FF:650-25G4: Difference between revisions

Latest revision as of 19:19, 4 June 2020

Name:	skin, neonate N00
Species:	Mouse (Mus musculus)
Library ID:	CNhs11124
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	skin
dev stage	0 day neonate
sex	mixture
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		SAMD00004964

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11124		CAGE		DRX009078		DRR009952

Accession ID Mm9

Library id		BAM		CTSS
CNhs11124		DRZ001377		DRZ002760

Accession ID Mm10

Library id		BAM		CTSS
CNhs11124		DRZ012727		DRZ014110

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

CNhs11124

0	0
1	0
10	0
100	0
1000	0.065
1001	0.0975
1002	-0.012
1003	0.152
1004	0
1005	0
1006	0.172
1007	0.0614
1008	0
1009	0.104
101	0.0718
1010	0
1011	0.0307
1012	0.0145
1013	0.0224
1014	0.267
1015	-0.0724
1016	0.092
1017	0
1018	0.554
1019	0
102	0
1020	0
1021	0
1022	0.198
1023	0
1024	0.222
1025	0
1026	0.0356
1027	0.065
1028	0
1029	0.0568
103	0.554
1030	0
1031	0.412
1032	-0.131
1033	-0.0752
1034	0.065
1035	0.065
1036	0.0742
1037	0
1038	0.0251
1039	-0.11
104	0
1040	0.288
1041	0.328

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: CNhs11124

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00618
MA0003.1	MA0003.1	0.553
MA0004.1	MA0004.1	0.284
MA0006.1	MA0006.1	0.0849
MA0007.1	MA0007.1	0.845
MA0009.1	MA0009.1	0.155
MA0014.1	MA0014.1	0.682
MA0017.1	MA0017.1	1.53909e-10
MA0018.2	MA0018.2	0.00602
MA0019.1	MA0019.1	0.258
MA0024.1	MA0024.1	0.131
MA0025.1	MA0025.1	0.936
MA0027.1	MA0027.1	0.905
MA0028.1	MA0028.1	4.41834e-8
MA0029.1	MA0029.1	0.657
MA0030.1	MA0030.1	0.145
MA0031.1	MA0031.1	0.0468
MA0035.2	MA0035.2	9.42179e-4
MA0038.1	MA0038.1	0.457
MA0039.2	MA0039.2	0.0526
MA0040.1	MA0040.1	0.891
MA0041.1	MA0041.1	0.248
MA0042.1	MA0042.1	0.524
MA0043.1	MA0043.1	0.245
MA0046.1	MA0046.1	4.30148e-26
MA0047.2	MA0047.2	0.277
MA0048.1	MA0048.1	0.113
MA0050.1	MA0050.1	0.198
MA0051.1	MA0051.1	0.0625
MA0052.1	MA0052.1	9.97678e-11
MA0055.1	MA0055.1	0.0052
MA0057.1	MA0057.1	0.391
MA0058.1	MA0058.1	0.0774
MA0059.1	MA0059.1	0.00405
MA0060.1	MA0060.1	0.00132
MA0061.1	MA0061.1	0.197
MA0062.2	MA0062.2	2.30598e-10
MA0065.2	MA0065.2	0.00441
MA0066.1	MA0066.1	0.333
MA0067.1	MA0067.1	0.532
MA0068.1	MA0068.1	0.0851
MA0069.1	MA0069.1	0.725
MA0070.1	MA0070.1	0.553
MA0071.1	MA0071.1	0.00463
MA0072.1	MA0072.1	0.179
MA0073.1	MA0073.1	0.902
MA0074.1	MA0074.1	0.327
MA0076.1	MA0076.1	1.38178e-7
MA0077.1	MA0077.1	0.392
MA0078.1	MA0078.1	0.0144
MA0079.2	MA0079.2	0.0296
MA0080.2	MA0080.2	2.46915e-5
MA0081.1	MA0081.1	0.00391
MA0083.1	MA0083.1	0.0056
MA0084.1	MA0084.1	0.801
MA0087.1	MA0087.1	0.112
MA0088.1	MA0088.1	0.193
MA0090.1	MA0090.1	0.0187
MA0091.1	MA0091.1	0.818
MA0092.1	MA0092.1	0.201
MA0093.1	MA0093.1	0.208
MA0099.2	MA0099.2	1.16458e-10
MA0100.1	MA0100.1	0.014
MA0101.1	MA0101.1	0.3
MA0102.2	MA0102.2	0.423
MA0103.1	MA0103.1	0.962
MA0104.2	MA0104.2	0.0159
MA0105.1	MA0105.1	0.0665
MA0106.1	MA0106.1	0.137
MA0107.1	MA0107.1	0.669
MA0108.2	MA0108.2	1.81878e-14
MA0111.1	MA0111.1	0.998
MA0112.2	MA0112.2	0.701
MA0113.1	MA0113.1	0.431
MA0114.1	MA0114.1	2.5707e-10
MA0115.1	MA0115.1	1.35561e-4
MA0116.1	MA0116.1	0.0961
MA0117.1	MA0117.1	0.529
MA0119.1	MA0119.1	0.531
MA0122.1	MA0122.1	0.543
MA0124.1	MA0124.1	0.149
MA0125.1	MA0125.1	0.0979
MA0131.1	MA0131.1	0.797
MA0135.1	MA0135.1	0.459
MA0136.1	MA0136.1	7.30687e-10
MA0137.2	MA0137.2	0.0924
MA0138.2	MA0138.2	0.957
MA0139.1	MA0139.1	0.0321
MA0140.1	MA0140.1	0.00197
MA0141.1	MA0141.1	1.33052e-7
MA0142.1	MA0142.1	0.173
MA0143.1	MA0143.1	0.0906
MA0144.1	MA0144.1	0.564
MA0145.1	MA0145.1	0.339
MA0146.1	MA0146.1	0.657
MA0147.1	MA0147.1	0.00632
MA0148.1	MA0148.1	0.217
MA0149.1	MA0149.1	0.14
MA0150.1	MA0150.1	0.266
MA0152.1	MA0152.1	0.014
MA0153.1	MA0153.1	1.73122e-15
MA0154.1	MA0154.1	0.599
MA0155.1	MA0155.1	0.58
MA0156.1	MA0156.1	1.07147e-6
MA0157.1	MA0157.1	0.00272
MA0159.1	MA0159.1	0.0242
MA0160.1	MA0160.1	5.00719e-6
MA0162.1	MA0162.1	0.508
MA0163.1	MA0163.1	0.203
MA0164.1	MA0164.1	0.283
MA0258.1	MA0258.1	0.463
MA0259.1	MA0259.1	0.156

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: CNhs11124

Novel motif	Logo	P-value
1	1	0.24
10	10	0.434
100	100	0.7
101	101	0.771
102	102	0.633
103	103	0.142
104	104	0.805
105	105	0.349
106	106	0.0258
107	107	0.00342
108	108	0.925
109	109	0.135
11	11	0.226
110	110	0.612
111	111	0.0859
112	112	0.412
113	113	0.677
114	114	0.736
115	115	0.455
116	116	0.408
117	117	0.111
118	118	0.0638
119	119	0.481
12	12	0.242
120	120	0.286
121	121	0.286
122	122	0.417
123	123	0.794
124	124	0.238
125	125	0.504
126	126	0.732
127	127	0.716
128	128	0.125
129	129	0.245
13	13	0.139
130	130	0.726
131	131	0.344
132	132	0.987
133	133	0.141
134	134	0.96
135	135	0.446
136	136	0.6
137	137	0.451
138	138	0.506
139	139	0.372
14	14	0.461
140	140	0.203
141	141	0.619
142	142	0.589
143	143	0.152
144	144	0.232
145	145	0.405
146	146	0.381
147	147	0.162
148	148	0.2
149	149	0.907
15	15	0.0246
150	150	0.404
151	151	0.838
152	152	0.0194
153	153	0.898
154	154	0.249
155	155	0.533
156	156	0.0215
157	157	0.00245
158	158	0.114
159	159	0.348
160	160	0.347
161	161	0.125
162	162	0.664
163	163	0.751
164	164	0.461
165	165	0.518
166	166	0.213
167	167	0.0107
168	168	0.82
169	169	0.144
17	17	0.233
18	18	0.21
19	19	0.451
2	2	0.101
20	20	0.214
21	21	0.94
22	22	0.524
23	23	0.255
24	24	0.959
25	25	0.125
26	26	0.0676
27	27	0.701
28	28	0.889
29	29	0.0289
3	3	0.171
30	30	0.1
31	31	0.536
32	32	0.807
33	33	0.644
34	34	0.636
35	35	0.00408
36	36	0.0151
37	37	0.707
38	38	0.353
39	39	0.157
4	4	0.981
40	40	0.0442
41	41	0.285
42	42	0.678
43	43	0.906
44	44	0.0232
45	45	0.249
46	46	0.737
47	47	0.275
48	48	0.307
49	49	0.42
5	5	0.511
50	50	0.303
51	51	0.973
52	52	0.0633
53	53	0.269
54	54	0.655
55	55	0.82
56	56	0.687
57	57	0.617
58	58	0.855
59	59	0.782
6	6	0.766
60	60	0.082
61	61	0.875
62	62	0.479
63	63	0.544
64	64	0.19
65	65	0.416
66	66	0.0949
67	67	0.778
68	68	0.058
69	69	0.258
7	7	0.763
70	70	0.217
71	71	0.654
72	72	0.395
73	73	0.47
74	74	0.97
75	75	0.0755
76	76	0.0249
77	77	0.444
78	78	0.0505
79	79	0.533
8	8	0.137
80	80	0.114
81	81	0.587
82	82	0.766
83	83	0.303
84	84	0.377
85	85	0.399
86	86	0.107
87	87	0.607
88	88	0.882
89	89	0.266
9	9	0.396
90	90	0.398
91	91	0.873
92	92	0.783
93	93	0.515
94	94	0.442
95	95	0.445
96	96	0.714
97	97	0.194
98	98	0.46
99	99	0.224

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: CNhs11124

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011397 mouse skin- neonate N00 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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000304 (mouse neonate N0 sample)
0011397 (mouse skin- 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:0002532 (epiblast (generic))
UBERON:0006601 (presumptive ectoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008941
+|DRA_sample_Accession=CAGE@SAMD00004964
-|accession_numbers=CAGE;DRX009078;DRR009952;DRZ001377;DRZ002760
+|accession_numbers=CAGE;DRX009078;DRR009952;DRZ001377;DRZ002760;DRZ012727;DRZ014110
 |ancestors_in_anatomy_facet=UBERON:0000468,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=
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr16:25801993..25802014,+!p1@Trp63!2.19!153.39!Trp63;;chr11:121380640..121380655,-!p1@Zfp750!2.11!206.19!Zfp750;;chr13:72766250..72766273,+!p1@Irx2!1.80!93.33!Irx2;;chr5:77543897..77543911,-!p2@Hopx!1.78!109.31!Hopx;;chr9:31720843..31720888,-!p1@Barx2!1.77!63.29!Barx2;;chr13:72766279..72766296,+!p2@Irx2!1.76!82.35!Irx2;;chr11:94981424..94981439,+!p1@Dlx3!1.76!63.46!Dlx3;;chr13:40829137..40829205,-!p1@Tfap2a!1.74!60.06!Tfap2a;;chr11:121380594..121380609,-!p2@Zfp750!1.73!89.61!Zfp750;;chr4:135129538..135129558,-!p1@Grhl3!1.71!74.11!Grhl3;;chr9:43013917..43013968,-!p1@Pou2f3!1.69!47.79!Pou2f3;;chr12:34642510..34642530,+!p1@Twist1!1.67!138.54!Twist1;;chr2:9800207..9800234,-!p1@Gata3!1.62!118.84!Gata3;;chr3:99057269..99057306,+!p1@Tbx15!1.56!43.11!Tbx15;;chr11:121380611..121380625,-!p3@Zfp750!1.55!41.66!Zfp750;;chr2:172375081..172375105,+!p1@Tfap2c!1.55!34.39!Tfap2c;;chr15:35225845..35225867,+!p1@Osr2!1.51!76.70!Osr2;;chr13:30841099..30841116,+!p1@Irf4!1.51!48.12!Irf4;;chr19:5560600..5560617,-!p1@Ovol1!1.48!35.20!Ovol1;;chr7:6649134..6649167,-!p1@Zim1!1.45!142.73!Zim1;;chr6:70906450..70906454,+!p1@Foxi3!1.44!26.80!Foxi3;;chr2:38206580..38206600,+!p2@Lhx2!1.43!31.97!Lhx2;;chr5:77543935..77543947,-!p4@Hopx!1.40!24.06!Hopx;;chr4:55545337..55545357,-!p1@Klf4!1.38!326.16!Klf4;;chr4:55545051..55545110,-!p2@Klf4!1.36!27.13!Klf4;;chr10:126778916..126778974,-!p1@Gli1!1.32!43.60!Gli1;;chr13:83643159..83643226,+!p3@Mef2c!1.32!19.86!Mef2c;;chr15:102828658..102828678,+!p1@Hoxc6!1.31!19.54!Hoxc6;;chr12:25257265..25257294,+!p2@Grhl1!1.31!19.38!Grhl1;;chr13:73397958..73397994,+!p1@Irx4!1.31!19.21!Irx4;;chr13:53568104..53568156,-!p1@Msx2!1.30!28.26!Msx2;;chr1:93698030..93698064,+!p1@Twist2!1.28!35.85!Twist2;;chr13:40826961..40827001,-!p4@Tfap2a!1.28!18.25!Tfap2a;;chr9:69137716..69137744,+!p1@Rora!1.27!107.86!Rora;;chr13:72101178..72101203,-!p1@Irx1!1.27!26.96!Irx1;;chr13:40825465..40825469,-!p2@Tfap2a!1.27!17.60!Tfap2a;;chr12:25257141..25257173,+!p1@Grhl1!1.25!34.23!Grhl1;;chr2:38206744..38206766,+!p1@Lhx2!1.25!20.34!Lhx2;;chr7:19946556..19946611,+!p1@Ppp1r13l!1.23!61.68!Ppp1r13l;;chr10:44178521..44178557,-!p1@Prdm1!1.20!26.48!Prdm1;;chr14:118636214..118636235,-!p1@Sox21!1.20!17.76!Sox21;;chr15:102751603..102751630,+!p1@Hoxc13!1.20!14.69!Hoxc13;;chr11:96880072..96880079,+!p1@Sp6!1.20!14.69!Sp6;;chr6:128250380..128250442,-!p2@Tead4!1.19!18.25!Tead4;;chr12:109242266..109242295,-!p1@Bcl11b!1.17!113.99!Bcl11b;;chr2:120365588..120365602,-!p2@Zfp106!1.17!23.09!Zfp106;;chr4:55545152..55545194,-!p3@Klf4!1.15!15.50!Klf4;;chr17:14011485..14011507,+!p2@Mllt4!1.14!12.92!Mllt4;;chr1:19199236..19199258,+!p1@Tfap2b!1.13!12.43!Tfap2b;;chr4:148178559..148178603,+!p1@Casz1!1.12!35.20!Casz1;;chr3:99057677..99057730,+!p2@Tbx15!1.11!11.95!Tbx15;;chr18:80909801..80909819,-!p1@Nfatc1!1.10!68.78!Nfatc1;;chr13:73398004..73398017,+!p2@Irx4!1.10!11.46!Irx4;;chr14:99697871..99697934,+!p1@Klf5!1.09!225.24!Klf5;;chr12:37835141..37835194,+!p1@Meox2!1.09!35.04!Meox2;;chr5:65213356..65213412,+!p6@Klf3!1.09!24.22!Klf3;;chr6:52176164..52176195,-!p1@Hoxa9!1.09!14.05!Hoxa9;;chr2:160192793..160192809,-!p1@Mafb!1.08!165.02!Mafb;;chr9:48644037..48644067,-!p2@Zbtb16!1.08!27.93!Zbtb16;;chr1:165243591..165243625,-!p2@Prrx1!1.08!16.79!Prrx1;;chr15:50714356..50714368,-!p14@Trps1!1.08!11.14!Trps1;;chr11:106128936..106128955,-!p4@Smarcd2!1.07!12.43!Smarcd2;;chr13:40826150..40826167,-!p3@Tfap2a!1.07!11.95!Tfap2a;;chr14:70477113..70477173,+!p1@Egr3!1.07!10.82!Egr3;;chr8:94881733..94881790,+!p1@Irx5!1.06!20.51!Irx5;;chr4:124334894..124334899,+!p1@Pou3f1!1.06!13.56!Pou3f1;;chr11:78200071..78200100,-!p1@Foxn1!1.04!9.85!Foxn1;;chr6:53523358..53523388,+!p1@Creb5!1.03!118.19!Creb5;;chr2:103143336..103143367,-!p1@Ehf!1.03!15.98!Ehf;;chr19:5560570..5560582,-!p2@Ovol1!1.02!9.53!Ovol1;;chr12:25257176..25257190,+!p3@Grhl1!1.01!10.50!Grhl1;;chr4:135129447..135129467,-!p2@Grhl3!1.00!10.82!Grhl3;;chr1:93698068..93698085,+!p2@Twist2!0.99!10.33!Twist2;;chr9:31720903..31720918,-!p2@Barx2!0.99!8.88!Barx2;;chr4:87452200..87452229,-!p2@Mllt3!0.98!18.57!Mllt3;;chr15:97738692..97738747,-!p1@Vdr!0.97!46.66!Vdr;;chr9:48644306..48644364,-!p1@Zbtb16!0.96!33.91!Zbtb16;;chr1:165243792..165243808,-!p1@Prrx1!0.96!29.39!Prrx1;;chr8:94325814..94325839,-!p2@Irx3!0.96!17.44!Irx3;;chr3:99044284..99044308,+!p4@Tbx15!0.94!7.75!Tbx15;;chr3:130813200..130813252,+!p1@Lef1!0.93!34.55!Lef1;;chr1:120950098..120950132,-!p2@Gli2!0.93!17.44!Gli2;;chr6:88143711..88143717,+!p2@Gata2!0.93!12.43!Gata2;;chr4:126413480..126413489,-!p1@Tfap2e!0.93!7.59!Tfap2e;;chr10:67599319..67599360,-!p2@Arid5b!0.92!84.77!Arid5b;;chr15:102087880..102087927,-!p2@Rarg!0.92!17.28!Rarg;;chr2:74542918..74542971,+!p1@Hoxd8!0.92!11.14!Hoxd8;;chr3:99057256..99057268,+!p3@Tbx15!0.92!7.27!Tbx15;;chr7:35904304..35904320,+!p1@Cebpa!0.91!152.10!Cebpa;;chr13:72101141..72101158,-!p3@Irx1!0.91!9.04!Irx1;;chr15:102828642..102828653,+!p2@Hoxc6!0.90!6.94!Hoxc6;;chr2:133377954..133377973,+!p1@Bmp2!0.89!22.44!Bmp2;;chr12:34642682..34642753,+!p2@Twist1!0.89!18.73!Twist1;;chr10:106931775..106931798,-!p1@Myf6!0.89!6.78!Myf6;;chr1:135557526..135557551,-!p1@Zbed6!0.88!10.82!Zbed6;;chr16:18587076..18587106,-!p1@Tbx1!0.88!9.53!Tbx1;;chr13:72101161..72101177,-!p2@Irx1!0.88!9.36!Irx1;;chr14:118636238..118636257,-!p2@Sox21!0.88!6.62!Sox21;;chr1:19199021..19199048,+!p8@Tfap2b!0.88!6.62!Tfap2b;;chr3:130813736..130813752,+!p3@Lef1!0.87!9.20!Lef1;;chr6:52167459..52167492,-!p1@Hoxa7!0.87!7.75!Hoxa7;;chr2:74543397..74543435,+!p2@Hoxd8!0.86!6.30!Hoxd8;;chr17:14011545..14011564,+!p6@Mllt4!0.86!6.30!Mllt4;;chr10:12810631..12810649,+!p1@Plagl1!0.85!168.89!Plagl1;;chr1:165243379..165243402,-!p3@Prrx1!0.85!9.36!Prrx1;;chr2:38194778..38194798,+!p3@Lhx2!0.85!6.14!Lhx2;;chr1:136186574..136186592,+!p1@Myog!0.85!6.14!Myog;;chr4:87452180..87452196,-!p3@Mllt3!0.84!12.11!Mllt3;;chr1:165243653..165243664,-!p4@Prrx1!0.84!8.56!Prrx1;;chr10:44178375..44178390,-!p2@Prdm1!0.84!8.23!Prdm1;;chr17:14011529..14011544,+!p7@Mllt4!0.84!5.97!Mllt4;;chr9:31720746..31720762,-!p4@Barx2!0.84!5.97!Barx2;;chr1:19202352..19202354,+!p2@Tfap2b!0.84!5.97!Tfap2b;;chr13:72766234..72766243,+!p3@Irx2!0.84!5.97!Irx2;;chr10:44178493..44178520,-!p3@Prdm1!0.83!8.23!Prdm1;;chr17:14011569..14011589,+!p8@Mllt4!0.83!5.81!Mllt4;;chr9:31721051..31721068,-!p3@Barx2!0.83!5.81!Barx2;;chr1:194979315..194979359,+!p1@Irf6!0.82!36.49!Irf6;;chr6:51382677..51382783,+!p1@Nfe2l3!0.82!15.18!Nfe2l3;;chr1:194979361..194979373,+!p2@Irf6!0.82!7.75!Irf6;;chr6:52190467..52190500,-!p1@Hoxa10!0.82!5.65!Hoxa10;;chr6:97941770..97941784,+!p4@Mitf!0.82!5.65!Mitf;;chr4:46356509..46356527,+!p1@Foxe1!0.82!5.65!Foxe1;;chr11:44430812..44430838,+!p1@Ebf1!0.81!57.80!Ebf1;;chr15:103170533..103170556,-!p1@Zfp385a!0.81!21.47!Zfp385a;;chr6:6832076..6832092,-!p1@Dlx5!0.81!6.46!Dlx5;;chr11:69468531..69468557,+!p1@Sox15!0.81!5.49!Sox15;;chr7:17647736..17647772,-!p1@Hif3a!0.80!20.34!Hif3a;;chr14:56443806..56443848,+!p1@Nfatc4!0.80!11.14!Nfatc4;;chr15:37163065..37163092,+!p4@Grhl2!0.80!5.33!Grhl2;;chr11:23980664..23980706,+!p2@Bcl11a!0.79!24.06!Bcl11a;;chr12:25257114..25257131,+!p4@Grhl1!0.79!6.78!Grhl1;;chr11:96143666..96143725,+!p1@Hoxb8!0.79!5.97!Hoxb8;;chr1:19199221..19199234,+!p6@Tfap2b!0.79!5.17!Tfap2b;;chr4:3865501..3865548,-!p1@Plag1!0.78!28.26!Plag1;;chr6:128250471..128250519,-!p1@Tead4!0.78!10.66!Tead4;;chr4:134708451..134708469,+!p1@Runx3!0.78!9.36!Runx3;;chr11:96145450..96145517,+!p2@Hoxb7!0.78!7.75!Hoxb7;;chr10:44178474..44178487,-!p4@Prdm1!0.78!7.59!Prdm1;;chr8:94881872..94881887,+!p2@Irx5!0.78!5.49!Irx5;;chr9:31720817..31720829,-!p5@Barx2!0.78!5.01!Barx2;;chr13:40829337..40829360,-!p5@Tfap2a!0.78!5.01!Tfap2a;;chr8:94325321..94325366,-!p1@Irx3!0.77!12.76!Irx3;;chr19:25746898..25746910,+!p1@Dmrt2!0.77!7.59!Dmrt2;;chr19:5447692..5447711,+!p2@Fosl1!0.77!4.84!Fosl1;;chr15:35225873..35225889,+!p2@Osr2!0.77!4.84!Osr2;;chr2:74536026..74536039,+!p1@Hoxd9!0.77!4.84!Hoxd9;;chr12:86814833..86814846,+!p1@Fos!0.76!122.23!Fos;;chr5:32438831..32438878,+!p1@Fosl2!0.76!54.57!Fosl2;;chr6:86619104..86619119,-!p1@Mxd1!0.76!42.79!Mxd1;;chr15:103170516..103170531,-!p2@Zfp385a!0.76!12.27!Zfp385a;;chr18:76219118..76219155,+!p1@Zbtb7c!0.76!8.88!Zbtb7c;;chr15:37162796..37162828,+!p1@Grhl2!0.76!8.40!Grhl2;;chr15:50721211..50721234,-!p6@Trps1!0.76!8.23!Trps1;;chr19:59533221..59533271,+!p1@Emx2!0.76!5.97!Emx2;;chr5:138187583..138187602,+!p6@Tsc22d4!0.75!9.04!Tsc22d4;;chr15:50721942..50721987,-!p13@Trps1!0.75!5.49!Trps1;;chr17:48025139..48025166,-!p8@Foxp4!0.75!5.49!Foxp4;;chr12:25257298..25257323,+!p5@Grhl1!0.75!4.68!Grhl1;;chr11:23977565..23977612,+!p5@Bcl11a!0.74!10.50!Bcl11a;;chr15:102087737..102087801,-!p3@Rarg!0.74!7.75!Rarg;;chr15:50721640..50721654,-!p7@Trps1!0.74!7.43!Trps1;;chr15:102820964..102821006,+!p1@Hoxc8!0.74!4.52!Hoxc8;;chr16:92697560..92697592,-!p2@Runx1!0.73!30.84!Runx1;;chr9:69137672..69137702,+!p2@Rora!0.73!20.34!Rora;;chr6:52167513..52167549,-!p2@Hoxa7!0.73!6.46!Hoxa7;;chr2:77654936..77654988,-!p4@Zfp385b!0.73!5.49!Zfp385b;;chr1:93698095..93698113,+!p3@Twist2!0.73!5.49!Twist2;;chr10:66998241..66998263,+!p2@Egr2!0.73!4.36!Egr2;;chr13:40824310..40824314,-!p6@Tfap2a!0.72!4.20!Tfap2a;;chr1:19199079..19199092,+!p7@Tfap2b!0.72!4.20!Tfap2b;;chr1:19199119..19199134,+!p4@Tfap2b!0.72!4.20!Tfap2b;;chr16:25684232..25684285,+!p2@Trp63!0.72!4.20!Trp63;;chr16:14705925..14705951,+!p1@Snai2!0.71!32.94!Snai2;;chr4:148275237..148275311,+!p2@Casz1!0.71!19.05!Casz1;;chr4:148178529..148178548,+!p3@Casz1!0.71!10.66!Casz1;;chr5:32438894..32438908,+!p2@Fosl2!0.71!9.53!Fosl2;;chr12:37835120..37835133,+!p2@Meox2!0.70!5.97!Meox2;;chr15:102865088..102865107,+!p1@Hoxc4!0.70!5.49!Hoxc4;;chr11:23978353..23978379,+!p10@Bcl11a!0.70!4.84!Bcl11a;;chr15:102865131..102865151,+!p2@Hoxc4!0.70!4.68!Hoxc4;;chr2:9800094..9800108,-!p3@Gata3!0.70!4.04!Gata3;;chr7:53631837..53631850,+!p1@Myod1!0.70!4.04!Myod1;;chr5:65194752..65194769,+!p1@Klf3!0.69!150.00!Klf3;;chr13:99124189..99124205,+!p1@Foxd1!0.69!6.30!Foxd1;;chr3:128902837..128902861,+!p3@Pitx2!0.69!3.88!Pitx2;;chr7:71083428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Nfia!0.36!3.71!Nfia;;chr13:5860872..5860883,+!p3@Klf6!0.36!3.39!Klf6;;chr16:92697354..92697362,-!p3@Runx1!0.36!2.42!Runx1;;chr2:27532817..27532828,+!p6@Rxra!0.36!2.42!Rxra;;chr12:109242296..109242307,-!p3@Bcl11b!0.36!2.26!Bcl11b;;chr17:84586544..84586592,-!p3@Zfp36l2!0.36!2.10!Zfp36l2;;chr3:128917187..128917223,+!p2@Pitx2!0.36!1.61!Pitx2;;chr3:107398056..107398082,+!p1@Alx3!0.36!1.29!Alx3;;chr17:51972603..51972624,-!p9@Satb1!0.36!1.29!Satb1;;chr16:95923706..95923717,+!p6@Ets2!0.36!1.29!Ets2;;chr16:43364012..43364030,+!p22@Zbtb20!0.36!1.29!Zbtb20;;chr2:153067445..153067460,-!p6@Plagl2!0.36!1.29!Plagl2;;chr2:172376261..172376267,+!p4@Tfap2c!0.36!1.29!Tfap2c;;chr8:94881902..94881910,+!p6@Irx5!0.36!1.29!Irx5;;chr11:53164494..53164501,+!p10@Aff4!0.36!1.29!Aff4;;chr11:106128919..106128933,-!p8@Smarcd2!0.36!1.29!Smarcd2;;chr11:96880133..96880141,+!p2@Sp6!0.36!1.29!Sp6;;chrX:55283799..55283813,+!p1@Zic3!0.36!1.29!Zic3;;chr17:84587279..84587294,-!p1@Zfp36l2!0.35!217.82!Zfp36l2;;chr3:133207232..133207277,-!p1@Tet2!0.35!55.38!Tet2;;chr12:85559785..85559840,-!p1@C130039O16Rik!0.35!26.32!C130039O16Rik;;chr10:80893549..80893590,-!p2@Nfic!0.35!22.44!Nfic;;chr7:4866804..4866832,+!p1@Zfp628!0.35!22.28!Zfp628;;chr12:100631220..100631300,-!p2@Foxn3!0.35!17.60!Foxn3;;chr16:87699206..87699229,+!p3@Bach1!0.35!10.50!Bach1;;chr17:23004042..23004077,-!p2@Zfp945!0.35!7.10!Zfp945;;chr1:52176378..52176401,+!p3@Stat1!0.35!5.33!Stat1;;chr13:15555035..15555073,+!p4@Gli3!0.35!4.68!Gli3;;chr3:9610074..9610086,-!p2@Zfp704!0.35!4.20!Zfp704;;chr2:44965662..44965685,-!p9@Zeb2!0.35!4.04!Zeb2;;chr12:78063057..78063070,-!p3@Max!0.35!3.55!Max;;chr11:100800641..100800669,-!p3@Stat3!0.35!2.74!Stat3;;chr4:114581524..114581551,-!p1@Foxd2!0.35!2.26!Foxd2;;chr14:67853425..67853454,+!p1@Ebf2!0.35!2.10!Ebf2;;chr10:5636374..5636421,-!p1@Esr1!0.35!1.78!Esr1;;chr9:69137709..69137714,+!p7@Rora!0.35!1.78!Rora;;chr9:96096707..96096772,+!p1@Tfdp2!0.34!29.55!Tfdp2;;chr6:98978245..98978289,-!p1@Foxp1!0.34!28.74!Foxp1;;chr19:53403914..53403968,+!p2@Mxi1!0.34!21.96!Mxi1;;chr13:5860749..5860772,+!p2@Klf6!0.34!18.73!Klf6;;chr2:128793119..128793179,+!p1@Zc3h6!0.34!15.66!Zc3h6;;chr17:21520689..21520730,+!p1@Zfp677!0.34!6.30!Zfp677;;chr2:152223881..152223933,-!p3@Sox12!0.34!5.97!Sox12;;chr19:5637489..5637500,+!p5@Rela!0.34!4.36!Rela;;chr1:52176406..52176433,+!p2@Stat1!0.34!4.20!Stat1;;chr3:89197216..89197258,-!p3@Zbtb7b!0.34!3.39!Zbtb7b;;chr18:69681483..69681514,+!p11@Tcf4!0.34!2.58!Tcf4;;chr12:9581243..9581254,+!p4@Osr1!0.34!1.94!Osr1;;chr4:150503457..150503498,-!p3@Camta1!0.34!1.45!Camta1;;chr5:125659525..125659599,-!p1@Ncor2!0.33!118.03!Ncor2;;chr5:138187195..138187255,+!p1@Tsc22d4!0.33!81.70!Tsc22d4;;chrY:234225..234243,+!p1@Kdm5d,p1@LOC100040412!0.33!14.21!Kdm5d;;chr4:94718861..94718872,-!p2@Jun!0.33!13.89!Jun;;chr5:145992626..145992652,+!p2@Zfp655!0.33!12.92!Zfp655;;chr7:26052688..26052742,+!p1@Cic!0.33!12.92!Cic;;chr4:128483534..128483613,-!p1@Zfp362!0.33!12.76!Zfp362;;chr2:90936901..90936945,+!p1@Sfpi1!0.33!9.53!Sfpi1;;chr10:80600749..80600766,+!p2@Zbtb7a!0.33!9.36!Zbtb7a;;chr1:133904131..133904168,+!p4@Elk4!0.33!7.75!Elk4;;chrX:35542909..35542927,+!p4@Zbtb33!0.33!4.20!Zbtb33;;chr13:67182439..67182491,-!p2@Zfp708!0.33!4.20!Zfp708;;chr8:87324292..87324303,-!p4@Nfix!0.33!3.71!Nfix;;chr6:72739234..72739256,-!p2@Tcf7l1!0.33!3.71!Tcf7l1;;chr6:145813905..145813932,-!p2@Bhlhe41!0.33!2.91!Bhlhe41;;chr11:101755669..101755686,-!p1@Meox1!0.33!2.74!Meox1;;chr15:103085660..103085681,-!p1@Nfe2!0.33!2.10!Nfe2;;chr15:50721777..50721803,-!p11@Trps1!0.33!2.10!Trps1;;chr17:87153519..87153533,+!p5@Epas1!0.33!2.10!Epas1;;chr7:17642053..17642066,-!p2@Hif3a!0.33!1.94!Hif3a;;chr8:94325486..94325510,-!p4@Irx3!0.33!1.78!Irx3;;chr16:18587052..18587063,-!p3@Tbx1!0.33!1.13!Tbx1;;chr15:37163041..37163061,+!p5@Grhl2!0.33!1.13!Grhl2;;chr14:76815156..76815181,+!p16@Tsc22d1!0.33!1.13!Tsc22d1;;chr15:102839912..102839938,+!p5@Hoxc6!0.33!1.13!Hoxc6;;chr2:168780729..168780740,-!p3@LOC100502777,p3@Zfp64!0.33!1.13!Zfp64;;chr1:165244244..165244254,-!p8@Prrx1!0.33!1.13!Prrx1;;chr10:106931839..106931851,-!p3@Myf6!0.33!1.13!Myf6;;chr11:94981134..94981147,+!p2@Dlx3!0.33!1.13!Dlx3;;chr6:52167434..52167450,-!p3@Hoxa7!0.33!1.13!Hoxa7;;chr2:74529998..74530020,+!p2@Hoxd10!0.33!1.13!Hoxd10;;chr2:74517609..74517621,+!p3@Hoxd11!0.33!1.13!Hoxd11;;chr2:74549945..74549965,+!p4@Hoxd3!0.33!1.13!Hoxd3;;chr2:93482464..93482491,+!p1@Alx4!0.33!1.13!Alx4;;chr12:81213989..81214006,-!p1@Zfp36l1!0.32!97.04!Zfp36l1;;chr7:52071956..52071978,-!p1@Atf5!0.32!61.03!Atf5;;chr15:36937137..36937157,-!p2@Gm10193,p2@Zfp706!0.32!57.97!Zfp706;;chr5:134790507..134790546,-!p1@Gtf2i!0.32!45.37!Gtf2i;;chr12:32635078..32635111,-!p1@Hbp1!0.32!39.72!Hbp1;;chr1:193961880..193961929,-!p1@Rcor3!0.32!20.18!Rcor3;;chr7:52471143..52471186,+!p1@Tead2!0.32!19.54!Tead2;;chr12:86940338..86940357,+!p1@Jdp2!0.32!18.25!Jdp2;;chr6:53018556..53018650,-!p1@Jazf1!0.32!12.11!Jazf1;;chr4:126698529..126698536,+!p2@Sfpq!0.32!8.07!Sfpq;;chr5:104121453..104121479,+!p4@A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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11124
-|library_id_phase_based=1:CNhs11124
+|library_id_phase_based=2:CNhs11124
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;650
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;650
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/skin%252c%2520neonate%2520N00.CNhs11124.650-25G4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/skin%252c%2520neonate%2520N00.CNhs11124.650-25G4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/skin%252c%2520neonate%2520N00.CNhs11124.650-25G4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/skin%252c%2520neonate%2520N00.CNhs11124.650-25G4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/skin%252c%2520neonate%2520N00.CNhs11124.650-25G4.mm9.nobarcode.rdna.fa.gz
 |name=skin, neonate N00
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11124,LSID734,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.0900719659792221,0.0228070798980618,0,0,0,0,0.38790210747218,0,0.0325029563895826,0,0,0.682365972961538,0,0,0,0,0,0,0.0651422163568497,0,0.108196142707276,0,0,0,0.0650059127791652,0,0,0,0,0,0,0,0.450325198410068,0,0,0,0.0650059127791652,0.0427060729251494,0.185593254621763,0.0650059127791652,0.102098011174456,0.629029612733989,-0.148332149386104,0,0,0,0,0,0,0.121536488624247,0,0,0,0.417412609682861,0,0.055530941060807,0,0,0,0,-0.0428469550828748,0,0.189072267164105,0.0650059127791652,0.171548979611379,0.0650059127791652,0.038637624822009,0.377336990505877,0.37618469820964,0.179799576417699,0.0650059127791652,0.0650059127791652,0.061199391491304,0,0.443436466152572,0,0.0346137802310274,-0.039011125577296,-0.206185493654857,0.215367041175049,0,0,0,0,0.0325029563895826,0,-0.125117684000161,-0.20762178452345,-0.12910390313454,0,0,0,0,0
@@ Line 88: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:650-25G4;search_select_hide=table117:650-25G4
 }}

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FF:650-25G4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:19, 4 June 2020

CNhs11124

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