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FF:11776-124A3

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Name:CD41+ megakaryocyte cancer, donor2
Species:Mouse (Mus musculus)
Library ID:CNhs13213
Sample type:primary cells
Genomic View: UCSC
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-2
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00005513
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs13213 CAGE DRX008798 DRR009670
Accession ID Mm9

Library idBAMCTSS
CNhs13213 DRZ001095 DRZ002480
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. <br>Analyst:NA <br><br>link to dataset.<br>data

CNhs13213

00
10
100
1000
10000.00223
1001-0.0749
1002-0.116
1003-0.105
10040
10050.0113
1006-0.143
1007-0.0726
10080
1009-0.19
1010.151
10100
10110.00595
10120
1013-0.145
1014-0.0874
1015-0.167
1016-0.421
10170
10180
10190
1020
10200
10210.393
1022-0.237
10230
1024-0.142
1025-0.0611
10260
1027-0.048
10280
1029-0.103
103-0.0848
10300.148
1031-0.831
1032-0.397
10330
10340
10350
10360.491
10370
1038-0.433
1039-0.268
1040
1040-0.362
10410



Repeat families with enriched expression in this sample<b>Summary:</b>Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed.<br><b>Analyst:</b>NA<br><br>link to dataset.<br>data



TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample

JASPAR motifs<b>Summary:</b>Association of JASPAR motif to the promoter expression in thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs13213

Jaspar motifP-value
MA0002.20.00248
MA0003.10.37
MA0004.10.349
MA0006.10.661
MA0007.10.969
MA0009.10.501
MA0014.10.729
MA0017.10.24
MA0018.20.279
MA0019.10.559
MA0024.17.79132e-6
MA0025.10.339
MA0027.10.813
MA0028.10.00192
MA0029.10.579
MA0030.10.269
MA0031.10.825
MA0035.20.00119
MA0038.10.696
MA0039.20.659
MA0040.10.5
MA0041.10.54
MA0042.10.906
MA0043.10.117
MA0046.11.74447e-5
MA0047.20.879
MA0048.10.18
MA0050.14.11291e-4
MA0051.10.00337
MA0052.14.82069e-4
MA0055.10.066
MA0057.10.782
MA0058.10.361
MA0059.10.0654
MA0060.10.0699
MA0061.10.00451
MA0062.25.53273e-7
MA0065.20.21
MA0066.10.116
MA0067.10.615
MA0068.10.789
MA0069.10.558
MA0070.10.389
MA0071.10.762
MA0072.10.831
MA0073.10.921
MA0074.10.847
MA0076.10.0055
MA0077.10.382
MA0078.10.871
MA0079.20.0284
MA0080.21.39677e-9
MA0081.10.0426
MA0083.10.0169
MA0084.10.656
MA0087.10.287
MA0088.10.111
MA0090.10.0362
MA0091.10.304
MA0092.10.956
MA0093.10.396
MA0099.20.873
MA0100.10.0397
MA0101.10.00889
MA0102.20.91
MA0103.10.753
MA0104.20.203
MA0105.13.24651e-5
MA0106.10.392
MA0107.10.0247
MA0108.20.0208
MA0111.10.836
MA0112.20.0103
MA0113.10.344
MA0114.10.638
MA0115.10.794
MA0116.10.00428
MA0117.10.615
MA0119.10.38
MA0122.10.828
MA0124.10.85
MA0125.10.0722
MA0131.10.415
MA0135.10.535
MA0136.12.10337e-6
MA0137.20.453
MA0138.20.0264
MA0139.10.378
MA0140.16.42153e-24
MA0141.10.377
MA0142.10.0789
MA0143.10.174
MA0144.10.585
MA0145.10.638
MA0146.10.421
MA0147.10.145
MA0148.10.987
MA0149.10.055
MA0150.10.0168
MA0152.10.126
MA0153.19.39374e-4
MA0154.10.0238
MA0155.10.314
MA0156.12.47307e-7
MA0157.10.951
MA0159.10.068
MA0160.10.743
MA0162.10.367
MA0163.19.11967e-4
MA0164.10.413
MA0258.10.0676
MA0259.10.252



FANTOM5 phase1 novel unique motifs<b>Summary:</b>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 in169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs13213

Novel motifP-value
10.096
100.0223
1000.454
1010.794
1020.79
1030.0314
1040.931
1050.751
1060.36
1070.868
1080.664
1090.07
110.168
1100.0505
1110.0382
1120.0374
1130.728
1140.717
1150.874
1160.868
1176.14439e-4
1180.121
1190.575
120.685
1200.953
1210.211
1220.997
1230.244
1240.625
1250.214
1260.291
1270.303
1280.463
1290.189
130.00676
1300.885
1310.686
1320.173
1330.614
1340.22
1350.462
1360.981
1370.349
1380.615
1390.498
140.86
1400.625
1410.811
1420.685
1430.182
1440.937
1450.0259
1460.866
1470.981
1480.104
1490.417
150.053
1500.362
1510.322
1520.404
1530.602
1540.664
1550.247
1561.12984e-116
1570.755
1580.0634
1590.719
1600.662
1610.041
1620.664
1630.609
1640.047
1650.336
1660.268
1670.106
1680.651
1690.256
170.443
180.21
190.874
20.156
200.0186
210.385
220.894
230.119
240.626
250.194
260.00789
270.765
280.333
290.0159
30.0395
300.507
310.88
320.927
330.207
340.863
350.408
360.0305
370.172
380.521
390.734
40.875
400.156
410.534
420.0798
430.16
440.554
450.595
460.137
470.138
480.227
490.101
50.00292
500.856
510.767
520.856
530.528
540.816
550.187
560.665
570.296
580.38
590.543
60.766
600.431
610.387
620.155
630.599
640.613
650.544
660.205
670.447
680.284
690.944
70.0685
700.175
710.0144
720.259
730.287
740.795
750.0115
760.0846
770.568
780.0369
790.692
80.0264
800.0343
810.507
820.695
830.16
840.453
850.574
860.474
870.68
880.565
890.7
90.983
900.0741
910.332
920.453
930.615
940.159
950.101
960.284
970.869
980.265
990.533



de novo motifs identified by HOMER in promoters active in this sample<b>Summary:</b>The result of HOMER in this sample is shown.<br><b>Analyst:</b>NA <br> library id: CNhs13213


FANTOM5 (FF) ontology

Direct parent terms


Ancestor terms (non development)<b>Summary:</b>Connected ontology terms with is_a, part_of or located_in relationship <br><b>Analyst:</b> Hideya Kawaji<br><br>link to source data<br>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)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
CL:0000049 (common myeloid progenitor)
CL:0000134 (mesenchymal cell)
CL:0002006 (Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell)

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