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FF:11708-123B7

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Name:Mouse Astrocytes - cerebellar, donor1
Species:Mouse (Mus musculus)
Library ID:CNhs13077
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
tissuecerebellum
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 numberRNA3928
catalog numbercustom
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

Accession numbers
MethodSample accession id
CAGE  SAMD00005734
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs13077 CAGE DRX008806 DRR009678
Accession ID Mm9

Library idBAMCTSS
CNhs13077 DRZ001103 DRZ002488
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

CNhs13077

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0.142
1001 --0.0749
1002 0
1003 0.438
1004 0.205
1005 0
1006 0.078
1007 --0.427
1008 0
1009 0.209
101 --0.533
1010 0
1011 0.0731
1012 0
1013 0.204
1014 0.0202
1015 0.197
1016 0.311
1017 0
1018 0
1019 0
102 0
1020 0.409
1021 0.251
1022 --0.131
1023 0
1024 --0.151
1025 0
1026 0
1027 --0.048
1028 0
1029 --0.176
103 0.527
1030 0
1031 1.046
1032 0.341
1033 0
1034 0
1035 0
1036 0.0682
1037 0
1038 --0.0473
1039 --0.118
104 0
1040 0.626
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: CNhs13077

Jaspar motif P-value
MA0002.2 0.357
MA0003.1 0.374
MA0004.1 0.563
MA0006.1 0.276
MA0007.1 0.0504
MA0009.1 0.265
MA0014.1 0.397
MA0017.1 0.146
MA0018.2 0.439
MA0019.1 0.204
MA0024.1 0.0414
MA0025.1 0.687
MA0027.1 0.287
MA0028.1 0.0793
MA0029.1 0.827
MA0030.1 0.619
MA0031.1 0.65
MA0035.2 0.0864
MA0038.1 0.00769
MA0039.2 0.264
MA0040.1 0.684
MA0041.1 0.278
MA0042.1 0.722
MA0043.1 0.756
MA0046.1 2.70179e-4
MA0047.2 0.377
MA0048.1 0.373
MA0050.1 0.305
MA0051.1 0.704
MA0052.1 0.0612
MA0055.1 0.0153
MA0057.1 0.487
MA0058.1 0.421
MA0059.1 0.731
MA0060.1 0.153
MA0061.1 0.271
MA0062.2 0.0151
MA0065.2 0.595
MA0066.1 0.905
MA0067.1 0.0234
MA0068.1 0.693
MA0069.1 0.444
MA0070.1 0.409
MA0071.1 0.733
MA0072.1 0.656
MA0073.1 0.691
MA0074.1 0.0469
MA0076.1 0.081
MA0077.1 0.0812
MA0078.1 0.761
MA0079.2 0.0171
MA0080.2 0.0556
MA0081.1 0.794
MA0083.1 0.00154
MA0084.1 0.741
MA0087.1 0.5
MA0088.1 0.492
MA0090.1 0.00271
MA0091.1 0.339
MA0092.1 0.357
MA0093.1 0.559
MA0099.2 0.124
MA0100.1 0.212
MA0101.1 0.603
MA0102.2 0.884
MA0103.1 6.18838e-4
MA0104.2 0.581
MA0105.1 0.41
MA0106.1 0.0309
MA0107.1 0.823
MA0108.2 0.706
MA0111.1 0.978
MA0112.2 0.178
MA0113.1 0.119
MA0114.1 0.295
MA0115.1 0.2
MA0116.1 0.196
MA0117.1 0.361
MA0119.1 0.296
MA0122.1 0.579
MA0124.1 0.252
MA0125.1 0.267
MA0131.1 0.177
MA0135.1 0.0319
MA0136.1 0.0324
MA0137.2 0.701
MA0138.2 0.118
MA0139.1 0.701
MA0140.1 0.00423
MA0141.1 0.575
MA0142.1 0.26
MA0143.1 0.93
MA0144.1 0.915
MA0145.1 0.04
MA0146.1 0.00473
MA0147.1 0.592
MA0148.1 0.146
MA0149.1 0.852
MA0150.1 0.404
MA0152.1 0.303
MA0153.1 1.47923e-4
MA0154.1 0.219
MA0155.1 0.244
MA0156.1 0.0035
MA0157.1 0.735
MA0159.1 0.56
MA0160.1 0.638
MA0162.1 0.188
MA0163.1 0.0467
MA0164.1 0.85
MA0258.1 0.61
MA0259.1 0.347



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: CNhs13077

Novel motif P-value
1 0.424
10 0.704
100 0.194
101 0.586
102 0.151
103 0.536
104 0.592
105 0.466
106 0.0759
107 0.752
108 0.439
109 0.00779
11 0.173
110 0.5
111 0.569
112 0.602
113 0.287
114 0.874
115 0.831
116 0.0272
117 0.59
118 0.609
119 0.615
12 0.795
120 0.596
121 0.815
122 0.445
123 0.527
124 0.128
125 0.407
126 0.572
127 0.596
128 0.439
129 0.718
13 0.623
130 0.596
131 0.665
132 0.51
133 0.683
134 0.91
135 0.791
136 0.0235
137 0.13
138 0.982
139 0.0478
14 0.9
140 0.272
141 0.619
142 0.142
143 0.173
144 0.495
145 0.577
146 0.523
147 0.43
148 0.801
149 0.0757
15 0.662
150 0.0895
151 0.924
152 0.00664
153 0.22
154 0.119
155 0.318
156 0.0485
157 0.635
158 0.082
159 0.283
160 0.876
161 0.384
162 0.716
163 0.714
164 0.113
165 0.481
166 0.783
167 0.0122
168 0.852
169 0.0819
17 0.282
18 0.508
19 0.227
2 0.0568
20 0.859
21 0.263
22 0.0313
23 0.582
24 0.237
25 0.0381
26 0.816
27 0.98
28 0.484
29 0.659
3 0.757
30 0.281
31 0.953
32 0.0437
33 0.982
34 0.158
35 0.684
36 0.237
37 0.0844
38 0.308
39 0.466
4 0.676
40 0.428
41 0.692
42 0.698
43 0.253
44 0.506
45 0.271
46 0.956
47 0.409
48 0.738
49 0.551
5 0.0787
50 0.0367
51 0.497
52 0.223
53 0.956
54 0.436
55 0.674
56 0.289
57 0.956
58 0.14
59 0.018
6 0.731
60 0.231
61 0.65
62 0.318
63 0.171
64 0.35
65 0.071
66 0.28
67 0.861
68 0.614
69 0.249
7 0.249
70 0.62
71 0.575
72 0.833
73 0.00123
74 0.652
75 0.564
76 0.523
77 0.0268
78 0.93
79 0.681
8 0.926
80 0.0989
81 0.419
82 0.808
83 0.494
84 0.817
85 0.155
86 0.712
87 0.00461
88 0.698
89 0.301
9 0.947
90 0.513
91 0.469
92 0.717
93 0.343
94 0.183
95 0.058
96 0.0848
97 0.559
98 0.238
99 0.776



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: CNhs13077


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)
0002603 (astrocyte of the cerebellum)

UBERON: Anatomy
0000468 (multi-cellular organism)
0000955 (brain)
0002037 (cerebellum)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0010314 (structure with developmental contribution from neural crest)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000063 (organ segment)
0000481 (multi-tissue structure)
0000073 (regional part of nervous system)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002680 (regional part of metencephalon)
0002616 (regional part of brain)
0004733 (segmental subdivision of hindbrain)
0004732 (segmental subdivision of nervous system)
0010317 (germ layer / neural crest derived structure)
0001017 (central nervous system)
0001016 (nervous system)
0001895 (metencephalon)
0002028 (hindbrain)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000105 (mouse astrocyte sample)
0000196 (mouse astrocyte of cerebellum 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)