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FF:11848-124I3

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Name:CD326+ enterocyte, pool1
Species:Mouse (Mus musculus)
Library ID:CNhs13542
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
strainBalb/c
tissueileum
dev stageadult
sexmale
ageNA
cell typeenterocyte
cell lineNA
companyNA
collaborationShinji Fukuda (RCAI)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberCont_Ep+_a
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

Accession numbers
MethodSample accession id
CAGE  SAMD00005789
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs13542 CAGE DRX008787 DRR009659
Accession ID Mm9

Library idBAMCTSS
CNhs13542 DRZ001084 DRZ002469
Accession ID Mm10

Library idBAMCTSS
CNhs13542 DRZ012434 DRZ013819
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

CNhs13542

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 0.115
1006 -0.395
1007 0.128
1008 1.174
1009 -0.19
101 -0.503
1010 0
1011 -0.337
1012 0
1013 0.301
1014 -0.0874
1015 -0.555
1016 -0.564
1017 0
1018 0.605
1019 0
102 0
1020 0
1021 0.205
1022 0
1023 0
1024 -0.307
1025 0
1026 0
1027 -0.048
1028 0
1029 -0.0989
103 -0.0887
1030 0
1031 -1.033
1032 0.767
1033 0.205
1034 0
1035 0
1036 -0.00185
1037 0
1038 0.403
1039 -0.177
104 0
1040 -0.567
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: CNhs13542
Jaspar motif P-value
MA0002.2 0.0196
MA0003.1 0.586
MA0004.1 0.766
MA0006.1 0.0307
MA0007.1 0.181
MA0009.1 0.0899
MA0014.1 0.0675
MA0017.1 8.69498e-42
MA0018.2 0.0201
MA0019.1 0.0853
MA0024.1 5.02691e-5
MA0025.1 0.266
MA0027.1 0.193
MA0028.1 0.171
MA0029.1 0.681
MA0030.1 0.167
MA0031.1 0.0331
MA0035.2 9.11225e-7
MA0038.1 0.409
MA0039.2 1.04471e-4
MA0040.1 0.0721
MA0041.1 0.138
MA0042.1 0.15
MA0043.1 0.456
MA0046.1 1.54514e-49
MA0047.2 0.0237
MA0048.1 0.179
MA0050.1 5.22759e-4
MA0051.1 2.93592e-6
MA0052.1 0.567
MA0055.1 0.236
MA0057.1 0.1
MA0058.1 0.729
MA0059.1 0.405
MA0060.1 0.881
MA0061.1 0.973
MA0062.2 0.00438
MA0065.2 3.63821e-19
MA0066.1 0.242
MA0067.1 0.315
MA0068.1 0.0446
MA0069.1 0.673
MA0070.1 0.275
MA0071.1 0.00306
MA0072.1 0.163
MA0073.1 0.625
MA0074.1 0.165
MA0076.1 0.173
MA0077.1 0.592
MA0078.1 0.823
MA0079.2 0.189
MA0080.2 0.0241
MA0081.1 0.625
MA0083.1 0.741
MA0084.1 0.233
MA0087.1 0.543
MA0088.1 0.67
MA0090.1 0.884
MA0091.1 0.0514
MA0092.1 0.998
MA0093.1 0.816
MA0099.2 7.13174e-7
MA0100.1 0.704
MA0101.1 0.418
MA0102.2 0.914
MA0103.1 1.34547e-6
MA0104.2 0.0323
MA0105.1 0.11
MA0106.1 0.834
MA0107.1 0.587
MA0108.2 0.159
MA0111.1 0.759
MA0112.2 0.0222
MA0113.1 0.507
MA0114.1 1.14884e-57
MA0115.1 1.23856e-18
MA0116.1 0.119
MA0117.1 0.113
MA0119.1 0.0818
MA0122.1 0.763
MA0124.1 0.485
MA0125.1 0.794
MA0131.1 0.94
MA0135.1 0.0381
MA0136.1 4.54542e-4
MA0137.2 0.555
MA0138.2 0.777
MA0139.1 0.557
MA0140.1 0.0159
MA0141.1 1.01921e-10
MA0142.1 0.0271
MA0143.1 0.0677
MA0144.1 0.054
MA0145.1 0.0131
MA0146.1 0.0718
MA0147.1 0.0283
MA0148.1 0.0212
MA0149.1 0.0242
MA0150.1 0.0349
MA0152.1 0.0623
MA0153.1 7.01368e-42
MA0154.1 0.44
MA0155.1 0.43
MA0156.1 0.00669
MA0157.1 0.501
MA0159.1 5.07436e-4
MA0160.1 1.27352e-7
MA0162.1 0.469
MA0163.1 0.611
MA0164.1 0.708
MA0258.1 0.0616
MA0259.1 0.617



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: CNhs13542
Novel motif P-value
1 0.264
10 0.433
100 0.649
101 0.9
102 0.646
103 0.833
104 0.735
105 0.371
106 0.12
107 0.435
108 0.447
109 0.347
11 0.259
110 0.505
111 0.0838
112 0.0401
113 0.185
114 0.0609
115 0.724
116 0.334
117 0.0417
118 0.556
119 0.245
12 0.701
120 0.777
121 0.439
122 0.941
123 0.0691
124 0.102
125 0.45
126 0.0647
127 0.486
128 0.256
129 0.511
13 8.34769e-6
130 0.569
131 0.974
132 0.42
133 0.224
134 0.895
135 0.0702
136 0.00809
137 0.402
138 0.234
139 0.211
14 0.685
140 0.758
141 0.687
142 0.504
143 0.143
144 0.309
145 0.461
146 0.482
147 0.795
148 0.959
149 0.436
15 0.221
150 0.369
151 0.828
152 0.0671
153 0.574
154 0.587
155 0.57
156 0.199
157 0.414
158 0.259
159 0.79
160 0.45
161 0.857
162 0.793
163 0.0879
164 0.234
165 0.92
166 0.451
167 0.852
168 0.681
169 0.201
17 0.115
18 0.628
19 0.702
2 0.834
20 0.205
21 0.75
22 0.304
23 0.195
24 0.984
25 0.242
26 0.0473
27 0.732
28 0.234
29 0.378
3 0.311
30 0.304
31 0.965
32 0.509
33 0.248
34 0.816
35 0.756
36 0.678
37 0.0248
38 0.675
39 0.58
4 0.367
40 0.278
41 0.257
42 0.749
43 0.665
44 0.536
45 0.365
46 0.613
47 0.86
48 0.55
49 0.364
5 0.849
50 0.706
51 0.852
52 0.171
53 0.327
54 0.388
55 0.31
56 0.717
57 0.571
58 0.338
59 0.518
6 0.966
60 0.0404
61 0.476
62 0.257
63 0.356
64 0.996
65 0.426
66 0.78
67 0.147
68 0.0242
69 0.839
7 0.0209
70 0.00975
71 0.436
72 0.697
73 0.0187
74 0.494
75 0.0463
76 0.756
77 0.0932
78 0.0119
79 0.928
8 0.941
80 0.688
81 0.9
82 0.142
83 0.738
84 0.0183
85 0.0985
86 0.0645
87 0.0101
88 0.166
89 0.679
9 0.725
90 0.807
91 0.475
92 0.762
93 0.164
94 0.29
95 0.0732
96 0.808
97 0.844
98 0.957
99 0.618



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: CNhs13542


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)
0000548 (animal cell)
0000075 (columnar/cuboidal epithelial cell)
0000066 (epithelial cell)
0002371 (somatic cell)
0002563 (intestinal epithelial cell)
0000255 (eukaryotic cell)
0000239 (brush border epithelial cell)
0000677 (gut absorptive cell)
0000212 (absorptive cell)
0002076 (endo-epithelial cell)
0002251 (epithelial cell of alimentary canal)
0000584 (enterocyte)

UBERON: Anatomy
0000468 (multi-cellular organism)
0000160 (intestine)
0000483 (epithelium)
0001242 (intestinal mucosa)
0000479 (tissue)
0001007 (digestive system)
0000344 (mucosa)
0000064 (organ part)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0005911 (endo-epithelium)
0004923 (organ component layer)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0000467 (anatomical system)
0000060 (anatomical wall)
0001062 (anatomical entity)
0000480 (anatomical group)
0000119 (cell layer)
0000490 (unilaminar epithelium)
0001262 (wall of intestine)
0004786 (gastrointestinal system mucosa)
0000485 (simple columnar epithelium)
0003350 (epithelium of mucosa)
0003929 (gut epithelium)
0004808 (gastrointestinal system epithelium)
0001277 (intestinal epithelium)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0005409 (gastrointestinal system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0011149 (mouse CD326-positive enterocyte 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:0000223 (endodermal cell)