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FF:25-2G2

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Name:spleen, adult
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:developmental
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainC57BL/6J
tissuespleen
dev stageadult
sexmale
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

CNhs10465

MCL coexpression id Coexpression dpi cluster scores median value
0 0
1 0
10 0
100 0
1000 0
1001 0
1002 0.0171
1003 --0.0527
1004 0
1005 0.128
1006 --0.143
1007 --0.025
1008 0
1009 --0.0624
101 0.0816
1010 0
1011 0.0202
1012 0.128
1013 --0.0433
1014 --0.0874
1015 --0.234
1016 --0.466
1017 0
1018 0
1019 0
102 0
1020 0
1021 0.079
1022 --0.185
1023 0
1024 --0.0504
1025 --0.0295
1026 0
1027 0
1028 0
1029 0.0321
103 --0.0736
1030 0.374
1031 --0.348
1032 --0.281
1033 0.0612
1034 0
1035 0
1036 0.13
1037 0
1038 --0.304
1039 --0.221
104 0
1040 --0.121
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



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: CNhs10465

Jaspar motif P-value
MA0002.2 2.03443e-7
MA0003.1 0.844
MA0004.1 0.733
MA0006.1 0.253
MA0007.1 0.664
MA0009.1 0.653
MA0014.1 0.692
MA0017.1 0.313
MA0018.2 0.007
MA0019.1 0.184
MA0024.1 0.0145
MA0025.1 0.562
MA0027.1 0.505
MA0028.1 0.0518
MA0029.1 0.824
MA0030.1 0.306
MA0031.1 0.921
MA0035.2 4.55585e-6
MA0038.1 0.0689
MA0039.2 0.345
MA0040.1 0.248
MA0041.1 0.377
MA0042.1 0.936
MA0043.1 0.0129
MA0046.1 3.06436e-12
MA0047.2 0.497
MA0048.1 0.596
MA0050.1 1.84537e-14
MA0051.1 1.09493e-8
MA0052.1 3.98578e-5
MA0055.1 0.599
MA0057.1 0.729
MA0058.1 0.838
MA0059.1 0.471
MA0060.1 0.893
MA0061.1 4.59346e-5
MA0062.2 2.70737e-7
MA0065.2 0.36
MA0066.1 0.177
MA0067.1 0.787
MA0068.1 0.696
MA0069.1 0.436
MA0070.1 0.535
MA0071.1 0.839
MA0072.1 0.464
MA0073.1 0.889
MA0074.1 0.615
MA0076.1 0.0971
MA0077.1 0.197
MA0078.1 0.838
MA0079.2 0.0685
MA0080.2 3.45622e-14
MA0081.1 0.00717
MA0083.1 0.154
MA0084.1 0.287
MA0087.1 0.0877
MA0088.1 0.254
MA0090.1 0.0267
MA0091.1 0.221
MA0092.1 0.696
MA0093.1 0.831
MA0099.2 0.953
MA0100.1 0.18
MA0101.1 3.81156e-4
MA0102.2 0.317
MA0103.1 0.722
MA0104.2 0.826
MA0105.1 5.29559e-7
MA0106.1 0.622
MA0107.1 1.7784e-4
MA0108.2 0.00332
MA0111.1 0.743
MA0112.2 0.00118
MA0113.1 0.24
MA0114.1 0.936
MA0115.1 0.992
MA0116.1 0.00202
MA0117.1 0.688
MA0119.1 0.41
MA0122.1 0.946
MA0124.1 0.79
MA0125.1 0.046
MA0131.1 0.876
MA0135.1 0.288
MA0136.1 6.47913e-20
MA0137.2 0.155
MA0138.2 0.0118
MA0139.1 0.224
MA0140.1 2.2068e-27
MA0141.1 0.778
MA0142.1 6.0363e-5
MA0143.1 0.136
MA0144.1 0.322
MA0145.1 0.618
MA0146.1 0.186
MA0147.1 0.763
MA0148.1 0.66
MA0149.1 0.154
MA0150.1 0.0118
MA0152.1 0.403
MA0153.1 5.19293e-8
MA0154.1 0.0011
MA0155.1 0.681
MA0156.1 1.00735e-16
MA0157.1 0.993
MA0159.1 0.0859
MA0160.1 0.981
MA0162.1 0.142
MA0163.1 3.24261e-4
MA0164.1 0.42
MA0258.1 0.0622
MA0259.1 0.68



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: CNhs10465

Novel motif P-value
1 0.176
10 0.0389
100 0.922
101 0.84
102 0.61
103 0.037
104 0.99
105 0.899
106 0.0977
107 0.552
108 0.593
109 0.0864
11 0.119
110 0.0773
111 0.0768
112 0.0241
113 0.427
114 0.313
115 0.889
116 0.776
117 0.00171
118 0.104
119 0.116
12 0.806
120 0.789
121 0.144
122 0.848
123 0.316
124 0.841
125 0.0538
126 0.215
127 0.372
128 0.139
129 0.221
13 0.0453
130 0.34
131 0.911
132 0.189
133 0.941
134 0.3
135 0.93
136 0.513
137 0.044
138 0.919
139 0.538
14 0.637
140 0.693
141 0.288
142 0.28
143 0.0872
144 0.792
145 0.0353
146 0.739
147 0.688
148 0.0746
149 0.661
15 0.0223
150 0.135
151 0.125
152 0.812
153 0.433
154 0.799
155 0.132
156 0.0692
157 0.843
158 0.0519
159 0.396
160 0.542
161 0.0445
162 0.431
163 0.441
164 0.0544
165 0.163
166 0.396
167 0.446
168 0.448
169 0.0199
17 0.336
18 0.128
19 0.306
2 0.495
20 0.142
21 0.27
22 0.382
23 0.605
24 0.168
25 0.269
26 0.00456
27 0.419
28 0.167
29 0.0409
3 0.038
30 0.471
31 0.661
32 0.609
33 0.198
34 0.66
35 0.456
36 0.105
37 0.159
38 0.241
39 0.743
4 0.998
40 0.212
41 0.838
42 0.0603
43 0.0614
44 0.264
45 0.882
46 0.132
47 0.126
48 0.19
49 0.0878
5 0.111
50 0.871
51 0.829
52 0.757
53 0.857
54 0.999
55 0.144
56 0.429
57 0.416
58 0.199
59 0.155
6 0.511
60 0.256
61 0.233
62 0.0687
63 0.314
64 0.487
65 0.201
66 0.722
67 0.522
68 0.174
69 0.746
7 0.0712
70 0.175
71 0.034
72 0.256
73 0.179
74 0.687
75 0.0269
76 0.226
77 0.747
78 0.027
79 0.764
8 0.0293
80 0.00288
81 0.398
82 0.457
83 0.127
84 0.515
85 0.152
86 0.414
87 0.387
88 0.577
89 0.744
9 0.424
90 0.0852
91 0.28
92 0.456
93 0.164
94 0.101
95 0.116
96 0.108
97 0.871
98 0.108
99 0.693



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: CNhs10465


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)
0007023 (adult organism)
0002106 (spleen)
0002100 (trunk)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0000466 (immaterial anatomical entity)
0002075 (viscus)
0000062 (organ)
0000475 (organism subdivision)
0004120 (mesoderm-derived structure)
0000077 (mixed endoderm/mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0002323 (body cavity)
0005177 (trunk region element)
0004177 (hemopoietic organ)
0005057 (immune organ)
0005172 (abdomen element)
0000464 (anatomical space)
0004458 (body cavity or lining)
0010317 (germ layer / neural crest derived structure)
0005173 (abdominal segment element)
0002390 (hematopoietic system)
0002417 (abdominal segment of trunk)
0002193 (hemolymphoid system)
0000916 (abdomen)
0002405 (immune system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011306 (mouse spleen- adult 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:0006595 (presumptive endoderm)
UBERON:0006603 (presumptive mesoderm)
UBERON:0004872 (splanchnic layer of lateral plate mesoderm)
UBERON:0010316 (germ layer / neural crest)