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FF:12164-128H4

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Name:MC1+Gr1+ myeloid-derived suppressor cells control, donor3 (0128 PBS)
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
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
Download raw sequence, BAM & CTSS
Mm9
BAMCTSS
[{{{mm9bam}}} download][{{{mm9ctss}}} donwload]
Mm10
BAMCTSS
[{{{mm10bam}}} download][{{{mm10ctss}}} donwload]





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

CNhs12543

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 1.149
1006 --0.143
1007 --0.0702
1008 0
1009 --0.2
101 --0.32
1010 0
1011 --0.0992
1012 0
1013 --0.101
1014 --0.0874
1015 --0.303
1016 --0.594
1017 0
1018 0
1019 0
102 0
1020 0
1021 --0.0487
1022 --0.315
1023 0.535
1024 --0.14
1025 --0.0611
1026 0
1027 --0.048
1028 0
1029 --0.115
103 --0.0861
1030 0
1031 --0.911
1032 --0.831
1033 0.105
1034 0
1035 0
1036 0.0567
1037 0
1038 --0.545
1039 --0.549
104 0
1040 --0.436
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
no result for this sample


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: CNhs12543

Jaspar motif P-value
MA0002.2 1.40588e-12
MA0003.1 0.993
MA0004.1 0.559
MA0006.1 0.208
MA0007.1 0.6
MA0009.1 0.69
MA0014.1 0.176
MA0017.1 0.413
MA0018.2 0.196
MA0019.1 0.978
MA0024.1 0.244
MA0025.1 0.0922
MA0027.1 0.799
MA0028.1 1.44214e-5
MA0029.1 0.794
MA0030.1 0.913
MA0031.1 0.0594
MA0035.2 0.631
MA0038.1 0.112
MA0039.2 0.0281
MA0040.1 0.119
MA0041.1 0.497
MA0042.1 0.702
MA0043.1 3.4197e-4
MA0046.1 1.50869e-9
MA0047.2 0.0993
MA0048.1 0.152
MA0050.1 8.18985e-6
MA0051.1 1.7031e-4
MA0052.1 0.0052
MA0055.1 0.207
MA0057.1 0.931
MA0058.1 0.796
MA0059.1 0.391
MA0060.1 0.101
MA0061.1 0.0134
MA0062.2 2.68204e-20
MA0065.2 0.23
MA0066.1 0.135
MA0067.1 0.0176
MA0068.1 0.801
MA0069.1 0.567
MA0070.1 0.413
MA0071.1 0.245
MA0072.1 0.119
MA0073.1 0.728
MA0074.1 0.576
MA0076.1 2.01371e-6
MA0077.1 0.102
MA0078.1 0.835
MA0079.2 0.554
MA0080.2 1.12155e-15
MA0081.1 1.84152e-4
MA0083.1 0.781
MA0084.1 0.793
MA0087.1 0.382
MA0088.1 0.866
MA0090.1 0.0295
MA0091.1 0.806
MA0092.1 0.476
MA0093.1 0.564
MA0099.2 0.00344
MA0100.1 0.0451
MA0101.1 0.0228
MA0102.2 4.9213e-10
MA0103.1 0.689
MA0104.2 0.0861
MA0105.1 3.49701e-4
MA0106.1 0.853
MA0107.1 0.0195
MA0108.2 0.00768
MA0111.1 0.725
MA0112.2 0.00114
MA0113.1 0.567
MA0114.1 0.961
MA0115.1 0.315
MA0116.1 0.00131
MA0117.1 0.171
MA0119.1 0.498
MA0122.1 0.603
MA0124.1 0.855
MA0125.1 0.0241
MA0131.1 0.631
MA0135.1 0.775
MA0136.1 1.29359e-30
MA0137.2 0.101
MA0138.2 0.197
MA0139.1 0.493
MA0140.1 0.87
MA0141.1 0.272
MA0142.1 0.218
MA0143.1 0.109
MA0144.1 0.0969
MA0145.1 0.202
MA0146.1 0.0354
MA0147.1 0.0635
MA0148.1 0.262
MA0149.1 0.33
MA0150.1 1.67541e-5
MA0152.1 0.615
MA0153.1 0.00803
MA0154.1 0.0373
MA0155.1 0.856
MA0156.1 4.48485e-28
MA0157.1 0.221
MA0159.1 0.017
MA0160.1 0.198
MA0162.1 0.482
MA0163.1 0.0262
MA0164.1 0.539
MA0258.1 0.00756
MA0259.1 0.474



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: CNhs12543

Novel motif P-value
1 0.188
10 0.0603
100 0.612
101 0.716
102 0.319
103 0.2
104 0.713
105 0.489
106 0.0611
107 0.579
108 0.923
109 0.0518
11 0.0741
110 0.228
111 0.579
112 0.0345
113 0.87
114 0.0864
115 0.894
116 0.977
117 2.76422e-4
118 0.475
119 0.447
12 0.437
120 0.0431
121 0.575
122 0.388
123 0.367
124 0.845
125 0.16
126 0.497
127 0.221
128 0.0989
129 0.451
13 0.0852
130 0.474
131 0.701
132 0.852
133 0.0897
134 0.947
135 0.287
136 0.409
137 0.0688
138 0.283
139 0.0331
14 0.318
140 0.762
141 0.697
142 0.0537
143 0.00117
144 0.771
145 0.129
146 0.909
147 0.649
148 0.184
149 0.964
15 0.0377
150 0.394
151 0.179
152 0.245
153 0.215
154 0.778
155 0.435
156 0.00609
157 0.798
158 0.027
159 0.623
160 0.851
161 0.109
162 0.631
163 0.271
164 0.0259
165 0.138
166 0.656
167 0.722
168 0.214
169 0.0118
17 0.175
18 0.165
19 0.476
2 0.335
20 0.0539
21 0.458
22 0.348
23 0.257
24 0.186
25 0.264
26 0.199
27 0.731
28 0.0835
29 0.0201
3 0.0587
30 0.521
31 0.68
32 0.709
33 0.241
34 0.868
35 0.587
36 0.178
37 0.0745
38 0.354
39 0.898
4 0.779
40 0.254
41 0.0123
42 0.277
43 0.131
44 0.797
45 0.768
46 0.354
47 0.326
48 0.215
49 0.102
5 0.0935
50 0.791
51 0.864
52 0.883
53 0.555
54 0.684
55 0.489
56 0.209
57 0.861
58 0.189
59 0.445
6 0.708
60 0.187
61 0.19
62 0.101
63 0.6
64 0.657
65 0.312
66 0.592
67 0.18
68 0.992
69 0.625
7 0.136
70 0.0394
71 0.0692
72 0.171
73 0.0446
74 0.121
75 0.00371
76 0.156
77 0.984
78 0.113
79 0.829
8 0.373
80 0.0366
81 0.511
82 0.4
83 0.788
84 0.925
85 0.165
86 0.089
87 0.197
88 0.468
89 0.77
9 0.483
90 0.106
91 0.45
92 0.478
93 0.389
94 0.0652
95 0.0115
96 0.845
97 0.914
98 0.348
99 0.221



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: CNhs12543


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)
0000034 (stem cell)
0000048 (multi fate stem cell)
0000355 (multi-potent skeletal muscle stem cell)
0000723 (somatic stem cell)
0002371 (somatic cell)

UBERON: Anatomy
0000061 (anatomical structure)
0000119 (cell layer)
0000383 (musculature of body)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000475 (organism subdivision)
0000479 (tissue)
0000480 (anatomical group)
0000481 (multi-tissue structure)
0000483 (epithelium)
0000486 (multilaminar epithelium)
0000490 (unilaminar epithelium)
0000922 (embryo)
0000923 (germ layer)
0000926 (mesoderm)
0001015 (musculature)
0001062 (anatomical entity)
0001134 (skeletal muscle tissue)
0002036 (striated muscle tissue)
0002050 (embryonic structure)
0002204 (musculoskeletal system)
0002329 (somite)
0002385 (muscle tissue)
0002532 (epiblast (generic))
0003059 (presomitic mesoderm)
0003077 (paraxial mesoderm)
0003082 (myotome)
0003104 (mesenchyme)
0004120 (mesoderm-derived structure)
0004290 (dermomyotome)
0005291 (embryonic tissue)
0005423 (developing anatomical structure)
0009142 (entire embryonic mesenchyme)

FF: FANTOM5
NA

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