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FF:10263-104D2

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Name:Follicle Associated Epithelium, pool3
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainBalb/c
tissuePeyer's patch
dev stageNA
sexfemale
ageNA
cell typeCELL MIXTURE - tissue sample
cell lineNA
companyNA
collaborationShinji Fukuda (RCAI)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberFAE_c
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0
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.
Analyst:NA

link to dataset.
data

CNhs13200

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 --0.0355
1001 --0.0749
1002 --0.116
1003 --0.175
1004 0
1005 1.022
1006 --0.346
1007 --0.108
1008 1.953
1009 --0.19
101 --0.0984
1010 0
1011 --0.337
1012 0
1013 0.309
1014 --0.0874
1015 --0.236
1016 --0.563
1017 0
1018 0.486
1019 0
102 0
1020 0
1021 0.332
1022 --0.0343
1023 0
1024 --0.185
1025 --0.0611
1026 0
1027 --0.048
1028 0
1029 --0.0872
103 --0.0887
1030 0
1031 --0.911
1032 0.916
1033 0.0232
1034 0
1035 0
1036 0.0746
1037 0
1038 --0.153
1039 0.0676
104 0
1040 --0.756
1041 0



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
no result for this sample


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: CNhs13200

Jaspar motif P-value
MA0002.2 0.00293
MA0003.1 0.246
MA0004.1 0.917
MA0006.1 0.106
MA0007.1 0.504
MA0009.1 0.591
MA0014.1 0.185
MA0017.1 4.5492e-18
MA0018.2 0.168
MA0019.1 0.113
MA0024.1 0.0666
MA0025.1 0.724
MA0027.1 0.886
MA0028.1 0.0516
MA0029.1 0.664
MA0030.1 0.495
MA0031.1 0.877
MA0035.2 0.00153
MA0038.1 0.379
MA0039.2 5.39073e-4
MA0040.1 0.142
MA0041.1 0.431
MA0042.1 0.666
MA0043.1 0.0651
MA0046.1 1.20768e-34
MA0047.2 0.068
MA0048.1 0.595
MA0050.1 1.11319e-4
MA0051.1 6.48562e-4
MA0052.1 1.98769e-4
MA0055.1 0.691
MA0057.1 0.0985
MA0058.1 0.985
MA0059.1 0.538
MA0060.1 0.00903
MA0061.1 0.00468
MA0062.2 7.63928e-5
MA0065.2 2.65542e-10
MA0066.1 0.121
MA0067.1 0.446
MA0068.1 0.365
MA0069.1 0.804
MA0070.1 0.0625
MA0071.1 0.212
MA0072.1 0.714
MA0073.1 0.892
MA0074.1 0.325
MA0076.1 0.126
MA0077.1 0.874
MA0078.1 0.49
MA0079.2 0.457
MA0080.2 7.03977e-10
MA0081.1 0.257
MA0083.1 0.0116
MA0084.1 0.592
MA0087.1 0.837
MA0088.1 0.184
MA0090.1 0.695
MA0091.1 0.521
MA0092.1 0.417
MA0093.1 0.976
MA0099.2 1.60766e-6
MA0100.1 0.747
MA0101.1 0.00153
MA0102.2 0.37
MA0103.1 2.11984e-6
MA0104.2 0.502
MA0105.1 0.00551
MA0106.1 0.152
MA0107.1 0.00274
MA0108.2 0.815
MA0111.1 0.916
MA0112.2 4.2466e-4
MA0113.1 0.447
MA0114.1 1.02686e-18
MA0115.1 1.99914e-11
MA0116.1 0.0782
MA0117.1 0.91
MA0119.1 0.185
MA0122.1 0.704
MA0124.1 0.22
MA0125.1 0.215
MA0131.1 0.906
MA0135.1 0.353
MA0136.1 6.63414e-16
MA0137.2 0.0811
MA0138.2 0.725
MA0139.1 0.0493
MA0140.1 0.122
MA0141.1 1.12699e-4
MA0142.1 0.123
MA0143.1 0.137
MA0144.1 0.0269
MA0145.1 0.0281
MA0146.1 0.228
MA0147.1 0.752
MA0148.1 0.0257
MA0149.1 0.00814
MA0150.1 0.0301
MA0152.1 0.0866
MA0153.1 9.23756e-31
MA0154.1 0.0126
MA0155.1 0.758
MA0156.1 4.57649e-8
MA0157.1 0.687
MA0159.1 2.39489e-4
MA0160.1 0.00531
MA0162.1 0.276
MA0163.1 0.012
MA0164.1 0.505
MA0258.1 0.0256
MA0259.1 0.624



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: CNhs13200

Novel motif P-value
1 0.109
10 0.123
100 0.79
101 0.918
102 0.959
103 0.118
104 0.765
105 0.449
106 0.0427
107 0.178
108 0.838
109 0.0223
11 0.102
110 0.25
111 0.0548
112 0.014
113 0.542
114 0.0738
115 0.546
116 0.202
117 0.0297
118 0.297
119 0.0778
12 0.649
120 0.555
121 0.385
122 0.987
123 0.104
124 0.542
125 0.681
126 0.0829
127 0.253
128 0.094
129 0.0919
13 0.00125
130 0.865
131 0.955
132 0.593
133 0.861
134 0.999
135 0.105
136 0.0725
137 0.963
138 0.438
139 0.104
14 0.663
140 0.198
141 0.139
142 0.597
143 0.764
144 0.245
145 0.124
146 0.393
147 0.743
148 0.451
149 0.932
15 0.141
150 0.448
151 0.544
152 0.0639
153 0.594
154 0.899
155 0.289
156 0.0393
157 0.47
158 0.645
159 0.542
160 0.629
161 0.388
162 0.476
163 0.267
164 0.154
165 0.0651
166 0.611
167 0.545
168 0.974
169 0.0129
17 0.0497
18 0.705
19 0.237
2 0.817
20 0.616
21 0.45
22 0.345
23 0.639
24 0.743
25 0.435
26 0.00597
27 0.606
28 0.363
29 0.0576
3 0.0646
30 0.467
31 0.69
32 0.0934
33 0.209
34 0.909
35 0.482
36 0.201
37 0.0386
38 0.385
39 0.381
4 0.407
40 0.172
41 0.451
42 0.392
43 0.181
44 0.0501
45 0.49
46 0.178
47 0.216
48 0.141
49 0.233
5 0.421
50 0.44
51 0.656
52 0.233
53 0.52
54 0.557
55 0.968
56 0.384
57 0.89
58 0.259
59 0.136
6 0.511
60 0.0495
61 0.185
62 0.14
63 0.121
64 0.638
65 0.228
66 0.934
67 0.506
68 0.0133
69 0.849
7 0.085
70 0.00417
71 0.0654
72 0.406
73 0.0381
74 0.508
75 0.0132
76 0.534
77 0.13
78 0.0301
79 0.659
8 0.0787
80 0.631
81 0.695
82 0.0898
83 0.0514
84 0.434
85 0.0694
86 0.15
87 0.014
88 0.536
89 0.185
9 0.878
90 0.0303
91 0.462
92 0.372
93 0.283
94 0.471
95 0.0241
96 0.72
97 0.899
98 0.359
99 0.305



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: CNhs13200


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

link to source data
data

UBERON: Anatomy
0000061 (anatomical structure)
0000062 (organ)
0000064 (organ part)
0000119 (cell layer)
0000344 (mucosa)
0000464 (anatomical space)
0000465 (material anatomical entity)
0000466 (immaterial anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000477 (anatomical cluster)
0000479 (tissue)
0000480 (anatomical group)
0000481 (multi-tissue structure)
0000483 (epithelium)
0000922 (embryo)
0000923 (germ layer)
0000925 (endoderm)
0001007 (digestive system)
0001062 (anatomical entity)
0001555 (digestive tract)
0001744 (lymphoid tissue)
0001961 (mucosa-associated lymphoid tissue)
0001962 (gut-associated lymphoid tissue)
0002050 (embryonic structure)
0002193 (hemolymphoid system)
0002405 (immune system)
0002465 (lymphoid system)
0002532 (epiblast (generic))
0003199 (egg chamber)
0004119 (endoderm-derived structure)
0004923 (organ component layer)
0005423 (developing anatomical structure)
0007023 (adult organism)
0007026 (primitive gut)

FF: FANTOM5
NA

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

link to source data
data

NA