FF:30-1C3: Difference between revisions

Latest revision as of 19:09, 4 June 2020

Name:	skin, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10492
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	skin
dev stage	adult
sex	male
age	NA
cell type	CELL MIXTURE - tissue sample
cell line	NA
company	NA
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	NA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005423

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10492		CAGE		DRX009077		DRR009951

Accession ID Mm9

Library id		BAM		CTSS
CNhs10492		DRZ001376		DRZ002759

Accession ID Mm10

Library id		BAM		CTSS
CNhs10492		DRZ012726		DRZ014109

Download raw sequence, BAM & CTSS

Mm9

Fasta	BAM	CTSS
download	download	donwload

Mm10

BAM	CTSS
download	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

CNhs10492

0	0
1	0
10	0
100	0
1000	0.473
1001	0.136
1002	0.0663
1003	0.218
1004	0
1005	-0.0223
1006	0.238
1007	0.0784
1008	0
1009	0.297
101	0.0114
1010	0
1011	0.175
1012	0
1013	-0.0926
1014	-0.0874
1015	-0.173
1016	-0.0295
1017	0
1018	0.681
1019	0
102	0
1020	0
1021	0.0663
1022	0.321
1023	0
1024	0.23
1025	0
1026	0.0368
1027	0
1028	0
1029	0.114
103	0.527
1030	0
1031	-0.13
1032	-0.09
1033	0
1034	0.124
1035	0.0663
1036	-0.0797
1037	0
1038	0.0969
1039	-0.121
104	0
1040	0.15
1041	1.044

Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed. 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 thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression Analyst: Michiel de Hoon link to dataset. data

library id: CNhs10492

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.438
MA0003.1	MA0003.1	0.369
MA0004.1	MA0004.1	0.698
MA0006.1	MA0006.1	0.0954
MA0007.1	MA0007.1	0.833
MA0009.1	MA0009.1	0.076
MA0014.1	MA0014.1	0.477
MA0017.1	MA0017.1	4.37132e-5
MA0018.2	MA0018.2	0.128
MA0019.1	MA0019.1	0.65
MA0024.1	MA0024.1	0.00868
MA0025.1	MA0025.1	0.14
MA0027.1	MA0027.1	0.149
MA0028.1	MA0028.1	4.22556e-4
MA0029.1	MA0029.1	0.247
MA0030.1	MA0030.1	0.0898
MA0031.1	MA0031.1	0.0893
MA0035.2	MA0035.2	0.0232
MA0038.1	MA0038.1	0.0201
MA0039.2	MA0039.2	0.0035
MA0040.1	MA0040.1	0.0346
MA0041.1	MA0041.1	0.738
MA0042.1	MA0042.1	0.478
MA0043.1	MA0043.1	0.912
MA0046.1	MA0046.1	2.75812e-11
MA0047.2	MA0047.2	0.79
MA0048.1	MA0048.1	0.0113
MA0050.1	MA0050.1	0.182
MA0051.1	MA0051.1	0.0373
MA0052.1	MA0052.1	1.71127e-17
MA0055.1	MA0055.1	3.20498e-4
MA0057.1	MA0057.1	0.151
MA0058.1	MA0058.1	0.401
MA0059.1	MA0059.1	0.0216
MA0060.1	MA0060.1	0.292
MA0061.1	MA0061.1	0.926
MA0062.2	MA0062.2	1.03053e-4
MA0065.2	MA0065.2	0.456
MA0066.1	MA0066.1	0.396
MA0067.1	MA0067.1	0.691
MA0068.1	MA0068.1	0.679
MA0069.1	MA0069.1	0.649
MA0070.1	MA0070.1	0.675
MA0071.1	MA0071.1	0.0846
MA0072.1	MA0072.1	0.783
MA0073.1	MA0073.1	0.987
MA0074.1	MA0074.1	0.295
MA0076.1	MA0076.1	8.14632e-4
MA0077.1	MA0077.1	0.0246
MA0078.1	MA0078.1	0.0373
MA0079.2	MA0079.2	0.0248
MA0080.2	MA0080.2	0.0998
MA0081.1	MA0081.1	0.163
MA0083.1	MA0083.1	0.00474
MA0084.1	MA0084.1	0.221
MA0087.1	MA0087.1	0.515
MA0088.1	MA0088.1	0.503
MA0090.1	MA0090.1	0.0241
MA0091.1	MA0091.1	0.594
MA0092.1	MA0092.1	0.737
MA0093.1	MA0093.1	0.678
MA0099.2	MA0099.2	4.11232e-17
MA0100.1	MA0100.1	0.016
MA0101.1	MA0101.1	0.821
MA0102.2	MA0102.2	0.0775
MA0103.1	MA0103.1	0.0732
MA0104.2	MA0104.2	0.0445
MA0105.1	MA0105.1	0.125
MA0106.1	MA0106.1	0.0185
MA0107.1	MA0107.1	0.32
MA0108.2	MA0108.2	1.97277e-44
MA0111.1	MA0111.1	0.773
MA0112.2	MA0112.2	0.435
MA0113.1	MA0113.1	0.198
MA0114.1	MA0114.1	1.74484e-4
MA0115.1	MA0115.1	0.00109
MA0116.1	MA0116.1	0.332
MA0117.1	MA0117.1	0.961
MA0119.1	MA0119.1	0.906
MA0122.1	MA0122.1	0.933
MA0124.1	MA0124.1	0.274
MA0125.1	MA0125.1	0.014
MA0131.1	MA0131.1	0.25
MA0135.1	MA0135.1	0.0355
MA0136.1	MA0136.1	0.00569
MA0137.2	MA0137.2	0.792
MA0138.2	MA0138.2	0.339
MA0139.1	MA0139.1	0.34
MA0140.1	MA0140.1	0.0161
MA0141.1	MA0141.1	0.00979
MA0142.1	MA0142.1	0.367
MA0143.1	MA0143.1	0.00939
MA0144.1	MA0144.1	0.589
MA0145.1	MA0145.1	0.0213
MA0146.1	MA0146.1	0.32
MA0147.1	MA0147.1	0.0253
MA0148.1	MA0148.1	0.656
MA0149.1	MA0149.1	0.323
MA0150.1	MA0150.1	0.435
MA0152.1	MA0152.1	0.0308
MA0153.1	MA0153.1	1.99923e-8
MA0154.1	MA0154.1	0.164
MA0155.1	MA0155.1	0.673
MA0156.1	MA0156.1	0.035
MA0157.1	MA0157.1	0.0165
MA0159.1	MA0159.1	0.129
MA0160.1	MA0160.1	0.0493
MA0162.1	MA0162.1	0.609
MA0163.1	MA0163.1	0.112
MA0164.1	MA0164.1	0.197
MA0258.1	MA0258.1	0.9
MA0259.1	MA0259.1	0.209

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 in169 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: CNhs10492

Novel motif	Logo	P-value
1	1	0.792
10	10	0.521
100	100	0.84
101	101	0.623
102	102	0.685
103	103	0.433
104	104	0.187
105	105	0.196
106	106	0.0382
107	107	0.0258
108	108	0.625
109	109	0.449
11	11	0.458
110	110	0.738
111	111	0.482
112	112	0.307
113	113	0.509
114	114	0.743
115	115	0.0458
116	116	0.617
117	117	0.276
118	118	0.0452
119	119	0.306
12	12	0.615
120	120	0.219
121	121	0.481
122	122	0.438
123	123	0.675
124	124	0.681
125	125	0.38
126	126	0.957
127	127	0.474
128	128	0.146
129	129	0.955
13	13	0.0417
130	130	0.525
131	131	0.404
132	132	0.953
133	133	0.629
134	134	0.928
135	135	0.298
136	136	0.301
137	137	0.997
138	138	0.663
139	139	0.702
14	14	0.267
140	140	0.537
141	141	0.386
142	142	0.423
143	143	0.266
144	144	0.837
145	145	0.966
146	146	0.726
147	147	0.155
148	148	0.129
149	149	0.948
15	15	0.434
150	150	0.442
151	151	0.34
152	152	0.0215
153	153	0.963
154	154	0.442
155	155	0.53
156	156	2.62513e-13
157	157	0.0234
158	158	0.864
159	159	0.889
160	160	0.491
161	161	0.155
162	162	0.53
163	163	0.344
164	164	0.417
165	165	0.605
166	166	0.478
167	167	0.00995
168	168	0.887
169	169	0.0369
17	17	0.0956
18	18	0.185
19	19	0.392
2	2	0.0543
20	20	0.154
21	21	0.498
22	22	0.298
23	23	0.188
24	24	0.741
25	25	0.564
26	26	0.0507
27	27	0.977
28	28	0.826
29	29	0.102
3	3	0.687
30	30	0.0489
31	31	0.501
32	32	0.537
33	33	0.333
34	34	0.659
35	35	0.0215
36	36	0.0221
37	37	0.515
38	38	0.776
39	39	0.16
4	4	0.253
40	40	0.483
41	41	0.656
42	42	0.783
43	43	0.945
44	44	0.352
45	45	0.188
46	46	0.569
47	47	0.94
48	48	0.962
49	49	0.337
5	5	0.853
50	50	0.624
51	51	0.812
52	52	0.0655
53	53	0.149
54	54	0.626
55	55	0.987
56	56	0.571
57	57	0.712
58	58	0.826
59	59	0.292
6	6	0.897
60	60	0.116
61	61	0.958
62	62	0.836
63	63	0.466
64	64	0.299
65	65	0.699
66	66	0.873
67	67	0.925
68	68	0.51
69	69	0.312
7	7	0.643
70	70	0.485
71	71	0.714
72	72	0.574
73	73	0.16
74	74	0.652
75	75	0.173
76	76	0.00151
77	77	0.0413
78	78	0.00586
79	79	0.0911
8	8	0.238
80	80	0.897
81	81	0.832
82	82	0.848
83	83	0.832
84	84	0.147
85	85	0.153
86	86	0.34
87	87	0.271
88	88	0.496
89	89	0.417
9	9	0.351
90	90	0.503
91	91	0.995
92	92	0.73
93	93	0.847
94	94	0.637
95	95	0.803
96	96	0.439
97	97	0.00445
98	98	0.291
99	99	0.316

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: CNhs10492

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011308 mouse skin- adult 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)
0007023 (adult organism)
0000014 (zone of skin)
0001003 (skin epidermis)
0002097 (skin of body)
0002199 (integument)
0007029 (surface)
0000483 (epithelium)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0000119 (cell layer)
0003102 (surface structure)
0007376 (outer epithelium)
0010371 (ecto-epithelium)
0010317 (germ layer / neural crest derived structure)
0002416 (integumental system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011308 (mouse skin- 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:0006601 (presumptive ectoderm)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000922,UBERON:0000014,UBERON:0001003,UBERON:0002097,UBERON:0002199,UBERON:0007029,UBERON:0000483,UBERON:0000479,UBERON:0000064,UBERON:0004121,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0002050,UBERON:0005423,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0005291,UBERON:0003102,UBERON:0007376,UBERON:0006598,UBERON:0002532,UBERON:0000924,UBERON:0002416,UBERON:0006601,UBERON:0007383
+|DRA_sample_Accession=CAGE@SAMD00005423
+|accession_numbers=CAGE;DRX009077;DRR009951;DRZ001376;DRZ002759;DRZ012726;DRZ014109
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000014,UBERON:0001003,UBERON:0002097,UBERON:0002199,UBERON:0007029,UBERON:0000483,UBERON:0000479,UBERON:0004121,UBERON:0000064,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0000119,UBERON:0003102,UBERON:0007376,UBERON:0010371,UBERON:0010317,UBERON:0002416
 |ancestors_in_cell_lineage_facet=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000998,FF:0000004,FF:0011308
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr11:94981424..94981439,+!p1@Dlx3!2.29!217.16!Dlx3;;chr16:25801993..25802014,+!p1@Trp63!2.26!182.53!Trp63;;chr11:121380640..121380655,-!p1@Zfp750!2.19!250.63!Zfp750;;chr2:9800207..9800234,-!p1@Gata3!2.10!363.90!Gata3;;chr11:121380594..121380609,-!p2@Zfp750!2.05!188.46!Zfp750;;chr15:102751603..102751630,+!p1@Hoxc13!2.02!104.21!Hoxc13;;chr13:53568104..53568156,-!p1@Msx2!2.00!143.45!Msx2;;chr13:40829137..40829205,-!p1@Tfap2a!1.95!97.94!Tfap2a;;chr11:121380611..121380625,-!p3@Zfp750!1.89!91.84!Zfp750;;chr15:97738692..97738747,-!p1@Vdr!1.72!266.95!Vdr;;chr5:77543897..77543911,-!p2@Hopx!1.72!95.30!Hopx;;chr4:135129538..135129558,-!p1@Grhl3!1.72!75.68!Grhl3;;chr17:14011485..14011507,+!p2@Mllt4!1.71!50.78!Mllt4;;chr13:40826961..40827001,-!p4@Tfap2a!1.67!46.17!Tfap2a;;chr9:43013917..43013968,-!p1@Pou2f3!1.66!44.85!Pou2f3;;chr2:38206580..38206600,+!p2@Lhx2!1.62!49.96!Lhx2;;chr19:5560600..5560617,-!p1@Ovol1!1.62!48.81!Ovol1;;chr3:99057269..99057306,+!p1@Tbx15!1.61!48.48!Tbx15;;chr9:31720843..31720888,-!p1@Barx2!1.60!42.38!Barx2;;chr17:14011569..14011589,+!p8@Mllt4!1.59!37.59!Mllt4;;chr13:83643159..83643226,+!p3@Mef2c!1.59!37.59!Mef2c;;chr13:72766279..72766296,+!p2@Irx2!1.57!52.43!Irx2;;chr7:19946556..19946611,+!p1@Ppp1r13l!1.55!129.93!Ppp1r13l;;chr12:25257141..25257173,+!p1@Grhl1!1.55!68.92!Grhl1;;chr10:67000609..67000625,+!p1@Egr2!1.54!76.67!Egr2;;chr13:72766250..72766273,+!p1@Irx2!1.54!50.95!Irx2;;chr12:25257265..25257294,+!p2@Grhl1!1.53!32.98!Grhl1;;chr11:78200071..78200100,-!p1@Foxn1!1.53!32.98!Foxn1;;chr11:98636531..98636559,-!p1@Nr1d1!1.47!158.29!Nr1d1;;chr14:118636214..118636235,-!p1@Sox21!1.46!33.64!Sox21;;chr17:14011545..14011564,+!p6@Mllt4!1.46!27.70!Mllt4;;chr10:44178521..44178557,-!p1@Prdm1!1.45!47.49!Prdm1;;chr2:120365588..120365602,-!p2@Zfp106!1.44!44.02!Zfp106;;chr7:119885539..119885574,+!p3@Tead1!1.43!26.22!Tead1;;chr11:96880072..96880079,+!p1@Sp6!1.43!25.72!Sp6;;chr1:19199236..19199258,+!p1@Tfap2b!1.42!25.39!Tfap2b;;chr2:38206744..38206766,+!p1@Lhx2!1.41!30.01!Lhx2;;chr4:46356509..46356527,+!p1@Foxe1!1.41!24.90!Foxe1;;chr2:172375081..172375105,+!p1@Tfap2c!1.40!24.07!Tfap2c;;chr17:14011529..14011544,+!p7@Mllt4!1.40!23.91!Mllt4;;chr18:80909801..80909819,-!p1@Nfatc1!1.33!117.07!Nfatc1;;chr12:25257176..25257190,+!p3@Grhl1!1.33!23.25!Grhl1;;chr12:34642510..34642530,+!p1@Twist1!1.32!61.34!Twist1;;chr4:148178559..148178603,+!p1@Casz1!1.32!55.57!Casz1;;chr15:102828658..102828678,+!p1@Hoxc6!1.32!19.95!Hoxc6;;chr1:19199021..19199048,+!p8@Tfap2b!1.31!19.62!Tfap2b;;chr11:96143666..96143725,+!p1@Hoxb8!1.29!21.27!Hoxb8;;chr11:5761979..5761992,+!p2@Aebp1!1.28!35.95!Aebp1;;chr2:103143336..103143367,-!p1@Ehf!1.28!28.69!Ehf;;chr19:5560570..5560582,-!p2@Ovol1!1.28!17.97!Ovol1;;chr14:99697871..99697934,+!p1@Klf5!1.27!338.84!Klf5;;chr10:66998241..66998263,+!p2@Egr2!1.27!17.64!Egr2;;chr13:40829337..40829360,-!p5@Tfap2a!1.23!16.16!Tfap2a;;chr13:53568191..53568219,-!p2@Msx2!1.23!16.16!Msx2;;chr6:53523358..53523388,+!p1@Creb5!1.22!183.85!Creb5;;chr12:109242266..109242295,-!p1@Bcl11b!1.22!128.12!Bcl11b;;chr12:37835141..37835194,+!p1@Meox2!1.22!47.98!Meox2;;chr11:5761889..5761969,+!p1@Aebp1!1.21!614.86!Aebp1;;chr4:55545337..55545357,-!p1@Klf4!1.21!218.47!Klf4;;chr4:124334894..124334899,+!p1@Pou3f1!1.19!18.63!Pou3f1;;chr4:87452200..87452229,-!p2@Mllt3!1.18!30.34!Mllt3;;chr1:165243792..165243808,-!p1@Prrx1!1.17!47.65!Prrx1;;chr16:18587076..18587106,-!p1@Tbx1!1.15!18.96!Tbx1;;chr5:77543935..77543947,-!p4@Hopx!1.14!12.86!Hopx;;chr2:9800094..9800108,-!p3@Gata3!1.14!12.86!Gata3;;chr3:99057677..99057730,+!p2@Tbx15!1.14!12.70!Tbx15;;chr16:43363190..43363242,+!p2@Zbtb20!1.13!38.42!Zbtb20;;chr15:102087880..102087927,-!p2@Rarg!1.13!28.53!Rarg;;chr4:87452180..87452196,-!p3@Mllt3!1.13!24.57!Mllt3;;chr13:30841099..30841116,+!p1@Irf4!1.13!19.62!Irf4;;chr10:44178493..44178520,-!p3@Prdm1!1.13!17.48!Prdm1;;chr15:102751578..102751600,+!p2@Hoxc13!1.13!12.37!Hoxc13;;chr18:76219118..76219155,+!p1@Zbtb7c!1.12!21.27!Zbtb7c;;chr9:69137716..69137744,+!p1@Rora!1.10!73.54!Rora;;chr13:72101178..72101203,-!p1@Irx1!1.10!17.97!Irx1;;chr7:35904304..35904320,+!p1@Cebpa!1.09!231.34!Cebpa;;chr13:31650185..31650201,+!p1@Foxq1!1.08!39.08!Foxq1;;chr7:20162663..20162678,+!p1@Zfp296!1.08!14.51!Zfp296;;chr12:25257114..25257131,+!p4@Grhl1!1.08!14.35!Grhl1;;chr6:128250380..128250442,-!p2@Tead4!1.07!13.85!Tead4;;chr11:98636508..98636524,-!p3@Nr1d1!1.07!13.19!Nr1d1;;chr9:91260594..91260612,-!p1@Zic1!1.07!10.72!Zic1;;chr13:53568081..53568094,-!p3@Msx2!1.07!10.72!Msx2;;chr2:160192793..160192809,-!p1@Mafb!1.05!156.15!Mafb;;chr3:130813200..130813252,+!p1@Lef1!1.05!45.84!Lef1;;chr12:25257298..25257323,+!p5@Grhl1!1.05!10.22!Grhl1;;chr4:82151653..82151706,-!p2@Nfib!1.04!281.30!Nfib;;chr15:103170516..103170531,-!p2@Zfp385a!1.04!23.74!Zfp385a;;chr13:83643136..83643158,+!p7@Mef2c!1.04!10.06!Mef2c;;chr13:40825465..40825469,-!p2@Tfap2a!1.04!9.89!Tfap2a;;chr18:35020854..35020869,+!p1@Egr1!1.03!378.58!Egr1;;chr6:52167459..52167492,-!p1@Hoxa7!1.03!11.87!Hoxa7;;chr11:96153767..96153822,+!p1@Hoxb6!1.02!14.67!Hoxb6;;chr12:37835120..37835133,+!p2@Meox2!1.02!13.85!Meox2;;chr4:135129447..135129467,-!p2@Grhl3!1.02!11.54!Grhl3;;chr10:106931775..106931798,-!p1@Myf6!1.02!9.56!Myf6;;chr2:103143315..103143328,-!p2@Ehf!1.02!9.40!Ehf;;chr1:19199221..19199234,+!p6@Tfap2b!1.02!9.40!Tfap2b;;chr14:70477113..70477173,+!p1@Egr3!1.02!9.40!Egr3;;chr1:194979315..194979359,+!p1@Irf6!1.01!57.22!Irf6;;chr5:135582751..135582788,+!p1@Mlxipl!1.01!38.09!Mlxipl;;chr19:59533221..59533271,+!p1@Emx2!1.01!11.54!Emx2;;chr5:20361092..20361119,-!p4@Phtf2!1.01!9.23!Phtf2;;chr5:32438831..32438878,+!p1@Fosl2!1.00!95.47!Fosl2;;chr4:148275237..148275311,+!p2@Casz1!1.00!37.59!Casz1;;chr10:66998213..66998240,+!p4@Egr2!1.00!9.07!Egr2;;chr9:91260616..91260653,-!p2@Zic1!1.00!9.07!Zic1;;chr14:98568971..98569025,-!p1@Dach1!0.99!68.43!Dach1;;chr4:148178529..148178548,+!p3@Casz1!0.99!20.94!Casz1;;chr8:94881733..94881790,+!p1@Irx5!0.99!17.64!Irx5;;chr2:71384802..71384815,-!p1@Dlx2!0.99!10.88!Dlx2;;chr4:126413480..126413489,-!p1@Tfap2e!0.99!8.74!Tfap2e;;chr5:24108047..24108106,-!p3@Smarcd3!0.98!15.50!Smarcd3;;chr11:96145450..96145517,+!p2@Hoxb7!0.98!12.86!Hoxb7;;chr8:94325814..94325839,-!p2@Irx3!0.97!17.97!Irx3;;chr13:53568169..53568179,-!p4@Msx2!0.97!8.24!Msx2;;chr11:69468531..69468557,+!p1@Sox15!0.97!8.24!Sox15;;chr6:86619104..86619119,-!p1@Mxd1!0.96!68.76!Mxd1;;chr17:14011908..14011919,+!p13@Mllt4!0.96!8.08!Mllt4;;chr11:96690797..96690813,-!p1@Nfe2l1!0.95!157.30!Nfe2l1;;chr8:94325321..94325366,-!p1@Irx3!0.95!19.79!Irx3;;chr6:131338435..131338482,-!p1@Csda!0.94!755.18!Csda;;chr11:112643496..112643562,+!p1@Sox9!0.94!300.09!Sox9;;chr14:64562503..64562524,+!p1@Sox7!0.94!46.83!Sox7;;chr14:98569030..98569059,-!p3@Dach1!0.94!38.75!Dach1;;chr15:103170533..103170556,-!p1@Zfp385a!0.94!29.51!Zfp385a;;chr6:51382677..51382783,+!p1@Nfe2l3!0.94!20.45!Nfe2l3;;chr15:35225845..35225867,+!p1@Osr2!0.94!19.95!Osr2;;chr10:44178375..44178390,-!p2@Prdm1!0.94!10.72!Prdm1;;chr10:44178474..44178487,-!p4@Prdm1!0.93!11.05!Prdm1;;chr1:194979361..194979373,+!p2@Irf6!0.93!10.39!Irf6;;chr10:5636374..5636421,-!p1@Esr1!0.92!9.40!Esr1;;chr8:87297280..87297326,-!p2@Nfix!0.91!17.48!Nfix;;chr10:5636354..5636373,-!p2@Esr1!0.91!7.09!Esr1;;chr1:19199064..19199075,+!p10@Tfap2b!0.91!7.09!Tfap2b;;chr1:19199095..19199114,+!p5@Tfap2b!0.91!7.09!Tfap2b;;chr16:55822241..55822258,-!p1@Nfkbiz!0.90!226.22!Nfkbiz;;chr12:74147689..74147711,-!p1@Six1!0.90!15.66!Six1;;chr4:148178459..148178482,+!p4@Casz1!0.90!6.93!Casz1;;chr6:145814003..145814056,-!p1@Bhlhe41!0.89!20.45!Bhlhe41;;chr13:31650026..31650045,+!p2@Foxq1!0.89!11.71!Foxq1;;chr2:74542918..74542971,+!p1@Hoxd8!0.89!10.55!Hoxd8;;chr2:168415815..168415872,-!p1@Nfatc2!0.88!37.59!Nfatc2;;chr15:102820964..102821006,+!p1@Hoxc8!0.88!6.60!Hoxc8;;chr5:104121453..104121479,+!p4@Aff1!0.87!31.00!Aff1;;chr10:67599319..67599360,-!p2@Arid5b!0.86!73.04!Arid5b;;chr16:92697560..92697592,-!p2@Runx1!0.86!41.72!Runx1;;chr4:150482563..150482655,-!p2@Camta1!0.85!22.92!Camta1;;chr11:23670750..23670789,-!p2@Rel!0.85!11.87!Rel;;chr1:165243591..165243625,-!p2@Prrx1!0.85!9.56!Prrx1;;chr1:19199079..19199092,+!p7@Tfap2b!0.85!6.10!Tfap2b;;chr2:103251839..103251853,+!p5@Elf5!0.85!6.10!Elf5;;chr16:25684232..25684285,+!p2@Trp63!0.85!6.10!Trp63;;chr13:73397958..73397994,+!p1@Irx4!0.85!6.10!Irx4;;chr1:19202352..19202354,+!p2@Tfap2b!0.84!5.94!Tfap2b;;chr1:19199119..19199134,+!p4@Tfap2b!0.84!5.94!Tfap2b;;chr3:99057256..99057268,+!p3@Tbx15!0.84!5.94!Tbx15;;chr13:31898729..31898761,+!p1@Foxc1!0.83!15.00!Foxc1;;chr13:72766234..72766243,+!p3@Irx2!0.83!5.77!Irx2;;chr15:102828642..102828653,+!p2@Hoxc6!0.83!5.77!Hoxc6;;chr6:52167434..52167450,-!p3@Hoxa7!0.83!5.77!Hoxa7;;chr5:32438894..32438908,+!p2@Fosl2!0.82!12.53!Fosl2;;chr4:124805061..124805087,-!p1@Zc3h12a!0.81!17.81!Zc3h12a;;chr11:23977565..23977612,+!p5@Bcl11a!0.81!12.53!Bcl11a;;chr7:86956107..86956152,+!p@chr7:86956107..86956152,+!0.81!8.74!Mesp2;;chr11:78200195..78200211,-!p2@Foxn1!0.81!5.44!Foxn1;;chr3:32264814..32264835,-!p5@Zmat3!0.81!5.44!Zmat3;;chr3:99044284..99044308,+!p4@Tbx15!0.81!5.44!Tbx15;;chr13:40827030..40827039,-!p12@Tfap2a!0.81!5.44!Tfap2a;;chr2:91864661..91864686,-!p1@Creb3l1!0.80!124.32!Creb3l1;;chr9:69137672..69137702,+!p2@Rora!0.80!24.40!Rora;;chr6:97757008..97757061,+!p1@Mitf!0.80!24.24!Mitf;;chr1:165243379..165243402,-!p3@Prrx1!0.80!8.24!Prrx1;;chr7:19895384..19895399,-!p2@Fosb!0.80!7.75!Fosb;;chr12:37835203..37835218,+!p3@Meox2!0.80!6.43!Meox2;;chr13:40826150..40826167,-!p3@Tfap2a!0.80!5.94!Tfap2a;;chr14:118636238..118636257,-!p2@Sox21!0.80!5.28!Sox21;;chr9:31721051..31721068,-!p3@Barx2!0.80!5.28!Barx2;;chr8:87324243..87324277,-!p1@Nfix!0.79!133.89!Nfix;;chr8:118231705..118231722,-!p3@Maf!0.79!44.52!Maf;;chr14:118635860..118635885,-!p3@Sox21!0.79!5.11!Sox21;;chr6:115372058..115372085,+!p3@Pparg!0.79!5.11!Pparg;;chr11:106128936..106128955,-!p4@Smarcd2!0.78!5.94!Smarcd2;;chr12:86814833..86814846,+!p1@Fos!0.77!126.30!Fos;;chr15:81633165..81633188,+!p2@Tef!0.77!44.02!Tef;;chr5: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+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006601,UBERON:0010316
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 36: / Line 42: @@
 |has_quality=
 |id=FF:30-1C3
-|is_a=EFO:0002091;;FF:0000004;;FF:0000103;;FF:0011308
+|is_a=EFO:0002091;;FF:0011308
+|is_obsolete=
+|library_id=CNhs10492
+|library_id_phase_based=2:CNhs10492
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;30
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;30
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/skin%252c%2520adult.CNhs10492.30-1C3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/skin%252c%2520adult.CNhs10492.30-1C3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/skin%252c%2520adult.CNhs10492.30-1C3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/skin%252c%2520adult.CNhs10492.30-1C3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/skin%252c%2520adult.CNhs10492.30-1C3.mm9.nobarcode.rdna.fa.gz
 |name=skin, adult
 |namespace=FANTOM5
@@ Line 42: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10492,LSID647,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.164054366599866,0,0.0272926198536354,0.0662835200988411,0,0,0.134806857681908,0,0.0331417600494206,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.125609830783734,0,0.270370760179654,0,0,0,0.0662835200988411,0,0,0,0,0,0,0,0.444552502836601,0,0,0,0.0662835200988411,0,0.067315183490553,0,0.0264667970230417,-0.198065409278293,-0.0953265865376722,0,0,0,0,0,0,0.774267820059661,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0.0872710257363395,0.174542051472679,0.174542051472679,0.0110768246239221,0.000216999212323449,-0.0119465503550543,0.175195738947289,0.0421610570419137,0.123777349320174,0.0662835200988411,0.0208818116313574,0.147220569586743,0.0662835200988411,0,0,-0.131575995433302,-0.0350306930193227,-0.0788315948399074,0,0,0,0,0,0,0.0908703953791199,-0.337644316709883,0.0544766702339269,0,0,0,0,0
 |rna_box=1
 |rna_catalog_number=
@@ Line 57: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 76: / Line 96: @@
 |sample_tissue=skin
 |top_motifs=TBP:3.72621358706;FOS_FOS{B,L1}_JUN{B,D}:3.55501795658;FOSL2:3.29639078396;NANOG:2.90870441086;TP53:2.83119423139;BACH2:2.69844853066;HOX{A4,D4}:2.694000017;VSX1,2:2.46291573865;GLI1..3:2.43190369683;LEF1_TCF7_TCF7L1,2:2.37051323453;T:2.36289788775;FOXO1,3,4:2.35982006407;TFCP2:2.28229962433;ZNF148:2.27441390419;NFE2L2:2.14234805646;MYOD1:2.03638920838;PDX1:1.93867274214;SPZ1:1.71115268742;SMAD1..7,9:1.69837323168;TFAP2{A,C}:1.65994720626;FOX{I1,J2}:1.62858356951;TEAD1:1.53065087322;SP1:1.51683370837;CRX:1.46043455296;TAL1_TCF{3,4,12}:1.40440098653;HLF:1.40247958834;TBX4,5:1.3974081021;TOPORS:1.34458822414;IRF7:1.33315444411;NFE2:1.32799844386;GCM1,2:1.31503812641;SNAI1..3:1.26859025654;NKX2-3_NKX2-5:1.26271250128;HMX1:1.26236219018;MAFB:1.23614168371;MEF2{A,B,C,D}:1.23565297589;ESR1:1.22758394927;ATF2:1.2035027056;NFATC1..3:1.20049925973;MYFfamily:1.14572180981;ZNF238:1.1277683146;TFAP4:1.08829101874;PAX5:1.04863344864;bHLH_family:1.03406090149;SREBF1,2:1.03329984345;GTF2A1,2:1.03325241521;ALX1:1.0318228886;FOXQ1:0.993775608171;HAND1,2:0.983245591398;NKX3-2:0.932916005832;TLX2:0.90972404741;CEBPA,B_DDIT3:0.906549308223;EP300:0.889177194848;XCPE1{core}:0.887744269156;ATF4:0.866119945759;STAT2,4,6:0.86379411476;GTF2I:0.834394668661;PAX2:0.812505455084;NKX2-1,4:0.693583488455;GATA4:0.691248239244;FOX{D1,D2}:0.687077611796;POU2F1..3:0.662827575359;TEF:0.64086649545;GFI1B:0.629115032823;ZEB1:0.613233121088;RBPJ:0.611561304424;TGIF1:0.56377194952;HIC1:0.549002465484;GFI1:0.533724617704;SRF:0.526089438361;SOX5:0.516032787732;HSF1,2:0.513812423369;ALX4:0.469511564703;MAZ:0.463903204643;FOXL1:0.450827727591;NHLH1,2:0.442307275781;PITX1..3:0.438179417871;POU6F1:0.433024994389;NR3C1:0.4227069184;DMAP1_NCOR{1,2}_SMARC:0.417234823933;PAX8:0.414573341527;EBF1:0.388191336033;TLX1..3_NFIC{dimer}:0.385181951304;NFE2L1:0.371084501336;NFKB1_REL_RELA:0.362056944358;SPI1:0.356729819952;IRF1,2:0.302300126172;CDC5L:0.271846655062;FOX{F1,F2,J1}:0.201310912692;RORA:0.179737590966;STAT5{A,B}:0.143575978573;MTF1:0.134622266781;EGR1..3:0.107683144747;ESRRA:0.103444770423;FOXN1:0.100797012222;RFX2..5_RFXANK_RFXAP:0.0942093133068;FOXM1:0.0886596190414;PATZ1:0.0607617428376;TFAP2B:0.0567598740471;LMO2:0.0550605543266;NKX3-1:0.0440855984918;PRDM1:0.0409616209358;MED-1{core}:0.0192637785245;IKZF1:0.0176564583754;MYBL2:-0.00218869874887;BPTF:-0.0121542796247;ZIC1..3:-0.0246300628905;AR:-0.0351595753574;EN1,2:-0.0425205900126;ETS1,2:-0.053866209069;NFIL3:-0.0603394115659;POU3F1..4:-0.0867982076534;RUNX1..3:-0.100893873325;SPIB:-0.118695670866;KLF4:-0.123259891358;ATF6:-0.131551632645;DBP:-0.143471335039;MZF1:-0.157885505074;MTE{core}:-0.165319860456;ZNF143:-0.17787410108;PRRX1,2:-0.214286308703;REST:-0.219521415789;AIRE:-0.22321065488;RREB1:-0.223997081865;TFDP1:-0.232057449133;FOXP1:-0.246830938365;BREu{core}:-0.268315284656;NKX6-1,2:-0.268968674539;HBP1_HMGB_SSRP1_UBTF:-0.274260123909;NR6A1:-0.299064422117;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.320548537554;ELK1,4_GABP{A,B1}:-0.339295291011;ONECUT1,2:-0.3408943744;ATF5_CREB3:-0.344785671956;ZFP161:-0.355470716612;LHX3,4:-0.359711579084;SOX2:-0.362924349603;HES1:-0.369406033308;IKZF2:-0.370981166637;ELF1,2,4:-0.372736523788;HOX{A5,B5}:-0.408158797274;HIF1A:-0.413801193896;FOXA2:-0.419651739152;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.430487972345;ZNF384:-0.435744739285;POU5F1:-0.447596398943;ZBTB6:-0.450225483902;HNF4A_NR2F1,2:-0.480544432602;AHR_ARNT_ARNT2:-0.484188812076;E2F1..5:-0.504530846056;SOX{8,9,10}:-0.548978541701;GZF1:-0.552439356079;STAT1,3:-0.578349774043;NANOG{mouse}:-0.599460212804;NKX2-2,8:-0.623556796946;SOX17:-0.647179434097;MYB:-0.650654767958;POU1F1:-0.651358202756;GATA6:-0.659530087374;RXRA_VDR{dimer}:-0.669383485511;HNF1A:-0.670115054353;CREB1:-0.671664694481;HMGA1,2:-0.724651963613;ADNP_IRX_SIX_ZHX:-0.770334911691;RFX1:-0.828889787593;NRF1:-0.859474343498;NFY{A,B,C}:-0.904363365668;PAX6:-0.907056706519;PBX1:-0.943222126826;JUN:-0.962420149913;ZNF423:-1.01413222515;PAX1,9:-1.02391429275;FOXP3:-1.02918430818;PPARG:-1.03635047785;NR1H4:-1.05589341317;NFIX:-1.11685341975;YY1:-1.13482350448;CUX2:-1.14588174846;RXR{A,B,G}:-1.16411727641;NR5A1,2:-1.22705832762;HOXA9_MEIS1:-1.28748411988;UFEwm:-1.40771093254;ARID5B:-1.4401845389;CDX1,2,4:-1.52936200198;PAX4:-1.60229787781;FOXD3:-1.64066022341;OCT4_SOX2{dimer}:-1.65941105218;ZBTB16:-1.74326131372;EVI1:-1.92140028845
+|xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:30-1C3;search_select_hide=table117:30-1C3
 }}

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FF:30-1C3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:09, 4 June 2020

CNhs10492

	FAQ
	Mozilla Cavendish skin modified by DaSch for the Web Community Wiki GitHub project page – Report a bug – Skin version: 2.6.0