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FF:790-21I1

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Name:small intestine, neonate N16, 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
tissuesmall intestine
dev stage16 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
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

CNhs11114

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.0184
1001 0.0162
1002 0.0386
1003 --0.0773
1004 0
1005 0.199
1006 0
1007 --0.102
1008 1.681
1009 -5.040489e-4
101 --0.0723
1010 0
1011 --0.138
1012 0
1013 0.213
1014 --0.0874
1015 --0.221
1016 --0.13
1017 0
1018 0.336
1019 0
102 0
1020 0
1021 --0.0487
1022 0.129
1023 0
1024 0.0285
1025 0.695
1026 0
1027 0
1028 0
1029 0.408
103 0.111
1030 0
1031 --0.0553
1032 0.467
1033 --0.0525
1034 0.187
1035 0
1036 --0.0718
1037 0
1038 0.0374
1039 --0.0755
104 0
1040 --0.101
1041 0.111



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: CNhs11114

Jaspar motif P-value
MA0002.2 0.0359
MA0003.1 0.141
MA0004.1 0.885
MA0006.1 0.0423
MA0007.1 0.787
MA0009.1 0.31
MA0014.1 0.756
MA0017.1 5.83808e-24
MA0018.2 0.00708
MA0019.1 0.269
MA0024.1 0.027
MA0025.1 0.421
MA0027.1 0.629
MA0028.1 0.205
MA0029.1 0.924
MA0030.1 0.838
MA0031.1 0.513
MA0035.2 1.08189e-5
MA0038.1 0.313
MA0039.2 0.00439
MA0040.1 0.152
MA0041.1 0.417
MA0042.1 0.924
MA0043.1 0.0241
MA0046.1 2.5385e-39
MA0047.2 0.00819
MA0048.1 0.548
MA0050.1 9.18089e-8
MA0051.1 7.69406e-6
MA0052.1 1.02148e-4
MA0055.1 0.307
MA0057.1 0.206
MA0058.1 0.711
MA0059.1 0.829
MA0060.1 6.57373e-5
MA0061.1 0.455
MA0062.2 0.135
MA0065.2 5.67062e-14
MA0066.1 0.0746
MA0067.1 0.177
MA0068.1 0.254
MA0069.1 0.0688
MA0070.1 0.248
MA0071.1 0.56
MA0072.1 0.49
MA0073.1 0.846
MA0074.1 0.089
MA0076.1 0.0891
MA0077.1 0.33
MA0078.1 0.413
MA0079.2 0.493
MA0080.2 0.00175
MA0081.1 0.412
MA0083.1 0.703
MA0084.1 0.774
MA0087.1 0.861
MA0088.1 0.806
MA0090.1 0.711
MA0091.1 0.837
MA0092.1 0.27
MA0093.1 0.829
MA0099.2 0.0118
MA0100.1 0.0787
MA0101.1 0.827
MA0102.2 0.367
MA0103.1 9.19708e-6
MA0104.2 0.134
MA0105.1 0.202
MA0106.1 0.564
MA0107.1 0.785
MA0108.2 0.546
MA0111.1 0.933
MA0112.2 9.6604e-6
MA0113.1 0.774
MA0114.1 8.60702e-27
MA0115.1 8.8833e-11
MA0116.1 0.337
MA0117.1 0.989
MA0119.1 0.0411
MA0122.1 0.529
MA0124.1 0.529
MA0125.1 0.121
MA0131.1 0.378
MA0135.1 0.5
MA0136.1 0.0194
MA0137.2 0.738
MA0138.2 0.59
MA0139.1 0.0213
MA0140.1 0.0316
MA0141.1 1.6646e-4
MA0142.1 0.19
MA0143.1 0.118
MA0144.1 0.144
MA0145.1 0.00953
MA0146.1 0.245
MA0147.1 0.191
MA0148.1 5.56287e-5
MA0149.1 0.0255
MA0150.1 0.935
MA0152.1 0.224
MA0153.1 1.97305e-31
MA0154.1 0.0129
MA0155.1 0.12
MA0156.1 0.155
MA0157.1 0.8
MA0159.1 0.00169
MA0160.1 0.016
MA0162.1 0.238
MA0163.1 0.00536
MA0164.1 0.83
MA0258.1 0.00939
MA0259.1 0.246



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: CNhs11114

Novel motif P-value
1 0.19
10 0.21
100 0.855
101 0.853
102 0.785
103 0.195
104 0.865
105 0.468
106 0.00706
107 0.0161
108 0.748
109 0.0552
11 0.16
110 0.262
111 0.0364
112 0.0258
113 0.497
114 0.0512
115 0.557
116 0.283
117 0.404
118 0.36
119 0.146
12 0.875
120 0.731
121 0.939
122 0.572
123 0.229
124 0.878
125 0.276
126 0.073
127 0.38
128 0.0434
129 0.42
13 0.00414
130 0.826
131 0.0373
132 0.481
133 0.556
134 0.548
135 0.829
136 0.135
137 0.506
138 0.333
139 0.0579
14 0.779
140 0.555
141 0.146
142 0.611
143 0.327
144 0.547
145 0.0834
146 0.193
147 0.275
148 0.14
149 0.301
15 0.171
150 0.241
151 0.447
152 0.0358
153 0.681
154 0.554
155 0.185
156 0.824
157 0.682
158 0.681
159 0.477
160 0.209
161 0.41
162 0.951
163 0.489
164 0.112
165 0.455
166 0.732
167 0.907
168 0.965
169 0.00605
17 0.0732
18 0.0919
19 0.0676
2 0.192
20 0.696
21 0.939
22 0.278
23 0.212
24 0.599
25 0.892
26 0.00812
27 0.576
28 0.55
29 0.418
3 0.218
30 0.396
31 0.616
32 0.00265
33 0.208
34 0.725
35 0.56
36 0.996
37 0.0437
38 0.37
39 0.201
4 0.429
40 0.412
41 0.633
42 0.47
43 0.22
44 0.247
45 0.336
46 0.265
47 0.438
48 0.335
49 0.166
5 0.585
50 0.493
51 0.579
52 0.0552
53 0.948
54 0.698
55 0.533
56 0.359
57 0.996
58 0.5
59 0.0819
6 0.897
60 0.0386
61 0.347
62 0.461
63 0.15
64 0.627
65 0.136
66 0.35
67 0.644
68 0.126
69 0.9
7 0.0915
70 0.0316
71 0.0979
72 0.587
73 0.121
74 0.938
75 0.152
76 0.848
77 0.0735
78 0.0658
79 0.521
8 0.267
80 0.719
81 0.709
82 0.0765
83 0.568
84 0.355
85 0.0188
86 0.143
87 0.238
88 0.68
89 0.308
9 0.564
90 0.208
91 0.254
92 0.16
93 0.803
94 0.727
95 0.204
96 0.623
97 0.485
98 0.803
99 0.0442



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: CNhs11114


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)
0000160 (intestine)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000479 (tissue)
0000480 (anatomical group)
0000481 (multi-tissue structure)
0000922 (embryo)
0000923 (germ layer)
0000925 (endoderm)
0001007 (digestive system)
0001062 (anatomical entity)
0001555 (digestive tract)
0002050 (embryonic structure)
0002108 (small intestine)
0002532 (epiblast (generic))
0004119 (endoderm-derived structure)
0004185 (endodermal part of digestive tract)
0004921 (subdivision of digestive tract)
0005409 (gastrointestinal system)
0005423 (developing anatomical structure)
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