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FF:726-26I4

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Name:testis, neonate N07, biol_rep1
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissuetestis
dev stage7 days neonate
sexmale
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
Download raw sequence, BAM & CTSS
Mm9
BAMCTSS
[{{{mm9bam}}} download][{{{mm9ctss}}} donwload]
Mm10
BAMCTSS
[{{{mm10bam}}} download][{{{mm10ctss}}} donwload]





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

CNhs11222

00
10
100
1000
10000
10010.127
10020.398
10030.194
10040.122
1005-0.117
10060.00663
10070.171
10080
10090.193
1010.0911
10100
1011-0.0307
10120.0842
1013-0.116
10140.158
10150.14
10160.222
10170
10180
10190
1020
10200
10210.074
10220.0938
10230
1024-0.039
10250.0394
10260
10270
10280
10290.274
1030.337
10300
10310.211
1032-0.00152
10330
10340.0532
10350.143
10360.0265
10370
10380.0544
1039-0.0161
1040
1040-0.0508
10410.0532



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: CNhs11222

Jaspar motifP-value
MA0002.23.72239e-5
MA0003.10.926
MA0004.10.332
MA0006.10.242
MA0007.10.972
MA0009.10.309
MA0014.10.705
MA0017.10.161
MA0018.20.362
MA0019.10.228
MA0024.12.9624e-7
MA0025.10.941
MA0027.10.835
MA0028.10.202
MA0029.10.627
MA0030.10.915
MA0031.10.482
MA0035.20.594
MA0038.10.0596
MA0039.20.187
MA0040.10.468
MA0041.10.532
MA0042.10.786
MA0043.10.737
MA0046.10.464
MA0047.20.574
MA0048.10.107
MA0050.10.257
MA0051.10.275
MA0052.10.00662
MA0055.10.0249
MA0057.10.425
MA0058.10.299
MA0059.10.537
MA0060.12.86206e-12
MA0061.10.0957
MA0062.20.397
MA0065.20.056
MA0066.10.0376
MA0067.10.961
MA0068.10.861
MA0069.10.674
MA0070.10.28
MA0071.10.7
MA0072.10.846
MA0073.10.457
MA0074.10.276
MA0076.10.0513
MA0077.10.643
MA0078.10.168
MA0079.20.185
MA0080.25.44773e-8
MA0081.10.106
MA0083.10.965
MA0084.10.522
MA0087.10.292
MA0088.10.371
MA0090.10.764
MA0091.10.221
MA0092.10.429
MA0093.10.284
MA0099.22.15536e-4
MA0100.10.565
MA0101.10.444
MA0102.20.961
MA0103.10.00637
MA0104.20.136
MA0105.19.10474e-6
MA0106.10.927
MA0107.10.284
MA0108.20.158
MA0111.10.243
MA0112.21.1295e-4
MA0113.10.434
MA0114.10.13
MA0115.10.545
MA0116.10.00357
MA0117.10.289
MA0119.10.351
MA0122.10.232
MA0124.10.15
MA0125.10.901
MA0131.10.246
MA0135.10.279
MA0136.11.81738e-5
MA0137.20.0959
MA0138.20.0272
MA0139.10.079
MA0140.10.847
MA0141.10.261
MA0142.10.00807
MA0143.10.83
MA0144.10.1
MA0145.10.0238
MA0146.10.609
MA0147.10.178
MA0148.10.324
MA0149.10.522
MA0150.10.00233
MA0152.10.0637
MA0153.10.525
MA0154.10.0096
MA0155.10.551
MA0156.10.085
MA0157.10.221
MA0159.12.90154e-4
MA0160.10.883
MA0162.10.0437
MA0163.10.0983
MA0164.10.711
MA0258.15.958e-4
MA0259.10.115



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: CNhs11222

Novel motifP-value
10.125
100.425
1000.642
1010.42
1020.9
1030.655
1040.758
1050.505
1060.00581
1070.0825
1080.335
1090.554
110.19
1100.752
1110.362
1120.797
1130.607
1140.0225
1150.344
1160.124
1170.88
1180.911
1190.153
120.445
1200.135
1210.727
1220.834
1230.151
1240.613
1250.0513
1260.859
1270.159
1280.00658
1290.326
130.99
1300.572
1310.708
1320.416
1330.0485
1340.781
1350.331
1360.0479
1370.856
1380.227
1390.0457
140.142
1400.656
1410.0461
1420.176
1430.0319
1440.12
1450.766
1460.488
1470.791
1480.0494
1490.209
150.0743
1500.984
1510.0488
1520.407
1530.29
1540.988
1550.32
1560.00292
1570.57
1580.443
1590.394
1600.587
1610.845
1620.583
1630.0426
1640.806
1650.05
1660.238
1670.363
1680.367
1690.185
170.142
180.164
190.769
20.559
200.779
210.707
220.75
230.187
240.986
250.427
260.908
270.255
280.359
290.974
30.233
300.739
310.162
320.332
330.8
340.726
350.0637
360.0985
370.136
380.869
390.812
40.959
400.587
410.0195
420.4
430.223
440.128
450.448
460.107
470.241
480.344
490.211
50.078
500.972
510.828
520.215
530.544
540.513
550.392
560.145
570.465
580.19
590.111
60.613
600.0696
610.543
620.0667
630.185
640.619
650.155
660.537
670.935
680.024
690.388
70.476
700.00679
710.215
720.517
730.379
740.913
750.219
760.986
770.434
780.3
790.64
80.148
800.102
810.27
820.399
830.668
840.441
850.0122
860.153
870.774
880.87
890.0582
90.858
900.205
910.411
920.354
930.74
940.233
950.772
960.254
970.609
980.0742
990.822



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: CNhs11222


FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
{{{is_a}}}

part_of relathionship
{{{part_of}}}

has_quality relathionship
{{{has_quality}}}

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
0000061 (anatomical structure)
0000062 (organ)
0000079 (male reproductive system)
0000464 (anatomical space)
0000465 (material anatomical entity)
0000466 (immaterial anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000473 (testis)
0000479 (tissue)
0000480 (anatomical group)
0000922 (embryo)
0000923 (germ layer)
0000926 (mesoderm)
0000990 (reproductive system)
0000991 (gonad)
0001048 (primordium)
0001062 (anatomical entity)
0002050 (embryonic structure)
0002323 (body cavity)
0002532 (epiblast (generic))
0002553 (anatomical cavity)
0003101 (male organism)
0003133 (reproductive organ)
0003135 (male reproductive organ)
0004120 (mesoderm-derived structure)
0004176 (external genitalia)
0004458 (body cavity or lining)
0005156 (reproductive structure)
0005423 (developing anatomical structure)
0005564 (gonad primordium)
0009117 (indifferent gonad)
0009196 (indifferent external genitalia)

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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