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FF:21-1G8

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Name:pituitary gland, adult
Species:Mouse (Mus musculus)
Library ID:CNhs10493
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 stageadult
sexmale
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  SAMD00005524
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs10493 CAGE DRX009066 DRR009940
Accession ID Mm9

Library idBAMCTSS
CNhs10493 DRZ001365 DRZ002748
Accession ID Mm10

Library idBAMCTSS
CNhs10493 DRZ012715 DRZ014098
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

CNhs10493

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0.226
10 0
100 0
1000 0
1001 0.159
1002 --0.116
1003 0.147
1004 0.306
1005 0
1006 0.5
1007 --0.079
1008 0
1009 --0.0342
101 --0.0544
1010 0
1011 0.0946
1012 0
1013 0.348
1014 0.337
1015 --0.158
1016 --0.108
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0444
1022 0.361
1023 0
1024 0
1025 --0.0611
1026 0
1027 0
1028 0
1029 0.0779
103 --0.0802
1030 0
1031 --0.199
1032 0.198
1033 0.251
1034 0
1035 0
1036 --0.0297
1037 0
1038 --0.0548
1039 0.261
104 0
1040 --0.167
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: CNhs10493

Jaspar motif P-value
MA0002.2 8.47939e-4
MA0003.1 0.0355
MA0004.1 0.621
MA0006.1 0.251
MA0007.1 0.301
MA0009.1 0.8
MA0014.1 0.82
MA0017.1 1.29577e-7
MA0018.2 4.22184e-7
MA0019.1 0.459
MA0024.1 0.0168
MA0025.1 0.0654
MA0027.1 0.477
MA0028.1 0.173
MA0029.1 0.527
MA0030.1 0.99
MA0031.1 0.212
MA0035.2 0.00208
MA0038.1 0.254
MA0039.2 0.634
MA0040.1 0.571
MA0041.1 0.507
MA0042.1 0.683
MA0043.1 0.00182
MA0046.1 7.05802e-16
MA0047.2 0.00216
MA0048.1 0.0156
MA0050.1 6.74244e-4
MA0051.1 4.82479e-4
MA0052.1 0.0026
MA0055.1 0.255
MA0057.1 0.359
MA0058.1 0.939
MA0059.1 0.269
MA0060.1 0.0692
MA0061.1 0.0064
MA0062.2 0.114
MA0065.2 5.65108e-7
MA0066.1 8.73688e-4
MA0067.1 0.281
MA0068.1 0.687
MA0069.1 0.149
MA0070.1 0.346
MA0071.1 0.316
MA0072.1 0.776
MA0073.1 0.901
MA0074.1 0.126
MA0076.1 0.0226
MA0077.1 0.186
MA0078.1 0.046
MA0079.2 0.421
MA0080.2 1.04429e-6
MA0081.1 0.356
MA0083.1 9.3265e-4
MA0084.1 0.925
MA0087.1 0.959
MA0088.1 0.811
MA0090.1 0.138
MA0091.1 0.42
MA0092.1 0.294
MA0093.1 0.881
MA0099.2 0.134
MA0100.1 0.742
MA0101.1 0.0941
MA0102.2 0.804
MA0103.1 0.133
MA0104.2 0.548
MA0105.1 2.80736e-5
MA0106.1 0.255
MA0107.1 0.0421
MA0108.2 6.84254e-6
MA0111.1 0.619
MA0112.2 1.47088e-4
MA0113.1 0.824
MA0114.1 9.69309e-7
MA0115.1 1.56764e-4
MA0116.1 0.0143
MA0117.1 0.0539
MA0119.1 0.0131
MA0122.1 0.921
MA0124.1 0.71
MA0125.1 0.236
MA0131.1 0.938
MA0135.1 0.949
MA0136.1 5.74049e-4
MA0137.2 0.214
MA0138.2 0.0148
MA0139.1 0.404
MA0140.1 0.00144
MA0141.1 0.0118
MA0142.1 0.197
MA0143.1 0.335
MA0144.1 0.842
MA0145.1 0.425
MA0146.1 0.454
MA0147.1 0.395
MA0148.1 0.029
MA0149.1 0.577
MA0150.1 0.385
MA0152.1 0.909
MA0153.1 1.71571e-12
MA0154.1 0.0103
MA0155.1 0.0861
MA0156.1 0.455
MA0157.1 0.503
MA0159.1 0.0225
MA0160.1 0.107
MA0162.1 0.015
MA0163.1 8.5232e-4
MA0164.1 0.563
MA0258.1 0.00573
MA0259.1 0.743



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: CNhs10493

Novel motif P-value
1 0.147
10 0.0578
100 0.743
101 0.912
102 0.593
103 0.39
104 0.681
105 0.162
106 6.11841e-4
107 0.00602
108 0.454
109 0.109
11 0.167
110 0.0563
111 0.99
112 0.219
113 0.699
114 0.902
115 0.258
116 0.0274
117 0.0513
118 0.704
119 0.251
12 0.739
120 0.76
121 0.775
122 0.0619
123 0.458
124 0.571
125 0.29
126 0.237
127 0.0347
128 0.0178
129 0.776
13 0.00326
130 0.555
131 0.518
132 0.717
133 0.528
134 0.755
135 0.837
136 0.842
137 0.608
138 0.142
139 0.442
14 0.692
140 0.752
141 0.951
142 0.298
143 0.04
144 0.826
145 0.00966
146 0.616
147 0.765
148 0.293
149 0.473
15 0.255
150 0.0662
151 0.856
152 0.219
153 0.564
154 0.936
155 0.262
156 0.00791
157 0.386
158 0.677
159 0.0629
160 0.0797
161 0.58
162 0.674
163 0.831
164 0.252
165 0.0563
166 0.258
167 0.945
168 0.719
169 0.00384
17 0.247
18 0.5
19 0.096
2 0.59
20 0.59
21 0.331
22 0.186
23 0.382
24 0.215
25 0.82
26 9.54292e-4
27 0.727
28 0.829
29 0.19
3 0.276
30 0.778
31 0.923
32 0.0242
33 0.518
34 0.223
35 0.702
36 0.769
37 0.121
38 0.517
39 0.323
4 0.101
40 0.406
41 0.127
42 0.435
43 0.0863
44 0.238
45 0.403
46 0.0584
47 0.859
48 0.28
49 0.206
5 0.0498
50 0.298
51 0.583
52 0.0646
53 0.88
54 0.417
55 0.136
56 0.686
57 0.3
58 0.55
59 0.0171
6 0.487
60 0.0155
61 0.235
62 0.208
63 0.154
64 0.705
65 0.177
66 0.531
67 0.789
68 0.542
69 0.256
7 0.0963
70 0.788
71 0.00307
72 0.669
73 0.195
74 0.227
75 0.152
76 0.995
77 0.0803
78 2.62307e-4
79 0.853
8 0.0601
80 0.454
81 0.527
82 0.334
83 0.129
84 0.347
85 0.179
86 0.315
87 0.813
88 0.634
89 0.801
9 0.446
90 0.44
91 0.0659
92 0.176
93 0.203
94 0.59
95 0.249
96 0.546
97 0.328
98 0.937
99 0.0918



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: CNhs10493


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)
0007023 (adult organism)
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)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011303 (mouse pituitary gland- adult 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)