FF:31-12G4: Difference between revisions

Latest revision as of 19:09, 4 June 2020

Name:	eyeball, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10484
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	eyeball
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		SAMD00004868

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10484		CAGE		DRX008954		DRR009828

Accession ID Mm9

Library id		BAM		CTSS
CNhs10484		DRZ001253		DRZ002636

Accession ID Mm10

Library id		BAM		CTSS
CNhs10484		DRZ012603		DRZ013986

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

CNhs10484

0	0
1	0.153
10	0
100	0
1000	0.424
1001	0.341
1002	0.138
1003	0.208
1004	0
1005	0.153
1006	0.314
1007	-0.0381
1008	0
1009	0.0225
101	-0.0737
1010	0
1011	0.0569
1012	0.0829
1013	0.339
1014	-0.0851
1015	-0.303
1016	-0.2
1017	0
1018	0.0829
1019	1.677
102	0
1020	0
1021	0
1022	0.495
1023	0
1024	0.0051
1025	0
1026	0
1027	0.307
1028	0
1029	0.217
103	-0.0638
1030	0
1031	-0.315
1032	-0.101
1033	0
1034	0.343
1035	0.0829
1036	-0.365
1037	1.173
1038	-0.0456
1039	0.284
104	0
1040	-0.0036
1041	0.0829

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: CNhs10484

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.931
MA0003.1	MA0003.1	0.0558
MA0004.1	MA0004.1	0.582
MA0006.1	MA0006.1	0.948
MA0007.1	MA0007.1	0.668
MA0009.1	MA0009.1	0.713
MA0014.1	MA0014.1	0.644
MA0017.1	MA0017.1	0.389
MA0018.2	MA0018.2	0.468
MA0019.1	MA0019.1	0.951
MA0024.1	MA0024.1	1.27734e-7
MA0025.1	MA0025.1	0.0181
MA0027.1	MA0027.1	0.0384
MA0028.1	MA0028.1	1.49023e-4
MA0029.1	MA0029.1	0.94
MA0030.1	MA0030.1	0.274
MA0031.1	MA0031.1	0.306
MA0035.2	MA0035.2	0.464
MA0038.1	MA0038.1	0.0252
MA0039.2	MA0039.2	0.116
MA0040.1	MA0040.1	0.608
MA0041.1	MA0041.1	0.504
MA0042.1	MA0042.1	0.0888
MA0043.1	MA0043.1	0.353
MA0046.1	MA0046.1	1.98545e-14
MA0047.2	MA0047.2	0.763
MA0048.1	MA0048.1	4.65688e-4
MA0050.1	MA0050.1	0.938
MA0051.1	MA0051.1	0.648
MA0052.1	MA0052.1	6.30971e-8
MA0055.1	MA0055.1	0.00698
MA0057.1	MA0057.1	0.747
MA0058.1	MA0058.1	0.55
MA0059.1	MA0059.1	0.0447
MA0060.1	MA0060.1	6.38549e-4
MA0061.1	MA0061.1	1.61497e-4
MA0062.2	MA0062.2	1.51531e-7
MA0065.2	MA0065.2	0.0412
MA0066.1	MA0066.1	0.686
MA0067.1	MA0067.1	0.212
MA0068.1	MA0068.1	0.011
MA0069.1	MA0069.1	0.903
MA0070.1	MA0070.1	0.808
MA0071.1	MA0071.1	0.0127
MA0072.1	MA0072.1	1.08952e-9
MA0073.1	MA0073.1	0.578
MA0074.1	MA0074.1	0.517
MA0076.1	MA0076.1	1.41925e-4
MA0077.1	MA0077.1	0.901
MA0078.1	MA0078.1	0.116
MA0079.2	MA0079.2	0.231
MA0080.2	MA0080.2	7.09869e-6
MA0081.1	MA0081.1	0.00375
MA0083.1	MA0083.1	0.713
MA0084.1	MA0084.1	0.618
MA0087.1	MA0087.1	0.0299
MA0088.1	MA0088.1	0.706
MA0090.1	MA0090.1	0.276
MA0091.1	MA0091.1	0.431
MA0092.1	MA0092.1	0.929
MA0093.1	MA0093.1	0.699
MA0099.2	MA0099.2	0.759
MA0100.1	MA0100.1	0.00791
MA0101.1	MA0101.1	0.00612
MA0102.2	MA0102.2	0.786
MA0103.1	MA0103.1	0.00183
MA0104.2	MA0104.2	0.175
MA0105.1	MA0105.1	1.67433e-8
MA0106.1	MA0106.1	0.549
MA0107.1	MA0107.1	0.0223
MA0108.2	MA0108.2	0.864
MA0111.1	MA0111.1	0.342
MA0112.2	MA0112.2	0.666
MA0113.1	MA0113.1	0.216
MA0114.1	MA0114.1	0.679
MA0115.1	MA0115.1	0.333
MA0116.1	MA0116.1	0.247
MA0117.1	MA0117.1	0.489
MA0119.1	MA0119.1	0.236
MA0122.1	MA0122.1	0.469
MA0124.1	MA0124.1	0.137
MA0125.1	MA0125.1	0.253
MA0131.1	MA0131.1	0.345
MA0135.1	MA0135.1	0.196
MA0136.1	MA0136.1	4.62911e-8
MA0137.2	MA0137.2	0.0433
MA0138.2	MA0138.2	6.86839e-4
MA0139.1	MA0139.1	0.979
MA0140.1	MA0140.1	0.928
MA0141.1	MA0141.1	0.876
MA0142.1	MA0142.1	0.858
MA0143.1	MA0143.1	0.204
MA0144.1	MA0144.1	0.0424
MA0145.1	MA0145.1	0.141
MA0146.1	MA0146.1	0.682
MA0147.1	MA0147.1	0.0328
MA0148.1	MA0148.1	0.332
MA0149.1	MA0149.1	0.926
MA0150.1	MA0150.1	0.0189
MA0152.1	MA0152.1	0.962
MA0153.1	MA0153.1	8.03714e-12
MA0154.1	MA0154.1	0.61
MA0155.1	MA0155.1	0.678
MA0156.1	MA0156.1	1.48912e-6
MA0157.1	MA0157.1	0.91
MA0159.1	MA0159.1	0.437
MA0160.1	MA0160.1	0.0139
MA0162.1	MA0162.1	0.714
MA0163.1	MA0163.1	2.73653e-4
MA0164.1	MA0164.1	0.417
MA0258.1	MA0258.1	0.139
MA0259.1	MA0259.1	0.396

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: CNhs10484

Novel motif	Logo	P-value
1	1	0.658
10	10	0.292
100	100	0.819
101	101	0.84
102	102	0.794
103	103	0.921
104	104	0.611
105	105	0.507
106	106	0.764
107	107	0.755
108	108	0.972
109	109	0.761
11	11	0.965
110	110	0.411
111	111	0.538
112	112	0.859
113	113	0.289
114	114	0.287
115	115	0.639
116	116	0.138
117	117	0.00583
118	118	0.0212
119	119	0.111
12	12	0.0416
120	120	0.219
121	121	0.458
122	122	0.532
123	123	0.298
124	124	0.195
125	125	0.831
126	126	0.406
127	127	0.808
128	128	0.756
129	129	0.546
13	13	0.214
130	130	0.607
131	131	0.759
132	132	0.585
133	133	0.785
134	134	0.728
135	135	0.109
136	136	0.156
137	137	0.838
138	138	0.13
139	139	0.34
14	14	0.12
140	140	0.777
141	141	0.69
142	142	0.15
143	143	0.0196
144	144	0.512
145	145	0.0596
146	146	0.339
147	147	0.568
148	148	0.708
149	149	0.74
15	15	0.817
150	150	0.318
151	151	0.0571
152	152	0.671
153	153	0.869
154	154	0.751
155	155	0.212
156	156	0.892
157	157	0.93
158	158	0.927
159	159	0.63
160	160	0.799
161	161	0.378
162	162	0.658
163	163	0.352
164	164	0.0641
165	165	0.51
166	166	0.813
167	167	0.847
168	168	0.731
169	169	0.569
17	17	0.518
18	18	0.369
19	19	0.339
2	2	0.0962
20	20	0.0458
21	21	0.31
22	22	0.302
23	23	0.217
24	24	0.514
25	25	0.944
26	26	0.0744
27	27	0.233
28	28	0.578
29	29	0.0735
3	3	0.625
30	30	0.23
31	31	0.767
32	32	0.698
33	33	0.138
34	34	0.873
35	35	0.568
36	36	0.25
37	37	0.735
38	38	0.738
39	39	0.863
4	4	0.328
40	40	0.924
41	41	0.739
42	42	0.513
43	43	0.896
44	44	0.954
45	45	0.236
46	46	0.662
47	47	0.672
48	48	0.88
49	49	0.775
5	5	0.981
50	50	0.921
51	51	0.707
52	52	0.341
53	53	0.0971
54	54	0.277
55	55	0.242
56	56	0.611
57	57	0.495
58	58	0.731
59	59	0.276
6	6	0.816
60	60	0.596
61	61	0.189
62	62	0.775
63	63	0.633
64	64	0.859
65	65	0.817
66	66	0.528
67	67	0.713
68	68	0.418
69	69	0.124
7	7	0.578
70	70	0.298
71	71	0.0806
72	72	0.9
73	73	0.116
74	74	0.746
75	75	0.0435
76	76	0.0388
77	77	0.339
78	78	0.839
79	79	0.948
8	8	0.29
80	80	0.403
81	81	0.2
82	82	0.437
83	83	0.998
84	84	0.0715
85	85	0.28
86	86	0.444
87	87	0.914
88	88	0.703
89	89	0.741
9	9	0.5
90	90	0.373
91	91	0.288
92	92	0.535
93	93	0.579
94	94	0.486
95	95	0.0581
96	96	0.986
97	97	0.742
98	98	0.0934
99	99	0.965

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: CNhs10484

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011309 mouse eyeball- 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)
0000970 (eye)
0000019 (camera-type eye)
0000033 (head)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0010314 (structure with developmental contribution from neural crest)
0000047 (simple eye)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001444 (subdivision of head)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0000020 (sense organ)
0001032 (sensory system)
0010317 (germ layer / neural crest derived structure)
0004088 (ocular region)
0000153 (anterior region of body)
0007811 (craniocervical region)
0002104 (visual system)
0004456 (entire sense organ system)
0001456 (face)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011309 (mouse eyeball- 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:0003056 (pre-chordal neural plate)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00004868
+|accession_numbers=CAGE;DRX008954;DRR009828;DRZ001253;DRZ002636;DRZ012603;DRZ013986
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000970,UBERON:0000019,UBERON:0000033,UBERON:0000479,UBERON:0004121,UBERON:0010314,UBERON:0000047,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0001444,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0000020,UBERON:0001032,UBERON:0010317,UBERON:0004088,UBERON:0000153,UBERON:0007811,UBERON:0002104,UBERON:0004456,UBERON:0001456
 |ancestors_in_cell_lineage_facet=
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr7:16465229..16465249,-!p1@Crx!2.46!284.94!Crx;;chr2:103264213..103264233,+!p1@Elf5!2.31!203.08!Elf5;;chr13:72101178..72101203,-!p1@Irx1!2.21!247.06!Irx1;;chr2:103264245..103264268,+!p2@Elf5!2.19!152.57!Elf5;;chr9:59797875..59797929,-!p1@Nr2e3!2.09!123.32!Nr2e3;;chr13:72101161..72101177,-!p2@Irx1!2.06!156.36!Irx1;;chr11:21901608..21901634,-!p1@Otx1!2.04!108.80!Otx1;;chr2:79296783..79296801,-!p1@Neurod1!1.96!89.65!Neurod1;;chr2:105509045..105509071,+!p1@Pax6!1.94!86.28!Pax6;;chr13:72766250..72766273,+!p1@Irx2!1.80!94.49!Irx2;;chr10:76285563..76285576,-!p2@Pcbp3!1.78!58.92!Pcbp3;;chr12:87762578..87762612,+!p1@Esrrb!1.75!54.71!Esrrb;;chr11:121380640..121380655,-!p1@Zfp750!1.73!85.23!Zfp750;;chr2:105515793..105515808,+!p3@Pax6!1.70!49.45!Pax6;;chr15:78994907..78994926,-!p1@Sox10!1.67!113.22!Sox10;;chr11:21901587..21901604,-!p2@Otx1!1.64!42.30!Otx1;;chr10:129717274..129717298,-!p1@Neurod4!1.63!41.46!Neurod4;;chr14:56143046..56143060,-!p1@Nrl!1.62!40.62!Nrl;;chr14:49287186..49287225,-!p1@Otx2!1.61!40.19!Otx2;;chr2:172375081..172375105,+!p1@Tfap2c!1.59!37.88!Tfap2c;;chr15:103164702..103164778,-!p3@Zfp385a!1.55!41.04!Zfp385a;;chr2:103264277..103264292,+!p3@Elf5!1.53!33.04!Elf5;;chr13:40829137..40829205,-!p1@Tfap2a!1.47!32.20!Tfap2a;;chr10:76279462..76279479,-!p3@Pcbp3!1.47!28.62!Pcbp3;;chr13:83712735..83712761,+!p9@Mef2c!1.47!28.41!Mef2c;;chr18:11052485..11052508,+!p2@Gata6!1.45!74.29!Gata6;;chr1:19199236..19199258,+!p1@Tfap2b!1.44!26.73!Tfap2b;;chr2:103143336..103143367,-!p1@Ehf!1.43!41.67!Ehf;;chr2:77654815..77654872,-!p2@Zfp385b!1.43!31.99!Zfp385b;;chr19:19185671..19185693,-!p1@Rorb!1.41!57.24!Rorb;;chr9:31720843..31720888,-!p1@Barx2!1.36!24.41!Barx2;;chr13:72766279..72766296,+!p2@Irx2!1.35!31.78!Irx2;;chr11:121380611..121380625,-!p3@Zfp750!1.34!25.25!Zfp750;;chr14:56143775..56143804,-!p2@Nrl!1.34!21.04!Nrl;;chr2:105509100..105509107,+!p6@Pax6!1.34!21.04!Pax6;;chr11:121380594..121380609,-!p2@Zfp750!1.33!34.72!Zfp750;;chr13:72101141..72101158,-!p3@Irx1!1.30!23.57!Irx1;;chr3:99057269..99057306,+!p1@Tbx15!1.28!22.10!Tbx15;;chr18:66098702..66098742,-!p1@Rax!1.27!17.68!Rax;;chr11:60023912..60023930,-!p1@Srebf1!1.26!410.36!Srebf1;;chr5:98609885..98609900,+!p1@Prdm8!1.26!17.05!Prdm8;;chr1:137155026..137155042,-!p1@Elf3!1.22!89.86!Elf3;;chr11:98636531..98636559,-!p1@Nr1d1!1.21!84.60!Nr1d1;;chr18:11052456..11052477,+!p3@Gata6!1.20!45.67!Gata6;;chr19:19075589..19075609,-!p4@Rorb!1.20!14.94!Rorb;;chr1:19199021..19199048,+!p8@Tfap2b!1.19!14.52!Tfap2b;;chr2:105522662..105522687,+!p2@Pax6!1.18!14.31!Pax6;;chr13:72766234..72766243,+!p3@Irx2!1.18!14.31!Irx2;;chr13:83643159..83643226,+!p3@Mef2c!1.17!13.89!Mef2c;;chr13:40826961..40827001,-!p4@Tfap2a!1.15!13.26!Tfap2a;;chr12:85910771..85910785,+!p1@Vsx2!1.15!13.26!Vsx2;;chr1:189821714..189821761,+!p1@Esrrg!1.14!23.78!Esrrg;;chr2:84879901..84879937,+!p15@Ssrp1!1.14!12.84!Ssrp1;;chr6:83661226..83661282,+!p1@Vax2!1.13!12.63!Vax2;;chr11:96690797..96690813,-!p1@Nfe2l1!1.12!231.91!Nfe2l1;;chr5:77543897..77543911,-!p2@Hopx!1.12!23.57!Hopx;;chr4:148275237..148275311,+!p2@Casz1!1.11!49.66!Casz1;;chr6:145814003..145814056,-!p1@Bhlhe41!1.11!34.09!Bhlhe41;;chr14:18493480..18493494,+!p2@Thrb!1.11!13.26!Thrb;;chr2:120365588..120365602,-!p2@Zfp106!1.09!18.94!Zfp106;;chr3:89191234..89191245,-!p15@Zbtb7b!1.09!11.36!Zbtb7b;;chr3:89197057..89197114,-!p1@Zbtb7b!1.06!35.99!Zbtb7b;;chr4:148178529..148178548,+!p3@Casz1!1.06!25.04!Casz1;;chr1:19199079..19199092,+!p7@Tfap2b!1.06!10.52!Tfap2b;;chr16:43363190..43363242,+!p2@Zbtb20!1.05!31.99!Zbtb20;;chr16:25801993..25802014,+!p1@Trp63!1.02!9.47!Trp63;;chr1:19199095..19199114,+!p5@Tfap2b!1.00!9.05!Tfap2b;;chr16:23988711..23988727,-!p1@Bcl6!0.99!106.06!Bcl6;;chr4:148178559..148178603,+!p1@Casz1!0.98!25.04!Casz1;;chr16:43508231..43508271,+!p21@Zbtb20!0.98!8.63!Zbtb20;;chr4:119486912..119486954,+!p3@Hivep3!0.97!14.73!Hivep3;;chr2:103143315..103143328,-!p2@Ehf!0.97!8.42!Ehf;;chr7:35904304..35904320,+!p1@Cebpa!0.96!170.46!Cebpa;;chr14:18493386..18493464,+!p1@Thrb!0.96!31.99!Thrb;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.96!23.99!Tfcp2l1;;chr8:94881733..94881790,+!p1@Irx5!0.96!16.41!Irx5;;chr2:105515826..105515837,+!p7@Pax6!0.95!8.00!Pax6;;chr4:148263454..148263472,+!p11@Casz1!0.95!8.00!Casz1;;chr12:25257265..25257294,+!p2@Grhl1!0.94!7.79!Grhl1;;chr16:43363968..43364001,+!p7@Zbtb20!0.93!14.10!Zbtb20;;chr11:106128936..106128955,-!p4@Smarcd2!0.93!8.84!Smarcd2;;chr10:67375146..67375208,-!p2@Zfp365!0.92!11.36!Zfp365;;chr13:40825465..40825469,-!p2@Tfap2a!0.92!7.37!Tfap2a;;chr3:89191265..89191276,-!p16@Zbtb7b!0.92!7.37!Zbtb7b;;chr16:43363152..43363186,+!p3@Zbtb20!0.91!17.05!Zbtb20;;chr4:97444471..97444514,+!p1@Nfia!0.90!191.71!Nfia;;chr12:25257141..25257173,+!p1@Grhl1!0.90!14.94!Grhl1;;chr9:21992581..21992593,+!p1@Zfp872!0.90!6.94!Zfp872;;chr9:31721051..31721068,-!p3@Barx2!0.90!6.94!Barx2;;chr18:36441119..36441158,+!p2@Pura!0.89!17.26!Pura;;chr2:77654650..77654685,-!p3@Zfp385b!0.88!8.42!Zfp385b;;chr17:86020510..86020589,+!p3@Six3!0.88!6.52!Six3;;chr14:56143103..56143107,-!p4@Nrl!0.88!6.52!Nrl;;chr8:94325321..94325366,-!p1@Irx3!0.87!16.41!Irx3;;chr9:69137716..69137744,+!p1@Rora!0.86!41.88!Rora;;chr15:85566014..85566045,+!p3@Ppara!0.86!8.63!Ppara;;chr16:44173384..44173407,+!p2@Gm608!0.85!16.62!Gm608;;chr16:43364012..43364030,+!p22@Zbtb20!0.85!6.10!Zbtb20;;chr3:101814061..101814094,+!p1@Nhlh2!0.85!6.10!Nhlh2;;chr14:56143812..56143822,-!p5@Nrl!0.85!6.10!Nrl;;chr13:31898729..31898761,+!p1@Foxc1!0.84!15.36!Foxc1;;chr3:89197216..89197258,-!p3@Zbtb7b!0.84!13.05!Zbtb7b;;chr6:115310872..115310899,+!p2@Pparg!0.84!10.73!Pparg;;chr18:11052642..11052659,+!p1@Gata6!0.83!30.72!Gata6;;chr17:44873393..44873418,-!p4@Runx2!0.83!10.31!Runx2;;chr9:69137672..69137702,+!p2@Rora!0.82!25.67!Rora;;chr7:86956107..86956152,+!p@chr7:86956107..86956152,+!0.82!8.84!Mesp2;;chr2:105515586..105515606,+!p4@Pax6!0.82!5.68!Pax6;;chr15:85566051..85566080,+!p4@Ppara!0.81!6.52!Ppara;;chr10:106931775..106931798,-!p1@Myf6!0.81!5.47!Myf6;;chr15:37162796..37162828,+!p1@Grhl2!0.80!9.26!Grhl2;;chr19:5560600..5560617,-!p1@Ovol1!0.80!6.52!Ovol1;;chr17:87153505..87153516,+!p6@Epas1!0.79!7.37!Epas1;;chr2:38206580..38206600,+!p2@Lhx2!0.79!6.52!Lhx2;;chr2:167514456..167514473,+!p1@Cebpb!0.78!244.95!Cebpb;;chr11:98636575..98636607,-!p2@Nr1d1!0.78!19.57!Nr1d1;;chr8:79423144..79423178,+!p3@Nr3c2!0.78!7.16!Nr3c2;;chr17:48015839..48015915,-!p3@Foxp4!0.78!6.10!Foxp4;;chr12:30219426..30219506,+!p2@Myt1l!0.78!5.05!Myt1l;;chr2:181501745..181501778,+!p1@Myt1!0.78!5.05!Myt1;;chr2:105515863..105515873,+!p8@Pax6!0.78!5.05!Pax6;;chr3:89191054..89191070,-!p5@Zbtb7b!0.78!5.05!Zbtb7b;;chr11:98636508..98636524,-!p3@Nr1d1!0.77!6.10!Nr1d1;;chr9:22001222..22001227,+!p5@Zfp872!0.77!4.84!Zfp872;;chr2:105515635..105515661,+!p5@Pax6!0.77!4.84!Pax6;;chr11:90252223..90252240,-!p1@Hlf!0.76!43.98!Hlf;;chr15:97738692..97738747,-!p1@Vdr!0.76!28.83!Vdr;;chr15:103170533..103170556,-!p1@Zfp385a!0.76!19.15!Zfp385a;;chr6:51382677..51382783,+!p1@Nfe2l3!0.76!13.05!Nfe2l3;;chr1:69732682..69732719,-!p4@Ikzf2!0.76!5.89!Ikzf2;;chr10:129717308..129717319,-!p2@Neurod4!0.75!4.63!Neurod4;;chr13:40829337..40829360,-!p5@Tfap2a!0.75!4.63!Tfap2a;;chr14:49287107..49287125,-!p3@Otx2!0.75!4.63!Otx2;;chr4:148263504..148263553,+!p10@Casz1!0.75!4.63!Casz1;;chr13:42147384..42147441,+!p1@Hivep1!0.74!47.77!Hivep1;;chr8:94325814..94325839,-!p2@Irx3!0.74!10.10!Irx3;;chr8:79423672..79423727,+!p2@Nr3c2!0.74!5.89!Nr3c2;;chr5:138199361..138199441,+!p2@Tsc22d4!0.73!8.84!Tsc22d4;;chr19:19185697..19185711,-!p2@Rorb!0.73!5.68!Rorb;;chr11:90252071..90252093,-!p7@Hlf!0.73!4.42!Hlf;;chr1:19202352..19202354,+!p2@Tfap2b!0.73!4.42!Tfap2b;;chr7:119885539..119885574,+!p3@Tead1!0.73!4.42!Tead1;;chr14:49284773..49284790,-!p2@Otx2!0.73!4.42!Otx2;;chr3:89197551..89197606,-!p2@Zbtb7b!0.72!16.20!Zbtb7b;;chr15:103170516..103170531,-!p2@Zfp385a!0.72!10.94!Zfp385a;;chr19:5560570..5560582,-!p2@Ovol1!0.72!4.21!Ovol1;;chr1:19199064..19199075,+!p10@Tfap2b!0.72!4.21!Tfap2b;;chr1:19199119..19199134,+!p4@Tfap2b!0.72!4.21!Tfap2b;;chr5:104121453..104121479,+!p4@Aff1!0.71!21.04!Aff1;;chr13:117099847..117099907,-!p1@Isl1!0.70!8.00!Isl1;;chr3:89191004..89191022,-!p4@Zbtb7b!0.70!4.00!Zbtb7b;;chr17:86012772..86012825,+!p4@Six3!0.70!4.00!Six3;;chr18:11052516..11052525,+!p5@Gata6!0.70!4.00!Gata6;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!0.70!4.00!Ppard;;chr4:82151653..82151706,-!p2@Nfib!0.69!125.84!Nfib;;chr15:81633165..81633188,+!p2@Tef!0.69!36.20!Tef;;chr3:94176733..94176794,+!p1@Rorc!0.69!34.72!Rorc;;chr12:84828663..84828679,-!p1@Dpf3!0.69!33.88!Dpf3;;chr1:69732511..69732540,-!p2@Ikzf2!0.69!5.26!Ikzf2;;chr2:38206744..38206766,+!p1@Lhx2!0.69!4.84!Lhx2;;chr8:79426176..79426275,+!p1@Nr3c2!0.68!21.25!Nr3c2;;chr15:37162834..37162849,+!p2@Grhl2!0.68!4.63!Grhl2;;chr8:107793737..107793757,+!p2@Hsf4!0.68!4.42!Hsf4;;chr9:59797847..59797858,-!p5@Nr2e3!0.68!3.79!Nr2e3;;chr5:104183219..104183236,+!p2@Aff1!0.67!29.04!Aff1;;chr11:83943060..83943082,-!p2@Tada2a!0.67!19.15!Tada2a;;chr18:11052606..11052633,+!p4@Gata6!0.67!10.31!Gata6;;chr11:96690779..96690790,-!p3@Nfe2l1!0.67!9.89!Nfe2l1;;chr2:91077034..91077078,-!p2@Ddb2!0.67!9.05!Ddb2;;chr15:35225845..35225867,+!p1@Osr2!0.66!10.10!Osr2;;chr6:145813905..145813932,-!p2@Bhlhe41!0.66!7.37!Bhlhe41;;chr17:86020115..86020128,+!p2@Six3!0.66!3.58!Six3;;chr16:43619057..43619078,+!p8@Zbtb20!0.65!8.00!Zbtb20;;chr16:23988686..23988693,-!p2@Bcl6!0.65!7.79!Bcl6;;chr17:87153519..87153533,+!p5@Epas1!0.65!5.47!Epas1;;chr3:128916868..128916890,+!p1@Pitx2!0.65!5.05!Pitx2;;chr6:145813964..145813994,-!p3@Bhlhe41!0.65!4.63!Bhlhe41;;chr16:42907676..42907797,+!p1@Zbtb20!0.64!50.93!Zbtb20;;chr14:98568971..98569025,-!p1@Dach1!0.64!30.09!Dach1;;chr19:26681929..26681987,+!p4@Smarca2!0.64!21.89!Smarca2;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.64!15.36!Ppp1r13l;;chr15:81633139..81633152,+!p4@Tef!0.64!6.10!Tef;;chr17:86020156..86020183,+!p1@Six3!0.64!3.37!Six3;;chr2:105515843..105515852,+!p21@Pax6!0.64!3.37!Pax6;;chr1:6720216..6720232,+!p1@St18!0.64!3.37!St18;;chr1:19199221.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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011309
 |is_obsolete=
+|library_id=CNhs10484
+|library_id_phase_based=2:CNhs10484
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;31
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;31
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/eyeball%252c%2520adult.CNhs10484.31-12G4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/eyeball%252c%2520adult.CNhs10484.31-12G4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/eyeball%252c%2520adult.CNhs10484.31-12G4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/eyeball%252c%2520adult.CNhs10484.31-12G4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/eyeball%252c%2520adult.CNhs10484.31-12G4.mm9.nobarcode.rdna.fa.gz
 |name=eyeball, adult
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10484,LSID647,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.0148217971959318,0,0,0,0.0829439327499637,0,0.101910000744061,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.0393348151098651,0,0,0,0,0,0.0829439327499637,0,0,0,0,0,0,0,0.223375976679406,0,0,0,0.0829439327499637,0,-0.0267731361549262,-0.0357316671459749,-0.145172265216638,-0.304061451066434,0.222111633065006,0,0,0,0,0,0,0,0,0,0.21254064290909,0,0,-0.0660055475634404,0,0,0,0,0.0108538351774941,0,0.076279267886355,0,0,0.0274712845823976,-0.108624634311423,-0.0981100144302962,0.460650099125231,0.119518114512553,0,0,0.0130089666473741,0.26497569254085,0,0,0.0790170550645334,-0.018173099940338,0.102915715437597,0.00411233791005626,0.00242326488632668,0,0,0,0,0,-0.0744297546382858,-0.516196602870674,-0.0309152872405427,0,0,0,0,0.0336157467740116
@@ Line 83: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:31-12G4;search_select_hide=table117:31-12G4
 }}

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FF:31-12G4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:09, 4 June 2020

CNhs10484

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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