FF:11824-124F6: Difference between revisions

Latest revision as of 18:22, 4 June 2020

Name:	Mouse hepatocyte, donor8
Species:	Mouse (Mus musculus)
Library ID:	CNhs13091
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		SAMD00005803

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13091		CAGE		DRX008860		DRR009732

Accession ID Mm9

Library id		BAM		CTSS
CNhs13091		DRZ001157		DRZ002542

Accession ID Mm10

Library id		BAM		CTSS
CNhs13091		DRZ012507		DRZ013892

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

CNhs13091

0	0
1	0
10	0
100	0
1000	0
1001	0.126
1002	-0.116
1003	0.0584
1004	0
1005	0
1006	-0.143
1007	-0.266
1008	0
1009	-0.2
101	-0.0453
1010	0
1011	-0.137
1012	0
1013	0.566
1014	-0.0874
1015	-0.41
1016	-0.433
1017	0
1018	0
1019	0
102	0
1020	0.805
1021	0.0209
1022	0.768
1023	0
1024	-0.14
1025	0.0996
1026	0
1027	-0.0213
1028	0
1029	-0.148
103	-0.0887
1030	0
1031	-0.615
1032	-0.588
1033	-0.0665
1034	1.051
1035	0
1036	-0.476
1037	0
1038	-0.193
1039	0.884
104	0
1040	-0.261
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: CNhs13091

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.187
MA0003.1	MA0003.1	0.67
MA0004.1	MA0004.1	0.24
MA0006.1	MA0006.1	0.359
MA0007.1	MA0007.1	0.0503
MA0009.1	MA0009.1	0.875
MA0014.1	MA0014.1	0.0635
MA0017.1	MA0017.1	8.16951e-23
MA0018.2	MA0018.2	0.00169
MA0019.1	MA0019.1	0.65
MA0024.1	MA0024.1	8.81409e-5
MA0025.1	MA0025.1	0.00807
MA0027.1	MA0027.1	0.733
MA0028.1	MA0028.1	0.52
MA0029.1	MA0029.1	0.508
MA0030.1	MA0030.1	0.00671
MA0031.1	MA0031.1	0.00164
MA0035.2	MA0035.2	0.162
MA0038.1	MA0038.1	0.253
MA0039.2	MA0039.2	0.941
MA0040.1	MA0040.1	0.589
MA0041.1	MA0041.1	0.304
MA0042.1	MA0042.1	0.517
MA0043.1	MA0043.1	0.807
MA0046.1	MA0046.1	2.98191e-79
MA0047.2	MA0047.2	1.81016e-6
MA0048.1	MA0048.1	0.241
MA0050.1	MA0050.1	0.542
MA0051.1	MA0051.1	0.112
MA0052.1	MA0052.1	0.0327
MA0055.1	MA0055.1	0.275
MA0057.1	MA0057.1	0.753
MA0058.1	MA0058.1	0.162
MA0059.1	MA0059.1	0.0321
MA0060.1	MA0060.1	3.48052e-6
MA0061.1	MA0061.1	0.692
MA0062.2	MA0062.2	0.899
MA0065.2	MA0065.2	1.2165e-16
MA0066.1	MA0066.1	0.0436
MA0067.1	MA0067.1	0.289
MA0068.1	MA0068.1	0.782
MA0069.1	MA0069.1	0.0813
MA0070.1	MA0070.1	0.22
MA0071.1	MA0071.1	2.78459e-5
MA0072.1	MA0072.1	7.57913e-4
MA0073.1	MA0073.1	0.943
MA0074.1	MA0074.1	0.206
MA0076.1	MA0076.1	0.893
MA0077.1	MA0077.1	0.0709
MA0078.1	MA0078.1	0.968
MA0079.2	MA0079.2	0.202
MA0080.2	MA0080.2	0.0132
MA0081.1	MA0081.1	0.326
MA0083.1	MA0083.1	0.00118
MA0084.1	MA0084.1	0.324
MA0087.1	MA0087.1	0.222
MA0088.1	MA0088.1	0.207
MA0090.1	MA0090.1	0.59
MA0091.1	MA0091.1	0.506
MA0092.1	MA0092.1	0.209
MA0093.1	MA0093.1	0.278
MA0099.2	MA0099.2	0.809
MA0100.1	MA0100.1	0.83
MA0101.1	MA0101.1	0.883
MA0102.2	MA0102.2	0.292
MA0103.1	MA0103.1	0.0548
MA0104.2	MA0104.2	0.401
MA0105.1	MA0105.1	0.186
MA0106.1	MA0106.1	0.0202
MA0107.1	MA0107.1	0.437
MA0108.2	MA0108.2	2.57838e-6
MA0111.1	MA0111.1	0.876
MA0112.2	MA0112.2	3.77533e-5
MA0113.1	MA0113.1	0.169
MA0114.1	MA0114.1	1.06343e-22
MA0115.1	MA0115.1	1.04495e-13
MA0116.1	MA0116.1	0.157
MA0117.1	MA0117.1	0.495
MA0119.1	MA0119.1	0.0615
MA0122.1	MA0122.1	0.231
MA0124.1	MA0124.1	0.897
MA0125.1	MA0125.1	0.576
MA0131.1	MA0131.1	0.82
MA0135.1	MA0135.1	0.942
MA0136.1	MA0136.1	0.0405
MA0137.2	MA0137.2	0.0165
MA0138.2	MA0138.2	0.484
MA0139.1	MA0139.1	0.337
MA0140.1	MA0140.1	0.854
MA0141.1	MA0141.1	1.78178e-7
MA0142.1	MA0142.1	0.312
MA0143.1	MA0143.1	0.186
MA0144.1	MA0144.1	0.145
MA0145.1	MA0145.1	0.191
MA0146.1	MA0146.1	0.0727
MA0147.1	MA0147.1	0.283
MA0148.1	MA0148.1	3.15129e-8
MA0149.1	MA0149.1	0.00388
MA0150.1	MA0150.1	0.00164
MA0152.1	MA0152.1	0.323
MA0153.1	MA0153.1	1.08799e-56
MA0154.1	MA0154.1	0.237
MA0155.1	MA0155.1	0.928
MA0156.1	MA0156.1	0.158
MA0157.1	MA0157.1	0.00102
MA0159.1	MA0159.1	2.72201e-4
MA0160.1	MA0160.1	1.5975e-6
MA0162.1	MA0162.1	0.553
MA0163.1	MA0163.1	0.0036
MA0164.1	MA0164.1	0.981
MA0258.1	MA0258.1	0.00269
MA0259.1	MA0259.1	0.775

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: CNhs13091

Novel motif	Logo	P-value
1	1	0.0769
10	10	0.173
100	100	0.424
101	101	0.98
102	102	0.194
103	103	0.00265
104	104	0.803
105	105	0.753
106	106	0.174
107	107	0.127
108	108	0.958
109	109	0.0679
11	11	0.103
110	110	0.0369
111	111	0.0103
112	112	0.018
113	113	0.738
114	114	0.00183
115	115	0.617
116	116	0.706
117	117	0.0578
118	118	0.373
119	119	0.101
12	12	0.33
120	120	0.73
121	121	0.793
122	122	0.479
123	123	0.47
124	124	0.56
125	125	0.719
126	126	0.172
127	127	0.879
128	128	0.0706
129	129	0.966
13	13	2.32566e-4
130	130	0.389
131	131	0.879
132	132	0.593
133	133	0.719
134	134	0.874
135	135	0.343
136	136	0.777
137	137	0.958
138	138	0.591
139	139	0.325
14	14	0.638
140	140	0.117
141	141	0.362
142	142	0.158
143	143	0.73
144	144	0.474
145	145	0.111
146	146	0.492
147	147	0.366
148	148	0.738
149	149	0.192
15	15	0.119
150	150	0.217
151	151	0.401
152	152	0.175
153	153	0.354
154	154	0.898
155	155	0.535
156	156	2.90989e-4
157	157	0.859
158	158	0.921
159	159	0.772
160	160	0.25
161	161	0.934
162	162	0.447
163	163	0.289
164	164	0.045
165	165	0.472
166	166	0.44
167	167	0.17
168	168	0.899
169	169	0.00449
17	17	0.087
18	18	0.922
19	19	0.119
2	2	0.994
20	20	0.337
21	21	0.633
22	22	0.166
23	23	0.428
24	24	0.211
25	25	0.417
26	26	0.00589
27	27	0.743
28	28	0.355
29	29	0.154
3	3	0.0857
30	30	0.935
31	31	0.393
32	32	0.133
33	33	0.316
34	34	0.84
35	35	0.156
36	36	0.115
37	37	0.0628
38	38	0.55
39	39	0.315
4	4	0.817
40	40	0.19
41	41	0.895
42	42	0.447
43	43	0.0905
44	44	0.00299
45	45	0.842
46	46	0.108
47	47	0.499
48	48	0.182
49	49	0.0387
5	5	0.0614
50	50	0.833
51	51	0.237
52	52	0.673
53	53	0.477
54	54	0.316
55	55	0.507
56	56	0.492
57	57	0.819
58	58	0.284
59	59	0.415
6	6	0.701
60	60	0.157
61	61	0.345
62	62	0.0797
63	63	0.128
64	64	0.491
65	65	0.405
66	66	0.691
67	67	0.726
68	68	0.214
69	69	0.909
7	7	0.171
70	70	0.0122
71	71	0.029
72	72	0.85
73	73	0.045
74	74	0.665
75	75	0.0062
76	76	0.657
77	77	0.456
78	78	0.0146
79	79	0.761
8	8	0.0139
80	80	0.86
81	81	0.734
82	82	0.00922
83	83	0.338
84	84	0.0287
85	85	0.0269
86	86	0.0672
87	87	0.31
88	88	0.963
89	89	0.153
9	9	0.986
90	90	0.0982
91	91	0.741
92	92	0.147
93	93	0.0937
94	94	0.7
95	95	0.197
96	96	0.36
97	97	0.477
98	98	0.532
99	99	0.223

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: CNhs13091

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@DRS008750
+|DRA_sample_Accession=CAGE@SAMD00005803
-|accession_numbers=CAGE;DRX008860;DRR009732;DRZ001157;DRZ002542
+|accession_numbers=CAGE;DRX008860;DRR009732;DRZ001157;DRZ002542;DRZ012507;DRZ013892
 |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 9: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr10:80555320..80555378,-!p1@Creb3l3!2.56!412.63!Creb3l3;;chr9:74709695..74709722,+!p1@Onecut1!2.52!333.78!Onecut1;;chr1:173144144..173144176,+!p1@Nr1i3!2.34!216.85!Nr1i3;;chr10:88969376..88969395,-!p1@Nr1h4!2.20!157.71!Nr1h4;;chr5:135582751..135582788,+!p1@Mlxipl!2.10!471.32!Mlxipl;;chr1:173144100..173144138,+!p2@Nr1i3!2.10!125.90!Nr1i3;;chr19:37509324..37509337,+!p1@Hhex!1.93!564.07!Hhex;;chr7:19608891..19608895,-!p1@Foxa3!1.93!107.53!Foxa3;;chr2:163372884..163372904,+!p1@Hnf4a!1.92!81.54!Hnf4a;;chr16:38294860..38294924,-!p1@Nr1i2!1.90!78.85!Nr1i2;;chr15:85566537..85566552,+!p2@Ppara!1.79!60.48!Ppara;;chr10:88996295..88996335,-!p3@Nr1h4!1.76!67.65!Nr1h4;;chr15:85566184..85566238,+!p1@Ppara!1.75!81.09!Ppara;;chr10:88996336..88996380,-!p2@Nr1h4!1.74!65.86!Nr1h4;;chr18:64499674..64499696,+!p1@Onecut2!1.70!82.88!Onecut2;;chr2:27531961..27531974,+!p7@Rxra!1.67!45.70!Rxra;;chr9:74714303..74714318,+!p2@Onecut1!1.64!42.56!Onecut1;;chr7:35904304..35904320,+!p1@Cebpa!1.61!769.26!Cebpa;;chr18:64499706..64499721,+!p2@Onecut2!1.60!53.32!Onecut2;;chr11:90249521..90249551,-!p3@Hlf!1.60!38.98!Hlf;;chr16:43363190..43363242,+!p2@Zbtb20!1.56!103.94!Zbtb20;;chr13:31650185..31650201,+!p1@Foxq1!1.54!112.90!Foxq1;;chr16:43247391..43247422,+!p12@Zbtb20!1.54!34.05!Zbtb20;;chr2:77357622..77357704,-!p1@Zfp385b!1.53!85.13!Zfp385b;;chr16:43235969..43235989,+!p20@Zbtb20!1.49!29.57!Zbtb20;;chr11:100683839..100683890,-!p2@Stat5b!1.40!55.11!Stat5b;;chr3:94176733..94176794,+!p1@Rorc!1.39!177.42!Rorc;;chr6:90415250..90415271,+!p4@Klf15!1.39!23.75!Klf15;;chr4:133109285..133109308,+!p1@Nr0b2!1.39!23.30!Nr0b2;;chr10:80555285..80555291,-!p4@Creb3l3!1.38!22.85!Creb3l3;;chr15:85566241..85566253,+!p6@Ppara!1.37!22.40!Ppara;;chr12:58646974..58647003,-!p1@Foxa1!1.36!29.12!Foxa1;;chr16:43236037..43236050,+!p35@Zbtb20!1.34!21.06!Zbtb20;;chr17:87153519..87153533,+!p5@Epas1!1.33!30.02!Epas1;;chr10:80555299..80555306,-!p3@Creb3l3!1.28!17.92!Creb3l3;;chr11:121380640..121380655,-!p1@Zfp750!1.24!26.88!Zfp750;;chr1:191994550..191994623,-!p1@Prox1!1.23!108.87!Prox1;;chr2:91035254..91035271,-!p3@Nr1h3!1.22!19.27!Nr1h3;;chr5:115421065..115421088,-!p1@Hnf1a!1.22!15.68!Hnf1a;;chr2:167514456..167514473,+!p1@Cebpb!1.21!652.78!Cebpb;;chr2:160192793..160192809,-!p1@Mafb!1.20!218.19!Mafb;;chr1:138857076..138857105,-!p1@Nr5a2!1.19!14.34!Nr5a2;;chr17:87153505..87153516,+!p6@Epas1!1.18!19.71!Epas1;;chr2:147871627..147871641,-!p1@Foxa2!1.17!13.89!Foxa2;;chr9:74709682..74709691,+!p3@Onecut1!1.17!13.89!Onecut1;;chr16:43236088..43236099,+!p43@Zbtb20!1.16!13.44!Zbtb20;;chr7:52960555..52960662,+!p1@Dbp!1.15!110.66!Dbp;;chr2:163372869..163372882,+!p3@Hnf4a!1.15!12.99!Hnf4a;;chr10:5734525..5734569,-!p3@Esr1!1.14!21.06!Esr1;;chr10:67599432..67599444,-!p4@Arid5b!1.13!20.16!Arid5b;;chr10:5734677..5734702,-!p4@Esr1!1.13!12.54!Esr1;;chr2:147872790..147872821,-!p2@Foxa2!1.13!12.54!Foxa2;;chr9:74714281..74714296,+!p5@Onecut1!1.13!12.54!Onecut1;;chr15:85602655..85602680,+!p5@Ppara!1.13!12.54!Ppara;;chr14:18493386..18493464,+!p1@Thrb!1.11!44.80!Thrb;;chr10:80555398..80555409,-!p2@Creb3l3!1.10!11.65!Creb3l3;;chr10:5734907..5734920,-!p11@Esr1!1.10!11.65!Esr1;;chr6:90415281..90415295,+!p5@Klf15!1.10!11.65!Klf15;;chr9:48644037..48644067,-!p2@Zbtb16!1.09!28.67!Zbtb16;;chr11:60023912..60023930,-!p1@Srebf1!1.06!257.17!Srebf1;;chr7:52960700..52960719,+!p2@Dbp!1.06!12.99!Dbp;;chr2:27532513..27532525,+!p8@Rxra!1.06!12.10!Rxra;;chr2:27532754..27532815,+!p1@Rxra!1.05!300.18!Rxra;;chr16:43363152..43363186,+!p3@Zbtb20!1.04!23.30!Zbtb20;;chr8:107793688..107793736,+!p1@Hsf4!1.04!12.99!Hsf4;;chr19:26679654..26679675,+!p1@Smarca2!1.03!91.40!Smarca2;;chr6:90412582..90412601,+!p1@Klf15!1.03!46.59!Klf15;;chr3:54559496..54559511,+!p1@Smad9!1.03!21.95!Smad9;;chr2:27532479..27532509,+!p3@Rxra!1.02!19.71!Rxra;;chr10:67599375..67599386,-!p3@Arid5b!1.02!17.47!Arid5b;;chr4:82151500..82151505,-!p11@Nfib!1.02!11.65!Nfib;;chr1:133904946..133904974,+!p7@Elk4!1.01!14.34!Elk4;;chr11:121380611..121380625,-!p3@Zfp750!1.01!11.20!Zfp750;;chr11:96690797..96690813,-!p1@Nfe2l1!1.00!174.73!Nfe2l1;;chr16:42907676..42907797,+!p1@Zbtb20!0.99!116.49!Zbtb20;;chr10:67599319..67599360,-!p2@Arid5b!0.99!99.01!Arid5b;;chr2:91035197..91035237,-!p1@Nr1h3!0.99!18.37!Nr1h3;;chr6:108610766..108610781,+!p2@Bhlhe40!0.99!16.13!Bhlhe40;;chr1:138846009..138846038,-!p3@Nr5a2!0.99!9.86!Nr5a2;;chr16:43236133..43236154,+!p17@Zbtb20!0.98!9.86!Zbtb20;;chr10:88996274..88996286,-!p4@Nr1h4!0.98!8.51!Nr1h4;;chr1:138857048..138857071,-!p2@Nr5a2!0.98!8.51!Nr5a2;;chr14:100683884..100683908,-!p4@Klf12!0.97!16.13!Klf12;;chr6:90412608..90412630,+!p2@Klf15!0.96!17.03!Klf15;;chr11:121380594..121380609,-!p2@Zfp750!0.96!14.34!Zfp750;;chr2:160698288..160698358,-!p3@Zhx3!0.95!25.09!Zhx3;;chr16:44173384..44173407,+!p2@Gm608!0.95!21.06!Gm608;;chr5:77524250..77524300,-!p1@Hopx!0.94!162.63!Hopx;;chr9:69137716..69137744,+!p1@Rora!0.93!48.39!Rora;;chr9:30838206..30838285,+!p2@Zbtb44!0.92!98.12!Zbtb44;;chr19:26679615..26679646,+!p3@Smarca2!0.92!52.87!Smarca2;;chr19:26681226..26681299,+!p7@Smarca2!0.92!17.92!Smarca2;;chr1:13364477..13364492,-!p6@Ncoa2!0.91!8.96!Ncoa2;;chr1:191993385..191993405,-!p3@Prox1!0.91!7.17!Prox1;;chr11:60036258..60036276,-!p3@Srebf1!0.90!12.54!Srebf1;;chr15:75799634..75799645,+!p4@Zfp707!0.90!8.06!Zfp707;;chr10:5734660..5734670,-!p7@Esr1!0.89!6.72!Esr1;;chr6:115372058..115372085,+!p3@Pparg!0.89!6.72!Pparg;;chr14:19071466..19071550,-!p1@Nr1d2!0.87!45.70!Nr1d2;;chr1:138845748..138845766,-!p4@Nr5a2!0.87!8.51!Nr5a2;;chr15:61817095..61817111,+!p1@Myc!0.86!397.40!Myc;;chr7:52071956..52071978,-!p1@Atf5!0.86!215.05!Atf5;;chr6:72849280..72849297,-!p6@Kcmf1!0.86!12.54!Kcmf1;;chr18:36441119..36441158,+!p2@Pura!0.85!15.68!Pura;;chr10:67599461..67599470,-!p6@Arid5b!0.84!7.17!Arid5b;;chr6:72185232..72185272,-!p1@Atoh8!0.83!17.47!Atoh8;;chr16:91270004..91270023,+!p1@Olig1!0.83!6.72!Olig1;;chr10:5734473..5734489,-!p5@Esr1!0.83!5.82!Esr1;;chr1:138846079..138846103,-!p6@Nr5a2!0.83!5.82!Nr5a2;;chr15:81633203..81633215,+!p3@Tef!0.81!8.96!Tef;;chr19:23215673..23215753,+!p1@Klf9!0.80!84.68!Klf9;;chr17:87153462..87153473,+!p3@Epas1!0.80!21.51!Epas1;;chr6:134780234..134780288,+!p1@Crebl2!0.80!18.37!Crebl2;;chr6:134780337..134780355,+!p3@Crebl2!0.80!7.17!Crebl2;;chr15:85566051..85566080,+!p4@Ppara!0.80!6.27!Ppara;;chr16:38294929..38294940,-!p2@Nr1i2!0.80!5.38!Nr1i2;;chr11:5420655..5420659,+!p3@Xbp1!0.80!5.38!Xbp1;;chr7:52960663..52960677,+!p6@Dbp!0.80!5.38!Dbp;;chr3:54559463..54559493,+!p3@Smad9!0.79!9.86!Smad9;;chr11:5420954..5420969,+!p2@Xbp1!0.77!66.31!Xbp1;;chr2:173044380..173044432,-!p1@Zbp1!0.77!12.54!Zbp1;;chr10:5734717..5734727,-!p12@Esr1!0.77!4.93!Esr1;;chr14:63864056..63864102,-!p1@Gata4!0.75!8.51!Gata4;;chr6:15135639..15135655,+!p9@Foxp2!0.75!5.82!Foxp2;;chr6:15135456..15135520,+!p3@Foxp2!0.74!10.30!Foxp2;;chr16:43363837..43363842,+!p11@Zbtb20!0.74!8.96!Zbtb20;;chr6:144157924..144157955,-!p2@Sox5!0.74!5.82!Sox5;;chr10:67599450..67599456,-!p8@Arid5b!0.74!5.38!Arid5b;;chr9:74709664..74709671,+!p6@Onecut1!0.74!4.48!Onecut1;;chr11:53164533..53164548,+!p4@Aff4!0.73!13.89!Aff4;;chr8:125778192..125778217,+!p2@Zfp276!0.73!13.44!Zfp276;;chr2:148506935..148506954,+!p2@Gzf1!0.73!9.41!Gzf1;;chr4:97444471..97444514,+!p1@Nfia!0.72!126.79!Nfia;;chr16:43619101..43619151,+!p6@Zbtb20!0.72!11.20!Zbtb20;;chr3:95238432..95238455,+!p2@Arnt!0.71!26.88!Arnt;;chr11:90250944..90250982,-!p2@Hlf!0.70!7.17!Hlf;;chr19:37511111..37511115,+!p2@Hhex!0.70!4.03!Hhex;;chr2:75543161..75543173,-!p5@Nfe2l2!0.70!4.03!Nfe2l2;;chr8:79426176..79426275,+!p1@Nr3c2!0.69!21.95!Nr3c2;;chr1:133904901..133904934,+!p3@Elk4!0.69!12.54!Elk4;;chr6:90412556..90412581,+!p3@Klf15!0.69!9.41!Klf15;;chr3:54559550..54559570,+!p4@Smad9!0.68!5.82!Smad9;;chr2:168055853..168055886,-!p1@Adnp,p1@Dpm1!0.67!285.39!Adnp;;chr1:194979315..194979359,+!p1@Irf6!0.67!25.99!Irf6;;chr15:75799598..75799619,+!p3@Zfp707!0.67!8.51!Zfp707;;chr7:20408047..20408125,-!p1@Bcl3!0.65!45.70!Bcl3;;chr15:81633165..81633188,+!p2@Tef!0.65!33.15!Tef;;chr4:6917921..6917970,-!p2@Tox!0.65!10.75!Tox;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.65!5.82!Ncoa4;;chr8:73905892..73905903,-!p5@Nr2f6!0.64!4.03!Nr2f6;;chr13:37949830..37949861,+!p7@Rreb1!0.63!6.72!Rreb1;;chr13:37918684..37918701,+!p12@Rreb1!0.63!4.03!Rreb1;;chr1:138846047..138846074,-!p5@Nr5a2!0.63!3.58!Nr5a2;;chr16:42907554..42907591,+!p5@Zbtb20!0.62!8.96!Zbtb20;;chr6:72185210..72185228,-!p3@Atoh8!0.62!5.82!Atoh8;;chr6:90416275..90416286,+!p9@Klf15!0.62!3.14!Klf15;;chr10:5734582..5734595,-!p10@Esr1!0.62!3.14!Esr1;;chr11:83664365..83664383,+!p1@Hnf1b!0.62!3.14!Hnf1b;;chr10:22451765..22451795,-!p6@Tbpl1!0.61!4.93!Tbpl1;;chr8:107793737..107793757,+!p2@Hsf4!0.61!3.58!Hsf4;;chr15:81641878..81641921,+!p1@Tef!0.60!92.74!Tef;;chr14:100683912..100683947,-!p2@Klf12!0.60!10.75!Klf12;;chr5:77524231..77524245,-!p3@Hopx!0.60!8.51!Hopx;;chr18:3337503..3337536,-!p7@Crem!0.60!5.82!Crem;;chr6:108610610..108610676,+!p1@Bhlhe40!0.59!171.59!Bhlhe40;;chr8:73905806..73905876,-!p1@Nr2f6!0.59!74.82!Nr2f6;;chr2:166888058..166888105,-!p2@Znfx1!0.59!10.75!Znfx1;;chr6:83299445..83299490,+!p1@Bola3!0.58!146.06!Bola3;;chr1:172797892..172797915,-!p1@Atf6!0.58!95.88!Atf6;;chr10:80889867..80889924,-!p1@Nfic!0.58!95.88!Nfic;;chr2:160698668..160698679,-!p4@Zhx3!0.58!5.82!Zhx3;;chr10:127707602..127707633,+!p1@Stat2!0.57!29.57!Stat2;;chrX:137077716..137077734,-!p1@Tsc22d3!0.57!23.75!Tsc22d3;;chr5:31262699..31262712,-!p2@Preb!0.57!4.93!Preb;;chr14:18493480..18493494,+!p2@Thrb!0.57!3.14!Thrb;;chr14:76887526..76887555,+!p10@Tsc22d1!0.57!2.69!Tsc22d1;;chr2:147871948..147871977,-!p3@Foxa2!0.57!2.69!Foxa2;;chr6:39068181..39068206,-!p3@Parp12!0.56!6.27!Parp12;;chr9:48644429..48644462,-!p3@Zbtb16!0.56!5.82!Zbtb16;;chr10:67599361..67599372,-!p5@Arid5b!0.56!4.48!Arid5b;;chr19:5637528..5637548,+!p2@Rela!0.55!18.37!Rela;;chr5:3647720..3647733,-!p3@Gatad1!0.55!5.38!Gatad1;;chr8:112603658..112603674,+!p2@Zfp612!0.55!5.38!Zfp612;;chr3:52072329..52072346,+!p1@Foxo1!0.54!47.94!Foxo1;;chr11:90252223..90252240,-!p1@Hlf!0.54!25.9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chr18:84255649..84255661,-!p4@Tshz1!0.17!2.69!Tshz1;;chr2:91077124..91077146,-!p3@Ddb2!0.17!2.69!Ddb2;;chr1:181476392..181476407,-!p2@Tfb2m!0.17!2.69!Tfb2m;;chr7:50568466..50568486,-!p2@Zfp715!0.17!2.69!Zfp715;;chr8:124900562..124900573,+!p3@Zc3h18!0.17!2.69!Zc3h18;;chr12:119539732..119539762,-!p3@Sp4!0.17!2.24!Sp4;;chr5:104183477..104183548,+!p6@Aff1!0.17!1.79!Aff1;;chr13:55206625..55206636,+!p2@Zfp346!0.17!1.79!Zfp346;;chr2:48805633..48805648,+!p5@Mbd5!0.17!1.79!Mbd5;;chr1:193961837..193961849,-!p3@Rcor3!0.17!1.79!Rcor3;;chr18:35721940..35721951,+!p5@Matr3!0.17!0.90!Matr3;;chr3:96002383..96002407,-!p4@Bola1!0.17!0.90!Bola1;;chr19:55816300..55816332,+!p1@Tcf7l2!0.16!61.38!Tcf7l2;;chr4:82151653..82151706,-!p2@Nfib!0.16!36.29!Nfib;;chr10:80599279..80599353,+!p1@Zbtb7a!0.16!22.85!Zbtb7a;;chr11:100711801..100711910,-!p1@Stat5b!0.16!17.47!Stat5b;;chr14:79880971..79880992,+!p2@Elf1!0.16!16.13!Elf1;;chr2:148506890..148506933,+!p1@Gzf1!0.16!13.89!Gzf1;;chr2:48805015..48805042,+!p2@Mbd5!0.16!7.17!Mbd5;;chr14:100683672..100683717,-!p1@Klf12!0.16!5.38!Klf12;;chr16:55973950..55973977,+!p4@Rpl24,p4@Zbtb11!0.16!5.38!Zbtb11;;chr10:114821572..114821618,-!p3@Thap2!0.16!4.93!Thap2;;chr3:94641302..94641341,+!p3@Pogz!0.16!4.48!Pogz;;chr8:4613182..4613207,+!p2@Zfp958!0.16!4.48!Zfp958;;chr11:59285934..59285962,-!p1@Zfp867!0.16!4.03!Zfp867;;chr15:100058660..100058711,+!p1@Gm1862,p2@Atf1!0.16!3.58!Atf1;;chr11:106134144..106134174,-!p3@Smarcd2!0.16!3.14!Smarcd2;;chr10:127080141..127080160,+!p2@Stat6!0.16!2.69!Stat6;;chr10:22539932..22539956,-!p1@Tcf21!0.16!2.69!Tcf21;;chr6:116578939..116578952,-!p2@Zfp422!0.16!2.24!Zfp422;;chr18:3337339..3337397,-!p5@Crem!0.16!1.79!Crem;;chr4:133276779..133276796,-!p8@Arid1a!0.16!1.79!Arid1a;;chr1:167932722..167932740,-!p2@Pou2f1!0.16!1.34!Pou2f1;;chr13:31650026..31650045,+!p2@Foxq1!0.16!1.34!Foxq1;;chr1:4486505..4486527,-!p5@Sox17!0.16!0.90!Sox17;;chr5:120120981..120120992,+!p5@Tbx3!0.16!0.90!Tbx3;;chr6:72185179..72185196,-!p4@Atoh8!0.16!0.90!Atoh8;;chr6:144152648..144152680,-!p5@Sox5!0.16!0.45!Sox5;;chr6:16848443..16848459,-!p3@Tfec!0.16!0.45!Tfec;;chr7:13420597..13420610,+!p5@Zfp110!0.16!0.45!Zfp110;;chr5:115421126..115421137,-!p4@Hnf1a!0.16!0.45!Hnf1a;;chr6:72185396..72185413,-!p6@Atoh8!0.16!0.45!Atoh8;;chr5:77524175..77524186,-!p8@Hopx!0.16!0.45!Hopx;;chr5:77524043..77524064,-!p9@Hopx!0.16!0.45!Hopx;;chr7:13563672..13563687,+!p5@Zfp446!0.16!0.45!Zfp446;;chr5:77695258..77695269,+!p12@Rest!0.16!0.45!Rest;;chr6:144157991..144158007,-!p9@Sox5!0.16!0.45!Sox5;;chr4:122676078..122676090,+!p5@Mycl1!0.16!0.45!Mycl1;;chr5:104182725..104182737,+!p17@Aff1!0.16!0.45!Aff1;;chr3:99057677..99057730,+!p2@Tbx15!0.16!0.45!Tbx15;;chr2:79296907..79296918,-!p2@Neurod1!0.16!0.45!Neurod1;;chr9:21992581..21992593,+!p1@Zfp872!0.16!0.45!Zfp872;;chr7:52072324..52072336,-!p4@Atf5!0.16!0.45!Atf5;;chr7:31065205..31065207,+!p1@LOC100504904!0.16!0.45!Thap8;;chr9:111020746..111020768,+!p5@Lrrfip2!0.16!0.45!Lrrfip2;;chr9:30838391..30838400,+!p9@Zbtb44!0.16!0.45!Zbtb44;;chr11:90250894..90250916,-!p5@Hlf!0.16!0.45!Hlf;;chr11:62271437..62271448,-!p34@Ncor1!0.16!0.45!Ncor1;;chr11:100683822..100683831,-!p8@Stat5b!0.16!0.45!Stat5b;;chr11:100720806..100720820,+!p6@Stat5a!0.16!0.45!Stat5a;;chr11:90252071..90252093,-!p7@Hlf!0.16!0.45!Hlf;;chr11:53164494..53164501,+!p10@Aff4!0.16!0.45!Aff4;;chr10:22451724..22451752,-!p4@Tbpl1!0.16!0.45!Tbpl1;;chr11:23671230..23671264,-!p6@Rel!0.16!0.45!Rel;;chr11:70043718..70043743,-!p3@Bcl6b!0.16!0.45!Bcl6b;;chr11:100721732..100721742,+!p3@Stat5a!0.16!0.45!Stat5a;;chr11:58717647..58717659,-!p3@Zfp39!0.16!0.45!Zfp39;;chr11:23671279..23671293,-!p8@Rel!0.16!0.45!Rel;;chr11:90250999..90251013,-!p8@Hlf!0.16!0.45!Hlf;;chr2:147872720..147872727,-!p9@Foxa2!0.16!0.45!Foxa2;;chr1:87495371..87495397,-!p1@Sp110!0.16!0.45!Sp110;;chr2:166885947..166885956,-!p13@Znfx1!0.16!0.45!Znfx1;;chr2:169458593..169458603,+!p13@Tshz2!0.16!0.45!Tshz2;;chr2:168780729..168780740,-!p3@LOC100502777,p3@Zfp64!0.16!0.45!Zfp64;;chr1:120524563..120524591,+!p2@Tfcp2l1!0.16!0.45!Tfcp2l1;;chr1:92950128..92950139,+!p4@Lrrfip1!0.16!0.45!Lrrfip1;;chr1:191994700..191994711,-!p4@Prox1!0.16!0.45!Prox1;;chr15:96117701..96117711,+!p13@Arid2!0.16!0.45!Arid2;;chr19:23215616..23215627,+!p9@Klf9!0.16!0.45!Klf9;;chr16:43364258..43364270,+!p27@Zbtb20!0.16!0.45!Zbtb20;;chr16:43364103..43364130,+!p30@Zbtb20!0.16!0.45!Zbtb20;;chr19:37511197..37511206,+!p3@Hhex!0.16!0.45!Hhex;;chr19:12871064..12871095,-!p2@Zfp91!0.16!0.45!Zfp91;;chr15:79178559..79178584,+!p8@Maff!0.16!0.45!Maff;;chr16:43364036..43364047,+!p28@Zbtb20!0.16!0.45!Zbtb20;;chr16:11176149..11176163,-!p5@Zc3h7a!0.16!0.45!Zc3h7a;;chr16:91270091..91270143,+!p2@Olig1!0.16!0.45!Olig1;;chr18:3337249..3337274,-!p17@Crem!0.16!0.45!Crem;;chr12:58647114..58647128,-!p2@Foxa1!0.16!0.45!Foxa1;;chr14:76888344..76888348,+!p26@Tsc22d1!0.16!0.45!Tsc22d1;;chr14:63890660..63890687,-!p7@Gata4!0.16!0.45!Gata4;;chr14:63890491..63890516,-!p2@Gata4!0.16!0.45!Gata4;;chr12:25257298..25257323,+!p5@Grhl1!0.16!0.45!Grhl1;;chr13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@@ Line 44: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs13091
+|library_id_phase_based=2:CNhs13091
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11824
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11824
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor8.CNhs13091.11824-124F6.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor8.CNhs13091.11824-124F6.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor8.CNhs13091.11824-124F6.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor8.CNhs13091.11824-124F6.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520hepatocyte%252c%2520donor8.CNhs13091.11824-124F6.mm9.nobarcode.rdna.fa.gz
 |name=Mouse hepatocyte, donor8
 |namespace=
@@ Line 49: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13091,LSID1000,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.165609358220231,0,0,0,0,0,0.0541761260721375,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.0311167249264205,0,0,0,1.31624684284009,0,0,0,0,0,0,0,0,0.737345689425476,0.0581774999877599,0,0,0,0.160776625956154,-0.00351027338167866,-0.0703974003701079,-0.0736998991932831,-0.146537243363073,-0.984211366477826,-0.269868638010351,0.36997255194985,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0.0190719253609387,0,0,0.160776625956154,0.277850650251436,0,0.00900766681205226,-0.149874031383232,-0.158091042771083,-0.140687683267293,0,-0.0780086007519514,-0.107951735934323,-0.112286227904373,0,0,-0.00767182616884518,-0.0957630968980122,0.756369744033049,0.0819450311162467,0,0,0,0,0,0,0.418673218005534,0.474879600129278,0.483362898363848,0,0,0,0.565788578905108,0
@@ Line 86: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11824-124F6;search_select_hide=table117:11824-124F6
 }}

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FF:11824-124F6: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:22, 4 June 2020

CNhs13091

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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