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FF:404-26F8

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Name:lung, embryo E14
Species:Mouse (Mus musculus)
Library ID:CNhs10604
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
tissuelung
dev stage14 days embryo
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  SAMD00006008
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10604 CAGE DRX009032 DRR009906
Accession ID Mm9

Library idBAMCTSS
CNhs10604 DRZ001331 DRZ002714
Accession ID Mm10

Library idBAMCTSS
CNhs10604 DRZ012681 DRZ014064
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

CNhs10604

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0
1001 0.00899
1002 0.0933
1003 0.0305
1004 0
1005 --0.161
1006 --0.0795
1007 0.109
1008 0
1009 0.028
101 0.166
1010 0
1011 0.0187
1012 0
1013 --0.204
1014 0.305
1015 0.234
1016 0.297
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0656
1022 --0.0704
1023 0
1024 0.113
1025 1.005
1026 0
1027 0.0656
1028 0
1029 0.0704
103 0.107
1030 0
1031 0.45
1032 --0.0491
1033 --0.0587
1034 0.0363
1035 0
1036 0
1037 0
1038 0.0479
1039 --0.121
104 0
1040 0.147
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: CNhs10604

Jaspar motif P-value
MA0002.2 5.71221e-4
MA0003.1 0.6
MA0004.1 0.939
MA0006.1 0.887
MA0007.1 0.22
MA0009.1 0.536
MA0014.1 0.288
MA0017.1 3.98691e-5
MA0018.2 0.629
MA0019.1 0.952
MA0024.1 1.71638e-8
MA0025.1 0.839
MA0027.1 0.00654
MA0028.1 0.167
MA0029.1 0.789
MA0030.1 0.854
MA0031.1 0.199
MA0035.2 0.261
MA0038.1 0.0492
MA0039.2 0.27
MA0040.1 0.784
MA0041.1 0.686
MA0042.1 0.36
MA0043.1 0.0925
MA0046.1 3.29288e-6
MA0047.2 0.497
MA0048.1 0.111
MA0050.1 1.01909e-7
MA0051.1 6.12085e-5
MA0052.1 0.274
MA0055.1 0.0152
MA0057.1 0.271
MA0058.1 0.83
MA0059.1 0.964
MA0060.1 7.51183e-11
MA0061.1 0.0879
MA0062.2 0.549
MA0065.2 2.03228e-4
MA0066.1 0.0166
MA0067.1 0.207
MA0068.1 0.738
MA0069.1 0.651
MA0070.1 0.911
MA0071.1 0.0117
MA0072.1 0.019
MA0073.1 0.774
MA0074.1 0.223
MA0076.1 0.263
MA0077.1 0.0841
MA0078.1 0.724
MA0079.2 0.657
MA0080.2 1.55564e-4
MA0081.1 0.799
MA0083.1 2.5374e-5
MA0084.1 0.864
MA0087.1 0.746
MA0088.1 0.55
MA0090.1 0.23
MA0091.1 0.612
MA0092.1 0.611
MA0093.1 0.883
MA0099.2 0.00141
MA0100.1 0.53
MA0101.1 0.606
MA0102.2 0.713
MA0103.1 0.00152
MA0104.2 0.59
MA0105.1 9.60888e-4
MA0106.1 0.704
MA0107.1 0.41
MA0108.2 0.853
MA0111.1 0.224
MA0112.2 7.23763e-6
MA0113.1 0.533
MA0114.1 1.19876e-4
MA0115.1 0.00376
MA0116.1 0.0303
MA0117.1 0.172
MA0119.1 0.263
MA0122.1 0.418
MA0124.1 0.694
MA0125.1 0.186
MA0131.1 0.174
MA0135.1 0.259
MA0136.1 0.0383
MA0137.2 0.0772
MA0138.2 4.62296e-4
MA0139.1 0.224
MA0140.1 0.873
MA0141.1 9.76102e-5
MA0142.1 0.979
MA0143.1 0.102
MA0144.1 0.352
MA0145.1 0.112
MA0146.1 0.838
MA0147.1 0.914
MA0148.1 0.911
MA0149.1 0.0104
MA0150.1 0.00227
MA0152.1 0.979
MA0153.1 7.22112e-4
MA0154.1 0.00279
MA0155.1 0.341
MA0156.1 0.794
MA0157.1 0.371
MA0159.1 0.00275
MA0160.1 0.00613
MA0162.1 0.728
MA0163.1 0.132
MA0164.1 0.983
MA0258.1 1.23654e-5
MA0259.1 0.733



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: CNhs10604

Novel motif P-value
1 0.0759
10 0.305
100 0.973
101 0.927
102 0.593
103 0.0662
104 0.996
105 0.668
106 0.125
107 0.269
108 0.836
109 0.113
11 0.0908
110 0.26
111 0.0252
112 0.0589
113 0.685
114 0.00847
115 0.493
116 0.709
117 0.337
118 0.726
119 0.0932
12 0.583
120 0.084
121 0.567
122 0.786
123 0.165
124 0.549
125 0.588
126 0.723
127 0.443
128 0.093
129 0.106
13 0.846
130 0.0473
131 0.542
132 0.907
133 0.321
134 0.794
135 0.918
136 0.655
137 0.796
138 0.992
139 0.00128
14 0.394
140 0.0714
141 0.355
142 0.269
143 0.551
144 0.671
145 0.744
146 0.435
147 0.305
148 0.0555
149 0.358
15 0.0828
150 0.957
151 0.0557
152 0.242
153 0.22
154 0.707
155 0.829
156 5.57033e-4
157 0.898
158 0.816
159 0.386
160 0.86
161 0.586
162 0.766
163 0.17
164 0.645
165 0.067
166 0.19
167 0.383
168 0.87
169 0.0676
17 0.0671
18 0.0804
19 0.462
2 0.814
20 0.754
21 0.838
22 0.548
23 0.0965
24 0.496
25 0.208
26 0.635
27 0.233
28 0.255
29 0.904
3 0.0623
30 0.735
31 0.3
32 0.0911
33 0.831
34 0.897
35 0.05
36 0.269
37 0.175
38 0.623
39 0.899
4 0.875
40 0.43
41 0.595
42 0.33
43 0.179
44 0.0146
45 0.509
46 0.375
47 0.173
48 0.14
49 0.116
5 0.193
50 0.675
51 0.554
52 0.64
53 0.779
54 0.318
55 0.961
56 0.257
57 0.405
58 0.218
59 0.241
6 0.503
60 0.303
61 0.944
62 0.0405
63 0.264
64 0.313
65 0.282
66 0.665
67 0.94
68 0.136
69 0.611
7 0.517
70 3.699e-4
71 0.482
72 0.224
73 0.116
74 0.801
75 0.118
76 0.769
77 0.227
78 0.397
79 0.635
8 0.124
80 0.273
81 0.107
82 0.101
83 0.55
84 0.819
85 0.0101
86 0.421
87 0.501
88 0.302
89 0.517
9 0.718
90 7.50611e-4
91 0.429
92 0.0263
93 0.648
94 0.288
95 0.344
96 0.144
97 0.314
98 0.201
99 0.587



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: CNhs10604


FANTOM5 (FF) ontology


Direct parent terms

part_of relathionship
UBERON:0000310 breast

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)
0000922 (embryo)
0002048 (lung)
0000310 (breast)
0002100 (trunk)
0000479 (tissue)
0004119 (endoderm-derived structure)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004111 (anatomical conduit)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000025 (tube)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0005178 (thoracic cavity element)
0005177 (trunk region element)
0000117 (respiratory tube)
0000171 (respiration organ)
0000464 (anatomical space)
0005181 (thoracic segment organ)
0010317 (germ layer / neural crest derived structure)
0000065 (respiratory tract)
0000170 (pair of lungs)
0001004 (respiratory system)
0001443 (chest)
0002224 (thoracic cavity)
0000915 (thoracic segment of trunk)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000296 (mouse embryonic day 14 sample)
0011338 (mouse lung- embryo E14 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:0001041 (foregut)
UBERON:0008947 (respiratory primordium)
UBERON:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)