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FF:11774-124A1

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Name:CD41+ megakaryocyte cancer, donor1
Species:Mouse (Mus musculus)
Library ID:CNhs13079
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
tissuebone marrow
dev stageNA
sexNA
ageNA
cell typemegakaryocyte
cell lineNA
companyNA
collaborationHozumi Motohashi (Tohoku University Graduate School of Medicine)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot number3LL-1
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

Accession numbers
MethodSample accession id
CAGE  SAMD00004871
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs13079 CAGE DRX008797 DRR009669
Accession ID Mm9

Library idBAMCTSS
CNhs13079 DRZ001094 DRZ002479
Accession ID Mm10

Library idBAMCTSS
CNhs13079 DRZ012444 DRZ013829
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

CNhs13079

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0
1001 --0.0749
1002 --0.116
1003 --0.175
1004 0
1005 0
1006 --0.143
1007 --0.253
1008 0
1009 --0.19
101 0.118
1010 0
1011 --0.108
1012 0
1013 --0.131
1014 --0.0874
1015 --0.202
1016 --0.442
1017 0
1018 0
1019 0
102 0
1020 0.368
1021 0.564
1022 --0.0704
1023 0
1024 --0.307
1025 --0.0611
1026 0
1027 --0.048
1028 0
1029 --0.115
103 --0.0861
1030 0.125
1031 --0.677
1032 --0.287
1033 0.0509
1034 0
1035 0
1036 0.365
1037 0
1038 --0.267
1039 --0.253
104 0
1040 --0.216
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: CNhs13079

Jaspar motif P-value
MA0002.2 6.64238e-4
MA0003.1 0.587
MA0004.1 0.34
MA0006.1 0.651
MA0007.1 0.987
MA0009.1 0.785
MA0014.1 0.961
MA0017.1 0.0746
MA0018.2 0.254
MA0019.1 0.382
MA0024.1 2.55182e-5
MA0025.1 0.413
MA0027.1 0.48
MA0028.1 0.00739
MA0029.1 0.677
MA0030.1 0.255
MA0031.1 0.778
MA0035.2 6.60589e-5
MA0038.1 0.48
MA0039.2 0.922
MA0040.1 0.623
MA0041.1 0.804
MA0042.1 0.996
MA0043.1 0.0666
MA0046.1 6.01759e-6
MA0047.2 0.875
MA0048.1 0.162
MA0050.1 2.52639e-5
MA0051.1 7.09848e-4
MA0052.1 1.33854e-4
MA0055.1 0.0627
MA0057.1 0.668
MA0058.1 0.351
MA0059.1 0.045
MA0060.1 0.655
MA0061.1 0.00606
MA0062.2 4.5605e-6
MA0065.2 0.0715
MA0066.1 0.0973
MA0067.1 0.721
MA0068.1 0.726
MA0069.1 0.372
MA0070.1 0.351
MA0071.1 0.604
MA0072.1 0.932
MA0073.1 0.841
MA0074.1 0.669
MA0076.1 0.034
MA0077.1 0.402
MA0078.1 0.605
MA0079.2 0.0215
MA0080.2 1.96472e-9
MA0081.1 0.036
MA0083.1 0.00593
MA0084.1 0.48
MA0087.1 0.315
MA0088.1 0.183
MA0090.1 0.0363
MA0091.1 0.224
MA0092.1 0.967
MA0093.1 0.422
MA0099.2 0.823
MA0100.1 0.0215
MA0101.1 0.0123
MA0102.2 0.695
MA0103.1 0.647
MA0104.2 0.151
MA0105.1 3.98226e-5
MA0106.1 0.509
MA0107.1 0.0304
MA0108.2 0.00179
MA0111.1 0.841
MA0112.2 0.00896
MA0113.1 0.208
MA0114.1 0.448
MA0115.1 0.329
MA0116.1 0.00411
MA0117.1 0.675
MA0119.1 0.428
MA0122.1 0.854
MA0124.1 0.966
MA0125.1 0.0469
MA0131.1 0.565
MA0135.1 0.0758
MA0136.1 5.81896e-8
MA0137.2 0.339
MA0138.2 0.0157
MA0139.1 0.492
MA0140.1 3.23797e-24
MA0141.1 0.107
MA0142.1 0.025
MA0143.1 0.305
MA0144.1 0.561
MA0145.1 0.582
MA0146.1 0.203
MA0147.1 0.0773
MA0148.1 0.91
MA0149.1 0.0296
MA0150.1 0.00334
MA0152.1 0.261
MA0153.1 8.14128e-4
MA0154.1 0.0104
MA0155.1 0.332
MA0156.1 9.2405e-7
MA0157.1 0.906
MA0159.1 0.0281
MA0160.1 0.253
MA0162.1 0.358
MA0163.1 1.28917e-4
MA0164.1 0.415
MA0258.1 0.0508
MA0259.1 0.379



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: CNhs13079

Novel motif P-value
1 0.0842
10 0.0214
100 0.544
101 0.878
102 0.728
103 0.00925
104 0.952
105 0.931
106 0.257
107 0.92
108 0.797
109 0.0678
11 0.131
110 0.0574
111 0.021
112 0.0484
113 0.755
114 0.334
115 0.626
116 0.747
117 3.26204e-4
118 0.0921
119 0.472
12 0.729
120 0.71
121 0.297
122 0.938
123 0.274
124 0.545
125 0.103
126 0.204
127 0.304
128 0.287
129 0.216
13 0.0252
130 0.962
131 0.866
132 0.164
133 0.92
134 0.218
135 0.443
136 0.983
137 0.214
138 0.573
139 0.237
14 0.92
140 0.566
141 0.728
142 0.464
143 0.106
144 0.977
145 0.0289
146 0.898
147 0.813
148 0.203
149 0.324
15 0.0409
150 0.248
151 0.214
152 0.577
153 0.673
154 0.833
155 0.183
156 2.32464e-53
157 0.919
158 0.0236
159 0.66
160 0.601
161 0.0282
162 0.581
163 0.627
164 0.0465
165 0.409
166 0.177
167 0.173
168 0.896
169 0.181
17 0.424
18 0.117
19 0.821
2 0.232
20 0.0355
21 0.336
22 0.779
23 0.464
24 0.452
25 0.198
26 0.0116
27 0.633
28 0.35
29 0.0183
3 0.046
30 0.483
31 0.807
32 0.928
33 0.182
34 0.984
35 0.245
36 0.0235
37 0.158
38 0.976
39 0.789
4 0.965
40 0.179
41 0.414
42 0.0766
43 0.152
44 0.321
45 0.693
46 0.161
47 0.135
48 0.195
49 0.0691
5 0.00858
50 0.799
51 0.874
52 0.954
53 0.663
54 0.936
55 0.197
56 0.619
57 0.259
58 0.288
59 0.309
6 0.713
60 0.418
61 0.357
62 0.115
63 0.505
64 0.5
65 0.944
66 0.423
67 0.46
68 0.0683
69 0.871
7 0.0814
70 0.159
71 0.0147
72 0.286
73 0.25
74 0.739
75 0.0154
76 0.0651
77 0.869
78 0.0441
79 0.704
8 0.0231
80 0.0401
81 0.45
82 0.536
83 0.225
84 0.571
85 0.252
86 0.555
87 0.564
88 0.546
89 0.828
9 0.937
90 0.0276
91 0.182
92 0.313
93 0.257
94 0.116
95 0.0835
96 0.129
97 0.836
98 0.161
99 0.712



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: CNhs13079


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)
0000988 (hematopoietic cell)
0000548 (animal cell)
0000763 (myeloid cell)
0002371 (somatic cell)
0000255 (eukaryotic cell)
0000556 (megakaryocyte)
0002027 (CD9-positive, CD41-positive megakaryocyte cell)

DOID: Disease
4 (disease)
162 (cancer)
14566 (disease of cellular proliferation)

UBERON: Anatomy
0000468 (multi-cellular organism)
0002371 (bone marrow)
0001474 (bone element)
0000479 (tissue)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0004765 (skeletal element)
0010317 (germ layer / neural crest derived structure)
0002204 (musculoskeletal system)
0001434 (skeletal system)
0002390 (hematopoietic system)
0002193 (hemolymphoid system)
0002405 (immune system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0011131 (mouse CD41-positive megakaryocyte cancer 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:0000049 (common myeloid progenitor)
CL:0000134 (mesenchymal cell)
CL:0002006 (Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell)