FF:462-17F5: Difference between revisions

Latest revision as of 19:17, 4 June 2020

Name:	liver, embryo E16
Species:	Mouse (Mus musculus)
Library ID:	CNhs10523
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	liver
dev stage	16 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		SAMD00005920

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10523		CAGE		DRX009019		DRR009893

Accession ID Mm9

Library id		BAM		CTSS
CNhs10523		DRZ001318		DRZ002701

Accession ID Mm10

Library id		BAM		CTSS
CNhs10523		DRZ012668		DRZ014051

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

CNhs10523

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.0692
1003	-0.102
1004	0
1005	0.216
1006	-0.127
1007	-0.0917
1008	0
1009	-0.0888
101	0.0662
1010	0
1011	-0.108
1012	0
1013	0.0742
1014	0.078
1015	-0.13
1016	-0.251
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	-0.0266
1023	0
1024	-0.0707
1025	0.293
1026	0
1027	0
1028	0
1029	-0.0538
103	-0.0528
1030	0
1031	-0.156
1032	-0.262
1033	0
1034	0.175
1035	0
1036	0.119
1037	0
1038	-0.134
1039	-0.00475
104	0
1040	-0.21
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: CNhs10523

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0152
MA0003.1	MA0003.1	0.328
MA0004.1	MA0004.1	0.447
MA0006.1	MA0006.1	0.297
MA0007.1	MA0007.1	0.583
MA0009.1	MA0009.1	0.133
MA0014.1	MA0014.1	0.529
MA0017.1	MA0017.1	7.03595e-14
MA0018.2	MA0018.2	1.15666e-4
MA0019.1	MA0019.1	0.4
MA0024.1	MA0024.1	7.5671e-4
MA0025.1	MA0025.1	0.473
MA0027.1	MA0027.1	0.557
MA0028.1	MA0028.1	0.133
MA0029.1	MA0029.1	0.0218
MA0030.1	MA0030.1	0.156
MA0031.1	MA0031.1	0.21
MA0035.2	MA0035.2	6.46673e-25
MA0038.1	MA0038.1	0.564
MA0039.2	MA0039.2	0.0166
MA0040.1	MA0040.1	0.0486
MA0041.1	MA0041.1	0.13
MA0042.1	MA0042.1	0.755
MA0043.1	MA0043.1	0.166
MA0046.1	MA0046.1	6.28856e-54
MA0047.2	MA0047.2	1.72892e-5
MA0048.1	MA0048.1	0.0877
MA0050.1	MA0050.1	0.84
MA0051.1	MA0051.1	0.784
MA0052.1	MA0052.1	1.11283e-4
MA0055.1	MA0055.1	0.043
MA0057.1	MA0057.1	0.422
MA0058.1	MA0058.1	0.349
MA0059.1	MA0059.1	0.105
MA0060.1	MA0060.1	6.05646e-5
MA0061.1	MA0061.1	0.204
MA0062.2	MA0062.2	0.0247
MA0065.2	MA0065.2	2.40325e-7
MA0066.1	MA0066.1	0.0296
MA0067.1	MA0067.1	0.251
MA0068.1	MA0068.1	0.818
MA0069.1	MA0069.1	0.0621
MA0070.1	MA0070.1	0.614
MA0071.1	MA0071.1	0.0607
MA0072.1	MA0072.1	0.0125
MA0073.1	MA0073.1	0.864
MA0074.1	MA0074.1	0.459
MA0076.1	MA0076.1	0.314
MA0077.1	MA0077.1	0.249
MA0078.1	MA0078.1	0.431
MA0079.2	MA0079.2	0.253
MA0080.2	MA0080.2	1.48882e-4
MA0081.1	MA0081.1	0.516
MA0083.1	MA0083.1	0.247
MA0084.1	MA0084.1	0.0744
MA0087.1	MA0087.1	0.0269
MA0088.1	MA0088.1	0.0539
MA0090.1	MA0090.1	0.624
MA0091.1	MA0091.1	0.569
MA0092.1	MA0092.1	0.243
MA0093.1	MA0093.1	0.443
MA0099.2	MA0099.2	0.959
MA0100.1	MA0100.1	0.166
MA0101.1	MA0101.1	0.417
MA0102.2	MA0102.2	0.0505
MA0103.1	MA0103.1	0.59
MA0104.2	MA0104.2	0.502
MA0105.1	MA0105.1	0.00348
MA0106.1	MA0106.1	0.81
MA0107.1	MA0107.1	0.827
MA0108.2	MA0108.2	0.0905
MA0111.1	MA0111.1	0.943
MA0112.2	MA0112.2	0.00113
MA0113.1	MA0113.1	0.299
MA0114.1	MA0114.1	3.23703e-12
MA0115.1	MA0115.1	7.10274e-7
MA0116.1	MA0116.1	0.00283
MA0117.1	MA0117.1	0.836
MA0119.1	MA0119.1	0.0284
MA0122.1	MA0122.1	0.357
MA0124.1	MA0124.1	0.48
MA0125.1	MA0125.1	0.706
MA0131.1	MA0131.1	0.751
MA0135.1	MA0135.1	0.71
MA0136.1	MA0136.1	8.42845e-4
MA0137.2	MA0137.2	0.799
MA0138.2	MA0138.2	0.273
MA0139.1	MA0139.1	0.18
MA0140.1	MA0140.1	4.01466e-52
MA0141.1	MA0141.1	0.0186
MA0142.1	MA0142.1	0.19
MA0143.1	MA0143.1	0.16
MA0144.1	MA0144.1	0.831
MA0145.1	MA0145.1	0.739
MA0146.1	MA0146.1	0.0607
MA0147.1	MA0147.1	0.459
MA0148.1	MA0148.1	2.16433e-7
MA0149.1	MA0149.1	0.0429
MA0150.1	MA0150.1	0.00121
MA0152.1	MA0152.1	0.618
MA0153.1	MA0153.1	5.43147e-42
MA0154.1	MA0154.1	0.0224
MA0155.1	MA0155.1	0.995
MA0156.1	MA0156.1	0.00582
MA0157.1	MA0157.1	0.519
MA0159.1	MA0159.1	0.0151
MA0160.1	MA0160.1	0.0142
MA0162.1	MA0162.1	0.398
MA0163.1	MA0163.1	1.00197e-5
MA0164.1	MA0164.1	0.472
MA0258.1	MA0258.1	0.0685
MA0259.1	MA0259.1	0.868

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: CNhs10523

Novel motif	Logo	P-value
1	1	0.137
10	10	0.131
100	100	0.457
101	101	0.63
102	102	0.394
103	103	0.0259
104	104	0.982
105	105	0.627
106	106	0.166
107	107	0.289
108	108	0.582
109	109	0.0074
11	11	0.0732
110	110	0.0743
111	111	0.0243
112	112	0.013
113	113	0.864
114	114	0.419
115	115	0.968
116	116	0.883
117	117	0.00496
118	118	0.0318
119	119	0.0913
12	12	0.999
120	120	0.837
121	121	0.53
122	122	0.901
123	123	0.0486
124	124	0.888
125	125	0.759
126	126	0.124
127	127	0.515
128	128	0.0739
129	129	0.924
13	13	9.40702e-5
130	130	0.354
131	131	0.113
132	132	0.237
133	133	0.568
134	134	0.433
135	135	0.326
136	136	0.156
137	137	0.373
138	138	0.553
139	139	0.564
14	14	0.821
140	140	0.263
141	141	0.754
142	142	0.0802
143	143	0.678
144	144	0.948
145	145	0.0294
146	146	0.385
147	147	0.891
148	148	0.515
149	149	0.906
15	15	0.0425
150	150	0.192
151	151	0.439
152	152	0.282
153	153	0.954
154	154	0.68
155	155	0.516
156	156	0.0694
157	157	0.569
158	158	0.493
159	159	0.43
160	160	0.147
161	161	0.133
162	162	0.746
163	163	0.87
164	164	0.00473
165	165	0.299
166	166	0.677
167	167	0.313
168	168	0.338
169	169	0.00897
17	17	0.187
18	18	0.553
19	19	0.0959
2	2	0.757
20	20	0.168
21	21	0.916
22	22	0.265
23	23	0.999
24	24	0.282
25	25	0.501
26	26	3.35138e-4
27	27	0.54
28	28	0.271
29	29	0.0227
3	3	0.0167
30	30	0.864
31	31	0.777
32	32	0.237
33	33	0.138
34	34	0.841
35	35	0.732
36	36	0.0452
37	37	0.155
38	38	0.568
39	39	0.798
4	4	0.553
40	40	0.085
41	41	0.931
42	42	0.0639
43	43	0.0702
44	44	0.63
45	45	0.936
46	46	0.107
47	47	0.101
48	48	0.119
49	49	0.044
5	5	0.101
50	50	0.608
51	51	0.55
52	52	0.479
53	53	0.971
54	54	0.631
55	55	0.197
56	56	0.508
57	57	0.606
58	58	0.49
59	59	0.171
6	6	0.758
60	60	0.149
61	61	0.255
62	62	0.118
63	63	0.229
64	64	0.336
65	65	0.443
66	66	0.204
67	67	0.418
68	68	0.63
69	69	0.44
7	7	0.0389
70	70	0.381
71	71	0.0253
72	72	0.405
73	73	0.178
74	74	0.824
75	75	0.0468
76	76	0.673
77	77	0.778
78	78	0.00494
79	79	0.871
8	8	0.012
80	80	0.0722
81	81	0.818
82	82	0.576
83	83	0.404
84	84	0.811
85	85	0.29
86	86	0.267
87	87	0.0412
88	88	0.81
89	89	0.527
9	9	0.651
90	90	0.198
91	91	0.28
92	92	0.412
93	93	0.591
94	94	0.439
95	95	0.0468
96	96	0.0789
97	97	0.837
98	98	0.183
99	99	0.459

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: CNhs10523

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011361 mouse liver- embryo E16 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)
0000299 (mouse embryonic day 16 sample)
0011361 (mouse liver- embryo E16 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
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002107,UBERON:0002100,UBERON:0000483,UBERON:0002530,UBERON:0000926,UBERON:0000479,UBERON:0001007,UBERON:0000077,UBERON:0002368,UBERON:0000466,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0004120,UBERON:0000025,UBERON:0004119,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0003914,UBERON:0007499,UBERON:0002050,UBERON:0005911,UBERON:0004921,UBERON:0005423,UBERON:0000477,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0000490,UBERON:0009569,UBERON:0005291,UBERON:0009854,UBERON:0003929,UBERON:0005177,UBERON:0002365,UBERON:0003104,UBERON:0005057,UBERON:0005172,UBERON:0006925,UBERON:0005256,UBERON:0001048,UBERON:0000925,UBERON:0006598,UBERON:0009497,UBERON:0004185,UBERON:0005173,UBERON:0000015,UBERON:0009856,UBERON:0002532,UBERON:0001555,UBERON:0002417,UBERON:0007026,UBERON:0001041,UBERON:0000949,UBERON:0002330,UBERON:0000916,UBERON:0002405,UBERON:0002423,UBERON:0009142,UBERON:0006235,UBERON:0006595,UBERON:0006603,UBERON:0008835,UBERON:0003894,UBERON:0004161,UBERON:0008836
+|DRA_sample_Accession=CAGE@SAMD00005920
+|accession_numbers=CAGE;DRX009019;DRR009893;DRZ001318;DRZ002701;DRZ012668;DRZ014051
+|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=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000999,FF:0000292,FF:0000004,FF:0000299,FF:0011361
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr8:87425854..87425891,+!p1@Klf1!2.41!255.89!Klf1;;chr15:103085660..103085681,-!p1@Nfe2!2.33!309.91!Nfe2;;chr2:28477452..28477483,-!p1@Gfi1b!2.00!121.07!Gfi1b;;chr4:114732112..114732158,+!p1@Tal1!1.92!173.17!Tal1;;chr7:122989632..122989668,-!p2@Sox6!1.92!82.24!Sox6;;chr7:122989594..122989626,-!p1@Sox6!1.90!79.11!Sox6;;chrX:7544943..7545001,-!p1@Gata1!1.90!78.14!Gata1;;chr15:103082088..103082136,-!p2@Nfe2!1.87!73.56!Nfe2;;chr9:96159147..96159204,+!p2@Tfdp2!1.80!112.87!Tfdp2;;chr7:19608891..19608895,-!p1@Foxa3!1.72!66.32!Foxa3;;chr15:103085690..103085710,-!p3@Nfe2!1.68!51.13!Nfe2;;chr4:87452200..87452229,-!p2@Mllt3!1.62!85.14!Mllt3;;chr11:11584970..11585030,+!p2@Ikzf1!1.62!58.12!Ikzf1;;chr4:87452180..87452196,-!p3@Mllt3!1.53!63.19!Mllt3;;chr9:96159225..96159249,+!p5@Tfdp2!1.49!32.80!Tfdp2;;chr7:17642177..17642223,-!p3@Hif3a!1.44!26.77!Hif3a;;chr4:135728181..135728203,+!p2@E2f2!1.41!32.08!E2f2;;chr8:87225670..87225697,+!p2@Lyl1!1.40!68.25!Lyl1;;chr2:163372884..163372904,+!p1@Hnf4a!1.34!20.74!Hnf4a;;chr4:87452236..87452249,-!p9@Mllt3!1.31!19.29!Mllt3;;chr8:87225702..87225726,+!p3@Lyl1!1.26!34.73!Lyl1;;chr10:80555320..80555378,-!p1@Creb3l3!1.26!20.02!Creb3l3;;chr10:88145766..88145770,-!p1@Spic!1.24!21.22!Spic;;chr9:96159116..96159130,+!p6@Tfdp2!1.21!18.81!Tfdp2;;chr10:80598968..80599012,+!p5@Zbtb7a!1.19!18.81!Zbtb7a;;chr4:135728581..135728668,+!p1@E2f2!1.18!66.32!E2f2;;chr4:114729957..114730012,+!p3@Tal1!1.18!14.23!Tal1;;chr9:96159133..96159145,+!p9@Tfdp2!1.18!14.23!Tfdp2;;chr4:135728473..135728494,+!p5@E2f2!1.16!13.51!E2f2;;chr10:79884592..79884621,-!p5@Tcf3!1.16!13.51!Tcf3;;chr9:96159210..96159221,+!p10@Tfdp2!1.13!12.54!Tfdp2;;chr16:38294860..38294924,-!p1@Nr1i2!1.12!12.30!Nr1i2;;chr9:74709695..74709722,+!p1@Onecut1!1.10!11.58!Onecut1;;chr5:104183477..104183548,+!p6@Aff1!1.09!22.19!Aff1;;chr1:191993385..191993405,-!p3@Prox1!1.07!10.85!Prox1;;chr5:65203599..65203617,+!p8@Klf3!1.04!16.64!Klf3;;chr7:122989676..122989687,-!p8@Sox6!1.04!9.89!Sox6;;chr11:90249521..90249551,-!p3@Hlf!1.04!9.89!Hlf;;chr7:17647736..17647772,-!p1@Hif3a!1.03!34.73!Hif3a;;chr5:135582751..135582788,+!p1@Mlxipl!1.02!39.07!Mlxipl;;chr16:92826249..92826325,-!p1@Runx1!1.01!23.15!Runx1;;chr2:77357622..77357704,-!p1@Zfp385b!0.99!24.12!Zfp385b;;chr11:11585912..11585950,+!p6@Ikzf1!0.99!11.34!Ikzf1;;chr15:85602655..85602680,+!p5@Ppara!0.99!8.68!Ppara;;chr8:124806048..124806094,+!p1@Zfpm1!0.98!80.07!Zfpm1;;chr6:83301243..83301258,+!p2@Bola3!0.98!8.44!Bola3;;chr11:120491440..120491474,-!p3@Mafg!0.97!12.30!Mafg;;chr2:91034924..91034946,-!p2@Nr1h3!0.97!10.37!Nr1h3;;chr10:88996336..88996380,-!p2@Nr1h4!0.96!10.13!Nr1h4;;chr15:103085802..103085817,-!p4@Nfe2!0.96!10.13!Nfe2;;chr5:65203575..65203589,+!p11@Klf3!0.95!9.65!Klf3;;chr2:166868994..166869023,-!p7@Znfx1!0.95!7.96!Znfx1;;chr15:103164702..103164778,-!p3@Zfp385a!0.94!9.16!Zfp385a;;chr8:124806017..124806040,+!p2@Zfpm1!0.91!80.55!Zfpm1;;chr6:86619104..86619119,-!p1@Mxd1!0.90!59.33!Mxd1;;chr19:37509324..37509337,+!p1@Hhex!0.88!48.96!Hhex;;chr6:83301229..83301242,+!p3@Bola3!0.88!6.51!Bola3;;chr2:162880387..162880413,+!p1@Mybl2!0.87!42.93!Mybl2;;chr14:63864056..63864102,-!p1@Gata4!0.87!11.34!Gata4;;chr10:88996295..88996335,-!p3@Nr1h4!0.86!7.48!Nr1h4;;chr4:114732159..114732166,+!p6@Tal1!0.86!6.27!Tal1;;chr15:85566184..85566238,+!p1@Ppara!0.85!9.41!Ppara;;chr7:56136362..56136400,-!p1@E2f8!0.83!39.55!E2f8;;chr11:16908650..16908690,-!p1@Plek!0.83!37.86!Plek;;chr4:135736690..135736705,+!p6@E2f2!0.83!6.75!E2f2;;chr10:88969376..88969395,-!p1@Nr1h4!0.83!5.79!Nr1h4;;chr2:163332558..163332596,+!p2@Hnf4a!0.83!5.79!Hnf4a;;chr12:85534957..85535017,-!p2@C130039O16Rik!0.82!30.15!C130039O16Rik;;chr5:115421065..115421088,-!p1@Hnf1a!0.82!5.55!Hnf1a;;chr18:64499674..64499696,+!p1@Onecut2!0.80!9.65!Onecut2;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.80!8.68!Ncoa4;;chr11:11586218..11586285,+!p1@Ikzf1!0.79!17.85!Ikzf1;;chr5:104183579..104183600,+!p9@Aff1!0.78!5.79!Aff1;;chr12:58646974..58647003,-!p1@Foxa1!0.77!6.75!Foxa1;;chr1:138857112..138857130,-!p7@Nr5a2!0.77!4.82!Nr5a2;;chr1:138857048..138857071,-!p2@Nr5a2!0.77!4.82!Nr5a2;;chr17:56970339..56970428,-!p1@Rfx2!0.75!15.68!Rfx2;;chr8:59799772..59799789,+!p1@Hand2!0.75!14.47!Hand2;;chr18:64499706..64499721,+!p2@Onecut2!0.75!6.75!Onecut2;;chr4:114730254..114730276,+!p2@Tal1!0.75!6.03!Tal1;;chr2:163372869..163372882,+!p3@Hnf4a!0.75!4.58!Hnf4a;;chr11:23980664..23980706,+!p2@Bcl11a!0.73!20.74!Bcl11a;;chr9:96159427..96159432,+!p11@Tfdp2!0.73!5.31!Tfdp2;;chr1:138857076..138857105,-!p1@Nr5a2!0.73!4.34!Nr5a2;;chr3:102768047..102768060,-!p1@Nr1h5!0.73!4.34!Nr1h5;;chr2:90936901..90936945,+!p1@Sfpi1!0.72!24.60!Sfpi1;;chr14:47896467..47896523,-!p1@Wdhd1!0.71!56.68!Wdhd1;;chr14:27813679..27813693,+!p2@Hesx1!0.71!4.10!Hesx1;;chr2:147872790..147872821,-!p2@Foxa2!0.71!4.10!Foxa2;;chr11:101413151..101413207,-!p1@Brca1!0.70!44.38!Brca1;;chr8:107821563..107821642,+!p1@E2f4!0.69!127.58!E2f4;;chr7:6649134..6649167,-!p1@Zim1!0.69!24.12!Zim1;;chr11:90250944..90250982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arca5;;chr19:41557591..41557634,+!p3@Lcor!0.08!1.93!Lcor;;chr12:85658041..85658051,+!p3@Zfp410!0.08!1.69!Zfp410;;chr11:100683839..100683890,-!p2@Stat5b!0.08!1.69!Stat5b;;chr13:5860740..5860747,+!p4@Klf6!0.08!1.45!Klf6;;chr2:34227524..34227547,-!p2@Pbx3!0.08!1.21!Pbx3;;chr7:46773162..46773172,+!p2@Zfp619!0.08!0.96!Zfp619;;chr12:25336286..25336297,+!p2@Klf11!0.08!0.72!Klf11;;chr13:59924319..59924331,-!p5@Zcchc6!0.08!0.72!Zcchc6;;chr2:152223586..152223604,-!p5@Sox12!0.08!0.72!Sox12;;chr2:156666727..156666753,+!p2@Tgif2!0.08!0.72!Tgif2;;chr11:62271274..62271337,-!p4@Ncor1!0.08!0.72!Ncor1;;chr11:102177921..102177960,-!p9@Ubtf!0.08!0.72!Ubtf;;chr10:126779021..126779032,-!p2@Gli1!0.08!0.48!Gli1;;chr5:77695390..77695414,+!p2@Rest!0.08!0.48!Rest;;chr5:138187466..138187477,+!p11@Tsc22d4!0.08!0.48!Tsc22d4;;chr6:144157924..144157955,-!p2@Sox5!0.08!0.48!Sox5;;chr14:98568683..98568698,-!p6@Dach1!0.08!0.48!Dach1;;chr15:102865048..102865073,+!p3@Hoxc4!0.08!0.48!Hoxc4;;chr17:27693622..27693635,+!p11@Hmga1-rs1,p12@Hmga1!0.08!0.48!Hmga1;;chr11:80196811..80196838,+!p1@Zfp207!0.07!186.67!Zfp207;;chr2:168055853..168055886,-!p1@Adnp,p1@Dpm1!0.07!71.39!Adnp;;chr19:4397052..4397098,-!p1@Kdm2a!0.07!27.49!Kdm2a;;chr12:32635078..32635111,-!p1@Hbp1!0.07!21.71!Hbp1;;chr2:28915759..28915807,+!p1@Ttf1!0.07!13.99!Ttf1;;chr1:193961880..193961929,-!p1@Rcor3!0.07!10.85!Rcor3;;chr6:124959279..124959335,+!p1@Zfp384!0.07!9.65!Zfp384;;chr10:75495343..75495405,+!p1@Zfp280b!0.07!8.20!Zfp280b;;chr11:53164285..53164302,+!p3@Aff4!0.07!8.20!Aff4;;chr15:81977766..81977789,+!p3@Srebf2!0.07!5.79!Srebf2;;chr2:84877605..84877687,+!p3@Ssrp1!0.07!5.55!Ssrp1;;chr17:84105510..84105540,+!p2@Mta3!0.07!4.82!Mta3;;chr14:65977459..65977489,+!p3@Zfp395!0.07!2.89!Zfp395;;chr12:77471500..77471515,+!p2@Zbtb1!0.07!2.17!Zbtb1;;chr7:50568466..50568486,-!p2@Zfp715!0.07!1.93!Zfp715;;chr2:91077124..91077146,-!p3@Ddb2!0.07!1.93!Ddb2;;chr1:64579465..64579474,+!p5@Creb1!0.07!1.69!Creb1;;chr18:60720468..60720472,+!p2@Rbm22!0.07!1.21!Rbm22;;chr11:58717721..58717738,-!p2@Zfp39!0.07!1.21!Zfp39;;chr5:65194810..65194819,+!p9@Klf3!0.07!1.21!Klf3;;chr15:61818593..61818614,+!p4@Myc!0.07!0.96!Myc;;chr13:44826650..44826661,+!p8@Jarid2!0.07!0.96!Jarid2;;chr11:102179174..102179191,-!p10@Ubtf!0.07!0.96!Ubtf;;chr6:83391668..83391678,-!p3@Tet3!0.07!0.72!Tet3;;chr7:134592574..134592591,-!p2@Zfp689!0.07!0.72!Zfp689;;chr9:21420812..21420815,+!p6@Smarca4!0.07!0.72!Smarca4;;chr12:119540395..119540415,-!p5@Sp4!0.07!0.72!Sp4;;chr12:77470573..77470585,-!p6@Zbtb25!0.07!0.72!Zbtb25;;chr6:52141694..52141715,-!p1@Hoxa4!0.07!0.48!Hoxa4;;chr7:119822940..119822945,+!p6@Tead1!0.07!0.48!Tead1;;chr6:92041372..92041383,+!p6@Nr2c2!0.07!0.48!Nr2c2;;chr1:4486530..4486557,-!p4@Sox17!0.07!0.48!Sox17;;chr4:32325955..32325971,+!p3@Bach2!0.07!0.48!Bach2;;chr3:133207369..133207376,-!p3@Tet2!0.07!0.48!Tet2;;chr16:98073382..98073395,-!p4@Prdm15!0.07!0.48!Prdm15;;chr17:51952537..51952552,-!p15@Satb1!0.07!0.24!Satb1;;chr13:58503837..58503885,-!p1@Hnrnpk!0.06!292.79!Hnrnpk;;chr8:72663586..72663633,+!p1@2310045N01Rik,p1@Mef2b!0.06!52.09!Mef2b;;chr5:138187195..138187255,+!p1@Tsc22d4!0.06!43.65!Tsc22d4;;chr12:112277544..112277610,+!p1@Rcor1!0.06!38.35!Rcor1;;chr9:32503590..32503680,+!p1@Ets1!0.06!37.14!Ets1;;chr6:64992569..64992656,+!p1@Smarcad1!0.06!29.91!Smarcad1;;chr17:4995902..4995959,+!p1@Arid1b!0.06!23.88!Arid1b;;chr11:60034052..60034134,-!p2@Srebf1!0.06!23.64!Srebf1;;chr17:33766023..33766059,+!p1@Zfp414!0.06!14.95!Zfp414;;chr14:79880971..79880992,+!p2@Elf1!0.06!12.54!Elf1;;chr6:47870583..47870635,+!p1@Zfp212!0.06!12.30!Zfp212;;chr18:80904854..80904919,-!p2@Nfatc1!0.06!11.58!Nfatc1;;chr15:81494344..81494388,+!p1@L3mbtl2!0.06!11.34!L3mbtl2;;chr15:99532568..99532636,+!p2@Smarcd1!0.06!8.68!Smarcd1;;
+|ffid_belonging_in_development=UBERON:0001041,UBERON:0002532,UBERON:0006595,UBERON:0003104,UBERON:0004161,UBERON:0009497,UBERON:0010316,FF:0000294
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 38: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011361
 |is_obsolete=
+|library_id=CNhs10523
+|library_id_phase_based=2:CNhs10523
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;462
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;462
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E16.CNhs10523.462-17F5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E16.CNhs10523.462-17F5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E16.CNhs10523.462-17F5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E16.CNhs10523.462-17F5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520embryo%2520E16.CNhs10523.462-17F5.mm9.nobarcode.rdna.fa.gz
 |name=liver, embryo E16
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10523,LSID649,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.047330901161339,0,0,0,0,0,-0.23690012534876,0,0,0,0,0.0094945346651525,0,0,0,0,0,0,-0.0980595758208806,0,0.046916887530847,0,0.170952023220814,0,0,0,0,0,0,0,0,0,0.273335153300538,0,0,0,0.532979949442988,0,0.0555359618683287,-0.115131329502976,0.428368013624775,0.328290741524727,-0.0334494180686079,0,0,0,0,0,0,0,0,0,0,0,0,0.170413672378303,0,0,0,0,0.0292473226255988,0,-0.012486955479915,0,0,0,-0.0088764557730499,0.0329323674233173,-0.0642572677093885,-0.0186189626600323,0,0.0158251743097426,-0.0973736644748266,-0.0256820321820872,0.388645143108919,0,-0.0423991962112519,-0.126305046186648,-0.0332713006688402,0.0921204283809069,0,0,0,0,0,0,-0.115977860694432,-0.150441930604742,0.0105045046727905,0,0,0,0,0
 |rna_box=17
 |rna_catalog_number=
@@ Line 58: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 78: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:462-17F5;search_select_hide=table117:462-17F5
 }}

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FF:462-17F5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:17, 4 June 2020

CNhs10523

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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