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{{f5samples
{{f5samples
|F5samples=
|ancestors_in_anatomy_facet=UBERON:0000061,UBERON:0000465,UBERON:0000479,UBERON:0001062,UBERON:0002384
|ancestors_in_anatomy_facet=UBERON:0000061,UBERON:0000465,UBERON:0000479,UBERON:0001062,UBERON:0002384
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000004,CL:0000012,CL:0000034,CL:0000037,CL:0000048,CL:0000049,CL:0000063,CL:0000134,CL:0000144,CL:0000219,CL:0000255,CL:0000548,CL:0000566,CL:0000723,CL:0000763,CL:0000837,CL:0000988,CL:0002032,CL:0002320,CL:0002371
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000004,CL:0000012,CL:0000034,CL:0000037,CL:0000048,CL:0000049,CL:0000063,CL:0000134,CL:0000144,CL:0000219,CL:0000255,CL:0000548,CL:0000566,CL:0000723,CL:0000763,CL:0000837,CL:0000988,CL:0002032,CL:0002320,CL:0002371
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|creation_date=
|creation_date=
|def=
|def=
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|fonse_cell_line=FF:0101035
|fonse_cell_line=FF:0101035
|fonse_cell_line_closure=FF:0101035
|fonse_cell_line_closure=FF:0101035

Revision as of 17:27, 29 March 2012


Name:acute myeloid leukemia (FAB M5) cell line:P31/FUJ
Species:Human (Homo sapiens)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainNA
tissueblood
dev stageNA
sexmale
age7
cell typemyeloid progenitor cell
cell lineP31/FUJ
companyJAPAN HEALTH SCIENCES FOUNDATION - Health Science Research Resources Bank
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0
Download raw sequence, BAM & CTSS
Hg19
BAMCTSS
[{{{hg19bam}}} download][{{{hg19ctss}}} donwload]
Hg38
BAMCTSS
[{{{hg38bam}}} download][{{{hg38ctss}}} donwload]


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

Coexpression clusterscore
C0-CD14-Eosinophils-Neutrophils-Basophils-CD34-immature-Peripheral0
C1-testis-epididymis-embryonic-medulla-pituitary-trachea-caudate0
C10-occipital-temporal-parietal-brain-duodenum-Neurons-Neural0
C100-rhabdomyosarcoma-gastric-pineal-Wilms-cervical-mesodermal-endometrial0
C101-small-cerebellum-maxillary-colon-parietal-epididymis-merkel0
C102-neuroblastoma-testicular-pituitary-carcinosarcoma-rectum-acantholytic-iPS0
C103-CD4-CD8-Natural-Peripheral-Whole-Neutrophils-Basophils0
C104-Mast-Basophils-immature-CD14-CD34-eye-Natural0
C105-heart-skeletal-occipital-hippocampus-acute-Sebocyte-penis0
C106-Hep2-epitheloid-placenta-cervical-rectal-anaplastic-glassy0
C107-Neutrophils-CD14-Eosinophils-Monocytederived-Whole-Peripheral-blood0
C108-breast-hepatoblastoma-MCF7-parotid-salivary-submaxillary-prostate0
C109-Reticulocytes-non-acute-Hodgkin-Burkitt-retinoblastoma-lymphoma0.521
C11-cerebellum-medulla-pons-parietal-occipital-middle-medial0
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C93-chronic-acute-leukemia-acantholytic-medulloblastoma-testis-papillotubular0
C94-smallcell-adrenal-lung-nonsmall-small-somatostatinoma-teratocarcinoma0
C95-lung-aorta-trachea-penis-Alveolar-throat-endometrioid0
C96-non-acute-tonsil-spleen-Burkitt-lymphoma-appendix0
C97-small-smallcell-gastrointestinal-argyrophil-putamen-duodenum-brain0
C98-CD8-Natural-Basophils-blood-CD4-Peripheral-Whole0
C99-hairy-mycosis-submaxillary-salivary-cord-kidney-parotid0



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 no result for this sample


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: CNhs13051

Jaspar motifP-value
MA0002.23.45325e-4
MA0003.10.616
MA0004.10.393
MA0006.10.693
MA0007.10.851
MA0009.10.121
MA0014.10.563
MA0017.10.00649
MA0018.21.21026e-4
MA0019.10.137
MA0024.16.20184e-4
MA0025.10.972
MA0027.10.228
MA0028.10.0503
MA0029.10.443
MA0030.17.97301e-4
MA0031.10.0856
MA0035.20.00425
MA0038.10.961
MA0039.20.825
MA0040.10.799
MA0041.10.647
MA0042.10.85
MA0043.10.467
MA0046.10.221
MA0047.20.419
MA0048.10.237
MA0050.10.0284
MA0051.10.29
MA0052.10.162
MA0055.10.313
MA0057.10.836
MA0058.10.499
MA0059.10.0532
MA0060.15.25693e-11
MA0061.10.345
MA0062.25.41297e-5
MA0065.20.0044
MA0066.10.519
MA0067.10.123
MA0068.10.00284
MA0069.10.997
MA0070.10.989
MA0071.10.0544
MA0072.10.362
MA0073.10.791
MA0074.10.833
MA0076.10.124
MA0077.10.36
MA0078.10.746
MA0079.20.706
MA0080.21.22159e-13
MA0081.10.00303
MA0083.10.484
MA0084.10.314
MA0087.10.0864
MA0088.10.0143
MA0090.11.77104e-5
MA0091.10.539
MA0092.10.688
MA0093.10.514
MA0099.20.0016
MA0100.10.00576
MA0101.10.276
MA0102.20.143
MA0103.10.533
MA0104.20.0093
MA0105.12.84876e-4
MA0106.10.882
MA0107.10.0836
MA0108.24.3121e-5
MA0111.10.138
MA0112.20.0572
MA0113.10.434
MA0114.10.00826
MA0115.10.031
MA0116.15.09148e-5
MA0117.10.865
MA0119.10.326
MA0122.10.465
MA0124.10.793
MA0125.10.427
MA0131.10.445
MA0135.10.934
MA0136.14.696e-16
MA0137.20.235
MA0138.20.997
MA0139.10.0337
MA0140.11.94085e-5
MA0141.10.0165
MA0142.10.534
MA0143.10.432
MA0144.10.894
MA0145.10.67
MA0146.10.153
MA0147.10.00299
MA0148.10.373
MA0149.10.156
MA0150.10.348
MA0152.10.396
MA0153.10.0999
MA0154.10.0161
MA0155.10.783
MA0156.15.70533e-9
MA0157.10.977
MA0159.10.237
MA0160.10.0362
MA0162.10.589
MA0163.11.48063e-14
MA0164.10.769
MA0258.10.0855
MA0259.10.0947



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: CNhs13051

Novel motifP-value
10.0285
100.0239
1000.425
1010.0503
1020.454
1030.077
1040.911
1050.932
1060.384
1070.986
1080.896
1090.035
110.026
1100.169
1110.0182
1120.415
1130.67
1140.0641
1150.625
1160.319
1170.0482
1180.252
1190.223
120.952
1200.528
1210.727
1220.823
1230.129
1240.0501
1250.046
1260.0211
1270.0954
1280.547
1290.218
130.0539
1300.358
1310.389
1320.976
1330.797
1340.343
1350.758
1360.203
1370.518
1380.183
1390.365
140.967
1400.522
1410.0891
1420.603
1430.0416
1440.925
1450.59
1460.991
1470.483
1480.0133
1490.33
150.229
1500.513
1510.785
1520.237
1530.381
1540.941
1550.11
1560.678
1570.39
1580.907
1590.92
160.602
1600.336
1610.049
1620.7
1630.434
1640.505
1650.478
1660.441
1670.547
1680.679
1690.417
170.659
180.572
190.355
20.864
200.93
210.381
220.782
230.583
240.341
250.297
260.0361
270.381
280.666
290.0175
30.05
300.267
310.953
320.409
330.297
340.992
350.248
360.0289
370.293
380.313
390.589
40.0148
400.115
410.381
420.182
430.234
440.234
450.997
460.0609
470.0141
480.0536
490.0848
50.5
500.97
510.704
520.509
530.548
540.914
550.855
560.723
570.17
580.11
590.365
60.381
600.421
610.221
620.0506
630.368
640.121
650.579
668.54933e-5
670.49
680.992
690.168
70.0845
700.337
710.0184
720.765
730.678
740.824
750.00538
760.476
770.947
780.169
790.646
80.0636
800.478
810.118
820.474
830.587
840.593
850.543
860.386
870.206
880.251
890.35
90.688
900.186
911
920.837
930.732
940.185
950.136
960.127
970.47
980.285
990.846



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: CNhs13051


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)
0000034 (stem cell)
0000037 (hematopoietic stem cell)
0000048 (multi fate stem cell)
0000049 (common myeloid progenitor)
0000134 (mesenchymal cell)
0000219 (motile cell)
0000255 (eukaryotic cell)
0000548 (animal cell)
0000566 (angioblastic mesenchymal cell)
0000723 (somatic stem cell)
0000763 (myeloid cell)
0000837 (hematopoietic multipotent progenitor cell)
0000988 (hematopoietic cell)
0002032 (hematopoietic oligopotent progenitor cell)
0002320 (connective tissue cell)
0002371 (somatic cell)

DOID: Disease
0050686 (organ system cancer)
0060083 (immune system cancer)
1240 (leukemia)
14566 (disease of cellular proliferation)
162 (cancer)
2531 (hematologic cancer)
4 (disease)
8692 (myeloid leukemia)

UBERON: Anatomy
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000479 (tissue)
0001062 (anatomical entity)
0002384 (connective tissue)

FF: FANTOM5
NA

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
NA

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