334
36 0.0726
37 0.0183
38 0.696
39 0.453
4 0.327
40 0.417
41 0.768
42 0.545
43 0.0396
44 0.188
45 0.414
46 0.812
47 0.465
48 0.637
49 0.428
5 0.989
50 0.106
51 1
52 0.122
53 0.843
54 0.807
55 0.955
56 0.574
57 0.506
58 0.571
59 0.00423
6 0.135
60 0.116
61 0.82
62 0.86
63 0.109
64 0.928
65 0.196
66 0.809
67 0.493
68 0.912
69 0.26
7 0.738
70 0.0182
71 0.255
72 0.627
73 0.00287
74 0.109
75 0.455
76 0.634
77 0.0248
78 0.0469
79 0.648
8 0.574
80 0.0817
81 0.17
82 0.193
83 0.767
84 0.133
85 0.0186
86 0.538
87 0.0952
88 0.84
89 0.205
9 0.42
90 0.299
91 0.925
92 0.0155
93 0.908
94 0.643
95 0.0607
96 0.0572
97 0.319
98 0.688
99 0.894



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: CNhs12353


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

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0002371 (somatic cell)
0000393 (electrically responsive cell)
0000183 (contractile cell)
0000187 (muscle cell)
0000211 (electrically active cell)
0000255 (eukaryotic cell)
0002494 (cardiocyte)
0000737 (striated muscle cell)
0000746 (cardiac muscle cell)

UBERON: Anatomy
0000468 (multi-cellular organism)
0007100 (primary circulatory organ)
0000948 (heart)
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)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000106 (mouse cardiac myocyte 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

CL:0000355 (multi-potent skeletal muscle stem cell)
CL:0000222 (mesodermal cell)
CL:0000513 (cardiac muscle myoblast)