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FF:1539-43D8

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Name:pancreas, neonate N02
Species:Mouse (Mus musculus)
Library ID:CNhs11139
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 stage2 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  SAMD00005663
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11139 CAGE DRX009062 DRR009936
Accession ID Mm9

Library idBAMCTSS
CNhs11139 DRZ001361 DRZ002744
Accession ID Mm10

Library idBAMCTSS
CNhs11139 DRZ012711 DRZ014094
Download raw sequence, BAM & CTSS
Mm9
FastaBAMCTSS
downloaddownloaddonwload
Mm10
BAMCTSS
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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

CNhs11139

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.0291
1001 0.0694
1002 0.0189
1003 0.0454
1004 0
1005 0
1006 0.0355
1007 0.0329
1008 0
1009 0.0437
101 0.0295
1010 0.385
1011 --0.108
1012 0
1013 0.311
1014 0.234
1015 --0.0254
1016 0.013
1017 0
1018 0.0243
1019 0
102 0
1020 0
1021 0
1022 0.468
1023 0
1024 0.19
1025 0.0713
1026 0
1027 0
1028 0
1029 0.119
103 0.324
1030 0
1031 0.159
1032 0.0502
1033 0
1034 0.532
1035 0.0134
1036 0.0888
1037 0
1038 0.0118
1039 0.0961
104 0
1040 0.0456
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



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: CNhs11139

Jaspar motif P-value
MA0002.2 0.0245
MA0003.1 0.152
MA0004.1 0.709
MA0006.1 0.0577
MA0007.1 0.397
MA0009.1 0.318
MA0014.1 0.782
MA0017.1 0.504
MA0018.2 2.0309e-7
MA0019.1 0.487
MA0024.1 0.0677
MA0025.1 0.136
MA0027.1 0.876
MA0028.1 0.17
MA0029.1 0.657
MA0030.1 0.449
MA0031.1 0.711
MA0035.2 0.424
MA0038.1 0.467
MA0039.2 0.571
MA0040.1 0.5
MA0041.1 0.385
MA0042.1 0.678
MA0043.1 0.00119
MA0046.1 5.98311e-21
MA0047.2 0.00497
MA0048.1 0.955
MA0050.1 0.797
MA0051.1 0.255
MA0052.1 0.377
MA0055.1 0.445
MA0057.1 0.432
MA0058.1 0.981
MA0059.1 0.0636
MA0060.1 0.356
MA0061.1 0.609
MA0062.2 0.0102
MA0065.2 0.163
MA0066.1 0.449
MA0067.1 0.0206
MA0068.1 0.67
MA0069.1 0.163
MA0070.1 0.845
MA0071.1 0.9
MA0072.1 0.503
MA0073.1 0.939
MA0074.1 0.0957
MA0076.1 0.0475
MA0077.1 0.922
MA0078.1 0.967
MA0079.2 0.773
MA0080.2 0.013
MA0081.1 0.0833
MA0083.1 0.782
MA0084.1 0.201
MA0087.1 0.425
MA0088.1 0.371
MA0090.1 0.0206
MA0091.1 3.35585e-5
MA0092.1 0.171
MA0093.1 0.77
MA0099.2 0.00476
MA0100.1 0.00941
MA0101.1 0.892
MA0102.2 0.00617
MA0103.1 8.41783e-5
MA0104.2 0.867
MA0105.1 0.169
MA0106.1 0.763
MA0107.1 0.553
MA0108.2 0.25
MA0111.1 0.779
MA0112.2 0.00385
MA0113.1 0.627
MA0114.1 0.689
MA0115.1 0.697
MA0116.1 0.454
MA0117.1 0.582
MA0119.1 0.121
MA0122.1 0.931
MA0124.1 0.94
MA0125.1 0.259
MA0131.1 0.96
MA0135.1 0.755
MA0136.1 3.85569e-4
MA0137.2 0.359
MA0138.2 0.819
MA0139.1 0.19
MA0140.1 0.0717
MA0141.1 0.229
MA0142.1 0.701
MA0143.1 0.899
MA0144.1 0.296
MA0145.1 0.0518
MA0146.1 0.702
MA0147.1 0.354
MA0148.1 1.24068e-4
MA0149.1 0.631
MA0150.1 0.284
MA0152.1 0.58
MA0153.1 2.68902e-9
MA0154.1 0.00924
MA0155.1 0.00869
MA0156.1 0.00802
MA0157.1 0.441
MA0159.1 0.269
MA0160.1 0.754
MA0162.1 0.324
MA0163.1 5.9987e-4
MA0164.1 0.487
MA0258.1 0.0636
MA0259.1 0.852



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: CNhs11139

Novel motif P-value
1 0.164
10 0.217
100 0.293
101 0.493
102 0.73
103 0.231
104 0.327
105 0.973
106 0.0091
107 0.093
108 0.757
109 0.0813
11 0.417
110 0.0559
111 0.575
112 0.401
113 0.128
114 0.385
115 0.301
116 0.258
117 0.359
118 0.514
119 0.233
12 0.0624
120 0.471
121 0.0984
122 0.9
123 0.611
124 0.344
125 0.33
126 0.0716
127 0.385
128 0.0298
129 0.436
13 3.49131e-5
130 0.42
131 0.228
132 0.46
133 0.0884
134 0.256
135 0.905
136 0.323
137 0.0446
138 0.00798
139 0.601
14 0.569
140 0.074
141 0.0446
142 0.545
143 0.868
144 0.626
145 0.0737
146 0.551
147 0.16
148 0.0777
149 0.322
15 0.832
150 0.318
151 0.772
152 0.028
153 0.788
154 0.98
155 0.988
156 0.00343
157 0.0972
158 0.711
159 0.431
160 0.0533
161 0.832
162 0.333
163 0.898
164 0.487
165 0.636
166 0.545
167 0.543
168 0.3
169 0.00665
17 0.169
18 0.362
19 0.00851
2 0.511
20 0.604
21 0.5
22 0.197
23 0.719
24 0.186
25 0.722
26 7.0759e-4
27 0.683
28 0.28
29 0.929
3 0.385
30 0.867
31 0.353
32 0.0839
33 0.63
34 0.933
35 0.594
36 0.623
37 0.0577
38 0.539
39 0.0199
4 0.338
40 0.67
41 0.0694
42 0.35
43 0.303
44 0.771
45 0.945
46 0.135
47 0.711
48 0.833
49 0.456
5 0.87
50 0.211
51 0.577
52 0.12
53 0.85
54 0.903
55 0.435
56 0.351
57 0.854
58 0.576
59 0.0303
6 0.851
60 0.0737
61 0.227
62 0.887
63 0.141
64 0.7
65 0.23
66 0.32
67 0.454
68 0.475
69 0.512
7 0.0911
70 0.997
71 0.0134
72 0.704
73 0.142
74 0.368
75 0.695
76 0.414
77 0.0783
78 0.206
79 0.0256
8 0.0307
80 0.379
81 0.854
82 0.278
83 0.87
84 0.028
85 0.185
86 0.366
87 0.492
88 0.133
89 0.303
9 0.55
90 0.4
91 0.363
92 0.26
93 0.563
94 0.256
95 0.958
96 0.382
97 0.0558
98 0.667
99 0.112



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: CNhs11139


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)
0000307 (mouse neonate N2 sample)
0011254 (mouse pancreas- neonate N02 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)