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FF:832-19I1

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Name:kidney, neonate N20, biol_rep1
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 stage20 days 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]





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

CNhs11113

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0
1001 0.1
1002 0.278
1003 0.0146
1004 0
1005 0
1006 --0.143
1007 --0.0152
1008 0
1009 --0.0572
101 --0.0497
1010 0
1011 0
1012 0
1013 0.376
1014 0
1015 --0.251
1016 --0.138
1017 0
1018 0.0598
1019 0
102 0
1020 0
1021 --0.00939
1022 0.504
1023 0
1024 0.353
1025 0
1026 0
1027 0
1028 0
1029 0.218
103 --0.0424
1030 0
1031 0.00537
1032 0.235
1033 --0.0154
1034 0.281
1035 0
1036 --0.264
1037 0
1038 0.133
1039 0.471
104 0
1040 0.209
1041 0.0598



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: CNhs11113

Jaspar motif P-value
MA0002.2 0.202
MA0003.1 0.227
MA0004.1 0.499
MA0006.1 0.0397
MA0007.1 0.325
MA0009.1 0.154
MA0014.1 0.137
MA0017.1 1.71076e-20
MA0018.2 6.36402e-6
MA0019.1 0.198
MA0024.1 6.12845e-6
MA0025.1 0.455
MA0027.1 0.436
MA0028.1 0.456
MA0029.1 0.291
MA0030.1 0.00357
MA0031.1 5.74045e-4
MA0035.2 0.00773
MA0038.1 0.439
MA0039.2 0.0145
MA0040.1 0.366
MA0041.1 0.488
MA0042.1 0.85
MA0043.1 0.00169
MA0046.1 3.1217e-134
MA0047.2 3.67272e-4
MA0048.1 0.4
MA0050.1 0.135
MA0051.1 0.277
MA0052.1 0.00275
MA0055.1 0.372
MA0057.1 0.5
MA0058.1 0.401
MA0059.1 0.594
MA0060.1 0.00303
MA0061.1 0.517
MA0062.2 0.00853
MA0065.2 2.36056e-12
MA0066.1 0.606
MA0067.1 0.25
MA0068.1 0.268
MA0069.1 0.719
MA0070.1 0.588
MA0071.1 0.00942
MA0072.1 0.809
MA0073.1 0.92
MA0074.1 0.377
MA0076.1 0.252
MA0077.1 0.0748
MA0078.1 0.00384
MA0079.2 0.796
MA0080.2 0.263
MA0081.1 0.57
MA0083.1 0.0363
MA0084.1 0.771
MA0087.1 0.184
MA0088.1 0.387
MA0090.1 0.00147
MA0091.1 0.291
MA0092.1 0.0388
MA0093.1 0.495
MA0099.2 0.787
MA0100.1 0.0113
MA0101.1 0.448
MA0102.2 0.526
MA0103.1 8.76532e-4
MA0104.2 0.0787
MA0105.1 0.345
MA0106.1 0.452
MA0107.1 0.607
MA0108.2 6.03859e-5
MA0111.1 0.784
MA0112.2 0.00699
MA0113.1 0.144
MA0114.1 1.31053e-28
MA0115.1 0.00741
MA0116.1 0.707
MA0117.1 0.869
MA0119.1 0.0478
MA0122.1 0.265
MA0124.1 0.444
MA0125.1 0.326
MA0131.1 0.269
MA0135.1 0.554
MA0136.1 0.0245
MA0137.2 0.677
MA0138.2 0.621
MA0139.1 0.197
MA0140.1 0.0274
MA0141.1 1.29342e-8
MA0142.1 0.0142
MA0143.1 0.734
MA0144.1 0.294
MA0145.1 4.40984e-4
MA0146.1 0.272
MA0147.1 0.0466
MA0148.1 7.65113e-4
MA0149.1 0.0339
MA0150.1 0.0906
MA0152.1 0.0491
MA0153.1 2.02245e-58
MA0154.1 0.0509
MA0155.1 0.399
MA0156.1 0.219
MA0157.1 0.0168
MA0159.1 0.0238
MA0160.1 8.41754e-5
MA0162.1 0.2
MA0163.1 0.888
MA0164.1 0.559
MA0258.1 0.0323
MA0259.1 0.126



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: CNhs11113

Novel motif P-value
1 0.888
10 0.748
100 0.843
101 0.851
102 0.26
103 0.0359
104 0.502
105 0.611
106 0.0943
107 0.0805
108 0.0535
109 0.0347
11 0.352
110 0.215
111 0.788
112 0.0627
113 0.822
114 0.644
115 0.771
116 0.385
117 0.363
118 0.303
119 0.0713
12 0.951
120 0.356
121 0.912
122 0.281
123 0.118
124 0.342
125 0.635
126 0.274
127 0.341
128 0.115
129 0.845
13 3.5072e-5
130 0.168
131 0.595
132 0.91
133 0.156
134 0.386
135 0.512
136 0.105
137 0.0535
138 0.0322
139 0.458
14 0.156
140 0.223
141 0.954
142 0.552
143 0.182
144 0.0379
145 0.106
146 0.241
147 0.476
148 0.545
149 0.285
15 0.21
150 0.105
151 0.813
152 0.0373
153 0.87
154 0.632
155 0.767
156 0.236
157 0.216
158 0.82
159 0.392
160 0.236
161 0.467
162 0.404
163 0.822
164 0.692
165 0.0377
166 0.641
167 0.812
168 0.964
169 0.00836
17 0.0639
18 0.0973
19 0.00483
2 0.0611
20 0.807
21 0.911
22 0.0313
23 0.289
24 0.251
25 0.788
26 0.36
27 0.364
28 0.493
29 0.692
3 0.397
30 0.185
31 0.523
32 0.158
33 0.75
34 0.621
35 0.678
36 0.637
37 0.0404
38 0.391
39 0.432
4 0.621
40 0.408
41 0.291
42 0.776
43 0.366
44 0.966
45 0.141
46 0.955
47 0.613
48 0.196
49 0.232
5 0.802
50 0.963
51 0.741
52 0.0418
53 0.842
54 0.89
55 0.901
56 0.818
57 0.931
58 0.269
59 0.709
6 0.647
60 0.0222
61 0.662
62 0.337
63 0.372
64 0.963
65 0.386
66 0.418
67 0.0496
68 0.955
69 0.863
7 0.134
70 0.173
71 0.769
72 0.752
73 0.0951
74 0.393
75 0.898
76 0.376
77 0.0624
78 0.108
79 0.427
8 0.673
80 0.463
81 0.482
82 0.398
83 0.293
84 0.319
85 0.0767
86 0.436
87 0.925
88 0.407
89 0.374
9 0.912
90 0.63
91 0.49
92 0.603
93 0.498
94 0.181
95 0.712
96 0.554
97 0.397
98 0.483
99 0.239



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: CNhs11113


FANTOM5 (FF) ontology


Direct parent terms

is_a relathionship
{{{is_a}}}

part_of relathionship
{{{part_of}}}

has_quality relathionship
{{{has_quality}}}

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
0000061 (anatomical structure)
0000062 (organ)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000475 (organism subdivision)
0000479 (tissue)
0000480 (anatomical group)
0000489 (cavitated compound organ)
0000916 (abdomen)
0000922 (embryo)
0001008 (renal system)
0001062 (anatomical entity)
0002100 (trunk)
0002113 (kidney)
0002417 (abdominal segment of trunk)
0003103 (compound organ)
0005095 (kidney rudiment)
0005172 (abdomen element)
0005173 (abdominal segment element)
0005177 (trunk region element)
0005423 (developing anatomical structure)
0006554 (urinary system structure)
0007687 (kidney field)

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