FF:1261-18D4: Difference between revisions

Latest revision as of 18:40, 4 June 2020

Name:	eyeball, embryo E17
Species:	Mouse (Mus musculus)
Library ID:	CNhs11023
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	eyeball
dev stage	17 days embryo
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		SAMD00005445

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11023		CAGE		DRX008958		DRR009832

Accession ID Mm9

Library id		BAM		CTSS
CNhs11023		DRZ001257		DRZ002640

Accession ID Mm10

Library id		BAM		CTSS
CNhs11023		DRZ012607		DRZ013990

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

CNhs11023

0	0
1	0.117
10	0
100	0.162
1000	0
1001	0.102
1002	0.507
1003	0.0707
1004	0.358
1005	-0.0579
1006	0.0936
1007	0.122
1008	0
1009	0.0572
101	0.0531
1010	0
1011	0.0105
1012	0.162
1013	-0.182
1014	0.635
1015	0.214
1016	0.24
1017	0
1018	0.205
1019	0
102	0
1020	0
1021	0
1022	-0.00943
1023	0
1024	-0.0251
1025	0.00122
1026	0
1027	0.462
1028	0
1029	0.411
103	0.435
1030	0
1031	0.265
1032	-0.0145
1033	0.061
1034	0
1035	0.061
1036	0.107
1037	0
1038	0.00183
1039	-0.0828
104	0
1040	0.0755
1041	0

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: CNhs11023

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	9.23806e-4
MA0003.1	MA0003.1	0.2
MA0004.1	MA0004.1	0.256
MA0006.1	MA0006.1	0.198
MA0007.1	MA0007.1	0.155
MA0009.1	MA0009.1	0.266
MA0014.1	MA0014.1	0.0887
MA0017.1	MA0017.1	4.99677e-9
MA0018.2	MA0018.2	0.341
MA0019.1	MA0019.1	0.386
MA0024.1	MA0024.1	0.00128
MA0025.1	MA0025.1	0.00364
MA0027.1	MA0027.1	0.913
MA0028.1	MA0028.1	0.0314
MA0029.1	MA0029.1	0.962
MA0030.1	MA0030.1	0.403
MA0031.1	MA0031.1	0.00526
MA0035.2	MA0035.2	0.0391
MA0038.1	MA0038.1	0.0234
MA0039.2	MA0039.2	0.00364
MA0040.1	MA0040.1	0.0255
MA0041.1	MA0041.1	0.224
MA0042.1	MA0042.1	0.68
MA0043.1	MA0043.1	0.245
MA0046.1	MA0046.1	1.95346e-8
MA0047.2	MA0047.2	5.54701e-4
MA0048.1	MA0048.1	0.753
MA0050.1	MA0050.1	2.82702e-6
MA0051.1	MA0051.1	1.38275e-6
MA0052.1	MA0052.1	0.725
MA0055.1	MA0055.1	0.693
MA0057.1	MA0057.1	0.189
MA0058.1	MA0058.1	0.205
MA0059.1	MA0059.1	0.474
MA0060.1	MA0060.1	5.47283e-6
MA0061.1	MA0061.1	0.016
MA0062.2	MA0062.2	1.79216e-7
MA0065.2	MA0065.2	2.52591e-8
MA0066.1	MA0066.1	0.609
MA0067.1	MA0067.1	0.261
MA0068.1	MA0068.1	0.938
MA0069.1	MA0069.1	0.127
MA0070.1	MA0070.1	0.989
MA0071.1	MA0071.1	0.277
MA0072.1	MA0072.1	0.815
MA0073.1	MA0073.1	0.514
MA0074.1	MA0074.1	0.126
MA0076.1	MA0076.1	0.0753
MA0077.1	MA0077.1	0.0371
MA0078.1	MA0078.1	0.948
MA0079.2	MA0079.2	0.589
MA0080.2	MA0080.2	7.95856e-14
MA0081.1	MA0081.1	0.0137
MA0083.1	MA0083.1	0.849
MA0084.1	MA0084.1	0.534
MA0087.1	MA0087.1	0.663
MA0088.1	MA0088.1	0.151
MA0090.1	MA0090.1	0.827
MA0091.1	MA0091.1	0.0854
MA0092.1	MA0092.1	0.804
MA0093.1	MA0093.1	0.277
MA0099.2	MA0099.2	4.97896e-6
MA0100.1	MA0100.1	0.248
MA0101.1	MA0101.1	0.00263
MA0102.2	MA0102.2	0.883
MA0103.1	MA0103.1	7.00291e-4
MA0104.2	MA0104.2	0.973
MA0105.1	MA0105.1	0.135
MA0106.1	MA0106.1	0.831
MA0107.1	MA0107.1	0.00231
MA0108.2	MA0108.2	3.21203e-8
MA0111.1	MA0111.1	0.916
MA0112.2	MA0112.2	5.86761e-4
MA0113.1	MA0113.1	0.163
MA0114.1	MA0114.1	9.73086e-8
MA0115.1	MA0115.1	1.51037e-4
MA0116.1	MA0116.1	0.115
MA0117.1	MA0117.1	0.318
MA0119.1	MA0119.1	0.0602
MA0122.1	MA0122.1	0.448
MA0124.1	MA0124.1	0.179
MA0125.1	MA0125.1	0.00204
MA0131.1	MA0131.1	0.647
MA0135.1	MA0135.1	0.194
MA0136.1	MA0136.1	4.02056e-19
MA0137.2	MA0137.2	7.10417e-4
MA0138.2	MA0138.2	0.716
MA0139.1	MA0139.1	0.0423
MA0140.1	MA0140.1	0.363
MA0141.1	MA0141.1	4.22844e-6
MA0142.1	MA0142.1	0.365
MA0143.1	MA0143.1	0.0541
MA0144.1	MA0144.1	0.00321
MA0145.1	MA0145.1	0.0296
MA0146.1	MA0146.1	0.0105
MA0147.1	MA0147.1	0.845
MA0148.1	MA0148.1	0.00353
MA0149.1	MA0149.1	0.0145
MA0150.1	MA0150.1	0.00995
MA0152.1	MA0152.1	0.136
MA0153.1	MA0153.1	3.75895e-9
MA0154.1	MA0154.1	0.0132
MA0155.1	MA0155.1	0.95
MA0156.1	MA0156.1	2.93249e-13
MA0157.1	MA0157.1	0.0164
MA0159.1	MA0159.1	0.00506
MA0160.1	MA0160.1	1.42316e-4
MA0162.1	MA0162.1	0.606
MA0163.1	MA0163.1	0.0214
MA0164.1	MA0164.1	0.801
MA0258.1	MA0258.1	0.00268
MA0259.1	MA0259.1	0.858

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: CNhs11023

Novel motif	Logo	P-value
1	1	0.192
10	10	0.236
100	100	0.759
101	101	0.971
102	102	0.39
103	103	0.0445
104	104	0.51
105	105	0.418
106	106	0.0387
107	107	0.503
108	108	0.869
109	109	0.0122
11	11	0.0293
110	110	0.133
111	111	0.00218
112	112	0.00348
113	113	0.924
114	114	0.0289
115	115	0.807
116	116	0.342
117	117	0.0166
118	118	0.41
119	119	0.178
12	12	0.517
120	120	0.516
121	121	0.126
122	122	0.789
123	123	0.965
124	124	0.978
125	125	0.0215
126	126	0.166
127	127	0.196
128	128	0.352
129	129	0.428
13	13	0.00295
130	130	0.922
131	131	0.559
132	132	0.509
133	133	0.877
134	134	0.424
135	135	0.43
136	136	0.00452
137	137	0.886
138	138	0.407
139	139	0.0524
14	14	0.868
140	140	0.774
141	141	0.132
142	142	0.713
143	143	0.48
144	144	0.446
145	145	0.112
146	146	0.285
147	147	0.502
148	148	0.276
149	149	0.156
15	15	0.0248
150	150	0.238
151	151	0.246
152	152	0.0145
153	153	0.926
154	154	0.911
155	155	0.24
156	156	0.226
157	157	0.899
158	158	0.19
159	159	0.628
160	160	0.923
161	161	0.173
162	162	0.891
163	163	0.101
164	164	0.00563
165	165	0.0213
166	166	0.449
167	167	0.61
168	168	0.415
169	169	0.00324
17	17	0.0551
18	18	0.761
19	19	0.422
2	2	0.449
20	20	0.363
21	21	0.433
22	22	0.248
23	23	0.53
24	24	0.0419
25	25	0.392
26	26	0.131
27	27	0.464
28	28	0.263
29	29	0.0347
3	3	0.112
30	30	0.85
31	31	0.769
32	32	0.681
33	33	0.0786
34	34	0.597
35	35	0.771
36	36	0.112
37	37	0.02
38	38	0.132
39	39	0.478
4	4	0.547
40	40	0.0395
41	41	0.106
42	42	0.451
43	43	0.196
44	44	0.198
45	45	0.275
46	46	0.32
47	47	0.146
48	48	0.0566
49	49	0.204
5	5	0.173
50	50	0.983
51	51	0.555
52	52	0.337
53	53	0.91
54	54	0.668
55	55	0.511
56	56	0.378
57	57	0.848
58	58	0.244
59	59	0.0375
6	6	0.739
60	60	0.0414
61	61	0.561
62	62	0.141
63	63	0.117
64	64	0.536
65	65	0.0882
66	66	0.973
67	67	0.428
68	68	0.099
69	69	0.886
7	7	0.16
70	70	0.012
71	71	0.0579
72	72	0.148
73	73	0.00331
74	74	0.955
75	75	0.0223
76	76	0.393
77	77	0.125
78	78	0.0943
79	79	0.345
8	8	0.101
80	80	0.162
81	81	0.418
82	82	0.0197
83	83	0.726
84	84	0.494
85	85	0.0608
86	86	0.154
87	87	3.97623e-4
88	88	0.79
89	89	0.15
9	9	0.452
90	90	0.345
91	91	0.73
92	92	0.209
93	93	0.25
94	94	0.703
95	95	0.0107
96	96	0.75
97	97	0.55
98	98	0.259
99	99	0.853

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: CNhs11023

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011521 mouse eyeball- embryo E17 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)
0000922 (embryo)
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)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000300 (mouse embryonic day 17 sample)
0011521 (mouse eyeball- embryo E17 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)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008821
+|DRA_sample_Accession=CAGE@SAMD00005445
+|accession_numbers=CAGE;DRX008958;DRR009832;DRZ001257;DRZ002640;DRZ012607;DRZ013990
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,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 8: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr19:19185671..19185693,-!p1@Rorb!2.43!615.63!Rorb;;chr2:79296783..79296801,-!p1@Neurod1!2.17!147.99!Neurod1;;chr10:62562530..62562540,+!p1@Atoh7!2.13!132.77!Atoh7;;chr18:66098702..66098742,-!p1@Rax!2.07!116.34!Rax;;chr3:127336052..127336058,+!p1@Neurog2!1.98!94.64!Neurog2;;chr2:105509045..105509071,+!p1@Pax6!1.96!90.42!Pax6;;chr4:154335024..154335039,+!p1@Hes5!1.89!92.23!Hes5;;chr7:16465229..16465249,-!p1@Crx!1.87!72.34!Crx;;chr10:86956396..86956411,-!p1@Ascl1!1.82!97.96!Ascl1;;chr10:129717274..129717298,-!p1@Neurod4!1.81!64.20!Neurod4;;chr14:49287186..49287225,-!p1@Otx2!1.76!56.82!Otx2;;chr17:86020115..86020128,+!p2@Six3!1.75!55.46!Six3;;chr2:105522662..105522687,+!p2@Pax6!1.69!48.07!Pax6;;chr17:86020156..86020183,+!p1@Six3!1.64!42.95!Six3;;chr10:76285563..76285576,-!p2@Pcbp3!1.62!40.39!Pcbp3;;chr14:49284773..49284790,-!p2@Otx2!1.61!40.09!Otx2;;chr12:74040861..74040875,+!p1@Six6!1.59!38.13!Six6;;chr1:19199236..19199258,+!p1@Tfap2b!1.56!35.42!Tfap2b;;chr12:85910771..85910785,+!p1@Vsx2!1.55!34.51!Vsx2;;chr2:38206744..38206766,+!p1@Lhx2!1.53!39.48!Lhx2;;chr2:38206580..38206600,+!p2@Lhx2!1.52!39.33!Lhx2;;chr3:101814061..101814094,+!p1@Nhlh2!1.52!32.10!Nhlh2;;chr5:35731493..35731531,+!p1@Hmx1!1.46!27.88!Hmx1;;chr17:86020510..86020589,+!p3@Six3!1.45!27.43!Six3;;chr2:19367259..19367278,+!p1@Ptf1a!1.41!24.72!Ptf1a;;chr3:34548909..34548927,+!p1@Sox2!1.35!35.72!Sox2;;chr12:74040895..74040916,+!p2@Six6!1.35!21.25!Six6;;chr14:104867201..104867258,-!p1@Pou4f1!1.34!29.39!Pou4f1;;chr9:74709695..74709722,+!p1@Onecut1!1.31!19.29!Onecut1;;chr6:83661226..83661282,+!p1@Vax2!1.30!18.99!Vax2;;chr14:18814020..18814023,+!p3@Thrb!1.30!18.99!Thrb;;chr19:19185697..19185711,-!p2@Rorb!1.29!23.36!Rorb;;chr2:146047829..146047847,+!p1@Insm1!1.26!30.89!Insm1;;chr4:150503457..150503498,-!p3@Camta1!1.26!19.14!Camta1;;chr17:25707623..25707639,-!p1@Sox8!1.25!71.43!Sox8;;chr3:99057269..99057306,+!p1@Tbx15!1.24!19.89!Tbx15;;chr4:114598669..114598674,-!p1@Foxe3!1.23!15.97!Foxe3;;chr4:21612929..21612952,-!p1@Prdm13!1.23!15.82!Prdm13;;chr2:105515586..105515606,+!p4@Pax6!1.23!15.82!Pax6;;chr13:117099847..117099907,-!p1@Isl1!1.21!27.88!Isl1;;chr10:42303385..42303401,-!p1@Nr2e1!1.21!15.37!Nr2e1;;chr17:86012772..86012825,+!p4@Six3!1.19!14.62!Six3;;chr1:136186574..136186592,+!p1@Myog!1.19!14.32!Myog;;chr1:19202352..19202354,+!p2@Tfap2b!1.18!14.17!Tfap2b;;chr10:20880698..20880717,-!p3@Myb!1.15!20.35!Myb;;chr10:20880731..20880775,-!p2@Myb!1.14!26.98!Myb;;chr10:129717308..129717319,-!p2@Neurod4!1.14!12.81!Neurod4;;chr9:55388997..55389016,+!p1@Isl2!1.14!12.66!Isl2;;chr12:28027561..28027591,-!p1@Sox11!1.12!79.87!Sox11;;chr13:40829137..40829205,-!p1@Tfap2a!1.12!13.86!Tfap2a;;chr13:83643159..83643226,+!p3@Mef2c!1.12!12.06!Mef2c;;chr5:114723781..114723795,-!p1@Foxn4!1.11!11.91!Foxn4;;chr2:163028808..163028869,+!p1@Tox2!1.10!41.29!Tox2;;chr4:97248607..97248649,+!p15@Nfia!1.10!11.45!Nfia;;chr12:34642510..34642530,+!p1@Twist1!1.09!35.72!Twist1;;chr3:128916868..128916890,+!p1@Pitx2!1.09!15.52!Pitx2;;chr16:91225808..91225824,+!p1@Olig2!1.09!11.30!Olig2;;chr13:40826150..40826167,-!p3@Tfap2a!1.08!12.36!Tfap2a;;chr2:151907546..151907561,+!p1@Scrt2!1.07!10.85!Scrt2;;chr8:12395603..12395621,+!p1@Sox1!1.07!10.70!Sox1;;chr10:12810631..12810649,+!p1@Plagl1!1.05!271.72!Plagl1;;chr11:101755669..101755686,-!p1@Meox1!1.05!18.54!Meox1;;chr16:25801993..25802014,+!p1@Trp63!1.05!10.25!Trp63;;chr17:86020137..86020149,+!p5@Six3!1.05!10.10!Six3;;chr14:49282415..49282426,-!p4@Otx2!1.05!10.10!Otx2;;chr2:105515793..105515808,+!p3@Pax6!1.03!9.80!Pax6;;chr2:105515635..105515661,+!p5@Pax6!1.03!9.80!Pax6;;chr14:34791937..34791977,-!p1@Zfp488!1.01!9.34!Zfp488;;chr10:44178521..44178557,-!p1@Prdm1!1.00!16.13!Prdm1;;chr10:20880629..20880683,-!p1@Myb!0.99!25.77!Myb;;chr10:126778916..126778974,-!p1@Gli1!0.98!19.59!Gli1;;chr9:91260594..91260612,-!p1@Zic1!0.98!8.59!Zic1;;chr5:106887474..106887489,-!p1@Barhl2!0.97!8.29!Barhl2;;chr18:64499706..64499721,+!p2@Onecut2!0.96!11.60!Onecut2;;chr9:31720843..31720888,-!p1@Barx2!0.96!9.04!Barx2;;chr11:21901608..21901634,-!p1@Otx1!0.96!8.14!Otx1;;chr1:189821714..189821761,+!p1@Esrrg!0.95!15.07!Esrrg;;chr15:103164702..103164778,-!p3@Zfp385a!0.95!9.34!Zfp385a;;chr9:91260616..91260653,-!p2@Zic1!0.95!7.99!Zic1;;chr14:49287107..49287125,-!p3@Otx2!0.95!7.84!Otx2;;chr14:122874619..122874634,+!p1@Zic2!0.95!7.84!Zic2;;chr1:19199151..19199170,+!p3@Tfap2b!0.95!7.84!Tfap2b;;chr7:6649134..6649167,-!p1@Zim1!0.94!42.80!Zim1;;chr15:35225845..35225867,+!p1@Osr2!0.94!20.19!Osr2;;chr15:76352832..76352900,-!p1@Scrt1!0.94!7.69!Scrt1;;chr13:40825465..40825469,-!p2@Tfap2a!0.94!7.69!Tfap2a;;chr10:42303452..42303470,-!p2@Nr2e1!0.93!7.54!Nr2e1;;chr6:70906450..70906454,+!p1@Foxi3!0.92!7.23!Foxi3;;chr7:38554763..38554780,-!p1@Zfp536!0.91!13.41!Zfp536;;chr4:124334894..124334899,+!p1@Pou3f1!0.91!9.49!Pou3f1;;chrX:58146612..58146615,-!p1@Sox3!0.91!7.08!Sox3;;chr3:95032091..95032183,-!p1@Mllt11!0.90!62.54!Mllt11;;chr18:55149735..55149776,-!p4@Zfp608!0.90!17.48!Zfp608;;chr9:96159147..96159204,+!p2@Tfdp2!0.90!13.26!Tfdp2;;chr1:140739014..140739032,-!p1@Lhx9!0.90!9.04!Lhx9;;chr2:71384802..71384815,-!p1@Dlx2!0.90!8.74!Dlx2;;chr18:66098673..66098684,-!p2@Rax!0.90!6.93!Rax;;chr13:99124189..99124205,+!p1@Foxd1!0.89!10.55!Foxd1;;chr10:44178375..44178390,-!p2@Prdm1!0.89!9.34!Prdm1;;chr9:118387300..118387317,+!p1@Eomes!0.89!6.78!Eomes;;chr13:72766250..72766273,+!p1@Irx2!0.88!10.40!Irx2;;chr4:148178559..148178603,+!p1@Casz1!0.87!19.44!Casz1;;chr2:120365588..120365602,-!p2@Zfp106!0.87!11.00!Zfp106;;chr1:9690398..9690410,-!p2@Mybl1!0.87!7.84!Mybl1;;chr7:53631837..53631850,+!p1@Myod1!0.87!6.48!Myod1;;chr10:102491405..102491416,-!p1@Alx1!0.87!6.48!Alx1;;chr10:42303410..42303422,-!p3@Nr2e1!0.87!6.33!Nr2e1;;chr1:6720216..6720232,+!p1@St18!0.87!6.33!St18;;chr2:65683890..65683907,+!p1@Csrnp3!0.86!12.36!Csrnp3;;chr1:179374784..179374800,+!p2@Zfp238!0.86!7.38!Zfp238;;chr10:106931775..106931798,-!p1@Myf6!0.86!6.18!Myf6;;chr17:86020468..86020504,+!p6@Six3!0.86!6.18!Six3;;chr4:97248473..97248496,+!p16@Nfia!0.85!6.03!Nfia;;chr4:13670499..13670526,+!p2@Runx1t1!0.84!13.71!Runx1t1;;chr1:19199119..19199134,+!p4@Tfap2b!0.84!5.88!Tfap2b;;chr1:19199095..19199114,+!p5@Tfap2b!0.84!5.88!Tfap2b;;chr19:7342725..7342784,+!p1@Rcor2!0.83!25.32!Rcor2;;chr7:116154364..116154444,+!p1@Tub!0.83!10.40!Tub;;chr4:97248652..97248671,+!p19@Nfia!0.83!5.73!Nfia;;chr11:121380640..121380655,-!p1@Zfp750!0.82!9.65!Zfp750;;chr10:67364011..67364018,-!p5@Zfp365!0.82!5.58!Zfp365;;chr5:114724042..114724090,-!p2@Foxn4!0.82!5.58!Foxn4;;chr14:98568971..98569025,-!p1@Dach1!0.81!44.91!Dach1;;chr4:150482563..150482655,-!p2@Camta1!0.81!20.65!Camta1;;chr11:85646263..85646278,+!p2@Tbx2!0.81!14.92!Tbx2;;chr4:135129538..135129558,-!p1@Grhl3!0.81!8.44!Grhl3;;chr15:76352677..76352737,-!p3@Scrt1!0.81!5.43!Scrt1;;chr2:181501988..181502026,+!p3@Myt1!0.81!5.43!Myt1;;chr7:17647736..17647772,-!p1@Hif3a!0.80!20.35!Hif3a;;chr13:72766279..72766296,+!p2@Irx2!0.80!8.14!Irx2;;chrX:55283799..55283813,+!p1@Zic3!0.80!5.27!Zic3;;chr19:46222859..46222876,-!p1@Pitx3!0.80!5.27!Pitx3;;chr12:74147689..74147711,-!p1@Six1!0.79!11.91!Six1;;chr8:24780125..24780143,+!p1@Zmat4!0.79!7.69!Zmat4;;chr11:98789140..98789168,+!p5@Rara!0.78!8.44!Rara;;chr7:144505957..144505972,-!p2@Ebf3!0.78!6.33!Ebf3;;chr9:24578720..24578735,-!p1@Tbx20!0.78!4.97!Tbx20;;chr1:19199079..19199092,+!p7@Tfap2b!0.78!4.97!Tfap2b;;chr2:65768174..65768247,+!p2@Csrnp3!0.78!4.97!Csrnp3;;chr10:106923133..106923146,-!p1@Myf5!0.78!4.97!Myf5;;chr4:13678723..13678739,+!p10@Runx1t1!0.78!4.97!Runx1t1;;chr7:144506077..144506128,-!p1@Ebf3!0.77!11.91!Ebf3;;chr1:165243591..165243625,-!p2@Prrx1!0.77!7.69!Prrx1;;chr19:7342786..7342803,+!p2@Rcor2!0.77!6.78!Rcor2;;chr17:48015645..48015689,-!p9@Foxp4!0.77!6.48!Foxp4;;chr2:151906844..151906873,+!p3@Scrt2!0.77!4.82!Scrt2;;chr2:172375081..172375105,+!p1@Tfap2c!0.77!4.82!Tfap2c;;chr3:34548946..34548972,+!p2@Sox2!0.76!5.27!Sox2;;chr9:106356211..106356242,+!p1@Pcbp4!0.75!99.92!Pcbp4;;chr14:98568761..98568814,-!p2@Dach1!0.75!35.11!Dach1;;chr4:6917921..6917970,-!p2@Tox!0.75!14.02!Tox;;chr4:148178529..148178548,+!p3@Casz1!0.75!11.60!Casz1;;chr10:44178493..44178520,-!p3@Prdm1!0.75!6.78!Prdm1;;chr1:169528720..169528749,+!p6@Rxrg!0.75!4.67!Rxrg;;chr1:19199221..19199234,+!p6@Tfap2b!0.75!4.67!Tfap2b;;chr18:66098752..66098757,-!p3@Rax!0.75!4.67!Rax;;chr4:109650609..109650653,+!p1@Dmrta2!0.75!4.67!Dmrta2;;chr11:85646303..85646329,+!p1@Tbx2!0.74!32.70!Tbx2;;chr7:38557752..38557793,-!p3@Zfp536!0.74!5.43!Zfp536;;chr17:86087592..86087615,-!p1@Six2!0.74!4.52!Six2;;chr17:86020186..86020195,+!p9@Six3!0.74!4.52!Six3;;chr10:44178474..44178487,-!p4@Prdm1!0.73!6.63!Prdm1;;chr8:107793737..107793757,+!p2@Hsf4!0.73!5.12!Hsf4;;chr2:81893535..81893548,+!p1@Zfp804a!0.73!4.37!Zfp804a;;chr13:83643232..83643254,+!p5@Mef2c!0.73!4.37!Mef2c;;chr10:102491237..102491291,-!p2@Alx1!0.73!4.37!Alx1;;chr12:12948633..12948651,-!p1@Mycn!0.71!44.91!Mycn;;chr9:87626083..87626108,-!p1@Tbx18!0.71!9.95!Tbx18;;chr1:93309740..93309811,-!p1@Hes6!0.70!90.88!Hes6;;chr8:94881733..94881790,+!p1@Irx5!0.70!8.44!Irx5;;chr18:64499674..64499696,+!p1@Onecut2!0.70!7.38!Onecut2;;chr2:103143336..103143367,-!p1@Ehf!0.70!6.93!Ehf;;chr1:19202185..19202187,+!p9@Tfap2b!0.70!4.07!Tfap2b;;chr3:128902837..128902861,+!p3@Pitx2!0.70!4.07!Pitx2;;chr3:99057256..99057268,+!p3@Tbx15!0.70!4.07!Tbx15;;chr11:44430989..44431015,+!p4@Ebf1!0.69!7.38!Ebf1;;chr2:17976799..17976829,+!p5@Mllt10!0.69!4.97!Mllt10;;chr9:98855868..98855895,+!p1@Foxl2!0.69!3.92!Foxl2;;chr12:30219426..30219506,+!p2@Myt1l!0.69!3.92!Myt1l;;chr3:66785857..66785873,-!p1@Shox2!0.69!3.92!Shox2;;chr9:106356243..106356264,+!p2@Pcbp4!0.68!18.39!Pcbp4;;chr18:65741935..65741964,+!p2@Zfp532!0.68!11.60!Zfp532;;chr12:3891753..3891801,+!p4@Dnmt3a!0.68!6.63!Dnmt3a;;chr15:103085660..103085681,-!p1@Nfe2!0.68!6.03!Nfe2;;chr13:55932591..55932622,-!p1@Pitx1!0.68!4.67!Pitx1;;chr11:94981424..94981439,+!p1@Dlx3!0.68!4.37!Dlx3;;chr14:18814147..18814153,+!p5@Thrb!0.68!3.77!Thrb;;chr15:76352740..7635278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365!0.30!1.96!Zfp365;;chrX:103070839..103070856,-!p4@Atrx!0.30!1.96!Atrx;;chr1:120950197..120950215,-!p5@Gli2!0.30!1.66!Gli2;;chr2:17986337..17986349,+!p8@Mllt10!0.30!1.66!Mllt10;;chr5:24107676..24107722,-!p4@Smarcd3!0.30!1.66!Smarcd3;;chr2:152223734..152223756,-!p6@Sox12!0.30!1.36!Sox12;;chr4:107107175..107107204,+!p1@Glis1!0.30!1.36!Glis1;;chr16:43503720..43503739,+!p18@Zbtb20!0.30!1.21!Zbtb20;;chr6:116578973..116579022,-!p1@Zfp422!0.29!29.54!Zfp422;;chr4:133801453..133801492,-!p1@Zfp593!0.29!13.86!Zfp593;;chr3:8666963..8666978,-!p1@Hey1!0.29!10.70!Hey1;;chr14:52634412..52634500,-!p2@Zfp219!0.29!7.38!Zfp219;;chr5:9160908..9160912,-!p2@Dmtf1!0.29!6.63!Dmtf1;;chr6:118405493..118405536,-!p1@Zfp248!0.29!6.03!Zfp248;;chr2:119698528..119698571,+!p3@Mga!0.29!5.58!Mga;;chrX:108810678..108810736,-!p1@Hdx!0.29!5.27!Hdx;;chr7:25372631..25372684,-!p1@Zfp575!0.29!4.67!Zfp575;;chr7:5003205..5003234,+!p3@Zfp580!0.29!4.37!Zfp580;;chr15:76755836..76755867,-!p1@Zfp647!0.29!4.37!Zfp647;;chr18:55152179..55152194,-!p5@Zfp608!0.29!4.22!Zfp608;;chr15:102087880..102087927,-!p2@Rarg!0.29!3.32!Rarg;;chr4:62626682..62626705,+!p2@Zfp618!0.29!3.16!Zfp618;;chr10:119913278..119913298,-!p2@Hmga2!0.29!3.16!Hmga2;;chr6:38204274..38204327,-!p3@D630045J12Rik!0.29!2.71!D630045J12Rik;;chr5:53981592..53981616,+!p3@Rbpj!0.29!2.56!Rbpj;;chr5:125342568..125342602,+!p2@Zfp664!0.29!2.11!Zfp664;;chr1:9690474..9690493,-!p3@Mybl1!0.29!1.96!Mybl1;;chr4:135728181..135728203,+!p2@E2f2!0.29!1.51!E2f2;;chr14:67853632..67853674,+!p3@Ebf2!0.29!1.36!Ebf2;;chr1:170361678..170361689,-!p13@Pbx1!0.29!1.36!Pbx1;;chr7:17642018..17642045,-!p4@Hif3a!0.29!1.21!Hif3a;;chr12:25257176..25257190,+!p3@Grhl1!0.29!1.21!Grhl1;;chr7:30880169..30880211,+!p1@Zfp260!0.28!56.21!Zfp260;;chr18:24179250..24179314,-!p1@Zfp191!0.28!27.43!Zfp191;;chr2:17986272..17986332,+!p2@Mllt10!0.28!17.63!Mllt10;;chr6:99470943..99471024,-!p3@Foxp1!0.28!15.67!Foxp1;;chr8:34496298..34496366,+!p1@Purg!0.28!13.86!Purg;;chr8:81552152..81552208,+!p1@Zfp827!0.28!11.91!Zfp827;;chr17:51952617..51952680,-!p3@Satb1!0.28!8.14!Satb1;;chr6:65728988..65729056,+!p1@Prdm5!0.28!7.84!Prdm5;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.28!6.03!Ppp1r13l;;chr15:102034446..102034506,+!p2@Zfp740!0.28!5.27!Zfp740;;chrX:70587926..70587945,+!p2@Zfp275!0.28!5.12!Zfp275;;chr2:115891454..115891471,-!p3@Meis2!0.28!4.52!Meis2;;chrX:92906980..92907024,+!p2@Zc3h12b!0.28!3.62!Zc3h12b;;chr6:116578939..116578952,-!p2@Zfp422!0.28!3.32!Zfp422;;chr7:4947724..4947743,-!p3@Zfp579!0.28!3.16!Zfp579;;chr2:169458496..169458516,+!p6@Tshz2!0.28!2.86!Tshz2;;chr19:28085997..28086028,-!p7@Rfx3!0.28!2.41!Rfx3;;chr9:72122708..72122720,+!p3@Zfp280d!0.28!2.41!Zfp280d;;chr9:72380594..72380635,+!p3@Rfx7!0.28!2.26!Rfx7;;chr11:44431710..44431725,+!p7@Ebf1!0.28!1.96!Ebf1;;chr12:119540395..119540415,-!p5@Sp4!0.28!1.81!Sp4;;chr18:69752912..69752928,+!p9@Tcf4!0.28!1.81!Tcf4;;chr12:75009147..75009157,+!p5@Hif1a!0.28!1.66!Hif1a;;chr7:16760434..16760453,+!p2@LOC100046899,p2@Meis3!0.28!1.51!Meis3;;chr4:129118044..129118067,-!p1@Zbtb8b!0.28!1.36!Zbtb8b;;chr3:30995296..30995300,+!p6@Skil!0.28!1.36!Skil;;chr4:133309775..133309784,-!p15@Arid1a!0.28!1.36!Arid1a;;chr8:94325273..94325288,-!p5@Irx3!0.28!1.36!Irx3;;chr11:106128936..106128955,-!p4@Smarcd2!0.28!1.21!Smarcd2;;chr11:78200071..78200100,-!p1@Foxn1!0.28!0.90!Foxn1;;chr11:69468531..69468557,+!p1@Sox15!0.28!0.90!Sox15;;chr8:90328289..90328301,-!p4@Zfp423!0.28!0.90!Zfp423;;chr9:31720817..31720829,-!p5@Barx2!0.28!0.90!Barx2;;chr1:179374820..179374831,+!p3@Zfp238!0.28!0.90!Zfp238;;chr19:59532915..59532940,+!p5@Emx2!0.28!0.90!Emx2;;chr1:169528581..169528607,+!p7@Rxrg!0.28!0.90!Rxrg;;chr2:105529735..105529744,+!p33@Pax6!0.28!0.90!Pax6;;chr4:97248379..97248387,+!p29@Nfia!0.28!0.90!Nfia;;chr4:82351639..82351658,-!p14@Nfib!0.28!0.90!Nfib;;chr4:13678482..13678505,+!p9@Runx1t1!0.28!0.90!Runx1t1;;chr4:107353376..107353452,-!p3@Dmrtb1!0.28!0.90!Dmrtb1;;chr12:87762578..87762612,+!p1@Esrrb!0.28!0.90!Esrrb;;chr13:78339241..78339273,-!p9@Nr2f1!0.28!0.90!Nr2f1;;chr13:72766234..72766243,+!p3@Irx2!0.28!0.90!Irx2;;chr15:76352434..76352488,-!p4@Scrt1!0.28!0.90!Scrt1;;chr14:17407857..17407875,-!p4@Rarb!0.28!0.90!Rarb;;chr13:40826961..40827001,-!p4@Tfap2a!0.28!0.90!Tfap2a;;chr9:56266612..56266654,+!p1@Hmg20a!0.27!47.02!Hmg20a;;chr5:138558139..138558214,+!p1@Zscan21!0.27!45.81!Zscan21;;chr10:82226781..82226825,-!p1@Nfyb!0.27!20.35!Nfyb;;chr10:107769168..107769215,+!p1@Pawr!0.27!16.43!Pawr;;chr17:23723181..23723236,-!p1@Zfp13!0.27!15.67!Zfp13;;chr10:119913310..119913366,-!p1@Hmga2!0.27!12.66!Hmga2;;chr7:17200307..17200370,-!p2@Grlf1!0.27!11.91!Grlf1;;chr7:30906934..30907020,+!p1@Zfp382!0.27!10.55!Zfp382;;chr8:118230866..118230891,-!p4@Maf!0.27!10.40!Maf;;chr6:38204109..38204155,-!p1@D630045J12Rik!0.27!8.44!D630045J12Rik;;chr6:115803364..115803407,-!p1@Mbd4!0.27!6.63!Mbd4;;chr4:128483680..128483715,-!p3@Zfp362!0.27!5.43!Zfp362;;chr15:57526469..57526534,+!p1@Zhx2!0.27!5.27!Zhx2;;chr17:69732364..69732405,+!p2@Zfp161!0.27!5.12!Zfp161;;chr7:30638630.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@@ Line 42: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011521
 |is_obsolete=
-|library_ids=CNhs11023
+|library_id=CNhs11023
+|library_id_phase_based=2:CNhs11023
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1261
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1261
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/eyeball%252c%2520embryo%2520E17.CNhs11023.1261-18D4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/eyeball%252c%2520embryo%2520E17.CNhs11023.1261-18D4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/eyeball%252c%2520embryo%2520E17.CNhs11023.1261-18D4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/eyeball%252c%2520embryo%2520E17.CNhs11023.1261-18D4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/eyeball%252c%2520embryo%2520E17.CNhs11023.1261-18D4.mm9.nobarcode.rdna.fa.gz
 |name=eyeball, embryo E17
 |namespace=FANTOM5
@@ Line 48: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11023,LSID731,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.311481766842915,0.0393764359618596,0,0,0.0609639314262262,0,0.760804392198544,0,0.210804893560203,0,0,1.11759773863144,0,0,0,0,0,0,0.120904468810743,0,0,0,0,0,0,0,0.0226299361101485,0,0,0,0,0.0304819657131131,-0.0451289619427455,0,0,0,0,0.0677906979602745,0.14856373317233,0.02975092988899,0.0155753992119243,0.784574275357788,0.845954324040256,0,0,0,0,0,0,0,0,0,0,0,0,0.095995300596529,0.162000848159969,0,0,0,-0.0272906826576217,0,-0.031186383987817,0.0609639314262262,0.162000848159969,0.0832895508191975,0.204615947064055,0.00214716235393164,0.715828389072822,0.26414240227564,0,0.0364054171856423,0.0873266582453263,0,0,0,0.111082456903711,-0.0512507308967053,-0.103173002032267,0.0355824230976863,0,0,0,0,0.0304819657131131,0,-0.010766856254989,0.10675018403416,-0.0906401250556187,0.0480992304249528,0,0.0609639314262262,0,0
@@ Line 85: / Line 97: @@
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 |xref=
-}} {{DRAAccessionNumbers
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:1261-18D4;search_select_hide=table117:1261-18D4
-|DRA_sample_Accession=CAGE@DRS008821
-|accession_numbers=DRX008958;DRR009832;DRZ001257;DRZ002640;CAGE
-|library_id=CNhs11023
 }}

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From FANTOM5_SSTAR

Latest revision as of 18:40, 4 June 2020

CNhs11023

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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