FF:11822-124F4: Difference between revisions

Latest revision as of 18:22, 4 June 2020

Name:	Mouse hepatocyte, donor6
Species:	Mouse (Mus musculus)
Library ID:	CNhs13090
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	liver
dev stage	NA
sex	male
age	NA
cell type	hepatocyte
cell line	NA
company	NA
collaboration	Soichi Kojima (RIKEN ASI)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005469

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13090		CAGE		DRX008859		DRR009731

Accession ID Mm9

Library id		BAM		CTSS
CNhs13090		DRZ001156		DRZ002541

Accession ID Mm10

Library id		BAM		CTSS
CNhs13090		DRZ012506		DRZ013891

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

CNhs13090

0	0
1	0
10	0
100	0
1000	0.0371
1001	0.162
1002	-0.116
1003	0.254
1004	0
1005	0
1006	-0.143
1007	-0.203
1008	0
1009	-0.0572
101	-0.0456
1010	0
1011	-0.298
1012	0
1013	0.658
1014	-0.0874
1015	-0.396
1016	-0.377
1017	0
1018	0
1019	0
102	0
1020	0.75
1021	0
1022	0.628
1023	0
1024	-0.14
1025	0.201
1026	0
1027	0
1028	0
1029	-0.0989
103	-0.0887
1030	0
1031	-0.41
1032	-0.395
1033	-0.0665
1034	1.113
1035	0
1036	-0.271
1037	0
1038	-0.276
1039	0.82
104	0
1040	-0.216
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: CNhs13090

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.182
MA0003.1	MA0003.1	0.7
MA0004.1	MA0004.1	0.516
MA0006.1	MA0006.1	0.321
MA0007.1	MA0007.1	0.136
MA0009.1	MA0009.1	0.956
MA0014.1	MA0014.1	0.0738
MA0017.1	MA0017.1	8.87184e-20
MA0018.2	MA0018.2	8.03987e-4
MA0019.1	MA0019.1	0.945
MA0024.1	MA0024.1	1.45855e-4
MA0025.1	MA0025.1	0.28
MA0027.1	MA0027.1	0.9
MA0028.1	MA0028.1	0.548
MA0029.1	MA0029.1	0.329
MA0030.1	MA0030.1	0.0438
MA0031.1	MA0031.1	0.0173
MA0035.2	MA0035.2	0.142
MA0038.1	MA0038.1	0.33
MA0039.2	MA0039.2	0.832
MA0040.1	MA0040.1	0.747
MA0041.1	MA0041.1	0.406
MA0042.1	MA0042.1	0.682
MA0043.1	MA0043.1	0.275
MA0046.1	MA0046.1	1.22483e-70
MA0047.2	MA0047.2	2.26766e-6
MA0048.1	MA0048.1	0.24
MA0050.1	MA0050.1	0.42
MA0051.1	MA0051.1	0.079
MA0052.1	MA0052.1	0.016
MA0055.1	MA0055.1	0.257
MA0057.1	MA0057.1	0.695
MA0058.1	MA0058.1	0.407
MA0059.1	MA0059.1	0.0378
MA0060.1	MA0060.1	2.82413e-6
MA0061.1	MA0061.1	0.514
MA0062.2	MA0062.2	0.988
MA0065.2	MA0065.2	1.43332e-13
MA0066.1	MA0066.1	0.0302
MA0067.1	MA0067.1	0.241
MA0068.1	MA0068.1	0.447
MA0069.1	MA0069.1	0.098
MA0070.1	MA0070.1	0.311
MA0071.1	MA0071.1	3.48778e-5
MA0072.1	MA0072.1	1.23577e-4
MA0073.1	MA0073.1	0.913
MA0074.1	MA0074.1	0.186
MA0076.1	MA0076.1	0.959
MA0077.1	MA0077.1	0.0389
MA0078.1	MA0078.1	0.968
MA0079.2	MA0079.2	0.169
MA0080.2	MA0080.2	0.00639
MA0081.1	MA0081.1	0.27
MA0083.1	MA0083.1	0.00298
MA0084.1	MA0084.1	0.329
MA0087.1	MA0087.1	0.365
MA0088.1	MA0088.1	0.227
MA0090.1	MA0090.1	0.729
MA0091.1	MA0091.1	0.873
MA0092.1	MA0092.1	0.169
MA0093.1	MA0093.1	0.565
MA0099.2	MA0099.2	0.8
MA0100.1	MA0100.1	0.584
MA0101.1	MA0101.1	0.916
MA0102.2	MA0102.2	0.522
MA0103.1	MA0103.1	0.0598
MA0104.2	MA0104.2	0.595
MA0105.1	MA0105.1	0.038
MA0106.1	MA0106.1	0.00865
MA0107.1	MA0107.1	0.614
MA0108.2	MA0108.2	1.17946e-6
MA0111.1	MA0111.1	0.87
MA0112.2	MA0112.2	8.05884e-6
MA0113.1	MA0113.1	0.379
MA0114.1	MA0114.1	1.81009e-18
MA0115.1	MA0115.1	1.32566e-11
MA0116.1	MA0116.1	0.0807
MA0117.1	MA0117.1	0.539
MA0119.1	MA0119.1	0.025
MA0122.1	MA0122.1	0.222
MA0124.1	MA0124.1	0.963
MA0125.1	MA0125.1	0.302
MA0131.1	MA0131.1	0.771
MA0135.1	MA0135.1	0.431
MA0136.1	MA0136.1	0.0266
MA0137.2	MA0137.2	0.0267
MA0138.2	MA0138.2	0.297
MA0139.1	MA0139.1	0.122
MA0140.1	MA0140.1	0.522
MA0141.1	MA0141.1	5.70523e-7
MA0142.1	MA0142.1	0.31
MA0143.1	MA0143.1	0.208
MA0144.1	MA0144.1	0.217
MA0145.1	MA0145.1	0.153
MA0146.1	MA0146.1	0.0825
MA0147.1	MA0147.1	0.43
MA0148.1	MA0148.1	3.22163e-8
MA0149.1	MA0149.1	0.00312
MA0150.1	MA0150.1	0.00593
MA0152.1	MA0152.1	0.467
MA0153.1	MA0153.1	4.15652e-57
MA0154.1	MA0154.1	0.154
MA0155.1	MA0155.1	0.938
MA0156.1	MA0156.1	0.156
MA0157.1	MA0157.1	0.00671
MA0159.1	MA0159.1	4.8844e-4
MA0160.1	MA0160.1	1.79782e-5
MA0162.1	MA0162.1	0.277
MA0163.1	MA0163.1	0.00103
MA0164.1	MA0164.1	0.945
MA0258.1	MA0258.1	0.00159
MA0259.1	MA0259.1	0.92

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: CNhs13090

Novel motif	Logo	P-value
1	1	0.0617
10	10	0.151
100	100	0.452
101	101	0.997
102	102	0.294
103	103	0.00526
104	104	0.876
105	105	0.775
106	106	0.125
107	107	0.134
108	108	0.957
109	109	0.0679
11	11	0.0628
110	110	0.0382
111	111	0.00343
112	112	0.0192
113	113	0.916
114	114	0.00204
115	115	0.762
116	116	0.92
117	117	0.0633
118	118	0.468
119	119	0.0855
12	12	0.431
120	120	0.77
121	121	0.876
122	122	0.56
123	123	0.517
124	124	0.365
125	125	0.82
126	126	0.225
127	127	0.782
128	128	0.0449
129	129	0.749
13	13	5.36286e-4
130	130	0.5
131	131	0.715
132	132	0.396
133	133	0.78
134	134	0.909
135	135	0.428
136	136	0.732
137	137	0.855
138	138	0.813
139	139	0.262
14	14	0.616
140	140	0.0863
141	141	0.407
142	142	0.0816
143	143	0.536
144	144	0.653
145	145	0.0875
146	146	0.591
147	147	0.461
148	148	0.519
149	149	0.132
15	15	0.103
150	150	0.285
151	151	0.457
152	152	0.183
153	153	0.344
154	154	0.875
155	155	0.505
156	156	0.264
157	157	0.924
158	158	0.822
159	159	0.753
160	160	0.257
161	161	0.687
162	162	0.527
163	163	0.33
164	164	0.0827
165	165	0.697
166	166	0.522
167	167	0.0801
168	168	0.822
169	169	0.00159
17	17	0.0768
18	18	0.81
19	19	0.0828
2	2	0.953
20	20	0.409
21	21	0.716
22	22	0.172
23	23	0.323
24	24	0.22
25	25	0.502
26	26	0.00737
27	27	0.787
28	28	0.392
29	29	0.135
3	3	0.0661
30	30	0.934
31	31	0.392
32	32	0.109
33	33	0.379
34	34	0.836
35	35	0.214
36	36	0.119
37	37	0.0645
38	38	0.439
39	39	0.245
4	4	0.896
40	40	0.266
41	41	0.996
42	42	0.392
43	43	0.0778
44	44	0.00142
45	45	0.833
46	46	0.106
47	47	0.342
48	48	0.173
49	49	0.049
5	5	0.0921
50	50	0.902
51	51	0.314
52	52	0.626
53	53	0.487
54	54	0.259
55	55	0.621
56	56	0.421
57	57	0.598
58	58	0.352
59	59	0.404
6	6	0.835
60	60	0.185
61	61	0.303
62	62	0.0969
63	63	0.15
64	64	0.423
65	65	0.256
66	66	0.438
67	67	0.875
68	68	0.122
69	69	0.833
7	7	0.215
70	70	0.0187
71	71	0.0342
72	72	0.749
73	73	0.0714
74	74	0.531
75	75	0.0108
76	76	0.765
77	77	0.431
78	78	0.0209
79	79	0.564
8	8	0.0099
80	80	0.943
81	81	0.756
82	82	0.0127
83	83	0.352
84	84	0.0709
85	85	0.0114
86	86	0.1
87	87	0.45
88	88	0.774
89	89	0.156
9	9	0.981
90	90	0.0704
91	91	0.581
92	92	0.1
93	93	0.0389
94	94	0.667
95	95	0.203
96	96	0.373
97	97	0.58
98	98	0.397
99	99	0.165

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: CNhs13090

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000109 mouse hepatocyte 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

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0000066 (epithelial cell)
0002371 (somatic cell)
0000181 (metabolising cell)
0000417 (endopolyploid cell)
0000668 (parenchymal cell)
0000412 (polyploid cell)
0000255 (eukaryotic cell)
0000182 (hepatocyte)

UBERON: Anatomy
0000468 (multi-cellular organism)
0002107 (liver)
0002100 (trunk)
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)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000109 (mouse hepatocyte 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
CL:0000134 (mesenchymal cell)
CL:0000223 (endodermal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005469
+|accession_numbers=CAGE;DRX008859;DRR009731;DRZ001156;DRZ002541;DRZ012506;DRZ013891
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002107,UBERON:0002100,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=CL:0000000,CL:0000003,CL:0000548,CL:0000066,CL:0002371,CL:0000181,CL:0000417,CL:0000668,CL:0000412,CL:0000255,CL:0000182
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr9:74709695..74709722,+!p1@Onecut1!2.49!308.64!Onecut1;;chr10:80555320..80555378,-!p1@Creb3l3!2.43!306.04!Creb3l3;;chr5:135582751..135582788,+!p1@Mlxipl!2.22!622.49!Mlxipl;;chr10:88969376..88969395,-!p1@Nr1h4!2.14!137.75!Nr1h4;;chr2:163372884..163372904,+!p1@Hnf4a!2.04!107.86!Hnf4a;;chr4:133109285..133109308,+!p1@Nr0b2!1.97!92.27!Nr0b2;;chr7:19608891..19608895,-!p1@Foxa3!1.95!113.06!Foxa3;;chr2:27531961..27531974,+!p7@Rxra!1.94!87.07!Rxra;;chr1:173144100..173144138,+!p2@Nr1i3!1.94!86.42!Nr1i3;;chr1:173144144..173144176,+!p1@Nr1i3!1.85!69.53!Nr1i3;;chr16:38294860..38294924,-!p1@Nr1i2!1.83!66.93!Nr1i2;;chr11:90249521..90249551,-!p3@Hlf!1.78!59.78!Hlf;;chr19:37509324..37509337,+!p1@Hhex!1.74!364.52!Hhex;;chr7:35904304..35904320,+!p1@Cebpa!1.68!902.54!Cebpa;;chr10:88996295..88996335,-!p3@Nr1h4!1.68!55.23!Nr1h4;;chr16:43363190..43363242,+!p2@Zbtb20!1.67!137.10!Zbtb20;;chr9:74714303..74714318,+!p2@Onecut1!1.67!45.48!Onecut1;;chr18:64499674..64499696,+!p1@Onecut2!1.66!74.72!Onecut2;;chr6:90415250..90415271,+!p4@Klf15!1.58!37.04!Klf15;;chr10:88996336..88996380,-!p2@Nr1h4!1.54!41.59!Nr1h4;;chr13:31650185..31650201,+!p1@Foxq1!1.53!111.11!Foxq1;;chr15:85566184..85566238,+!p1@Ppara!1.50!45.48!Ppara;;chr11:100683839..100683890,-!p2@Stat5b!1.49!68.23!Stat5b;;chr2:147872790..147872821,-!p2@Foxa2!1.48!29.24!Foxa2;;chr2:77357622..77357704,-!p1@Zfp385b!1.46!73.42!Zfp385b;;chr18:64499706..64499721,+!p2@Onecut2!1.46!38.99!Onecut2;;chr16:43247391..43247422,+!p12@Zbtb20!1.46!27.94!Zbtb20;;chr11:60023912..60023930,-!p1@Srebf1!1.43!595.84!Srebf1;;chr15:85566537..85566552,+!p2@Ppara!1.31!19.49!Ppara;;chr2:147871627..147871641,-!p1@Foxa2!1.31!19.49!Foxa2;;chr16:43363152..43363186,+!p3@Zbtb20!1.28!40.94!Zbtb20;;chr12:58646974..58647003,-!p1@Foxa1!1.28!24.04!Foxa1;;chr9:48644037..48644067,-!p2@Zbtb16!1.26!42.24!Zbtb16;;chr9:74709682..74709691,+!p3@Onecut1!1.25!16.89!Onecut1;;chr16:43235969..43235989,+!p20@Zbtb20!1.25!16.89!Zbtb20;;chr10:80555285..80555291,-!p4@Creb3l3!1.25!16.89!Creb3l3;;chr7:52071956..52071978,-!p1@Atf5!1.22!492.53!Atf5;;chr14:18493386..18493464,+!p1@Thrb!1.22!58.48!Thrb;;chr4:32334732..32334739,+!p7@Bach2!1.22!15.59!Bach2;;chr11:60036258..60036276,-!p3@Srebf1!1.20!25.99!Srebf1;;chr2:91035254..91035271,-!p3@Nr1h3!1.19!18.19!Nr1h3;;chr11:98636531..98636559,-!p1@Nr1d1!1.18!80.57!Nr1d1;;chr10:80555299..80555306,-!p3@Creb3l3!1.18!14.30!Creb3l3;;chr16:43236037..43236050,+!p35@Zbtb20!1.17!13.65!Zbtb20;;chr15:85566241..85566253,+!p6@Ppara!1.17!13.65!Ppara;;chr1:138857048..138857071,-!p2@Nr5a2!1.17!13.65!Nr5a2;;chr1:138857076..138857105,-!p1@Nr5a2!1.17!13.65!Nr5a2;;chr17:87153519..87153533,+!p5@Epas1!1.15!19.49!Epas1;;chr17:87153505..87153516,+!p6@Epas1!1.14!17.54!Epas1;;chr5:115421065..115421088,-!p1@Hnf1a!1.13!12.35!Hnf1a;;chr6:90412582..90412601,+!p1@Klf15!1.10!55.23!Klf15;;chr14:100683884..100683908,-!p4@Klf12!1.10!22.09!Klf12;;chr9:74714281..74714296,+!p5@Onecut1!1.10!11.70!Onecut1;;chr2:27532479..27532509,+!p3@Rxra!1.09!23.39!Rxra;;chr2:27532513..27532525,+!p8@Rxra!1.09!13.00!Rxra;;chr2:27532754..27532815,+!p1@Rxra!1.06!303.45!Rxra;;chr6:90415281..90415295,+!p5@Klf15!1.06!10.40!Klf15;;chr19:23215509..23215523,+!p4@Klf9!1.05!13.00!Klf9;;chr2:167514456..167514473,+!p1@Cebpb!1.03!432.10!Cebpb;;chr6:108610766..108610781,+!p2@Bhlhe40!1.03!17.54!Bhlhe40;;chr2:163372869..163372882,+!p3@Hnf4a!1.03!9.75!Hnf4a;;chr10:80555398..80555409,-!p2@Creb3l3!1.03!9.75!Creb3l3;;chr15:85566051..85566080,+!p4@Ppara!1.02!11.05!Ppara;;chr2:91035197..91035237,-!p1@Nr1h3!1.01!19.49!Nr1h3;;chr10:67599432..67599444,-!p4@Arid5b!1.01!14.94!Arid5b;;chr11:98636508..98636524,-!p3@Nr1d1!1.00!11.05!Nr1d1;;chr1:191993385..191993405,-!p3@Prox1!1.00!9.10!Prox1;;chr5:77524250..77524300,-!p1@Hopx!0.98!176.09!Hopx;;chr3:94176733..94176794,+!p1@Rorc!0.98!68.23!Rorc;;chr6:90412608..90412630,+!p2@Klf15!0.98!18.19!Klf15;;chr11:121380611..121380625,-!p3@Zfp750!0.98!10.40!Zfp750;;chr6:90416275..90416286,+!p9@Klf15!0.98!8.45!Klf15;;chr1:191994550..191994623,-!p1@Prox1!0.97!59.78!Prox1;;chr1:138845748..138845766,-!p4@Nr5a2!0.97!11.05!Nr5a2;;chr6:134780234..134780288,+!p1@Crebl2!0.95!25.99!Crebl2;;chr2:160192793..160192809,-!p1@Mafb!0.94!119.56!Mafb;;chr2:173044380..173044432,-!p1@Zbp1!0.94!18.84!Zbp1;;chr11:121380640..121380655,-!p1@Zfp750!0.94!13.00!Zfp750;;chr1:13364477..13364492,-!p6@Ncoa2!0.94!9.75!Ncoa2;;chr15:75799634..75799645,+!p4@Zfp707!0.94!9.10!Zfp707;;chr14:63864056..63864102,-!p1@Gata4!0.92!13.00!Gata4;;chr9:69137716..69137744,+!p1@Rora!0.91!46.78!Rora;;chr15:75799598..75799619,+!p3@Zfp707!0.91!15.59!Zfp707;;chr17:87153462..87153473,+!p3@Epas1!0.90!27.29!Epas1;;chr14:18493480..18493494,+!p2@Thrb!0.90!7.80!Thrb;;chr3:54559496..54559511,+!p1@Smad9!0.89!15.59!Smad9;;chr6:134780337..134780355,+!p3@Crebl2!0.89!9.10!Crebl2;;chr10:67599375..67599386,-!p3@Arid5b!0.88!12.35!Arid5b;;chr14:100683912..100683947,-!p2@Klf12!0.87!20.79!Klf12;;chr10:5734677..5734702,-!p4@Esr1!0.87!6.50!Esr1;;chr10:88996274..88996286,-!p4@Nr1h4!0.87!6.50!Nr1h4;;chr2:75543161..75543173,-!p5@Nfe2l2!0.87!6.50!Nfe2l2;;chr16:91270004..91270023,+!p1@Olig1!0.86!7.15!Olig1;;chr2:160698288..160698358,-!p3@Zhx3!0.84!19.49!Zhx3;;chr13:37918684..37918701,+!p12@Rreb1!0.84!7.15!Rreb1;;chr16:43236088..43236099,+!p43@Zbtb20!0.84!5.85!Zbtb20;;chr11:96690797..96690813,-!p1@Nfe2l1!0.83!118.26!Nfe2l1;;chr10:67599319..67599360,-!p2@Arid5b!0.83!68.88!Arid5b;;chr1:133904946..133904974,+!p7@Elk4!0.83!9.10!Elk4;;chr11:98636400..98636418,-!p4@Nr1d1!0.83!7.80!Nr1d1;;chr8:79426176..79426275,+!p1@Nr3c2!0.82!29.89!Nr3c2;;chr8:125778192..125778217,+!p2@Zfp276!0.82!16.89!Zfp276;;chr19:26679615..26679646,+!p3@Smarca2!0.81!40.29!Smarca2;;chrX:137077716..137077734,-!p1@Tsc22d3!0.80!41.59!Tsc22d3;;chr16:44173384..44173407,+!p2@Gm608!0.79!14.30!Gm608;;chr4:82151500..82151505,-!p11@Nfib!0.79!6.50!Nfib;;chr19:37511111..37511115,+!p2@Hhex!0.79!5.20!Hhex;;chr15:85602655..85602680,+!p5@Ppara!0.79!5.20!Ppara;;chr16:38294929..38294940,-!p2@Nr1i2!0.79!5.20!Nr1i2;;chr14:76887526..76887555,+!p10@Tsc22d1!0.79!5.20!Tsc22d1;;chr2:147871948..147871977,-!p3@Foxa2!0.79!5.20!Foxa2;;chr1:138857112..138857130,-!p7@Nr5a2!0.79!5.20!Nr5a2;;chr9:74709664..74709671,+!p6@Onecut1!0.79!5.20!Onecut1;;chr19:23215673..23215753,+!p1@Klf9!0.78!79.27!Klf9;;chr11:121380594..121380609,-!p2@Zfp750!0.78!9.10!Zfp750;;chr8:107793688..107793736,+!p1@Hsf4!0.77!6.50!Hsf4;;chr16:43619101..43619151,+!p6@Zbtb20!0.76!12.35!Zbtb20;;chr10:67599461..67599470,-!p6@Arid5b!0.76!5.85!Arid5b;;chr9:48644013..48644027,-!p5@Zbtb16!0.76!5.85!Zbtb16;;chr5:77524231..77524245,-!p3@Hopx!0.75!12.35!Hopx;;chr1:194979361..194979373,+!p2@Irf6!0.75!6.50!Irf6;;chr18:3281034..3281104,-!p1@Crem!0.74!35.74!Crem;;chr18:36441119..36441158,+!p2@Pura!0.74!11.70!Pura;;chr11:5420655..5420659,+!p3@Xbp1!0.74!4.55!Xbp1;;chr10:5734907..5734920,-!p11@Esr1!0.74!4.55!Esr1;;chr19:26679654..26679675,+!p1@Smarca2!0.73!45.48!Smarca2;;chr1:194979315..194979359,+!p1@Irf6!0.73!29.89!Irf6;;chr6:90412556..90412581,+!p3@Klf15!0.73!10.40!Klf15;;chr2:27532817..27532828,+!p6@Rxra!0.73!7.15!Rxra;;chr11:5420954..5420969,+!p2@Xbp1!0.72!59.78!Xbp1;;chr2:148506935..148506954,+!p2@Gzf1!0.72!9.10!Gzf1;;chr15:81977802..81977828,+!p2@Srebf2!0.71!39.64!Srebf2;;chr1:181733737..181733755,-!p2@Ahctf1!0.71!14.30!Ahctf1;;chr6:72185232..72185272,-!p1@Atoh8!0.71!13.00!Atoh8;;chr10:5734525..5734569,-!p3@Esr1!0.71!7.15!Esr1;;chr6:15135639..15135655,+!p9@Foxp2!0.71!5.20!Foxp2;;chr1:138846047..138846074,-!p5@Nr5a2!0.71!4.55!Nr5a2;;chr9:48644429..48644462,-!p3@Zbtb16!0.70!8.45!Zbtb16;;chr6:144157924..144157955,-!p2@Sox5!0.70!5.20!Sox5;;chr1:138846009..138846038,-!p3@Nr5a2!0.70!4.55!Nr5a2;;chr7:20408047..20408125,-!p1@Bcl3!0.69!50.03!Bcl3;;chr2:173044357..173044377,-!p2@Zbp1!0.69!5.85!Zbp1;;chr1:169548377..169548430,+!p1@Rxrg!0.69!3.90!Rxrg;;chr1:138846079..138846103,-!p6@Nr5a2!0.69!3.90!Nr5a2;;chr1:92950128..92950139,+!p4@Lrrfip1!0.69!3.90!Lrrfip1;;chr5:31262699..31262712,-!p2@Preb!0.68!6.50!Preb;;chr10:67599450..67599456,-!p8@Arid5b!0.68!4.55!Arid5b;;chr4:97444471..97444514,+!p1@Nfia!0.66!109.81!Nfia;;chr19:10315179..10315241,-!p1@Gm98!0.66!42.89!Gm98;;chr7:97591412..97591431,+!p2@Crebzf!0.66!10.40!Crebzf;;chr9:30838206..30838285,+!p2@Zbtb44!0.64!50.68!Zbtb44;;chr14:19071466..19071550,-!p1@Nr1d2!0.64!26.64!Nr1d2;;chr6:144730427..144730508,-!p1@Sox5!0.64!24.04!Sox5;;chr6:72849280..72849297,-!p6@Kcmf1!0.64!7.15!Kcmf1;;chr1:93309740..93309811,-!p1@Hes6!0.63!78.62!Hes6;;chr5:104183237..104183248,+!p7@Aff1!0.63!5.85!Aff1;;chr11:100683794..100683805,-!p4@Stat5b!0.63!3.25!Stat5b;;chr12:36219283..36219298,-!p2@Ahr!0.63!3.25!Ahr;;chr10:127707602..127707633,+!p1@Stat2!0.62!33.14!Stat2;;chr3:54559463..54559493,+!p3@Smad9!0.62!6.50!Smad9;;chr13:37949830..37949861,+!p7@Rreb1!0.62!6.50!Rreb1;;chr16:43363837..43363842,+!p11@Zbtb20!0.62!6.50!Zbtb20;;chr6:108610610..108610676,+!p1@Bhlhe40!0.61!181.29!Bhlhe40;;chr10:80889867..80889924,-!p1@Nfic!0.61!103.96!Nfic;;chr15:81977766..81977789,+!p3@Srebf2!0.61!22.74!Srebf2;;chr13:64253718..64253763,-!p2@Zfp367!0.61!9.10!Zfp367;;chr11:53164556..53164567,+!p5@Aff4!0.61!5.20!Aff4;;chr10:5636374..5636421,-!p1@Esr1!0.60!3.90!Esr1;;chr2:91034924..91034946,-!p2@Nr1h3!0.60!3.90!Nr1h3;;chr17:87153240..87153254,+!p1@Epas1!0.59!68.88!Epas1;;chr8:73905806..73905876,-!p1@Nr2f6!0.58!72.13!Nr2f6;;chr1:172797864..172797873,-!p2@Atf6!0.58!9.10!Atf6;;chr6:39068163..39068176,-!p2@Parp12!0.58!5.85!Parp12;;chr6:72185210..72185228,-!p3@Atoh8!0.58!5.20!Atoh8;;chr16:43619156..43619171,+!p16@Zbtb20!0.58!3.90!Zbtb20;;chr5:107003725..107003746,-!p5@Zfp644!0.58!3.90!Zfp644;;chr6:83299445..83299490,+!p1@Bola3!0.57!142.30!Bola3;;chr17:87153028..87153049,+!p2@Epas1!0.57!68.88!Epas1;;chr13:67433461..67433489,-!p2@Zfp595!0.57!7.80!Zfp595;;chr1:172797892..172797915,-!p1@Atf6!0.56!92.27!Atf6;;chr18:39648811..39648818,-!p4@Nr3c1!0.56!5.20!Nr3c1;;chr19:23215469..23215494,+!p2@Klf9!0.56!4.55!Klf9;;chr8:73905892..73905903,-!p5@Nr2f6!0.56!3.25!Nr2f6;;chr9:24578720..24578735,-!p1@Tbx20!0.56!2.60!Tbx20;;chr7:52072324..52072336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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000109
 |is_obsolete=
+|library_id=CNhs13090
+|library_id_phase_based=2:CNhs13090
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11822
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11822
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor6.CNhs13090.11822-124F4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor6.CNhs13090.11822-124F4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor6.CNhs13090.11822-124F4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor6.CNhs13090.11822-124F4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor6.CNhs13090.11822-124F4.mm9.nobarcode.rdna.fa.gz
 |name=Mouse hepatocyte, donor6
 |namespace=
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13090,LSID1000,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.408064682367747,0,0,0,0,0,0.159580290434191,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.191893350882575,0,0,0,1.12534304800018,0,0,0,0,0,0,0,0,0.674230488984187,0.233843587912438,0,0,0,0,0,-0.100610179827695,-0.091558018055706,-0.125462192675244,-0.984211366477826,-0.269868638010351,0.556194597731905,0,0,0,0,0,0,0,0,0,0,0,0.403717710744155,0,0,0,0,0,0,0.108712545668131,0,0.361643392444473,0,0.0021546348921245,-0.310650657339386,-0.158091042771083,-0.140687683267293,0,0,-0.135625735087467,0,0,0,-0.0187270180320444,-0.128584041159941,1.25243484417439,0.282811797604566,0,0,0,0,0,0,0.853691542420635,1.02723484871105,0.714094538345361,0,0,0,0.524027699115179,0
@@ 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=table111:11822-124F4;search_select_hide=table117:11822-124F4
 }}

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FF:11822-124F4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:22, 4 June 2020

CNhs13090

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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