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FF:787-43B6

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Name:pancreas, neonate N16
Species:Mouse (Mus musculus)
Library ID:CNhs11136
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
tissuepancreas
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

Accession numbers
MethodSample accession id
CAGE  SAMD00005979
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11136 CAGE DRX009063 DRR009937
Accession ID Mm9

Library idBAMCTSS
CNhs11136 DRZ001362 DRZ002745
Accession ID Mm10

Library idBAMCTSS
CNhs11136 DRZ012712 DRZ014095
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

CNhs11136

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.177
1001 0.0443
1002 0.00856
1003 0.0202
1004 0
1005 0
1006 0.147
1007 0.0365
1008 0
1009 0.0227
101 0.103
1010 0.213
1011 --0.108
1012 0.0687
1013 0.586
1014 0.114
1015 --0.119
1016 --0.202
1017 0
1018 0
1019 0
102 0
1020 0
1021 0
1022 0.767
1023 0
1024 0.0294
1025 0.39
1026 0
1027 --0.048
1028 0
1029 0.0704
103 0.0474
1030 0.119
1031 --0.0891
1032 --0.00405
1033 0
1034 0.956
1035 0
1036 0.12
1037 0
1038 --0.00865
1039 0.203
104 0
1040 --0.0399
1041 0.213



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: CNhs11136

Jaspar motif P-value
MA0002.2 0.742
MA0003.1 0.741
MA0004.1 0.175
MA0006.1 0.121
MA0007.1 0.375
MA0009.1 0.34
MA0014.1 0.608
MA0017.1 0.58
MA0018.2 4.63207e-4
MA0019.1 0.972
MA0024.1 0.0325
MA0025.1 0.633
MA0027.1 0.978
MA0028.1 0.903
MA0029.1 0.655
MA0030.1 0.375
MA0031.1 0.964
MA0035.2 0.27
MA0038.1 0.796
MA0039.2 0.325
MA0040.1 0.697
MA0041.1 0.365
MA0042.1 0.704
MA0043.1 0.00241
MA0046.1 5.13428e-10
MA0047.2 3.51619e-4
MA0048.1 0.837
MA0050.1 0.43
MA0051.1 0.677
MA0052.1 4.95524e-4
MA0055.1 0.281
MA0057.1 0.249
MA0058.1 0.374
MA0059.1 0.00188
MA0060.1 0.0936
MA0061.1 0.635
MA0062.2 0.92
MA0065.2 0.191
MA0066.1 0.868
MA0067.1 0.0798
MA0068.1 0.962
MA0069.1 0.356
MA0070.1 0.632
MA0071.1 0.627
MA0072.1 0.39
MA0073.1 0.996
MA0074.1 0.307
MA0076.1 0.593
MA0077.1 0.225
MA0078.1 0.517
MA0079.2 0.844
MA0080.2 0.966
MA0081.1 0.397
MA0083.1 0.741
MA0084.1 0.721
MA0087.1 0.695
MA0088.1 0.0314
MA0090.1 0.0809
MA0091.1 4.01067e-4
MA0092.1 0.17
MA0093.1 0.191
MA0099.2 0.00632
MA0100.1 0.0056
MA0101.1 0.921
MA0102.2 0.157
MA0103.1 1.351e-5
MA0104.2 0.117
MA0105.1 0.831
MA0106.1 0.042
MA0107.1 0.678
MA0108.2 0.0117
MA0111.1 0.654
MA0112.2 1.17243e-4
MA0113.1 0.708
MA0114.1 0.779
MA0115.1 0.995
MA0116.1 0.895
MA0117.1 0.539
MA0119.1 0.67
MA0122.1 0.324
MA0124.1 0.2
MA0125.1 0.222
MA0131.1 0.923
MA0135.1 0.687
MA0136.1 0.255
MA0137.2 0.00611
MA0138.2 0.282
MA0139.1 0.0846
MA0140.1 0.4
MA0141.1 0.314
MA0142.1 0.569
MA0143.1 0.29
MA0144.1 0.0577
MA0145.1 0.0817
MA0146.1 0.367
MA0147.1 0.0232
MA0148.1 2.17951e-5
MA0149.1 0.0417
MA0150.1 0.723
MA0152.1 0.521
MA0153.1 0.0102
MA0154.1 0.0118
MA0155.1 0.336
MA0156.1 0.574
MA0157.1 0.32
MA0159.1 0.577
MA0160.1 0.836
MA0162.1 0.444
MA0163.1 0.0666
MA0164.1 0.418
MA0258.1 0.0525
MA0259.1 0.497



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: CNhs11136

Novel motif P-value
1 0.0481
10 0.342
100 0.683
101 0.777
102 0.76
103 0.0649
104 0.513
105 0.826
106 0.0176
107 0.352
108 0.638
109 0.0462
11 0.256
110 0.0365
111 0.11
112 0.0915
113 0.174
114 0.807
115 0.915
116 0.539
117 0.286
118 0.219
119 0.101
12 0.386
120 0.891
121 0.252
122 0.197
123 0.424
124 0.764
125 0.522
126 0.126
127 0.62
128 0.0659
129 0.348
13 0.00407
130 0.219
131 0.607
132 0.743
133 0.0876
134 0.172
135 0.969
136 0.786
137 0.175
138 0.0269
139 0.488
14 0.759
140 0.0568
141 0.354
142 0.777
143 0.923
144 0.225
145 0.0253
146 0.315
147 0.364
148 0.0847
149 0.315
15 0.609
150 0.385
151 0.322
152 0.0106
153 0.69
154 0.169
155 0.454
156 0.0167
157 0.144
158 0.11
159 0.0092
160 0.152
161 0.392
162 0.855
163 0.775
164 0.276
165 0.236
166 0.549
167 0.411
168 0.53
169 0.0116
17 0.053
18 0.671
19 0.0209
2 0.527
20 0.716
21 0.491
22 0.403
23 0.598
24 0.0706
25 0.936
26 0.00386
27 0.604
28 0.773
29 0.322
3 0.396
30 0.788
31 0.417
32 0.55
33 0.98
34 0.678
35 0.45
36 0.485
37 0.031
38 0.527
39 0.228
4 0.274
40 0.827
41 0.139
42 0.182
43 0.286
44 0.817
45 0.824
46 0.108
47 0.772
48 0.329
49 0.117
5 0.525
50 0.504
51 0.628
52 0.441
53 0.66
54 0.793
55 0.543
56 0.376
57 0.627
58 0.17
59 0.215
6 0.819
60 0.184
61 0.111
62 0.295
63 0.0756
64 0.58
65 0.292
66 0.455
67 0.665
68 0.549
69 0.496
7 0.07
70 0.298
71 0.00331
72 0.378
73 0.07
74 0.534
75 0.296
76 0.938
77 0.16
78 0.335
79 0.0937
8 0.155
80 0.897
81 0.488
82 0.138
83 0.285
84 0.0276
85 0.0438
86 0.213
87 0.852
88 0.711
89 0.744
9 0.538
90 0.312
91 0.671
92 0.248
93 0.913
94 0.2
95 0.732
96 0.516
97 0.00954
98 0.901
99 0.352



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: CNhs11136


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)
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)
0000306 (mouse neonate N16 sample)
0011267 (mouse pancreas- neonate N16 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

FF:0000294 (mouse embryonic day 11 sample)