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FF:11746-123F9

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Name:Schwann, donor2
Species:Mouse (Mus musculus)
Library ID:CNhs12573
Sample type:primary cells
Genomic View: UCSC
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissueperipheral nervous system
dev stageNA
sexNA
ageNA
cell typeschwann cell
cell lineNA
companySciencell/3H
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot number4232
catalog numberM4100
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00005863
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12573 CAGE DRX008853 DRR009725
Accession ID Mm9

Library idBAMCTSS
CNhs12573 DRZ001150 DRZ002535
Accession ID Mm10

Library idBAMCTSS
CNhs12573 DRZ012500 DRZ013885
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

CNhs12573

00
10.0316
100
1000
10000
1001-0.0286
10020.0101
1003-0.151
10040
1005-0.0389
10060.0316
1007-0.0466
10080
1009-0.129
1010.027
10100
1011-0.132
10120
10130.0119
1014-0.0535
1015-0.0463
10160.079
10170
10180
10190
1020
10200.0316
10210.0887
1022-0.315
10230
10240
10250
10260
10270.157
10280
1029-0.116
103-0.0578
10300
10310.0976
10320.321
1033-0.0197
10340
10350.0202
1036-0.018
10370
10380.013
1039-0.28
1040
1040-0.00617
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: CNhs12573

Jaspar motifP-value
MA0002.20.497
MA0003.10.648
MA0004.10.623
MA0006.10.801
MA0007.10.146
MA0009.10.0119
MA0014.10.0651
MA0017.11.26118e-5
MA0018.22.72458e-5
MA0019.10.749
MA0024.10.109
MA0025.10.314
MA0027.10.108
MA0028.10.0202
MA0029.10.757
MA0030.10.232
MA0031.10.486
MA0035.20.00131
MA0038.10.0432
MA0039.20.00671
MA0040.10.899
MA0041.10.389
MA0042.10.73
MA0043.10.173
MA0046.15.39693e-16
MA0047.20.00144
MA0048.10.342
MA0050.10.0787
MA0051.10.482
MA0052.10.797
MA0055.10.0359
MA0057.10.379
MA0058.10.128
MA0059.10.371
MA0060.10.00636
MA0061.10.0617
MA0062.20.0101
MA0065.20.00249
MA0066.10.366
MA0067.10.0139
MA0068.10.285
MA0069.10.0958
MA0070.10.939
MA0071.10.144
MA0072.10.18
MA0073.10.732
MA0074.10.236
MA0076.10.0291
MA0077.10.0884
MA0078.10.0207
MA0079.20.194
MA0080.20.017
MA0081.10.512
MA0083.10.0846
MA0084.10.626
MA0087.10.354
MA0088.10.122
MA0090.10.573
MA0091.10.585
MA0092.10.737
MA0093.10.496
MA0099.22.97131e-19
MA0100.10.432
MA0101.10.805
MA0102.20.568
MA0103.15.28631e-7
MA0104.20.799
MA0105.11.11067e-5
MA0106.10.056
MA0107.10.838
MA0108.20.227
MA0111.10.131
MA0112.26.02138e-4
MA0113.10.863
MA0114.17.90889e-5
MA0115.10.0852
MA0116.16.53325e-4
MA0117.10.408
MA0119.10.102
MA0122.10.401
MA0124.10.866
MA0125.10.696
MA0131.10.245
MA0135.10.838
MA0136.10.12
MA0137.20.0251
MA0138.20.0405
MA0139.10.00264
MA0140.10.00341
MA0141.10.0112
MA0142.10.618
MA0143.10.462
MA0144.10.573
MA0145.10.858
MA0146.10.868
MA0147.10.409
MA0148.12.28806e-4
MA0149.10.0563
MA0150.10.0129
MA0152.10.655
MA0153.11.4627e-9
MA0154.10.0227
MA0155.10.11
MA0156.10.55
MA0157.10.472
MA0159.10.105
MA0160.10.303
MA0162.10.948
MA0163.18.92049e-4
MA0164.10.671
MA0258.10.00878
MA0259.10.981



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: CNhs12573

Novel motifP-value
10.324
100.192
1000.809
1010.0445
1020.838
1030.0463
1040.773
1050.397
1060.0488
1070.0552
1080.855
1090.323
110.353
1100.317
1110.274
1120.133
1130.507
1140.0757
1150.441
1160.763
1170.607
1180.507
1190.0424
120.942
1200.651
1210.733
1220.191
1230.185
1240.687
1250.843
1260.00916
1270.229
1280.0421
1290.841
130.33
1300.319
1310.845
1320.147
1330.99
1340.404
1350.377
1360.553
1370.731
1380.737
1390.164
140.509
1400.741
1410.0497
1420.574
1430.616
1440.37
1450.0961
1460.558
1470.288
1480.6
1490.397
150.849
1500.89
1510.68
1520.83
1530.32
1540.813
1550.801
1560.00133
1570.599
1580.516
1590.00185
1600.0116
1610.883
1620.508
1630.266
1640.27
1650.939
1660.819
1670.791
1680.112
1690.199
170.183
180.615
190.149
20.289
200.513
210.952
220.552
230.201
240.782
250.826
260.0537
270.0997
280.889
290.584
30.12
300.562
310.669
320.203
330.995
340.327
350.0174
360.387
370.855
380.438
390.999
40.507
400.445
410.366
420.189
430.319
440.338
450.702
460.0375
470.502
480.324
490.284
50.518
500.984
510.563
520.401
530.462
540.722
550.945
560.68
570.313
580.148
590.0739
60.525
600.168
610.416
620.0953
630.42
640.19
650.381
660.144
670.279
680.0404
690.908
70.194
700.0819
710.0982
720.741
730.821
740.73
750.171
760.847
770.341
780.475
790.71
80.218
800.82
810.622
820.00545
830.508
840.921
850.261
860.271
870.0197
880.711
890.149
90.339
900.813
910.261
920.212
930.829
940.874
950.509
960.0814
970.213
980.164
990.171



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: CNhs12573


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))
0000325 (stuff accumulating cell)
0000215 (barrier cell)
0000630 (supportive cell)
0000217 (insulating cell)
0000328 (myelin accumulating cell)
0002573 (Schwann cell)
0000125 (glial cell)
0000255 (eukaryotic cell)
0002376 (non-myelinating Schwann cell)
0000218 (myelinating Schwann cell;;Schwann cell)
0000692 (terminal Schwann cell)
0002377 (immature Schwann cell)

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)
0000010 (peripheral 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)
0000116 (mouse Schwann cell 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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