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FF:11728-123D9

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Name:Schwann, donor1
Species:Mouse (Mus musculus)
Library ID:CNhs12507
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
tissueperipheral nervous system
dev stageNA
sexNA
ageNA
cell typeschwann cell
cell lineNA
companySciencell/3H
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot number3481
catalog numberM4100
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

Accession numbers
MethodSample accession id
CAGE  SAMD00004908
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12507 CAGE DRX008852 DRR009724
Accession ID Mm9

Library idBAMCTSS
CNhs12507 DRZ001149 DRZ002534
Accession ID Mm10

Library idBAMCTSS
CNhs12507 DRZ012499 DRZ013884
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

CNhs12507

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 --0.0355
1001 --0.0749
1002 --0.0166
1003 --0.139
1004 0
1005 0
1006 --0.0354
1007 --0.0379
1008 0
1009 --0.0751
101 0.242
1010 0
1011 --0.152
1012 0
1013 --0.0322
1014 0
1015 0.0721
1016 --0.0508
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0317
1022 --0.315
1023 0.0317
1024 --0.216
1025 --0.0294
1026 0
1027 0.0436
1028 0
1029 --0.151
103 --0.057
1030 0
1031 --0.283
1032 0.0523
1033 0
1034 0
1035 0
1036 0.1
1037 0
1038 0.0314
1039 --0.208
104 0
1040 --0.0865
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: CNhs12507

Jaspar motif P-value
MA0002.2 0.422
MA0003.1 0.421
MA0004.1 0.0101
MA0006.1 0.276
MA0007.1 0.0181
MA0009.1 0.134
MA0014.1 0.222
MA0017.1 0.0152
MA0018.2 1.5743e-5
MA0019.1 0.304
MA0024.1 0.074
MA0025.1 0.349
MA0027.1 0.313
MA0028.1 5.72349e-9
MA0029.1 0.384
MA0030.1 0.261
MA0031.1 0.571
MA0035.2 0.147
MA0038.1 0.615
MA0039.2 0.277
MA0040.1 0.987
MA0041.1 0.564
MA0042.1 0.625
MA0043.1 0.134
MA0046.1 5.12592e-14
MA0047.2 0.0139
MA0048.1 0.0615
MA0050.1 0.167
MA0051.1 0.551
MA0052.1 0.535
MA0055.1 3.52517e-4
MA0057.1 0.122
MA0058.1 3.27512e-5
MA0059.1 0.0373
MA0060.1 1.43335e-7
MA0061.1 0.812
MA0062.2 9.11733e-14
MA0065.2 0.19
MA0066.1 0.981
MA0067.1 8.88067e-4
MA0068.1 0.384
MA0069.1 0.172
MA0070.1 0.412
MA0071.1 0.925
MA0072.1 0.793
MA0073.1 0.42
MA0074.1 0.659
MA0076.1 1.51099e-9
MA0077.1 0.34
MA0078.1 2.94448e-4
MA0079.2 0.126
MA0080.2 0.509
MA0081.1 0.231
MA0083.1 0.201
MA0084.1 0.492
MA0087.1 0.336
MA0088.1 0.103
MA0090.1 0.26
MA0091.1 0.791
MA0092.1 0.732
MA0093.1 0.00981
MA0099.2 5.86959e-25
MA0100.1 0.513
MA0101.1 0.0644
MA0102.2 0.939
MA0103.1 2.59116e-4
MA0104.2 0.00366
MA0105.1 0.0196
MA0106.1 0.183
MA0107.1 0.0978
MA0108.2 0.00812
MA0111.1 0.185
MA0112.2 0.213
MA0113.1 0.203
MA0114.1 0.00197
MA0115.1 0.746
MA0116.1 0.00979
MA0117.1 0.0857
MA0119.1 0.251
MA0122.1 0.243
MA0124.1 0.821
MA0125.1 0.21
MA0131.1 0.0676
MA0135.1 0.4
MA0136.1 0.00211
MA0137.2 0.00966
MA0138.2 0.023
MA0139.1 0.0145
MA0140.1 0.111
MA0141.1 0.721
MA0142.1 0.733
MA0143.1 0.686
MA0144.1 0.195
MA0145.1 0.754
MA0146.1 0.666
MA0147.1 0.00759
MA0148.1 0.0022
MA0149.1 0.0038
MA0150.1 2.9413e-6
MA0152.1 0.33
MA0153.1 1.01511e-7
MA0154.1 0.2
MA0155.1 0.0944
MA0156.1 3.0797e-4
MA0157.1 0.674
MA0159.1 0.792
MA0160.1 0.432
MA0162.1 0.831
MA0163.1 0.0495
MA0164.1 0.545
MA0258.1 0.699
MA0259.1 0.0526



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: CNhs12507

Novel motif P-value
1 0.968
10 0.947
100 0.895
101 0.0323
102 0.534
103 0.114
104 0.61
105 0.531
106 0.405
107 0.095
108 0.81
109 0.952
11 0.839
110 0.733
111 0.353
112 0.633
113 0.725
114 0.307
115 0.674
116 0.939
117 0.205
118 0.595
119 0.381
12 0.906
120 0.544
121 0.432
122 0.168
123 0.7
124 0.301
125 0.53
126 0.45
127 0.0508
128 0.246
129 0.335
13 0.672
130 0.0597
131 0.712
132 0.0853
133 0.766
134 0.158
135 0.0216
136 0.226
137 0.974
138 0.878
139 0.112
14 0.353
140 0.377
141 0.228
142 0.866
143 0.199
144 0.862
145 0.654
146 0.558
147 0.248
148 0.595
149 0.649
15 0.126
150 0.529
151 0.771
152 0.775
153 0.731
154 0.954
155 0.584
156 2.06401e-8
157 0.786
158 0.218
159 0.0176
160 0.00299
161 0.835
162 0.274
163 0.454
164 0.95
165 0.728
166 0.0498
167 0.362
168 0.0853
169 0.54
17 0.902
18 0.133
19 0.134
2 0.0538
20 0.0181
21 0.699
22 0.54
23 0.0818
24 0.942
25 0.774
26 0.946
27 0.0198
28 0.755
29 0.216
3 0.844
30 0.223
31 0.768
32 0.155
33 0.844
34 0.192
35 0.365
36 0.152
37 0.156
38 0.53
39 0.979
4 0.958
40 0.398
41 0.0629
42 0.562
43 0.74
44 0.949
45 0.641
46 0.611
47 0.886
48 0.885
49 0.722
5 0.529
50 0.793
51 0.689
52 0.211
53 0.203
54 0.804
55 0.797
56 0.751
57 0.637
58 0.454
59 0.186
6 0.396
60 0.495
61 0.713
62 0.673
63 0.998
64 0.355
65 0.436
66 0.499
67 0.397
68 0.926
69 0.884
7 0.754
70 0.0607
71 0.964
72 0.903
73 0.133
74 0.52
75 0.933
76 0.0233
77 0.82
78 0.616
79 0.638
8 0.468
80 0.952
81 0.582
82 0.134
83 0.03
84 0.928
85 0.742
86 0.752
87 0.0249
88 0.753
89 0.67
9 0.263
90 0.36
91 0.31
92 0.522
93 0.97
94 0.755
95 0.0164
96 0.245
97 0.545
98 0.162
99 0.0836



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: CNhs12507


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))
0000325 (stuff accumulating cell)
0000215 (barrier cell)
0000630 (supportive cell)
0000217 (insulating cell)
0000328 (myelin accumulating cell)
0002573 (Schwann cell)
0000125 (glial cell)
0000255 (eukaryotic cell)
0002376 (non-myelinating Schwann cell)
0000218 (myelinating Schwann cell;;Schwann cell)
0000692 (terminal Schwann cell)
0002377 (immature Schwann cell)

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)
0000010 (peripheral 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)
0000116 (mouse Schwann cell 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)