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FF:646-21G7

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Name:kidney, neonate N00
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissuekidney
dev stage0 day neonate
sexmixture
ageNA
cell typeCELL MIXTURE - tissue sample
cell lineNA
companyNA
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typeNA
extraction protocol (Details)NA
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

CNhs11214

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 --0.00633
1001 0.0621
1002 0.435
1003 --0.0236
1004 0
1005 0
1006 --0.0619
1007 0.134
1008 0
1009 0.107
101 0.0246
1010 0
1011 0
1012 0.0324
1013 0.129
1014 0.173
1015 0.065
1016 0.302
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.0294
1022 0.136
1023 0
1024 0.0829
1025 0.107
1026 0
1027 0.0294
1028 0.0294
1029 0.296
103 0.113
1030 0
1031 0.288
1032 0.0498
1033 --0.00949
1034 0.0873
1035 0.0294
1036 --0.0676
1037 0
1038 0.194
1039 0.104
104 0
1040 0.216
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: CNhs11214

Jaspar motif P-value
MA0002.2 0.00414
MA0003.1 0.646
MA0004.1 0.674
MA0006.1 0.275
MA0007.1 0.638
MA0009.1 0.734
MA0014.1 0.816
MA0017.1 0.00364
MA0018.2 0.00155
MA0019.1 0.534
MA0024.1 0.109
MA0025.1 0.105
MA0027.1 0.839
MA0028.1 0.156
MA0029.1 0.351
MA0030.1 0.0316
MA0031.1 0.0634
MA0035.2 1.63583e-4
MA0038.1 0.282
MA0039.2 0.715
MA0040.1 0.77
MA0041.1 0.451
MA0042.1 0.944
MA0043.1 0.0115
MA0046.1 8.40061e-100
MA0047.2 0.101
MA0048.1 0.154
MA0050.1 0.221
MA0051.1 0.216
MA0052.1 3.41175e-5
MA0055.1 0.101
MA0057.1 0.531
MA0058.1 0.526
MA0059.1 0.0322
MA0060.1 0.18
MA0061.1 0.0424
MA0062.2 5.64293e-4
MA0065.2 0.914
MA0066.1 0.137
MA0067.1 0.362
MA0068.1 0.73
MA0069.1 0.0711
MA0070.1 0.734
MA0071.1 0.491
MA0072.1 0.11
MA0073.1 0.613
MA0074.1 0.577
MA0076.1 0.126
MA0077.1 0.767
MA0078.1 0.0119
MA0079.2 0.227
MA0080.2 7.08709e-5
MA0081.1 0.0429
MA0083.1 0.619
MA0084.1 0.912
MA0087.1 0.684
MA0088.1 0.084
MA0090.1 0.054
MA0091.1 0.083
MA0092.1 0.8
MA0093.1 0.68
MA0099.2 0.0262
MA0100.1 0.0622
MA0101.1 0.449
MA0102.2 0.277
MA0103.1 0.718
MA0104.2 0.0114
MA0105.1 9.59455e-5
MA0106.1 0.523
MA0107.1 0.428
MA0108.2 0.0937
MA0111.1 0.622
MA0112.2 0.012
MA0113.1 0.227
MA0114.1 0.0141
MA0115.1 0.661
MA0116.1 5.42836e-5
MA0117.1 0.301
MA0119.1 0.0983
MA0122.1 0.504
MA0124.1 0.8
MA0125.1 0.575
MA0131.1 0.513
MA0135.1 0.974
MA0136.1 1.69119e-6
MA0137.2 0.317
MA0138.2 0.0624
MA0139.1 0.172
MA0140.1 0.00111
MA0141.1 0.744
MA0142.1 0.00993
MA0143.1 0.942
MA0144.1 0.71
MA0145.1 0.547
MA0146.1 0.694
MA0147.1 0.00399
MA0148.1 0.674
MA0149.1 0.242
MA0150.1 0.0875
MA0152.1 0.012
MA0153.1 3.14361e-47
MA0154.1 0.027
MA0155.1 0.559
MA0156.1 2.24819e-4
MA0157.1 0.26
MA0159.1 0.225
MA0160.1 0.652
MA0162.1 0.903
MA0163.1 4.18277e-4
MA0164.1 0.866
MA0258.1 0.0166
MA0259.1 0.261



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: CNhs11214

Novel motif P-value
1 0.0208
10 0.128
100 0.83
101 0.291
102 0.356
103 0.668
104 0.971
105 0.648
106 0.754
107 0.126
108 0.228
109 0.314
11 0.119
110 0.186
111 0.0162
112 0.648
113 0.997
114 0.0389
115 0.604
116 0.164
117 0.0117
118 0.215
119 0.581
12 0.651
120 0.286
121 0.908
122 0.54
123 0.0841
124 0.533
125 0.115
126 0.691
127 0.187
128 0.847
129 0.328
13 0.771
130 0.282
131 0.276
132 0.914
133 0.254
134 0.643
135 0.806
136 0.174
137 0.0756
138 0.00533
139 0.12
14 0.778
140 0.943
141 0.486
142 0.311
143 0.228
144 0.46
145 0.913
146 0.682
147 0.419
148 0.83
149 0.373
15 0.219
150 0.297
151 0.0902
152 0.177
153 0.39
154 0.743
155 0.947
156 4.07844e-7
157 0.889
158 0.93
159 0.118
160 0.806
161 0.834
162 0.305
163 0.232
164 0.278
165 0.401
166 0.574
167 0.717
168 0.637
169 0.774
17 0.654
18 0.0211
19 0.391
2 0.414
20 0.824
21 0.624
22 0.894
23 0.233
24 0.706
25 0.114
26 0.672
27 0.743
28 0.309
29 0.0522
3 0.35
30 0.426
31 0.615
32 0.0727
33 0.686
34 0.913
35 0.0709
36 0.0177
37 0.427
38 0.361
39 0.279
4 0.91
40 0.332
41 0.0849
42 0.272
43 0.22
44 0.206
45 0.771
46 0.213
47 0.0993
48 0.324
49 0.196
5 0.216
50 0.679
51 0.616
52 0.135
53 0.649
54 0.328
55 0.216
56 0.25
57 0.351
58 0.526
59 0.142
6 0.785
60 0.605
61 0.963
62 0.0672
63 0.274
64 0.196
65 0.128
66 0.546
67 0.0166
68 0.126
69 0.595
7 0.453
70 0.0374
71 0.0368
72 0.231
73 0.566
74 0.267
75 0.0259
76 0.738
77 0.955
78 0.824
79 0.282
8 0.0547
80 0.0487
81 0.113
82 0.0871
83 0.119
84 0.654
85 0.0868
86 0.291
87 0.00289
88 0.456
89 0.349
9 0.821
90 0.17
91 0.831
92 0.259
93 0.681
94 0.0673
95 0.256
96 0.228
97 0.561
98 0.513
99 0.962



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: CNhs11214


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

UBERON: Anatomy
0000468 (multi-cellular organism)
0002113 (kidney)
0002100 (trunk)
0000479 (tissue)
0000062 (organ)
0000475 (organism subdivision)
0006554 (urinary system structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003103 (compound organ)
0009569 (subdivision of trunk)
0000489 (cavitated compound organ)
0005177 (trunk region element)
0005172 (abdomen element)
0005173 (abdominal segment element)
0011143 (upper urinary tract)
0001008 (renal system)
0002417 (abdominal segment of trunk)
0000916 (abdomen)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000304 (mouse neonate N0 sample)
0011396 (mouse kidney- neonate N00 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

UBERON:0003104 (mesenchyme)
UBERON:0003918 (kidney mesenchyme)
UBERON:0007687 (kidney field)
FF:0000294 (mouse embryonic day 11 sample)