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FF:11746-123F9

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Name:Schwann, donor2
Species:Mouse (Mus musculus)
Library ID:CNhs12573
Sample type:primary cells
Genomic View: UCSC
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 number4232
catalog numberM4100
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

Accession numbers
MethodSample accession id
CAGE  DRS008743
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12573 CAGE DRX008853 DRR009725
Accession ID Mm9

Library idBAMCTSS
CNhs12573 DRZ001150 DRZ002535
Download raw sequence, BAM & CTSS
Mm9
BAMCTSS
[{{{mm9bam}}} download][{{{mm9ctss}}} donwload]
Mm10
BAMCTSS
[{{{mm10bam}}} download][{{{mm10ctss}}} donwload]


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

CNhs12573

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0.0316
10 0
100 0
1000 0
1001 --0.0286
1002 0.0101
1003 --0.151
1004 0
1005 --0.0389
1006 0.0316
1007 --0.0466
1008 0
1009 --0.129
101 0.027
1010 0
1011 --0.132
1012 0
1013 0.0119
1014 --0.0535
1015 --0.0463
1016 0.079
1017 0
1018 0
1019 0
102 0
1020 0.0316
1021 0.0887
1022 --0.315
1023 0
1024 0
1025 0
1026 0
1027 0.157
1028 0
1029 --0.116
103 --0.0578
1030 0
1031 0.0976
1032 0.321
1033 --0.0197
1034 0
1035 0.0202
1036 --0.018
1037 0
1038 0.013
1039 --0.28
104 0
1040 --0.00617
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: CNhs12573

Jaspar motif P-value
MA0002.2 0.497
MA0003.1 0.648
MA0004.1 0.623
MA0006.1 0.801
MA0007.1 0.146
MA0009.1 0.0119
MA0014.1 0.0651
MA0017.1 1.26118e-5
MA0018.2 2.72458e-5
MA0019.1 0.749
MA0024.1 0.109
MA0025.1 0.314
MA0027.1 0.108
MA0028.1 0.0202
MA0029.1 0.757
MA0030.1 0.232
MA0031.1 0.486
MA0035.2 0.00131
MA0038.1 0.0432
MA0039.2 0.00671
MA0040.1 0.899
MA0041.1 0.389
MA0042.1 0.73
MA0043.1 0.173
MA0046.1 5.39693e-16
MA0047.2 0.00144
MA0048.1 0.342
MA0050.1 0.0787
MA0051.1 0.482
MA0052.1 0.797
MA0055.1 0.0359
MA0057.1 0.379
MA0058.1 0.128
MA0059.1 0.371
MA0060.1 0.00636
MA0061.1 0.0617
MA0062.2 0.0101
MA0065.2 0.00249
MA0066.1 0.366
MA0067.1 0.0139
MA0068.1 0.285
MA0069.1 0.0958
MA0070.1 0.939
MA0071.1 0.144
MA0072.1 0.18
MA0073.1 0.732
MA0074.1 0.236
MA0076.1 0.0291
MA0077.1 0.0884
MA0078.1 0.0207
MA0079.2 0.194
MA0080.2 0.017
MA0081.1 0.512
MA0083.1 0.0846
MA0084.1 0.626
MA0087.1 0.354
MA0088.1 0.122
MA0090.1 0.573
MA0091.1 0.585
MA0092.1 0.737
MA0093.1 0.496
MA0099.2 2.97131e-19
MA0100.1 0.432
MA0101.1 0.805
MA0102.2 0.568
MA0103.1 5.28631e-7
MA0104.2 0.799
MA0105.1 1.11067e-5
MA0106.1 0.056
MA0107.1 0.838
MA0108.2 0.227
MA0111.1 0.131
MA0112.2 6.02138e-4
MA0113.1 0.863
MA0114.1 7.90889e-5
MA0115.1 0.0852
MA0116.1 6.53325e-4
MA0117.1 0.408
MA0119.1 0.102
MA0122.1 0.401
MA0124.1 0.866
MA0125.1 0.696
MA0131.1 0.245
MA0135.1 0.838
MA0136.1 0.12
MA0137.2 0.0251
MA0138.2 0.0405
MA0139.1 0.00264
MA0140.1 0.00341
MA0141.1 0.0112
MA0142.1 0.618
MA0143.1 0.462
MA0144.1 0.573
MA0145.1 0.858
MA0146.1 0.868
MA0147.1 0.409
MA0148.1 2.28806e-4
MA0149.1 0.0563
MA0150.1 0.0129
MA0152.1 0.655
MA0153.1 1.4627e-9
MA0154.1 0.0227
MA0155.1 0.11
MA0156.1 0.55
MA0157.1 0.472
MA0159.1 0.105
MA0160.1 0.303
MA0162.1 0.948
MA0163.1 8.92049e-4
MA0164.1 0.671
MA0258.1 0.00878
MA0259.1 0.981



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: CNhs12573

Novel motif P-value
1 0.324
10 0.192
100 0.809
101 0.0445
102 0.838
103 0.0463
104 0.773
105 0.397
106 0.0488
107 0.0552
108 0.855
109 0.323
11 0.353
110 0.317
111 0.274
112 0.133
113 0.507
114 0.0757
115 0.441
116 0.763
117 0.607
118 0.507
119 0.0424
12 0.942
120 0.651
121 0.733
122 0.191
123 0.185
124 0.687
125 0.843
126 0.00916
127 0.229
128 0.0421
129 0.841
13 0.33
130 0.319
131 0.845
132 0.147
133 0.99
134 0.404
135 0.377
136 0.553
137 0.731
138 0.737
139 0.164
14 0.509
140 0.741
141 0.0497
142 0.574
143 0.616
144 0.37
145 0.0961
146 0.558
147 0.288
148 0.6
149 0.397
15 0.849
150 0.89
151 0.68
152 0.83
153 0.32
154 0.813
155 0.801
156 0.00133
157 0.599
158 0.516
159 0.00185
160 0.0116
161 0.883
162 0.508
163 0.266
164 0.27
165 0.939
166 0.819
167 0.791
168 0.112
169 0.199
17 0.183
18 0.615
19 0.149
2 0.289
20 0.513
21 0.952
22 0.552
23 0.201
24 0.782
25 0.826
26 0.0537
27 0.0997
28 0.889
29 0.584
3 0.12
30 0.562
31 0.669
32 0.203
33 0.995
34 0.327
35 0.0174
36 0.387
37 0.855
38 0.438
39 0.999
4 0.507
40 0.445
41 0.366
42 0.189
43 0.319
44 0.338
45 0.702
46 0.0375
47 0.502
48 0.324
49 0.284
5 0.518
50 0.984
51 0.563
52 0.401
53 0.462
54 0.722
55 0.945
56 0.68
57 0.313
58 0.148
59 0.0739
6 0.525
60 0.168
61 0.416
62 0.0953
63 0.42
64 0.19
65 0.381
66 0.144
67 0.279
68 0.0404
69 0.908
7 0.194
70 0.0819
71 0.0982
72 0.741
73 0.821
74 0.73
75 0.171
76 0.847
77 0.341
78 0.475
79 0.71
8 0.218
80 0.82
81 0.622
82 0.00545
83 0.508
84 0.921
85 0.261
86 0.271
87 0.0197
88 0.711
89 0.149
9 0.339
90 0.813
91 0.261
92 0.212
93 0.829
94 0.874
95 0.509
96 0.0814
97 0.213
98 0.164
99 0.171



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: CNhs12573


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)