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FF:398-44A5

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Name:pituitary gland, embryo E14
Species:Mouse (Mus musculus)
Library ID:CNhs11037
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
tissuepituitary gland
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  SAMD00005442
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11037 CAGE DRX009069 DRR009943
Accession ID Mm9

Library idBAMCTSS
CNhs11037 DRZ001368 DRZ002751
Accession ID Mm10

Library idBAMCTSS
CNhs11037 DRZ012718 DRZ014101
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

CNhs11037

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0.0843
10 0
100 0.0843
1000 0.0489
1001 0
1002 0.249
1003 --0.0633
1004 0.314
1005 --0.0389
1006 0.0123
1007 0.025
1008 0
1009 --0.0572
101 --0.0221
1010 0
1011 0.0381
1012 0
1013 --0.0891
1014 0.311
1015 0.211
1016 0.2
1017 0
1018 0
1019 0
102 0
1020 0
1021 0
1022 --0.0704
1023 0
1024 0.0416
1025 0.0232
1026 0
1027 0.155
1028 0
1029 --0.0916
103 0.176
1030 0
1031 0.337
1032 --0.0922
1033 0.052
1034 0
1035 0
1036 --0.0279
1037 0
1038 0.0519
1039 --0.104
104 0
1040 0
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: CNhs11037

Jaspar motif P-value
MA0002.2 1.50294e-4
MA0003.1 0.257
MA0004.1 0.779
MA0006.1 0.409
MA0007.1 0.666
MA0009.1 0.485
MA0014.1 0.541
MA0017.1 4.98527e-7
MA0018.2 0.121
MA0019.1 0.587
MA0024.1 0.0426
MA0025.1 0.227
MA0027.1 0.328
MA0028.1 0.36
MA0029.1 0.255
MA0030.1 0.204
MA0031.1 0.103
MA0035.2 0.00277
MA0038.1 0.0623
MA0039.2 0.25
MA0040.1 0.28
MA0041.1 0.261
MA0042.1 0.566
MA0043.1 0.0316
MA0046.1 3.02551e-24
MA0047.2 9.08795e-4
MA0048.1 0.72
MA0050.1 0.00115
MA0051.1 0.00508
MA0052.1 1.95773e-6
MA0055.1 0.197
MA0057.1 0.0915
MA0058.1 0.794
MA0059.1 0.718
MA0060.1 3.90768e-11
MA0061.1 0.0224
MA0062.2 0.741
MA0065.2 6.97524e-5
MA0066.1 0.0148
MA0067.1 0.369
MA0068.1 0.0668
MA0069.1 0.282
MA0070.1 0.803
MA0071.1 0.113
MA0072.1 0.0555
MA0073.1 0.806
MA0074.1 0.724
MA0076.1 0.145
MA0077.1 0.0324
MA0078.1 0.967
MA0079.2 0.303
MA0080.2 8.73642e-10
MA0081.1 0.286
MA0083.1 0.0345
MA0084.1 0.377
MA0087.1 0.16
MA0088.1 0.296
MA0090.1 0.236
MA0091.1 0.472
MA0092.1 0.523
MA0093.1 0.86
MA0099.2 3.73742e-5
MA0100.1 0.927
MA0101.1 0.138
MA0102.2 0.27
MA0103.1 0.325
MA0104.2 0.81
MA0105.1 0.00174
MA0106.1 0.0741
MA0107.1 0.0508
MA0108.2 0.475
MA0111.1 0.834
MA0112.2 4.35109e-7
MA0113.1 0.58
MA0114.1 5.30766e-6
MA0115.1 4.79412e-5
MA0116.1 0.0184
MA0117.1 0.511
MA0119.1 0.0239
MA0122.1 0.597
MA0124.1 0.532
MA0125.1 0.0161
MA0131.1 0.391
MA0135.1 0.769
MA0136.1 2.28705e-5
MA0137.2 0.0589
MA0138.2 0.0334
MA0139.1 0.144
MA0140.1 0.00695
MA0141.1 0.00184
MA0142.1 0.523
MA0143.1 0.061
MA0144.1 0.108
MA0145.1 0.0552
MA0146.1 0.517
MA0147.1 0.908
MA0148.1 1.53852e-4
MA0149.1 0.0144
MA0150.1 5.51819e-4
MA0152.1 0.92
MA0153.1 2.52776e-16
MA0154.1 0.0031
MA0155.1 0.904
MA0156.1 0.0421
MA0157.1 0.334
MA0159.1 0.00275
MA0160.1 0.00679
MA0162.1 0.53
MA0163.1 0.00784
MA0164.1 0.984
MA0258.1 1.4885e-4
MA0259.1 0.858



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: CNhs11037

Novel motif P-value
1 0.061
10 0.128
100 0.893
101 0.54
102 0.89
103 0.134
104 0.883
105 0.232
106 0.0066
107 0.0265
108 0.652
109 0.244
11 0.175
110 0.148
111 0.0277
112 0.0233
113 0.547
114 0.0289
115 0.897
116 0.566
117 0.142
118 0.756
119 0.126
12 0.806
120 0.718
121 0.626
122 0.787
123 0.196
124 0.889
125 0.3
126 0.658
127 0.0326
128 0.0448
129 0.205
13 0.114
130 0.266
131 0.335
132 0.477
133 0.575
134 0.445
135 0.0688
136 0.532
137 0.772
138 0.421
139 0.0452
14 0.406
140 0.0836
141 0.145
142 0.194
143 0.632
144 0.912
145 0.271
146 0.421
147 0.506
148 0.385
149 0.253
15 0.0551
150 0.383
151 0.112
152 0.164
153 0.737
154 0.571
155 0.466
156 1.52968e-6
157 0.41
158 0.145
159 0.0666
160 0.469
161 0.86
162 0.636
163 0.27
164 0.0458
165 0.108
166 0.841
167 0.355
168 0.44
169 0.00167
17 0.142
18 0.23
19 0.214
2 0.671
20 0.685
21 0.728
22 0.253
23 0.0968
24 0.684
25 0.241
26 0.152
27 0.565
28 0.388
29 0.217
3 0.22
30 0.747
31 0.553
32 0.178
33 0.425
34 0.818
35 0.309
36 0.287
37 0.0481
38 0.377
39 0.761
4 0.537
40 0.441
41 0.252
42 0.604
43 0.14
44 0.133
45 0.488
46 0.14
47 0.225
48 0.133
49 0.123
5 0.0698
50 0.875
51 0.524
52 0.267
53 0.595
54 0.412
55 0.472
56 0.512
57 0.388
58 0.249
59 0.0923
6 0.777
60 0.0503
61 0.591
62 0.0518
63 0.113
64 0.626
65 0.164
66 0.252
67 0.71
68 0.273
69 0.859
7 0.114
70 0.00301
71 0.083
72 0.562
73 0.0988
74 0.658
75 0.105
76 0.62
77 0.208
78 0.0715
79 0.369
8 0.164
80 0.183
81 0.318
82 0.0945
83 0.334
84 0.168
85 0.0121
86 0.413
87 0.791
88 0.478
89 0.147
9 0.395
90 0.268
91 0.34
92 0.142
93 0.12
94 0.271
95 0.234
96 0.224
97 0.785
98 0.453
99 0.657



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: CNhs11037


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)
0000922 (embryo)
0000955 (brain)
0000007 (pituitary gland)
0001894 (diencephalon)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0003296 (gland of diencephalon)
0010133 (neuroendocrine gland)
0010314 (structure with developmental contribution from neural crest)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0000073 (regional part of nervous system)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002368 (endocrine gland)
0002616 (regional part of brain)
0002780 (regional part of forebrain)
0002530 (gland)
0010317 (germ layer / neural crest derived structure)
0001017 (central nervous system)
0001016 (nervous system)
0001890 (forebrain)
0000949 (endocrine system)

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)
0011334 (mouse pituitary gland- 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:0002532 (epiblast (generic))
UBERON:0006601 (presumptive ectoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)