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FF:12162-128H2

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Name:MC1+Gr1+ myeloid-derived suppressor cells control, donor2 (0127 PBS)
Species:Mouse (Mus musculus)
Library ID:CNhs12541
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
tissuebone marrow
dev stageNA
sexNA
ageNA
cell typestem cell
cell lineNA
companyNA
collaborationHozumi Motohashi (Tohoku University Graduate School of Medicine)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typetotal RNA
extraction protocol (Details)NA

Accession numbers
MethodSample accession id
CAGE  SAMD00004836
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12541 CAGE DRX008776 DRR009648
Accession ID Mm9

Library idBAMCTSS
CNhs12541 DRZ001073 DRZ002458
Accession ID Mm10

Library idBAMCTSS
CNhs12541 DRZ012423 DRZ013808
Download raw sequence, BAM & CTSS
Mm9
FastaBAMCTSS
downloaddownloaddonwload
Mm10
BAMCTSS
downloaddonwload


Relative expression to median (log10)


Transcription factors with enriched expression in this sample
Ranked 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 sample
Ranked 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

CNhs12541

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 -0.0355
1001 -0.0749
1002 -0.116
1003 -0.175
1004 0
1005 1.123
1006 -0.143
1007 -0.0237
1008 0
1009 -0.2
101 -0.449
1010 0
1011 -0.108
1012 0
1013 -0.0308
1014 -0.0874
1015 -0.328
1016 -0.594
1017 0
1018 0
1019 0
102 0
1020 0
1021 -0.0487
1022 -0.315
1023 0.811
1024 -0.0899
1025 -0.0611
1026 0
1027 -0.048
1028 0
1029 -0.115
103 -0.0887
1030 0
1031 -0.911
1032 -0.951
1033 -0.0665
1034 0
1035 0
1036 0.0433
1037 0
1038 -0.612
1039 -0.595
104 0
1040 -0.333
1041 0



Repeat families with enriched expression in this sample
Summary: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 motifs
Summary: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: CNhs12541
Jaspar motif P-value
MA0002.2 7.11289e-13
MA0003.1 0.88
MA0004.1 0.548
MA0006.1 0.216
MA0007.1 0.377
MA0009.1 0.672
MA0014.1 0.242
MA0017.1 0.34
MA0018.2 0.0637
MA0019.1 0.718
MA0024.1 0.208
MA0025.1 0.0203
MA0027.1 0.657
MA0028.1 9.84036e-4
MA0029.1 0.612
MA0030.1 0.855
MA0031.1 0.0304
MA0035.2 0.613
MA0038.1 0.0357
MA0039.2 0.0693
MA0040.1 0.0817
MA0041.1 0.351
MA0042.1 0.92
MA0043.1 1.37283e-4
MA0046.1 4.89705e-10
MA0047.2 0.0341
MA0048.1 0.197
MA0050.1 5.86115e-5
MA0051.1 9.88993e-4
MA0052.1 0.0359
MA0055.1 0.261
MA0057.1 0.833
MA0058.1 0.726
MA0059.1 0.441
MA0060.1 0.0608
MA0061.1 0.00546
MA0062.2 1.10006e-15
MA0065.2 0.18
MA0066.1 0.0947
MA0067.1 0.0096
MA0068.1 0.19
MA0069.1 0.486
MA0070.1 0.23
MA0071.1 0.221
MA0072.1 0.0867
MA0073.1 0.705
MA0074.1 0.475
MA0076.1 5.51876e-4
MA0077.1 0.151
MA0078.1 0.759
MA0079.2 0.378
MA0080.2 7.90603e-16
MA0081.1 2.124e-4
MA0083.1 0.833
MA0084.1 0.798
MA0087.1 0.431
MA0088.1 0.696
MA0090.1 0.0482
MA0091.1 0.724
MA0092.1 0.498
MA0093.1 0.539
MA0099.2 0.00144
MA0100.1 0.061
MA0101.1 0.0295
MA0102.2 1.12191e-9
MA0103.1 0.725
MA0104.2 0.0567
MA0105.1 4.9047e-5
MA0106.1 0.719
MA0107.1 0.0094
MA0108.2 0.0571
MA0111.1 0.469
MA0112.2 3.44388e-4
MA0113.1 0.348
MA0114.1 0.835
MA0115.1 0.443
MA0116.1 7.67015e-4
MA0117.1 0.109
MA0119.1 0.441
MA0122.1 0.564
MA0124.1 0.738
MA0125.1 0.0224
MA0131.1 0.807
MA0135.1 0.418
MA0136.1 8.83747e-30
MA0137.2 0.115
MA0138.2 0.146
MA0139.1 0.559
MA0140.1 0.914
MA0141.1 0.218
MA0142.1 0.136
MA0143.1 0.184
MA0144.1 0.129
MA0145.1 0.243
MA0146.1 0.0873
MA0147.1 0.0487
MA0148.1 0.103
MA0149.1 0.315
MA0150.1 8.40448e-6
MA0152.1 0.334
MA0153.1 0.00828
MA0154.1 0.0294
MA0155.1 0.895
MA0156.1 4.12708e-25
MA0157.1 0.0986
MA0159.1 0.0145
MA0160.1 0.212
MA0162.1 0.571
MA0163.1 0.0246
MA0164.1 0.648
MA0258.1 0.00517
MA0259.1 0.362



FANTOM5 phase1 novel unique motifs
Summary: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: CNhs12541
Novel motif P-value
1 0.172
10 0.0492
100 0.756
101 0.766
102 0.488
103 0.317
104 0.635
105 0.427
106 0.0339
107 0.623
108 0.855
109 0.0686
11 0.0897
110 0.251
111 0.527
112 0.0405
113 0.72
114 0.0611
115 0.797
116 0.954
117 7.35746e-4
118 0.461
119 0.328
12 0.499
120 0.0431
121 0.393
122 0.412
123 0.441
124 0.7
125 0.157
126 0.39
127 0.306
128 0.0848
129 0.35
13 0.113
130 0.623
131 0.935
132 0.827
133 0.0357
134 0.833
135 0.506
136 0.561
137 0.041
138 0.327
139 0.0519
14 0.295
140 0.657
141 0.571
142 0.00475
143 0.00204
144 0.791
145 0.123
146 0.882
147 0.748
148 0.158
149 0.917
15 0.0463
150 0.339
151 0.176
152 0.258
153 0.175
154 0.947
155 0.551
156 0.863
157 0.791
158 0.022
159 0.574
160 0.939
161 0.132
162 0.609
163 0.26
164 0.04
165 0.16
166 0.717
167 0.808
168 0.298
169 0.00918
17 0.172
18 0.131
19 0.41
2 0.403
20 0.0551
21 0.505
22 0.359
23 0.107
24 0.239
25 0.266
26 0.125
27 0.746
28 0.0973
29 0.026
3 0.0665
30 0.448
31 0.711
32 0.915
33 0.261
34 0.811
35 0.463
36 0.1
37 0.0863
38 0.294
39 0.823
4 0.639
40 0.176
41 0.0127
42 0.265
43 0.109
44 0.793
45 0.811
46 0.311
47 0.336
48 0.241
49 0.0764
5 0.131
50 0.675
51 0.736
52 0.927
53 0.805
54 0.633
55 0.629
56 0.26
57 0.709
58 0.178
59 0.468
6 0.781
60 0.225
61 0.269
62 0.0788
63 0.645
64 0.584
65 0.245
66 0.741
67 0.206
68 0.772
69 0.393
7 0.139
70 0.0492
71 0.053
72 0.27
73 0.042
74 0.0595
75 0.00481
76 0.213
77 0.935
78 0.11
79 0.874
8 0.466
80 0.0523
81 0.503
82 0.414
83 0.228
84 0.765
85 0.116
86 0.0657
87 0.278
88 0.533
89 0.722
9 0.508
90 0.154
91 0.466
92 0.393
93 0.235
94 0.0671
95 0.0217
96 0.777
97 0.94
98 0.331
99 0.128



de novo motifs identified by HOMER in promoters active in this sample
Summary:The result of HOMER in this sample is shown.
Analyst:NA

library id: CNhs12541


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)
0000003 (native cell)

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


NA