FF:481-18A3: Difference between revisions

Latest revision as of 19:17, 4 June 2020

Name:	liver, embryo E17
Species:	Mouse (Mus musculus)
Library ID:	CNhs10510
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	liver
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		SAMD00005008

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10510		CAGE		DRX009020		DRR009894

Accession ID Mm9

Library id		BAM		CTSS
CNhs10510		DRZ001319		DRZ002702

Accession ID Mm10

Library id		BAM		CTSS
CNhs10510		DRZ012669		DRZ014052

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

CNhs10510

0	0
1	0
10	0
100	0
1000	0
1001	-0.0749
1002	-0.0557
1003	-0.123
1004	0
1005	0.333
1006	-0.0329
1007	-0.0786
1008	0
1009	-0.19
101	0.0346
1010	0
1011	-0.108
1012	0
1013	0.104
1014	0.0842
1015	-0.141
1016	-0.276
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	-0.0704
1023	0
1024	-0.041
1025	0.335
1026	0
1027	-0.048
1028	0
1029	-0.00408
103	-0.038
1030	0
1031	-0.0981
1032	-0.177
1033	0
1034	0.482
1035	0
1036	0.138
1037	0
1038	-0.2
1039	0.154
104	0
1040	-0.263
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: CNhs10510

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00424
MA0003.1	MA0003.1	0.156
MA0004.1	MA0004.1	0.71
MA0006.1	MA0006.1	0.281
MA0007.1	MA0007.1	0.406
MA0009.1	MA0009.1	0.322
MA0014.1	MA0014.1	0.462
MA0017.1	MA0017.1	8.5331e-13
MA0018.2	MA0018.2	4.8606e-5
MA0019.1	MA0019.1	0.387
MA0024.1	MA0024.1	0.181
MA0025.1	MA0025.1	0.736
MA0027.1	MA0027.1	0.772
MA0028.1	MA0028.1	0.67
MA0029.1	MA0029.1	0.0533
MA0030.1	MA0030.1	0.0439
MA0031.1	MA0031.1	0.0367
MA0035.2	MA0035.2	8.05326e-19
MA0038.1	MA0038.1	0.387
MA0039.2	MA0039.2	0.0212
MA0040.1	MA0040.1	0.0763
MA0041.1	MA0041.1	0.191
MA0042.1	MA0042.1	0.661
MA0043.1	MA0043.1	0.0456
MA0046.1	MA0046.1	1.65324e-61
MA0047.2	MA0047.2	7.49363e-8
MA0048.1	MA0048.1	0.32
MA0050.1	MA0050.1	0.486
MA0051.1	MA0051.1	0.86
MA0052.1	MA0052.1	0.00351
MA0055.1	MA0055.1	0.365
MA0057.1	MA0057.1	0.387
MA0058.1	MA0058.1	0.598
MA0059.1	MA0059.1	0.12
MA0060.1	MA0060.1	0.116
MA0061.1	MA0061.1	0.191
MA0062.2	MA0062.2	0.528
MA0065.2	MA0065.2	2.84427e-7
MA0066.1	MA0066.1	0.0928
MA0067.1	MA0067.1	0.182
MA0068.1	MA0068.1	0.818
MA0069.1	MA0069.1	0.102
MA0070.1	MA0070.1	0.551
MA0071.1	MA0071.1	0.0516
MA0072.1	MA0072.1	0.0297
MA0073.1	MA0073.1	0.72
MA0074.1	MA0074.1	0.646
MA0076.1	MA0076.1	0.895
MA0077.1	MA0077.1	0.117
MA0078.1	MA0078.1	0.475
MA0079.2	MA0079.2	0.378
MA0080.2	MA0080.2	6.13847e-5
MA0081.1	MA0081.1	0.771
MA0083.1	MA0083.1	0.694
MA0084.1	MA0084.1	0.0999
MA0087.1	MA0087.1	0.037
MA0088.1	MA0088.1	0.128
MA0090.1	MA0090.1	0.828
MA0091.1	MA0091.1	0.592
MA0092.1	MA0092.1	0.217
MA0093.1	MA0093.1	0.738
MA0099.2	MA0099.2	0.719
MA0100.1	MA0100.1	0.604
MA0101.1	MA0101.1	0.801
MA0102.2	MA0102.2	0.00806
MA0103.1	MA0103.1	0.383
MA0104.2	MA0104.2	0.723
MA0105.1	MA0105.1	0.00217
MA0106.1	MA0106.1	0.613
MA0107.1	MA0107.1	0.991
MA0108.2	MA0108.2	0.842
MA0111.1	MA0111.1	0.834
MA0112.2	MA0112.2	8.50592e-4
MA0113.1	MA0113.1	0.374
MA0114.1	MA0114.1	1.09608e-10
MA0115.1	MA0115.1	4.28077e-6
MA0116.1	MA0116.1	0.00372
MA0117.1	MA0117.1	0.836
MA0119.1	MA0119.1	0.00787
MA0122.1	MA0122.1	0.627
MA0124.1	MA0124.1	0.666
MA0125.1	MA0125.1	0.919
MA0131.1	MA0131.1	0.938
MA0135.1	MA0135.1	0.832
MA0136.1	MA0136.1	0.00434
MA0137.2	MA0137.2	0.5
MA0138.2	MA0138.2	0.725
MA0139.1	MA0139.1	0.154
MA0140.1	MA0140.1	1.66283e-41
MA0141.1	MA0141.1	0.00478
MA0142.1	MA0142.1	0.163
MA0143.1	MA0143.1	0.218
MA0144.1	MA0144.1	0.535
MA0145.1	MA0145.1	0.319
MA0146.1	MA0146.1	0.0751
MA0147.1	MA0147.1	0.608
MA0148.1	MA0148.1	2.94482e-9
MA0149.1	MA0149.1	0.0124
MA0150.1	MA0150.1	0.004
MA0152.1	MA0152.1	0.611
MA0153.1	MA0153.1	5.13059e-48
MA0154.1	MA0154.1	0.023
MA0155.1	MA0155.1	0.745
MA0156.1	MA0156.1	0.0699
MA0157.1	MA0157.1	0.0503
MA0159.1	MA0159.1	0.0181
MA0160.1	MA0160.1	0.0146
MA0162.1	MA0162.1	0.41
MA0163.1	MA0163.1	1.69436e-4
MA0164.1	MA0164.1	0.898
MA0258.1	MA0258.1	0.0488
MA0259.1	MA0259.1	0.979

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: CNhs10510

Novel motif	Logo	P-value
1	1	0.0878
10	10	0.174
100	100	0.535
101	101	0.955
102	102	0.304
103	103	0.0113
104	104	0.926
105	105	0.711
106	106	0.0714
107	107	0.104
108	108	0.65
109	109	0.0222
11	11	0.0705
110	110	0.105
111	111	0.0506
112	112	0.022
113	113	0.93
114	114	0.161
115	115	0.812
116	116	0.737
117	117	0.0318
118	118	0.126
119	119	0.113
12	12	0.963
120	120	0.581
121	121	0.747
122	122	0.593
123	123	0.222
124	124	0.285
125	125	0.968
126	126	0.157
127	127	0.555
128	128	0.0571
129	129	0.573
13	13	6.01843e-4
130	130	0.305
131	131	0.0341
132	132	0.528
133	133	0.598
134	134	0.387
135	135	0.871
136	136	0.299
137	137	0.212
138	138	0.71
139	139	0.481
14	14	0.547
140	140	0.231
141	141	0.935
142	142	0.0806
143	143	0.385
144	144	0.923
145	145	0.0444
146	146	0.353
147	147	0.943
148	148	0.776
149	149	0.589
15	15	0.0725
150	150	0.255
151	151	0.317
152	152	0.293
153	153	0.648
154	154	0.695
155	155	0.558
156	156	0.0616
157	157	0.729
158	158	0.749
159	159	0.412
160	160	0.115
161	161	0.33
162	162	0.585
163	163	0.892
164	164	0.0145
165	165	0.347
166	166	0.799
167	167	0.482
168	168	0.19
169	169	0.0058
17	17	0.0968
18	18	0.658
19	19	0.0859
2	2	0.785
20	20	0.567
21	21	0.991
22	22	0.232
23	23	0.399
24	24	0.269
25	25	0.555
26	26	3.83887e-4
27	27	0.423
28	28	0.409
29	29	0.0509
3	3	0.0211
30	30	0.707
31	31	0.725
32	32	0.154
33	33	0.16
34	34	0.673
35	35	0.814
36	36	0.0385
37	37	0.107
38	38	0.486
39	39	0.614
4	4	0.649
40	40	0.0872
41	41	0.906
42	42	0.0817
43	43	0.0672
44	44	0.416
45	45	0.752
46	46	0.0958
47	47	0.154
48	48	0.133
49	49	0.0761
5	5	0.118
50	50	0.606
51	51	0.469
52	52	0.333
53	53	0.815
54	54	0.465
55	55	0.235
56	56	0.308
57	57	0.574
58	58	0.484
59	59	0.0957
6	6	0.85
60	60	0.121
61	61	0.32
62	62	0.0963
63	63	0.208
64	64	0.372
65	65	0.256
66	66	0.407
67	67	0.514
68	68	0.949
69	69	0.679
7	7	0.0621
70	70	0.201
71	71	0.0276
72	72	0.344
73	73	0.212
74	74	0.815
75	75	0.0482
76	76	0.918
77	77	0.467
78	78	0.0138
79	79	0.692
8	8	0.0136
80	80	0.0375
81	81	0.731
82	82	0.206
83	83	0.24
84	84	0.865
85	85	0.178
86	86	0.351
87	87	0.148
88	88	0.983
89	89	0.231
9	9	0.563
90	90	0.256
91	91	0.147
92	92	0.187
93	93	0.711
94	94	0.672
95	95	0.0879
96	96	0.117
97	97	0.762
98	98	0.229
99	99	0.291

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: CNhs10510

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011369 mouse liver- 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)
0002107 (liver)
0002100 (trunk)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0002368 (endocrine gland)
0005177 (trunk region element)
0002365 (exocrine gland)
0005172 (abdomen element)
0006925 (digestive gland)
0002530 (gland)
0010317 (germ layer / neural crest derived structure)
0005173 (abdominal segment element)
0002417 (abdominal segment of trunk)
0000949 (endocrine system)
0002330 (exocrine system)
0000916 (abdomen)
0002423 (hepatobiliary system)

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)
0011369 (mouse liver- 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:0001041 (foregut)
UBERON:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0003104 (mesenchyme)
UBERON:0004161 (septum transversum)
UBERON:0009497 (epithelium of foregut-midgut junction)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005008
+|accession_numbers=CAGE;DRX009020;DRR009894;DRZ001319;DRZ002702;DRZ012669;DRZ014052
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002107,UBERON:0002100,UBERON:0000479,UBERON:0001007,UBERON:0004119,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0009569,UBERON:0002368,UBERON:0005177,UBERON:0002365,UBERON:0005172,UBERON:0006925,UBERON:0002530,UBERON:0010317,UBERON:0005173,UBERON:0002417,UBERON:0000949,UBERON:0002330,UBERON:0000916,UBERON:0002423
 |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=chr8:87425854..87425891,+!p1@Klf1!2.30!196.57!Klf1;;chr15:103085660..103085681,-!p1@Nfe2!2.28!281.11!Nfe2;;chr7:122989594..122989626,-!p1@Sox6!1.88!75.62!Sox6;;chr2:28477452..28477483,-!p1@Gfi1b!1.83!81.23!Gfi1b;;chr4:114732112..114732158,+!p1@Tal1!1.81!135.97!Tal1;;chrX:7544943..7545001,-!p1@Gata1!1.80!62.38!Gata1;;chr7:122989632..122989668,-!p2@Sox6!1.77!57.80!Sox6;;chr15:103082088..103082136,-!p2@Nfe2!1.75!55.25!Nfe2;;chr7:19608891..19608895,-!p1@Foxa3!1.74!69.51!Foxa3;;chr9:96159147..96159204,+!p2@Tfdp2!1.69!87.59!Tfdp2;;chr15:103085690..103085710,-!p3@Nfe2!1.66!48.89!Nfe2;;chr9:96159225..96159249,+!p5@Tfdp2!1.59!42.01!Tfdp2;;chr9:74709695..74709722,+!p1@Onecut1!1.58!36.67!Onecut1;;chr10:80555320..80555378,-!p1@Creb3l3!1.49!34.37!Creb3l3;;chr2:163372884..163372904,+!p1@Hnf4a!1.49!29.79!Hnf4a;;chr4:87452180..87452196,-!p3@Mllt3!1.45!52.45!Mllt3;;chr11:11584970..11585030,+!p2@Ikzf1!1.44!37.94!Ikzf1;;chr4:87452200..87452229,-!p2@Mllt3!1.39!49.40!Mllt3;;chr8:87225670..87225697,+!p2@Lyl1!1.35!61.11!Lyl1;;chr7:17642177..17642223,-!p3@Hif3a!1.35!21.13!Hif3a;;chr15:85602655..85602680,+!p5@Ppara!1.22!15.53!Ppara;;chr10:88996336..88996380,-!p2@Nr1h4!1.20!18.33!Nr1h4;;chr10:79884592..79884621,-!p5@Tcf3!1.19!14.51!Tcf3;;chr4:135728181..135728203,+!p2@E2f2!1.18!18.59!E2f2;;chr8:87225702..87225726,+!p3@Lyl1!1.17!27.75!Lyl1;;chr10:88145766..88145770,-!p1@Spic!1.17!18.08!Spic;;chr4:87452236..87452249,-!p9@Mllt3!1.16!13.50!Mllt3;;chr9:96159116..96159130,+!p6@Tfdp2!1.15!16.30!Tfdp2;;chr7:17647736..17647772,-!p1@Hif3a!1.12!43.54!Hif3a;;chr9:96159210..96159221,+!p10@Tfdp2!1.10!11.71!Tfdp2;;chr4:135728473..135728494,+!p5@E2f2!1.09!11.20!E2f2;;chr4:135728581..135728668,+!p1@E2f2!1.07!52.20!E2f2;;chr9:96159133..96159145,+!p9@Tfdp2!1.05!10.19!Tfdp2;;chr11:90249521..90249551,-!p3@Hlf!1.05!10.19!Hlf;;chr14:63864056..63864102,-!p1@Gata4!1.03!17.06!Gata4;;chr6:83301229..83301242,+!p3@Bola3!1.03!9.68!Bola3;;chr13:31650185..31650201,+!p1@Foxq1!1.02!33.61!Foxq1;;chr16:38294860..38294924,-!p1@Nr1i2!1.02!9.42!Nr1i2;;chr1:191993385..191993405,-!p3@Prox1!1.02!9.42!Prox1;;chr10:88969376..88969395,-!p1@Nr1h4!1.02!9.42!Nr1h4;;chr10:88996295..88996335,-!p3@Nr1h4!1.01!10.95!Nr1h4;;chr2:91034924..91034946,-!p2@Nr1h3!1.00!11.20!Nr1h3;;chr7:122989676..122989687,-!p8@Sox6!1.00!8.91!Sox6;;chr18:64499674..64499696,+!p1@Onecut2!0.99!15.28!Onecut2;;chr15:85566184..85566238,+!p1@Ppara!0.99!13.24!Ppara;;chr5:135582751..135582788,+!p1@Mlxipl!0.98!34.88!Mlxipl;;chr5:65203599..65203617,+!p8@Klf3!0.98!14.26!Klf3;;chr4:114729957..114730012,+!p3@Tal1!0.98!8.66!Tal1;;chr2:166868994..166869023,-!p7@Znfx1!0.98!8.66!Znfx1;;chr6:83301243..83301258,+!p2@Bola3!0.96!8.15!Bola3;;chr5:115421065..115421088,-!p1@Hnf1a!0.95!7.89!Hnf1a;;chr2:163332558..163332596,+!p2@Hnf4a!0.95!7.89!Hnf4a;;chr15:103164702..103164778,-!p3@Zfp385a!0.94!9.17!Zfp385a;;chr2:147872790..147872821,-!p2@Foxa2!0.94!7.64!Foxa2;;chr6:86619104..86619119,-!p1@Mxd1!0.93!64.17!Mxd1;;chr10:22539932..22539956,-!p1@Tcf21!0.93!20.62!Tcf21;;chr11:16908650..16908690,-!p1@Plek!0.92!46.85!Plek;;chr2:77357622..77357704,-!p1@Zfp385b!0.92!20.12!Zfp385b;;chr1:173144100..173144138,+!p2@Nr1i3!0.92!7.38!Nr1i3;;chr19:37509324..37509337,+!p1@Hhex!0.91!52.71!Hhex;;chr15:85566537..85566552,+!p2@Ppara!0.91!7.13!Ppara;;chr16:92826249..92826325,-!p1@Runx1!0.88!16.81!Runx1;;chr8:59799772..59799789,+!p1@Hand2!0.86!18.84!Hand2;;chr4:114732159..114732166,+!p6@Tal1!0.85!6.11!Tal1;;chr7:35904304..35904320,+!p1@Cebpa!0.84!128.33!Cebpa;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.83!9.42!Ncoa4;;chr4:135736690..135736705,+!p6@E2f2!0.82!6.62!E2f2;;chr2:90936947..90936977,+!p2@Sfpi1!0.81!11.46!Sfpi1;;chr5:104183477..104183548,+!p6@Aff1!0.81!11.20!Aff1;;chr18:64499706..64499721,+!p2@Onecut2!0.81!7.89!Onecut2;;chr8:124806048..124806094,+!p1@Zfpm1!0.80!52.96!Zfpm1;;chr9:51021788..51021802,+!p1@Pou2af1!0.80!6.37!Pou2af1;;chr2:162880387..162880413,+!p1@Mybl2!0.79!35.14!Mybl2;;chr10:80598968..80599012,+!p5@Zbtb7a!0.79!6.87!Zbtb7a;;chr15:103085802..103085817,-!p4@Nfe2!0.79!6.62!Nfe2;;chr9:96159427..96159432,+!p11@Tfdp2!0.79!6.37!Tfdp2;;chr11:11586218..11586285,+!p1@Ikzf1!0.77!17.06!Ikzf1;;chr5:65203575..65203589,+!p11@Klf3!0.77!6.11!Klf3;;chr16:38294929..38294940,-!p2@Nr1i2!0.77!4.84!Nr1i2;;chr2:147871627..147871641,-!p1@Foxa2!0.77!4.84!Foxa2;;chr13:30841099..30841116,+!p1@Irf4!0.75!7.64!Irf4;;chr12:58646974..58647003,-!p1@Foxa1!0.73!6.11!Foxa1;;chr1:38721792..38721845,-!p1@Aff3!0.73!5.60!Aff3;;chr2:163372869..163372882,+!p3@Hnf4a!0.73!4.33!Hnf4a;;chr15:103085864..103085876,-!p5@Nfe2!0.73!4.33!Nfe2;;chr8:124806017..124806040,+!p2@Zfpm1!0.72!52.45!Zfpm1;;chr2:90936901..90936945,+!p1@Sfpi1!0.72!24.95!Sfpi1;;chr6:15135639..15135655,+!p9@Foxp2!0.72!5.35!Foxp2;;chr2:162880327..162880385,+!p2@Mybl2!0.71!30.56!Mybl2;;chr8:87643578..87643593,-!p1@Zfp791!0.71!9.17!Zfp791;;chr11:120491440..120491474,-!p3@Mafg!0.71!6.37!Mafg;;chr4:114730015..114730042,+!p7@Tal1!0.71!4.07!Tal1;;chr11:11585912..11585950,+!p6@Ikzf1!0.69!5.09!Ikzf1;;chr1:138857048..138857071,-!p2@Nr5a2!0.68!3.82!Nr5a2;;chr2:162880418..162880429,+!p4@Mybl2!0.67!4.84!Mybl2;;chr8:123608252..123608268,+!p1@Foxf1a!0.66!5.60!Foxf1a;;chr1:13364477..13364492,-!p6@Ncoa2!0.66!4.58!Ncoa2;;chr6:90415250..90415271,+!p4@Klf15!0.66!3.56!Klf15;;chr11:83664365..83664383,+!p1@Hnf1b!0.66!3.56!Hnf1b;;chr10:30522690..30522752,-!p2@Ncoa7!0.64!23.93!Ncoa7;;chr8:87225329..87225396,+!p1@Lyl1!0.64!14.51!Lyl1;;chr10:20880731..20880775,-!p2@Myb!0.64!7.89!Myb;;chr6:86619130..86619158,-!p2@Mxd1!0.63!55.25!Mxd1;;chr7:56136362..56136400,-!p1@E2f8!0.63!24.70!E2f8;;chr5:104183579..104183600,+!p9@Aff1!0.63!3.82!Aff1;;chr1:138846047..138846074,-!p5@Nr5a2!0.63!3.56!Nr5a2;;chr1:138857076..138857105,-!p1@Nr5a2!0.63!3.31!Nr5a2;;chr6:90415281..90415295,+!p5@Klf15!0.63!3.31!Klf15;;chr14:47896467..47896523,-!p1@Wdhd1!0.62!45.58!Wdhd1;;chr10:20880629..20880683,-!p1@Myb!0.62!10.44!Myb;;chr7:52071956..52071978,-!p1@Atf5!0.61!120.44!Atf5;;chr6:16848347..16848391,-!p1@Tfec!0.61!4.33!Tfec;;chr1:138857112..138857130,-!p7@Nr5a2!0.61!3.06!Nr5a2;;chr4:13678482..13678505,+!p9@Runx1t1!0.61!3.06!Runx1t1;;chr4:13678514..13678539,+!p14@Runx1t1!0.61!3.06!Runx1t1;;chr14:27813679..27813693,+!p2@Hesx1!0.61!3.06!Hesx1;;chr4:135728282..135728310,+!p4@E2f2!0.59!3.31!E2f2;;chr2:103264213..103264233,+!p1@Elf5!0.58!2.80!Elf5;;chr14:55330976..55330990,-!p1@Cebpe!0.58!2.80!Cebpe;;chr9:24578720..24578735,-!p1@Tbx20!0.58!2.80!Tbx20;;chr16:43247391..43247422,+!p12@Zbtb20!0.58!2.80!Zbtb20;;chr13:55431084..55431137,-!p1@Mxd3!0.57!25.97!Mxd3;;chr7:6649134..6649167,-!p1@Zim1!0.57!18.08!Zim1;;chr12:85534957..85535017,-!p2@C130039O16Rik!0.57!16.55!C130039O16Rik;;chr6:90412582..90412601,+!p1@Klf15!0.56!15.02!Klf15;;chr7:56136349..56136360,-!p5@E2f8!0.56!3.56!E2f8;;chr1:138845748..138845766,-!p4@Nr5a2!0.55!3.56!Nr5a2;;chr11:101413151..101413207,-!p1@Brca1!0.54!29.79!Brca1;;chr14:100683884..100683908,-!p4@Klf12!0.54!5.35!Klf12;;chr10:20880698..20880717,-!p3@Myb!0.54!4.33!Myb;;chr5:104183219..104183236,+!p2@Aff1!0.53!20.37!Aff1;;chr5:144951153..144951203,+!p1@Bhlha15!0.53!3.82!Bhlha15;;chr4:114730254..114730276,+!p2@Tal1!0.53!3.31!Tal1;;chr5:140267476..140267493,+!p1@Mafk!0.52!16.55!Mafk;;chr11:121380640..121380655,-!p1@Zfp750!0.52!4.33!Zfp750;;chr6:16848395..16848416,-!p2@Tfec!0.52!2.80!Tfec;;chr1:173144144..173144176,+!p1@Nr1i3!0.52!2.29!Nr1i3;;chr3:102768047..102768060,-!p1@Nr1h5!0.52!2.29!Nr1h5;;chr11:5420954..5420969,+!p2@Xbp1!0.51!35.90!Xbp1;;chr7:56137011..56137041,-!p2@E2f8!0.51!5.09!E2f8;;chr14:32979290..32979309,+!p3@Gm6768,p3@Ncoa4!0.51!2.80!Ncoa4;;chr5:65194752..65194769,+!p1@Klf3!0.50!96.50!Klf3;;chr17:56970339..56970428,-!p1@Rfx2!0.50!8.40!Rfx2;;chr11:121380611..121380625,-!p3@Zfp750!0.50!2.80!Zfp750;;chr17:56970481..56970551,-!p2@Rfx2!0.49!8.15!Rfx2;;chr13:112476264..112476282,+!p3@Mier3!0.49!3.31!Mier3;;chr15:85566051..85566080,+!p4@Ppara!0.49!2.55!Ppara;;chr8:107821563..107821642,+!p1@E2f4!0.48!76.64!E2f4;;chr11:23980664..23980706,+!p2@Bcl11a!0.48!11.46!Bcl11a;;chr4:63064364..63064384,-!p1@Akna!0.48!7.38!Akna;;chr11:11585678..11585745,+!p5@Ikzf1!0.48!3.31!Ikzf1;;chr15:85566014..85566045,+!p3@Ppara!0.48!3.06!Ppara;;chr17:48015645..48015689,-!p9@Foxp4!0.48!2.80!Foxp4;;chr15:85602581..85602598,+!p8@Ppara!0.48!2.04!Ppara;;chr15:85566241..85566253,+!p6@Ppara!0.48!2.04!Ppara;;chr15:103083199..103083215,-!p8@Nfe2!0.48!2.04!Nfe2;;chr5:108155037..108155060,-!p2@Gfi1!0.48!2.04!Gfi1;;chr11:60023912..60023930,-!p1@Srebf1!0.47!64.93!Srebf1;;chr6:72849280..72849297,-!p6@Kcmf1!0.47!4.58!Kcmf1;;chr2:38206744..38206766,+!p1@Lhx2!0.47!2.55!Lhx2;;chr10:12810631..12810649,+!p1@Plagl1!0.46!69.00!Plagl1;;chr15:79177964..79177986,+!p1@Maff!0.46!8.40!Maff;;chr2:90936978..90937023,+!p3@Sfpi1!0.46!4.33!Sfpi1;;chr1:191994550..191994623,-!p1@Prox1!0.45!17.31!Prox1;;chr3:95238432..95238455,+!p2@Arnt!0.45!14.26!Arnt;;chr13:72101161..72101177,-!p2@Irx1!0.45!2.80!Irx1;;chr5:34163023..34163090,+!p2@Whsc1!0.44!15.53!Whsc1;;chr6:99216488..99216534,-!p2@Foxp1!0.44!6.37!Foxp1;;chr2:148506935..148506954,+!p2@Gzf1!0.44!4.33!Gzf1;;chr1:138846079..138846103,-!p6@Nr5a2!0.44!1.78!Nr5a2;;chr10:5734677..5734702,-!p4@Esr1!0.44!1.78!Esr1;;chr15:103083245..103083260,-!p7@Nfe2!0.44!1.78!Nfe2;;chr4:44723559..44723593,-!p1@Pax5!0.44!1.78!Pax5;;chr4:135736707..135736724,+!p8@E2f2!0.44!1.78!E2f2;;chr8:87225806..87225809,+!p4@Lyl1!0.44!1.78!Lyl1;;chrX:98449898..98449913,+!p2@Foxo4!0.43!7.13!Foxo4;;chr11:102178005..102178022,-!p8@Ubtf!0.43!3.31!Ubtf;;chr10:80040030..80040072,-!p1@Klf16!0.42!47.62!Klf16;;chr6:144730427..144730508,-!p1@Sox5!0.42!14.00!Sox5;;chr6:29476690..29476724,+!p1@Irf5!0.42!10.44!Irf5;;chr10:41995430..41995458,-!p3@Foxo3!0.42!5.60!Foxo3;;chr11:90250944..90250982,-!p2@Hlf!0.42!3.31!Hlf;;chr17:33766353..33766393,+!p2@Zfp414!0.41!5.86!Zfp414;;chr4:62626682..62626705,+!p2@Zfp618!0.41!4.58!Zfp618;;chr13:37918684..37918701,+!p12@Rreb1!0.41!2.04!Rreb1;;chr9:69137716..69137744,+!p1@Rora!0.40!13.75!Rora;;chr10:79389784..79389833,+!p1@Arid3a!0.40!11.46!Arid3a;;chr10:30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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011369
 |is_obsolete=
+|library_id=CNhs10510
+|library_id_phase_based=2:CNhs10510
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;481
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;481
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E17.CNhs10510.481-18A3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E17.CNhs10510.481-18A3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E17.CNhs10510.481-18A3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E17.CNhs10510.481-18A3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E17.CNhs10510.481-18A3.mm9.nobarcode.rdna.fa.gz
 |name=liver, embryo E17
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10510,LSID648,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.172684402844081,0,0,0,0,0.00802810739574445,-0.209563799149954,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,0.16473078120579,0,0,0,0.178761674734239,0,0,0,0,0,0,0,0,0.0086226932382149,-0.0759770259611025,0,0,0,0.802578275297589,0,-0.036831392474749,-0.070177065330638,0.291587790350744,0.355822450649421,-0.171354406004359,0,0,0,0,0,0,0,0,0,0,0,0,0.180462886472722,0.098514232005992,0,0,0,0.135914719651364,0,-0.0814394494477905,0,0,0,0.0350410499245382,0.133765935811725,0.0206706319631565,0.102045244373262,0,0.0553932938975473,-0.10655705223902,0,0.305029486812785,0,-0.0509094078059038,-0.0779800513928913,-0.151498287589458,0.0196826371660846,0,0,0,0,0.049257116002996,0,0.00694769163541491,0.17131737141071,0.0352264845813859,0,0,0,0,0
 |rna_box=18
 |rna_catalog_number=
@@ Line 61: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 81: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:481-18A3;search_select_hide=table117:481-18A3
 }}

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FF:481-18A3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:17, 4 June 2020

CNhs10510

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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