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FF:11552-120C4

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Name:Mouse Astrocytes, donor2
Species:Mouse (Mus musculus)
Library ID:CNhs12078
Sample type:primary cells
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainNA
tissuebrain
dev stageNA
sexNA
ageNA
cell typeastrocyte
cell lineNA
companySciencell/3H
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberlot:3931
catalog numbercustom
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00004832
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12078 CAGE DRX008811 DRR009683
Accession ID Mm9

Library idBAMCTSS
CNhs12078 DRZ001108 DRZ002493
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

CNhs12078

00
10
100
1000
10000.354
1001-0.0465
10020.0991
10030.233
10040.13
1005-0.0389
1006-0.0355
1007-0.259
10080
10090.19
101-0.316
10100
1011-0.115
10120
10130.163
10140.0569
10150.102
10160.207
10170
10180
10190
1020
10200.563
10210.193
1022-0.0487
10230
10240
10250
10260
10270.152
10280
1029-0.176
1030.322
10300
10310.923
10320.392
1033-0.0183
10340
10350
1036-0.125
10370
10380.0445
1039-0.0332
1040
10400.464
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: CNhs12078

Jaspar motifP-value
MA0002.20.821
MA0003.10.295
MA0004.10.744
MA0006.10.337
MA0007.10.0272
MA0009.10.359
MA0014.10.577
MA0017.10.00361
MA0018.20.0138
MA0019.10.787
MA0024.10.00658
MA0025.10.454
MA0027.10.77
MA0028.10.0205
MA0029.10.994
MA0030.10.593
MA0031.10.726
MA0035.20.00238
MA0038.10.315
MA0039.20.0449
MA0040.10.261
MA0041.10.213
MA0042.10.544
MA0043.10.425
MA0046.15.59394e-7
MA0047.20.325
MA0048.10.367
MA0050.10.852
MA0051.10.883
MA0052.10.0234
MA0055.10.056
MA0057.10.362
MA0058.10.724
MA0059.10.623
MA0060.10.295
MA0061.10.814
MA0062.25.5672e-6
MA0065.20.683
MA0066.10.945
MA0067.10.383
MA0068.10.495
MA0069.10.329
MA0070.10.722
MA0071.10.322
MA0072.10.522
MA0073.10.769
MA0074.10.319
MA0076.10.00365
MA0077.10.0785
MA0078.10.813
MA0079.20.0231
MA0080.23.95316e-5
MA0081.10.0547
MA0083.10.341
MA0084.10.58
MA0087.10.741
MA0088.10.667
MA0090.10.00108
MA0091.10.312
MA0092.10.631
MA0093.10.866
MA0099.22.24565e-5
MA0100.10.771
MA0101.10.472
MA0102.20.0331
MA0103.10.00296
MA0104.20.749
MA0105.10.997
MA0106.10.0322
MA0107.10.207
MA0108.20.767
MA0111.10.679
MA0112.20.257
MA0113.10.177
MA0114.10.0332
MA0115.10.122
MA0116.10.587
MA0117.10.395
MA0119.10.335
MA0122.10.87
MA0124.10.608
MA0125.10.772
MA0131.10.108
MA0135.10.313
MA0136.11.03871e-6
MA0137.20.971
MA0138.20.199
MA0139.10.637
MA0140.11.81004e-6
MA0141.10.907
MA0142.10.913
MA0143.10.393
MA0144.10.784
MA0145.10.05
MA0146.10.029
MA0147.10.73
MA0148.10.15
MA0149.10.795
MA0150.10.676
MA0152.10.427
MA0153.15.13161e-5
MA0154.10.34
MA0155.10.316
MA0156.11.25835e-9
MA0157.10.592
MA0159.10.645
MA0160.10.588
MA0162.10.111
MA0163.10.324
MA0164.10.889
MA0258.10.905
MA0259.10.472



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: CNhs12078

Novel motifP-value
10.424
100.646
1000.666
1010.845
1020.367
1030.272
1040.783
1050.457
1060.0804
1070.46
1080.628
1090.00725
110.209
1100.433
1110.36
1120.42
1130.305
1140.895
1150.936
1160.0517
1170.691
1180.452
1190.885
120.636
1200.663
1210.232
1220.184
1230.83
1240.702
1250.918
1260.213
1270.635
1280.363
1290.423
130.89
1300.508
1310.91
1320.225
1330.422
1340.39
1350.546
1360.0109
1370.305
1380.835
1390.146
140.722
1400.073
1410.638
1420.159
1430.117
1440.978
1450.989
1460.863
1470.357
1480.622
1490.146
150.759
1500.231
1510.845
1520.0263
1530.132
1540.203
1550.247
1560.00168
1570.547
1580.0256
1590.0359
1600.884
1610.512
1620.616
1630.211
1640.0154
1650.915
1660.337
1670.0293
1680.738
1690.148
170.34
180.527
190.195
20.0133
200.831
210.271
220.086
230.0563
240.105
250.122
260.91
270.487
280.403
290.716
30.875
300.0987
310.773
320.0558
330.762
340.0839
350.164
360.0581
370.149
380.467
390.175
40.737
400.909
410.909
420.966
430.556
440.308
450.238
460.532
470.593
480.986
490.107
50.0909
500.0946
510.559
520.0985
530.741
540.287
550.337
560.669
570.451
580.0695
590.0211
60.676
600.17
610.911
620.344
630.13
640.467
650.0336
660.461
670.972
680.424
690.175
70.364
700.88
710.733
720.67
730.00548
740.625
750.965
760.226
770.0081
780.0398
790.822
80.59
800.0955
810.33
820.966
830.932
840.288
850.0445
860.958
870.00104
880.541
890.879
90.999
900.648
910.989
920.583
930.104
940.197
950.00122
960.155
970.584
980.119
990.159



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: CNhs12078


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)
0000548 (animal cell)
0002371 (somatic cell)
0002319 (neural cell)
0000095 (neuron associated cell)
0000243 (glial cell (sensu Vertebrata))
0000128 (oligodendrocyte)
0000126 (macroglial cell)
0000125 (glial cell)
0000255 (eukaryotic cell)
0000127 (astrocyte)

UBERON: Anatomy
0000468 (multi-cellular organism)
0004121 (ectoderm-derived structure)
0011216 (organ system subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0001017 (central nervous system)
0001016 (nervous system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000105 (mouse astrocyte 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:0000133 (neurectodermal cell)
CL:0000339 (glioblast (sensu Vertebrata))
CL:0000221 (ectodermal cell)

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