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FF:11633-122C4

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Name:Mouse Astrocytes, donor3
Species:Mouse (Mus musculus)
Library ID:CNhs12107
Sample type:primary cells
Genomic View: UCSC
MicroRNAs:Including candidate novel miRNAs(CAGE samples)
Excluding candidate novel miRNAs(CAGE samples)
CAGEd-oPOSSUM:link
Additional information
Sample information
strainNA
tissuebrain
dev stageNA
sexNA
ageNA
cell typeastrocyte
cell lineNA
companySciencell/3H
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberlot:4657
catalog numbercustom
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

Accession numbers
MethodSample accession id
CAGE  SAMD00004918
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12107 CAGE DRX008812 DRR009684
Accession ID Mm9

Library idBAMCTSS
CNhs12107 DRZ001109 DRZ002494
Accession ID Mm10

Library idBAMCTSS
CNhs12107 DRZ012459 DRZ013844
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

CNhs12107

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.553
1001 --0.0631
1002 0.168
1003 0.3
1004 0
1005 --0.183
1006 --0.00807
1007 --0.466
1008 0
1009 --0.19
101 --0.555
1010 0
1011 --0.0513
1012 0
1013 0.0718
1014 0
1015 0.00735
1016 0.365
1017 0
1018 0
1019 0
102 0
1020 0.387
1021 0.179
1022 --0.029
1023 0
1024 --0.0899
1025 0
1026 0
1027 0
1028 0
1029 --0.176
103 0
1030 0
1031 0.514
1032 0.571
1033 --0.0665
1034 0
1035 0
1036 --0.183
1037 0
1038 --0.298
1039 0.163
104 0
1040 0.32
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: CNhs12107

Jaspar motif P-value
MA0002.2 0.0913
MA0003.1 0.198
MA0004.1 0.841
MA0006.1 0.442
MA0007.1 0.106
MA0009.1 0.87
MA0014.1 0.923
MA0017.1 0.58
MA0018.2 0.0242
MA0019.1 0.917
MA0024.1 0.00233
MA0025.1 0.238
MA0027.1 0.842
MA0028.1 5.28889e-4
MA0029.1 0.895
MA0030.1 0.558
MA0031.1 0.273
MA0035.2 0.376
MA0038.1 0.0936
MA0039.2 0.859
MA0040.1 0.309
MA0041.1 0.157
MA0042.1 0.587
MA0043.1 0.183
MA0046.1 4.37025e-4
MA0047.2 0.427
MA0048.1 0.624
MA0050.1 5.82335e-6
MA0051.1 1.82604e-4
MA0052.1 0.177
MA0055.1 0.553
MA0057.1 0.511
MA0058.1 0.94
MA0059.1 0.137
MA0060.1 0.487
MA0061.1 0.386
MA0062.2 3.92071e-9
MA0065.2 0.165
MA0066.1 0.235
MA0067.1 0.465
MA0068.1 0.644
MA0069.1 0.44
MA0070.1 0.696
MA0071.1 0.297
MA0072.1 0.764
MA0073.1 0.678
MA0074.1 0.194
MA0076.1 1.49376e-5
MA0077.1 0.0575
MA0078.1 0.0519
MA0079.2 0.643
MA0080.2 2.73016e-5
MA0081.1 0.0136
MA0083.1 0.885
MA0084.1 0.269
MA0087.1 0.45
MA0088.1 0.921
MA0090.1 0.00819
MA0091.1 0.954
MA0092.1 0.449
MA0093.1 0.979
MA0099.2 4.49846e-4
MA0100.1 0.796
MA0101.1 0.508
MA0102.2 0.0649
MA0103.1 0.98
MA0104.2 0.854
MA0105.1 0.13
MA0106.1 0.224
MA0107.1 0.335
MA0108.2 0.968
MA0111.1 0.27
MA0112.2 0.0378
MA0113.1 0.215
MA0114.1 0.875
MA0115.1 0.325
MA0116.1 0.0977
MA0117.1 0.221
MA0119.1 0.0352
MA0122.1 0.276
MA0124.1 0.833
MA0125.1 0.972
MA0131.1 0.19
MA0135.1 0.176
MA0136.1 2.47507e-7
MA0137.2 0.0428
MA0138.2 0.589
MA0139.1 0.644
MA0140.1 0.0207
MA0141.1 0.0252
MA0142.1 0.0374
MA0143.1 0.0491
MA0144.1 0.27
MA0145.1 0.152
MA0146.1 0.129
MA0147.1 0.563
MA0148.1 0.169
MA0149.1 0.198
MA0150.1 0.44
MA0152.1 0.46
MA0153.1 0.00832
MA0154.1 0.0941
MA0155.1 0.16
MA0156.1 2.62772e-11
MA0157.1 0.346
MA0159.1 0.159
MA0160.1 0.198
MA0162.1 0.122
MA0163.1 0.0421
MA0164.1 0.72
MA0258.1 0.0886
MA0259.1 0.483



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: CNhs12107

Novel motif P-value
1 0.652
10 0.852
100 0.556
101 0.72
102 0.818
103 0.944
104 0.474
105 1
106 0.0202
107 0.0856
108 0.492
109 0.0653
11 0.096
110 0.563
111 0.511
112 0.851
113 0.704
114 0.171
115 0.705
116 0.0107
117 0.512
118 0.477
119 0.799
12 0.914
120 0.677
121 0.761
122 0.154
123 0.347
124 0.802
125 0.68
126 0.896
127 0.631
128 0.0594
129 0.426
13 0.805
130 0.491
131 0.9
132 0.00909
133 0.108
134 0.915
135 0.0561
136 0.816
137 0.374
138 0.912
139 0.854
14 0.335
140 0.203
141 0.674
142 0.47
143 0.0529
144 0.944
145 0.407
146 0.908
147 0.86
148 0.761
149 0.324
15 0.706
150 0.393
151 0.634
152 0.0476
153 0.302
154 0.565
155 0.367
156 0.133
157 0.105
158 0.154
159 0.201
160 0.734
161 0.746
162 0.13
163 0.15
164 0.102
165 0.777
166 0.399
167 0.0495
168 0.567
169 0.161
17 0.35
18 0.228
19 0.159
2 0.195
20 0.795
21 0.115
22 0.137
23 0.0226
24 0.307
25 0.68
26 0.931
27 0.278
28 0.834
29 0.728
3 0.352
30 0.233
31 0.34
32 0.0348
33 0.78
34 0.117
35 0.688
36 0.986
37 0.157
38 0.389
39 0.238
4 0.288
40 0.367
41 0.197
42 0.346
43 0.273
44 0.103
45 0.306
46 0.916
47 0.394
48 0.695
49 0.612
5 0.623
50 0.259
51 0.798
52 0.125
53 0.982
54 0.876
55 0.205
56 0.219
57 0.07
58 0.612
59 0.0176
6 0.488
60 0.086
61 0.766
62 0.841
63 0.0187
64 0.172
65 0.055
66 0.613
67 0.297
68 0.728
69 0.251
7 0.971
70 0.0385
71 0.315
72 0.997
73 0.0776
74 0.892
75 0.879
76 0.292
77 0.00951
78 0.0711
79 0.992
8 0.0297
80 0.442
81 0.313
82 0.573
83 0.891
84 0.268
85 0.00419
86 0.972
87 0.0718
88 0.115
89 0.601
9 0.843
90 0.67
91 0.0863
92 0.856
93 0.456
94 0.736
95 0.04
96 0.823
97 0.967
98 0.0034
99 0.115



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: CNhs12107


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

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0002371 (somatic cell)
0002319 (neural cell)
0000095 (neuron associated cell)
0000243 (glial cell (sensu Vertebrata))
0000128 (oligodendrocyte)
0000126 (macroglial cell)
0000125 (glial cell)
0000255 (eukaryotic cell)
0000127 (astrocyte)

UBERON: Anatomy
0000468 (multi-cellular organism)
0004121 (ectoderm-derived structure)
0011216 (organ system subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0001017 (central nervous system)
0001016 (nervous system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000105 (mouse astrocyte 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

CL:0000133 (neurectodermal cell)
CL:0000339 (glioblast (sensu Vertebrata))
CL:0000221 (ectodermal cell)