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FF:11729-123E1

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Name:Mouse Cardiac Myocytes, donor2
Species:Mouse (Mus musculus)
Library ID:CNhs12356
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  SAMD00005910
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12356 CAGE DRX008817 DRR009689
Accession ID Mm9

Library idBAMCTSS
CNhs12356 DRZ001114 DRZ002499
Accession ID Mm10

Library idBAMCTSS
CNhs12356 DRZ012464 DRZ013849
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

CNhs12356

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.109
1001 --0.0275
1002 0.24
1003 --0.0137
1004 0
1005 0.00899
1006 --0.00124
1007 --0.0704
1008 0
1009 0.44
101 --0.105
1010 0
1011 --0.19
1012 0
1013 0.0706
1014 0.109
1015 --0.116
1016 0.102
1017 0
1018 0
1019 0
102 0
1020 0.478
1021 0
1022 0
1023 0
1024 --0.14
1025 0
1026 0
1027 0
1028 0.109
1029 --0.176
103 0.634
1030 0
1031 0.666
1032 0.0691
1033 0
1034 0
1035 0
1036 0.026
1037 0
1038 0.255
1039 --0.119
104 0
1040 0.594
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: CNhs12356

Jaspar motif P-value
MA0002.2 0.307
MA0003.1 0.143
MA0004.1 0.5
MA0006.1 0.262
MA0007.1 0.0453
MA0009.1 0.977
MA0014.1 0.394
MA0017.1 0.01
MA0018.2 0.0134
MA0019.1 0.494
MA0024.1 1.75864e-4
MA0025.1 0.439
MA0027.1 0.363
MA0028.1 0.831
MA0029.1 0.897
MA0030.1 0.466
MA0031.1 0.881
MA0035.2 0.082
MA0038.1 0.467
MA0039.2 0.0325
MA0040.1 0.11
MA0041.1 0.779
MA0042.1 0.349
MA0043.1 0.207
MA0046.1 5.09613e-9
MA0047.2 0.112
MA0048.1 0.38
MA0050.1 0.065
MA0051.1 0.253
MA0052.1 0.748
MA0055.1 0.107
MA0057.1 0.0866
MA0058.1 0.177
MA0059.1 0.411
MA0060.1 3.20421e-13
MA0061.1 0.102
MA0062.2 0.282
MA0065.2 0.77
MA0066.1 0.943
MA0067.1 0.809
MA0068.1 0.0347
MA0069.1 0.683
MA0070.1 0.932
MA0071.1 0.213
MA0072.1 0.481
MA0073.1 0.557
MA0074.1 0.37
MA0076.1 0.228
MA0077.1 0.181
MA0078.1 0.778
MA0079.2 0.00109
MA0080.2 0.707
MA0081.1 0.624
MA0083.1 1.75853e-5
MA0084.1 0.642
MA0087.1 0.846
MA0088.1 0.482
MA0090.1 3.70177e-5
MA0091.1 0.113
MA0092.1 0.133
MA0093.1 0.513
MA0099.2 7.41901e-4
MA0100.1 0.368
MA0101.1 0.0168
MA0102.2 0.748
MA0103.1 6.68462e-7
MA0104.2 0.102
MA0105.1 0.415
MA0106.1 0.01
MA0107.1 0.0198
MA0108.2 0.501
MA0111.1 0.816
MA0112.2 0.0184
MA0113.1 0.111
MA0114.1 0.0207
MA0115.1 0.0484
MA0116.1 0.745
MA0117.1 0.33
MA0119.1 0.409
MA0122.1 0.885
MA0124.1 0.502
MA0125.1 0.0165
MA0131.1 0.333
MA0135.1 0.394
MA0136.1 0.664
MA0137.2 0.073
MA0138.2 0.0293
MA0139.1 0.451
MA0140.1 0.235
MA0141.1 0.224
MA0142.1 0.0247
MA0143.1 0.581
MA0144.1 0.00969
MA0145.1 0.0343
MA0146.1 0.0295
MA0147.1 0.0887
MA0148.1 0.202
MA0149.1 0.806
MA0150.1 0.0936
MA0152.1 0.0105
MA0153.1 1.59794e-8
MA0154.1 0.0119
MA0155.1 0.402
MA0156.1 0.543
MA0157.1 0.347
MA0159.1 0.818
MA0160.1 0.172
MA0162.1 0.162
MA0163.1 0.156
MA0164.1 0.976
MA0258.1 0.866
MA0259.1 0.768



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: CNhs12356

Novel motif P-value
1 0.952
10 0.584
100 0.911
101 0.513
102 0.602
103 0.86
104 0.735
105 0.3
106 0.0202
107 0.152
108 0.595
109 0.00324
11 0.272
110 0.115
111 0.941
112 0.358
113 0.451
114 0.293
115 0.612
116 0.167
117 0.404
118 0.934
119 0.888
12 0.576
120 0.469
121 0.587
122 0.463
123 0.577
124 0.142
125 0.438
126 0.567
127 0.169
128 0.111
129 0.61
13 0.0924
130 0.418
131 0.138
132 0.92
133 0.911
134 0.838
135 0.716
136 0.152
137 0.482
138 0.624
139 0.631
14 0.704
140 0.307
141 0.0999
142 0.977
143 0.15
144 0.119
145 0.406
146 0.864
147 0.524
148 0.683
149 0.00115
15 0.247
150 0.0416
151 0.584
152 0.0189
153 0.674
154 0.431
155 0.9
156 1.08024e-37
157 0.602
158 0.156
159 0.0066
160 0.407
161 0.553
162 0.59
163 0.546
164 0.184
165 0.825
166 0.49
167 0.388
168 0.933
169 0.0148
17 0.254
18 0.483
19 0.0134
2 0.173
20 0.649
21 0.311
22 0.054
23 0.697
24 0.235
25 0.229
26 0.0452
27 0.503
28 0.586
29 0.171
3 0.455
30 0.845
31 0.79
32 0.126
33 0.491
34 0.747
35 0.0634
36 0.283
37 0.0556
38 0.934
39 0.276
4 0.836
40 0.675
41 0.761
42 0.599
43 0.052
44 0.7
45 0.573
46 0.908
47 0.44
48 0.612
49 0.813
5 0.3
50 0.0787
51 0.821
52 0.318
53 0.829
54 0.549
55 0.861
56 0.633
57 0.884
58 0.362
59 0.00715
6 0.335
60 0.349
61 0.544
62 0.494
63 0.234
64 0.696
65 0.647
66 0.698
67 0.409
68 0.228
69 0.777
7 0.667
70 0.0733
71 0.595
72 0.639
73 0.00961
74 0.617
75 0.286
76 0.988
77 0.0232
78 0.0667
79 0.656
8 0.467
80 0.0803
81 0.905
82 0.381
83 0.34
84 0.86
85 0.103
86 0.724
87 0.0114
88 0.796
89 0.346
9 0.557
90 0.741
91 0.957
92 0.166
93 0.555
94 0.662
95 0.00825
96 0.0271
97 0.215
98 0.437
99 0.914



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: CNhs12356


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)