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FF:58-23B2

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Name:epididymis, adult
Species:Mouse (Mus musculus)
Library ID:CNhs10490
Sample type:developmental
Genomic View: UCSC
MicroRNAs:Including candidate novel miRNAs(CAGE samples)
Excluding candidate novel miRNAs(CAGE samples)
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissueepididymis
dev stageadult
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

Accession numbers
MethodSample accession id
CAGE  SAMD00005687
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10490 CAGE DRX008953 DRR009827
Accession ID Mm9

Library idBAMCTSS
CNhs10490 DRZ001252 DRZ002635
Accession ID Mm10

Library idBAMCTSS
CNhs10490 DRZ012602 DRZ013985
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.
Analyst:NA

link to dataset.
data

CNhs10490

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0
1001 0.0774
1002 0.0663
1003 --0.00448
1004 0
1005 --0.0389
1006 --0.143
1007 --0.0817
1008 0
1009 0.211
101 --0.0713
1010 0
1011 0.157
1012 0
1013 0.526
1014 --0.0874
1015 --0.125
1016 --0.278
1017 0
1018 0.389
1019 0.0979
102 0
1020 0
1021 0
1022 0.355
1023 0
1024 --0.0454
1025 0
1026 1.228
1027 --0.048
1028 0
1029 --0.0498
103 --0.0708
1030 0
1031 --0.151
1032 0.178
1033 0
1034 0.245
1035 0
1036 0.116
1037 0.0979
1038 0.00513
1039 0.00779
104 0
1040 --0.184
1041 0.303



Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.
Analyst:NA

link to dataset.
data



TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample


JASPAR motifsSummary:Association of JASPAR motif to the promoter expression in this sample. Pearson's correlation between the number of TFBSs estimated by using the position-weight matrix for each promoter and its expression is expressed as Z-score by taking the ones based on random position-weight matrix, and the tail probability of the normal distribution corresponding to the Z-score is taken as the resulting P-value. Lower P-value indicates more (non-random) association of the motif to promoter expression
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs10490

Jaspar motif P-value
MA0002.2 0.00383
MA0003.1 0.0196
MA0004.1 0.649
MA0006.1 0.469
MA0007.1 7.7873e-12
MA0009.1 0.137
MA0014.1 0.00481
MA0017.1 0.597
MA0018.2 0.619
MA0019.1 0.489
MA0024.1 1.14036e-5
MA0025.1 0.203
MA0027.1 0.72
MA0028.1 0.0277
MA0029.1 0.0557
MA0030.1 0.478
MA0031.1 0.378
MA0035.2 0.007
MA0038.1 0.32
MA0039.2 0.0147
MA0040.1 0.0695
MA0041.1 0.452
MA0042.1 0.441
MA0043.1 0.0102
MA0046.1 0.001
MA0047.2 0.752
MA0048.1 0.289
MA0050.1 0.039
MA0051.1 0.0353
MA0052.1 0.002
MA0055.1 0.0128
MA0057.1 0.186
MA0058.1 0.221
MA0059.1 0.304
MA0060.1 0.349
MA0061.1 0.371
MA0062.2 0.00623
MA0065.2 0.329
MA0066.1 0.549
MA0067.1 0.62
MA0068.1 0.027
MA0069.1 0.0135
MA0070.1 0.648
MA0071.1 0.361
MA0072.1 0.374
MA0073.1 0.63
MA0074.1 0.991
MA0076.1 0.0291
MA0077.1 0.425
MA0078.1 0.726
MA0079.2 0.427
MA0080.2 0.111
MA0081.1 0.349
MA0083.1 0.45
MA0084.1 0.789
MA0087.1 0.346
MA0088.1 0.0753
MA0090.1 0.803
MA0091.1 0.418
MA0092.1 0.991
MA0093.1 0.67
MA0099.2 0.591
MA0100.1 0.426
MA0101.1 0.147
MA0102.2 0.0404
MA0103.1 7.21146e-7
MA0104.2 0.71
MA0105.1 0.42
MA0106.1 0.538
MA0107.1 0.111
MA0108.2 3.15706e-7
MA0111.1 0.818
MA0112.2 0.00143
MA0113.1 5.52886e-7
MA0114.1 0.634
MA0115.1 0.57
MA0116.1 0.376
MA0117.1 0.532
MA0119.1 0.277
MA0122.1 0.927
MA0124.1 0.184
MA0125.1 0.133
MA0131.1 0.8
MA0135.1 0.772
MA0136.1 0.0296
MA0137.2 0.353
MA0138.2 0.872
MA0139.1 0.249
MA0140.1 0.00279
MA0141.1 0.774
MA0142.1 0.926
MA0143.1 0.684
MA0144.1 0.153
MA0145.1 0.176
MA0146.1 0.0111
MA0147.1 0.875
MA0148.1 0.397
MA0149.1 0.0482
MA0150.1 0.821
MA0152.1 0.557
MA0153.1 0.0117
MA0154.1 0.453
MA0155.1 0.391
MA0156.1 0.0452
MA0157.1 0.974
MA0159.1 0.0809
MA0160.1 0.421
MA0162.1 0.256
MA0163.1 0.0426
MA0164.1 0.874
MA0258.1 0.035
MA0259.1 0.848



FANTOM5 phase1 novel unique motifsSummary: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 in 169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs10490

Novel motif P-value
1 0.299
10 0.169
100 0.287
101 0.56
102 0.103
103 0.0318
104 0.116
105 0.684
106 0.281
107 0.734
108 0.353
109 0.0322
11 0.242
110 0.693
111 0.00242
112 0.00627
113 0.0636
114 0.0781
115 0.737
116 0.897
117 0.198
118 0.512
119 0.0205
12 0.918
120 0.518
121 0.436
122 0.0973
123 0.485
124 0.136
125 0.4
126 0.137
127 0.948
128 0.256
129 0.0926
13 3.86869e-5
130 0.335
131 0.909
132 0.607
133 0.618
134 0.998
135 0.789
136 0.121
137 0.805
138 0.262
139 0.0414
14 0.602
140 0.28
141 0.8
142 0.862
143 0.317
144 0.201
145 0.235
146 0.35
147 0.892
148 0.508
149 2.99086e-5
15 7.3164e-4
150 0.598
151 0.4
152 0.0734
153 0.406
154 0.705
155 0.759
156 0.326
157 0.493
158 0.214
159 0.263
160 0.31
161 0.305
162 0.99
163 0.032
164 0.0131
165 0.00514
166 0.376
167 0.945
168 0.637
169 0.00199
17 0.182
18 0.504
19 0.0777
2 0.607
20 0.479
21 0.0694
22 0.185
23 0.436
24 0.0194
25 0.673
26 0.0144
27 0.476
28 0.613
29 0.0246
3 0.29
30 0.801
31 0.732
32 0.915
33 0.664
34 0.472
35 0.848
36 0.261
37 0.0247
38 0.258
39 0.085
4 0.676
40 0.111
41 0.713
42 0.973
43 0.21
44 0.0209
45 0.328
46 0.157
47 0.0907
48 0.0911
49 0.105
5 0.287
50 0.766
51 0.708
52 0.833
53 0.674
54 0.732
55 0.0735
56 0.803
57 0.679
58 0.0866
59 0.751
6 0.0844
60 0.155
61 0.429
62 0.0641
63 0.166
64 0.532
65 0.678
66 0.633
67 0.719
68 0.978
69 0.031
7 0.128
70 0.0049
71 0.222
72 0.512
73 0.0407
74 0.429
75 0.138
76 0.612
77 0.568
78 0.933
79 0.599
8 0.315
80 0.239
81 0.691
82 0.0404
83 0.424
84 0.946
85 0.123
86 0.233
87 0.0319
88 0.727
89 0.291
9 0.95
90 0.869
91 0.181
92 0.216
93 0.261
94 0.602
95 0.172
96 0.134
97 0.296
98 0.237
99 0.296



de novo motifs identified by HOMER in promoters active in this sampleSummary:The result of HOMER in this sample is shown.
Analyst:NA
library id: CNhs10490


FANTOM5 (FF) ontology


Direct parent terms


Ancestor terms (non development)Summary:Connected ontology terms with is_a, part_of or located_in relationship
Analyst: Hideya Kawaji

link to source data
data

UBERON: Anatomy
0000468 (multi-cellular organism)
0007023 (adult organism)
0001301 (epididymis)
0000479 (tissue)
0000058 (duct)
0005156 (reproductive structure)
0000062 (organ)
0004111 (anatomical conduit)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003135 (male reproductive organ)
0003133 (reproductive organ)
0005904 (duct of male reproductive system)
0004175 (internal genitalia)
0010317 (germ layer / neural crest derived structure)
0003101 (male organism)
0000079 (male reproductive system)
0006947 (male genital duct)
0004054 (internal male genitalia)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011289 (epididymis- adult sample)

Ancestor terms (development)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship
Analyst: Hideya Kawaji

link to source data
data

UBERON:0002532 (epiblast (generic))
UBERON:0006603 (presumptive mesoderm)
UBERON:0007297 (presumptive pronephric mesoderm)
UBERON:0010316 (germ layer / neural crest)