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|library_id=CNhs11094
|library_id=CNhs11094
|library_id_phase_based=2:CNhs11094
|library_id_phase_based=2:CNhs11094
|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520neonate%2520N25.CNhs11094.1555-45E2.mm10.nobarcode.bam
|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520neonate%2520N25.CNhs11094.1555-45E2.mm10.nobarcode.ctss.bed.gz
|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520neonate%2520N25.CNhs11094.1555-45E2.mm9.nobarcode.bam
|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520neonate%2520N25.CNhs11094.1555-45E2.mm9.ctss.bed.gz
|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520neonate%2520N25.CNhs11094.1555-45E2.mm9.nobarcode.rdna.fa.gz
|name=pancreas, neonate N25
|name=pancreas, neonate N25
|namespace=FANTOM5
|namespace=FANTOM5

Revision as of 17:59, 17 May 2017


Name:pancreas, neonate N25
Species:Mouse (Mus musculus)
Library ID:CNhs11094
Sample type:developmental
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissuepancreas
dev stage25 days neonate
sexmixture
ageNA
cell typeCELL MIXTURE - tissue sample
cell lineNA
companyNA
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typeNA
extraction protocol (Details)NA

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00005388
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11094 CAGE DRX009064 DRR009938
Accession ID Mm9

Library idBAMCTSS
CNhs11094 DRZ001363 DRZ002746
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

CNhs11094

00
10
100
1000
10000
1001-0.00135
1002-0.116
1003-0.175
10040
1005-0.0389
10060
1007-0.0703
10080
1009-0.0614
101-0.0153
10100
1011-0.131
10120
10130.663
1014-0.0874
1015-0.153
1016-0.379
10170
10180
10190
1020
10200
10210
10220.745
10230
10240
10250
10260
10270
10280
1029-0.176
103-0.0576
10300
1031-0.308
1032-0.028
1033-0.0665
10340.965
10350
1036-0.164
10370
1038-0.00847
10390.276
1040
1040-0.121
10410.493



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: CNhs11094

Jaspar motifP-value
MA0002.20.293
MA0003.10.481
MA0004.10.179
MA0006.10.19
MA0007.10.371
MA0009.10.964
MA0014.10.326
MA0017.10.12
MA0018.20.00996
MA0019.10.752
MA0024.10.00496
MA0025.10.606
MA0027.10.837
MA0028.10.685
MA0029.10.693
MA0030.10.889
MA0031.10.663
MA0035.20.0239
MA0038.10.764
MA0039.20.0861
MA0040.10.368
MA0041.10.108
MA0042.10.61
MA0043.10.0147
MA0046.11.80619e-8
MA0047.20.00306
MA0048.10.594
MA0050.10.802
MA0051.10.689
MA0052.10.00288
MA0055.10.449
MA0057.10.145
MA0058.10.167
MA0059.10.00433
MA0060.10.00483
MA0061.10.982
MA0062.20.913
MA0065.20.0358
MA0066.10.707
MA0067.10.0999
MA0068.10.292
MA0069.10.519
MA0070.10.812
MA0071.10.173
MA0072.10.235
MA0073.10.349
MA0074.10.0926
MA0076.10.901
MA0077.10.579
MA0078.10.474
MA0079.20.958
MA0080.20.77
MA0081.10.758
MA0083.10.00603
MA0084.10.484
MA0087.10.014
MA0088.10.0127
MA0090.10.144
MA0091.10.00343
MA0092.10.212
MA0093.10.196
MA0099.20.934
MA0100.10.0636
MA0101.10.762
MA0102.20.0847
MA0103.15.97391e-6
MA0104.20.206
MA0105.10.67
MA0106.10.231
MA0107.10.312
MA0108.20.0271
MA0111.10.94
MA0112.21.87835e-4
MA0113.10.844
MA0114.10.231
MA0115.10.749
MA0116.10.625
MA0117.10.254
MA0119.10.168
MA0122.10.86
MA0124.10.254
MA0125.10.274
MA0131.10.931
MA0135.10.202
MA0136.10.348
MA0137.27.13918e-4
MA0138.20.965
MA0139.10.494
MA0140.10.0127
MA0141.10.0097
MA0142.10.805
MA0143.10.808
MA0144.10.00658
MA0145.10.022
MA0146.10.195
MA0147.10.0733
MA0148.13.73794e-5
MA0149.10.00272
MA0150.10.145
MA0152.10.809
MA0153.10.00129
MA0154.10.0246
MA0155.10.681
MA0156.10.943
MA0157.10.335
MA0159.10.0698
MA0160.10.0504
MA0162.10.38
MA0163.10.00606
MA0164.10.228
MA0258.10.0221
MA0259.10.763



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: CNhs11094

Novel motifP-value
10.0386
100.152
1000.422
1010.934
1020.867
1030.055
1040.202
1050.802
1060.0324
1070.215
1080.914
1090.0276
110.12
1100.0809
1110.0137
1120.0497
1130.399
1140.195
1150.78
1160.204
1170.111
1180.803
1190.0527
120.803
1200.462
1210.584
1220.188
1230.903
1240.396
1250.177
1260.0288
1270.0779
1280.0572
1290.29
130.0225
1300.736
1310.808
1320.806
1330.131
1340.535
1350.746
1360.34
1370.26
1380.168
1390.236
140.747
1400.016
1410.63
1420.939
1430.319
1440.12
1450.0645
1460.351
1470.657
1480.114
1490.348
150.307
1500.351
1510.368
1520.0237
1530.946
1540.999
1550.274
1560.0838
1570.189
1580.186
1590.481
1600.507
1610.392
1620.674
1630.911
1640.0627
1650.121
1660.111
1670.448
1680.881
1690.0061
170.0414
180.479
190.0858
20.661
200.961
210.967
220.444
230.406
240.0853
250.74
260.0113
270.524
280.654
290.133
30.293
300.983
310.38
320.131
330.592
340.956
350.185
360.176
370.0512
380.466
390.49
40.224
400.56
410.606
420.199
430.326
440.311
450.725
460.0641
470.339
480.237
490.185
50.482
500.697
510.474
520.461
530.939
540.706
550.437
560.37
570.512
580.34
590.0587
60.826
600.16
610.134
620.221
630.0746
640.587
650.102
660.324
670.784
680.951
690.519
70.157
700.0284
710.00912
720.26
730.0261
740.878
750.094
760.763
770.0434
780.259
790.0394
80.0828
800.797
810.562
820.315
830.63
840.831
850.0131
860.0443
870.0604
880.974
890.273
90.857
900.0933
910.263
920.0514
930.291
940.805
950.29
960.306
970.0119
980.926
990.51



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: CNhs11094


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

UBERON: Anatomy
0000468 (multi-cellular organism)
0001264 (pancreas)
0002100 (trunk)
0000479 (tissue)
0000466 (immaterial anatomical entity)
0002075 (viscus)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002323 (body cavity)
0005177 (trunk region element)
0000464 (anatomical space)
0004458 (body cavity or lining)
0000949 (endocrine system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000309 (mouse neonate N25 sample)
0011256 (mouse pancreas- neonate N25 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
FF:0000294 (mouse embryonic day 11 sample)

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