FF:1525-43A6
From FANTOM5_SSTAR
Name: | bone (os femoris), neonate N16 |
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Species: | Mouse (Mus musculus) |
Library ID: | CNhs11225 |
Sample type: | developmental |
Genomic View: | UCSC |
CAGEd-oPOSSUM: | link |
ZENBU report : | link |
Additional information | ||||||||||||||||||||||||||||
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Sample information
RNA information
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CAGE Accession numbers | ||||||||||||||||||||||||||||||||||||||||||||||
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Download raw sequence, BAM & CTSS | ||||||||||||||
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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
CNhs11225
MCL coexpression id | Coexpression dpi cluster scores median value |
---|---|
0 | 0 |
1 | 0 |
10 | 0 |
100 | 0 |
1000 | 0.5 |
1001 | 0.477 |
1002 | --0.0184 |
1003 | 0.202 |
1004 | 0 |
1005 | 0.159 |
1006 | 0.471 |
1007 | 0.0255 |
1008 | 0 |
1009 | 0.0308 |
101 | --0.0109 |
1010 | 0 |
1011 | 0 |
1012 | 0.275 |
1013 | --0.125 |
1014 | 0.0867 |
1015 | --0.117 |
1016 | --0.0563 |
1017 | 0 |
1018 | 0 |
1019 | 0 |
102 | 0 |
1020 | 0 |
1021 | 0.159 |
1022 | 0.488 |
1023 | 0 |
1024 | 0.159 |
1025 | 0 |
1026 | 0 |
1027 | 0.0867 |
1028 | 0 |
1029 | 0.436 |
103 | 0.942 |
1030 | 0.843 |
1031 | 0.0391 |
1032 | 5.473114e-4 |
1033 | 0 |
1034 | 0 |
1035 | 0.159 |
1036 | 0.0137 |
1037 | 0 |
1038 | --0.0249 |
1039 | 0.204 |
104 | 0 |
1040 | 0.0629 |
1041 | 0.159 |
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
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: CNhs11225
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: CNhs11225
Novel motif | Logo | P-value |
---|---|---|
1 | 1 | 0.179 |
10 | 10 | 0.202 |
100 | 100 | 0.659 |
101 | 101 | 0.911 |
102 | 102 | 0.869 |
103 | 103 | 0.267 |
104 | 104 | 0.691 |
105 | 105 | 0.246 |
106 | 106 | 0.0447 |
107 | 107 | 0.118 |
108 | 108 | 0.99 |
109 | 109 | 0.051 |
11 | 11 | 0.298 |
110 | 110 | 0.161 |
111 | 111 | 0.615 |
112 | 112 | 0.418 |
113 | 113 | 0.989 |
114 | 114 | 0.435 |
115 | 115 | 0.829 |
116 | 116 | 0.672 |
117 | 117 | 0.212 |
118 | 118 | 0.501 |
119 | 119 | 0.158 |
12 | 12 | 0.316 |
120 | 120 | 0.419 |
121 | 121 | 0.584 |
122 | 122 | 0.893 |
123 | 123 | 0.7 |
124 | 124 | 0.0948 |
125 | 125 | 0.0912 |
126 | 126 | 0.285 |
127 | 127 | 0.0792 |
128 | 128 | 0.0924 |
129 | 129 | 0.892 |
13 | 13 | 0.00959 |
130 | 130 | 0.755 |
131 | 131 | 0.858 |
132 | 132 | 0.768 |
133 | 133 | 0.623 |
134 | 134 | 0.503 |
135 | 135 | 0.777 |
136 | 136 | 0.448 |
137 | 137 | 0.0679 |
138 | 138 | 0.309 |
139 | 139 | 0.469 |
14 | 14 | 0.293 |
140 | 140 | 0.0996 |
141 | 141 | 0.701 |
142 | 142 | 0.239 |
143 | 143 | 0.733 |
144 | 144 | 0.0391 |
145 | 145 | 0.353 |
146 | 146 | 0.991 |
147 | 147 | 0.762 |
148 | 148 | 0.417 |
149 | 149 | 0.877 |
15 | 15 | 0.321 |
150 | 150 | 0.239 |
151 | 151 | 0.185 |
152 | 152 | 0.178 |
153 | 153 | 0.819 |
154 | 154 | 0.616 |
155 | 155 | 0.356 |
156 | 156 | 3.49556e-26 |
157 | 157 | 0.886 |
158 | 158 | 0.101 |
159 | 159 | 0.0141 |
160 | 160 | 0.0835 |
161 | 161 | 0.992 |
162 | 162 | 0.696 |
163 | 163 | 0.451 |
164 | 164 | 0.406 |
165 | 165 | 0.117 |
166 | 166 | 0.899 |
167 | 167 | 0.928 |
168 | 168 | 0.372 |
169 | 169 | 5.92162e-4 |
17 | 17 | 0.218 |
18 | 18 | 0.802 |
19 | 19 | 0.0309 |
2 | 2 | 0.578 |
20 | 20 | 0.369 |
21 | 21 | 0.35 |
22 | 22 | 0.159 |
23 | 23 | 0.581 |
24 | 24 | 0.95 |
25 | 25 | 0.577 |
26 | 26 | 0.0112 |
27 | 27 | 0.818 |
28 | 28 | 0.608 |
29 | 29 | 0.269 |
3 | 3 | 0.13 |
30 | 30 | 0.684 |
31 | 31 | 0.349 |
32 | 32 | 0.00116 |
33 | 33 | 0.602 |
34 | 34 | 0.171 |
35 | 35 | 0.611 |
36 | 36 | 0.411 |
37 | 37 | 0.0563 |
38 | 38 | 0.982 |
39 | 39 | 0.282 |
4 | 4 | 0.623 |
40 | 40 | 0.482 |
41 | 41 | 0.588 |
42 | 42 | 0.592 |
43 | 43 | 0.207 |
44 | 44 | 0.802 |
45 | 45 | 0.41 |
46 | 46 | 0.163 |
47 | 47 | 0.768 |
48 | 48 | 0.733 |
49 | 49 | 0.304 |
5 | 5 | 0.0226 |
50 | 50 | 0.284 |
51 | 51 | 0.685 |
52 | 52 | 0.29 |
53 | 53 | 0.563 |
54 | 54 | 0.528 |
55 | 55 | 0.854 |
56 | 56 | 0.409 |
57 | 57 | 0.306 |
58 | 58 | 0.389 |
59 | 59 | 0.0152 |
6 | 6 | 0.766 |
60 | 60 | 0.104 |
61 | 61 | 0.672 |
62 | 62 | 0.163 |
63 | 63 | 0.117 |
64 | 64 | 0.762 |
65 | 65 | 0.867 |
66 | 66 | 0.362 |
67 | 67 | 0.145 |
68 | 68 | 0.277 |
69 | 69 | 0.131 |
7 | 7 | 0.0542 |
70 | 70 | 0.424 |
71 | 71 | 0.0404 |
72 | 72 | 0.976 |
73 | 73 | 0.13 |
74 | 74 | 0.777 |
75 | 75 | 0.382 |
76 | 76 | 0.947 |
77 | 77 | 0.623 |
78 | 78 | 0.00798 |
79 | 79 | 0.885 |
8 | 8 | 0.248 |
80 | 80 | 0.0728 |
81 | 81 | 0.355 |
82 | 82 | 0.414 |
83 | 83 | 0.474 |
84 | 84 | 0.946 |
85 | 85 | 0.0797 |
86 | 86 | 0.597 |
87 | 87 | 0.00655 |
88 | 88 | 0.375 |
89 | 89 | 0.339 |
9 | 9 | 0.191 |
90 | 90 | 0.706 |
91 | 91 | 0.0401 |
92 | 92 | 0.598 |
93 | 93 | 0.302 |
94 | 94 | 0.133 |
95 | 95 | 0.105 |
96 | 96 | 0.188 |
97 | 97 | 0.435 |
98 | 98 | 0.629 |
99 | 99 | 0.837 |
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: CNhs11225
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0011462 mouse bone- os femoris - neonate N16 sample
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)
0000981 (femur)
0001474 (bone element)
0000479 (tissue)
0011216 (organ system subdivision)
0000062 (organ)
0000026 (appendage)
0000475 (organism subdivision)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0002472 (stylopod)
0008784 (lower limb segment)
0001062 (anatomical entity)
0000480 (anatomical group)
0006058 (multi-limb segment region)
0003608 (hindlimb long bone)
0003826 (upper leg bone)
0008202 (bone of hip region)
0000075 (subdivision of skeletal system)
0004381 (skeleton of limb)
0007273 (pelvic appendage skeleton)
0004765 (skeletal element)
0010912 (subdivision of skeleton)
0004708 (paired limb/fin)
0002101 (limb)
0004709 (pelvic appendage)
0002513 (endochondral bone)
0004375 (bone of free limb or fin)
0010740 (bone of appendage girdle complex)
0002529 (limb segment)
0010363 (endochondral element)
0010538 (paired limb/fin segment)
0002428 (limb bone)
0010742 (bone of pelvic complex)
0002495 (long bone)
0003464 (hindlimb bone)
0003606 (limb long bone)
0005893 (leg bone)
0010317 (germ layer / neural crest derived structure)
0010712 (limb skeleton subdivision)
0010758 (subdivision of organism along appendicular axis)
0010707 (appendage girdle complex)
0002204 (musculoskeletal system)
0001434 (skeletal system)
0000978 (leg)
0002103 (hindlimb)
0000376 (hindlimb stylopod)
0001441 (hindlimb skeleton)
0011249 (appendicular skeletal system)
0000154 (posterior region of body)
0010709 (pelvic complex)
0002091 (appendicular skeleton)
0004288 (skeleton)
FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000306 (mouse neonate N16 sample)
0011462 (mouse bone- os femoris - neonate N16 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:0002532 (epiblast (generic))
UBERON:0006603 (presumptive mesoderm)
UBERON:0003104 (mesenchyme)
UBERON:0005866 (pre-cartilage condensation)
UBERON:0006234 (femur pre-cartilage condensation)
UBERON:0010316 (germ layer / neural crest)
UBERON:0010882 (limb bone pre-cartilage condensation)
UBERON:0010886 (hindlimb bone pre-cartilage condensation)
FF:0000294 (mouse embryonic day 11 sample)