FF:823-25A3: Difference between revisions

Latest revision as of 19:21, 4 June 2020

Name:	liver, neonate N20
Species:	Mouse (Mus musculus)
Library ID:	CNhs11220
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	liver
dev stage	20 days neonate
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		SAMD00005799

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11220		CAGE		DRX009027		DRR009901

Accession ID Mm9

Library id		BAM		CTSS
CNhs11220		DRZ001326		DRZ002709

Accession ID Mm10

Library id		BAM		CTSS
CNhs11220		DRZ012676		DRZ014059

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

CNhs11220

0	0
1	0
10	0
100	0
1000	0.0978
1001	0.0967
1002	-0.116
1003	0.0704
1004	0
1005	0
1006	-0.088
1007	-0.0636
1008	0
1009	0.0921
101	0.00512
1010	0
1011	-0.2
1012	0
1013	0.381
1014	-0.0851
1015	-0.382
1016	-0.282
1017	0
1018	0
1019	0
102	0
1020	0
1021	-0.0487
1022	0.556
1023	0
1024	0
1025	0.577
1026	0
1027	0
1028	0
1029	0.204
103	-0.0578
1030	0
1031	-0.00412
1032	-0.216
1033	-0.0665
1034	0.822
1035	0
1036	-0.217
1037	0
1038	-0.043
1039	0.717
104	0
1040	-0.139
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: CNhs11220

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.313
MA0003.1	MA0003.1	0.517
MA0004.1	MA0004.1	0.562
MA0006.1	MA0006.1	0.216
MA0007.1	MA0007.1	0.173
MA0009.1	MA0009.1	0.43
MA0014.1	MA0014.1	0.196
MA0017.1	MA0017.1	5.60497e-27
MA0018.2	MA0018.2	5.96061e-6
MA0019.1	MA0019.1	0.597
MA0024.1	MA0024.1	0.126
MA0025.1	MA0025.1	0.0476
MA0027.1	MA0027.1	0.88
MA0028.1	MA0028.1	0.635
MA0029.1	MA0029.1	0.347
MA0030.1	MA0030.1	0.00153
MA0031.1	MA0031.1	0.00555
MA0035.2	MA0035.2	0.118
MA0038.1	MA0038.1	0.718
MA0039.2	MA0039.2	0.271
MA0040.1	MA0040.1	0.332
MA0041.1	MA0041.1	0.896
MA0042.1	MA0042.1	0.992
MA0043.1	MA0043.1	0.136
MA0046.1	MA0046.1	4.14036e-95
MA0047.2	MA0047.2	8.99945e-9
MA0048.1	MA0048.1	0.237
MA0050.1	MA0050.1	0.00212
MA0051.1	MA0051.1	8.02751e-4
MA0052.1	MA0052.1	0.0111
MA0055.1	MA0055.1	0.171
MA0057.1	MA0057.1	0.556
MA0058.1	MA0058.1	0.387
MA0059.1	MA0059.1	0.11
MA0060.1	MA0060.1	0.156
MA0061.1	MA0061.1	0.562
MA0062.2	MA0062.2	0.996
MA0065.2	MA0065.2	1.12927e-17
MA0066.1	MA0066.1	0.0498
MA0067.1	MA0067.1	0.071
MA0068.1	MA0068.1	0.737
MA0069.1	MA0069.1	0.208
MA0070.1	MA0070.1	0.422
MA0071.1	MA0071.1	3.05012e-5
MA0072.1	MA0072.1	8.76728e-6
MA0073.1	MA0073.1	0.744
MA0074.1	MA0074.1	0.231
MA0076.1	MA0076.1	0.744
MA0077.1	MA0077.1	0.0365
MA0078.1	MA0078.1	0.53
MA0079.2	MA0079.2	0.345
MA0080.2	MA0080.2	0.845
MA0081.1	MA0081.1	0.837
MA0083.1	MA0083.1	0.0202
MA0084.1	MA0084.1	0.869
MA0087.1	MA0087.1	0.211
MA0088.1	MA0088.1	0.365
MA0090.1	MA0090.1	0.724
MA0091.1	MA0091.1	0.599
MA0092.1	MA0092.1	0.135
MA0093.1	MA0093.1	0.565
MA0099.2	MA0099.2	0.492
MA0100.1	MA0100.1	0.222
MA0101.1	MA0101.1	0.715
MA0102.2	MA0102.2	0.199
MA0103.1	MA0103.1	0.194
MA0104.2	MA0104.2	0.968
MA0105.1	MA0105.1	0.172
MA0106.1	MA0106.1	0.0292
MA0107.1	MA0107.1	0.926
MA0108.2	MA0108.2	7.02523e-4
MA0111.1	MA0111.1	0.748
MA0112.2	MA0112.2	6.35006e-6
MA0113.1	MA0113.1	0.662
MA0114.1	MA0114.1	1.89255e-27
MA0115.1	MA0115.1	1.09815e-11
MA0116.1	MA0116.1	0.183
MA0117.1	MA0117.1	0.982
MA0119.1	MA0119.1	0.00671
MA0122.1	MA0122.1	0.302
MA0124.1	MA0124.1	0.488
MA0125.1	MA0125.1	0.512
MA0131.1	MA0131.1	0.941
MA0135.1	MA0135.1	0.488
MA0136.1	MA0136.1	0.237
MA0137.2	MA0137.2	0.179
MA0138.2	MA0138.2	0.507
MA0139.1	MA0139.1	0.175
MA0140.1	MA0140.1	0.823
MA0141.1	MA0141.1	5.85751e-7
MA0142.1	MA0142.1	0.0529
MA0143.1	MA0143.1	0.342
MA0144.1	MA0144.1	0.45
MA0145.1	MA0145.1	0.0834
MA0146.1	MA0146.1	0.145
MA0147.1	MA0147.1	0.934
MA0148.1	MA0148.1	7.3925e-12
MA0149.1	MA0149.1	0.0161
MA0150.1	MA0150.1	0.00625
MA0152.1	MA0152.1	0.46
MA0153.1	MA0153.1	3.57731e-62
MA0154.1	MA0154.1	0.171
MA0155.1	MA0155.1	0.548
MA0156.1	MA0156.1	0.683
MA0157.1	MA0157.1	0.00251
MA0159.1	MA0159.1	8.08258e-4
MA0160.1	MA0160.1	2.74681e-5
MA0162.1	MA0162.1	0.616
MA0163.1	MA0163.1	0.00268
MA0164.1	MA0164.1	0.792
MA0258.1	MA0258.1	0.00421
MA0259.1	MA0259.1	0.672

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: CNhs11220

Novel motif	Logo	P-value
1	1	0.089
10	10	0.231
100	100	0.706
101	101	0.902
102	102	0.109
103	103	0.0114
104	104	0.798
105	105	0.646
106	106	0.0862
107	107	0.071
108	108	0.289
109	109	0.0391
11	11	0.104
110	110	0.0258
111	111	0.0723
112	112	0.004
113	113	0.922
114	114	0.0295
115	115	0.755
116	116	0.687
117	117	0.0727
118	118	0.277
119	119	0.119
12	12	0.636
120	120	0.245
121	121	0.606
122	122	0.335
123	123	0.164
124	124	0.67
125	125	0.393
126	126	0.178
127	127	0.627
128	128	0.0454
129	129	0.709
13	13	2.23115e-5
130	130	0.997
131	131	0.307
132	132	0.358
133	133	0.449
134	134	0.815
135	135	0.555
136	136	0.368
137	137	0.978
138	138	0.361
139	139	0.624
14	14	0.397
140	140	0.0306
141	141	0.665
142	142	0.122
143	143	0.829
144	144	0.638
145	145	0.0482
146	146	0.398
147	147	0.441
148	148	0.263
149	149	0.301
15	15	0.192
150	150	0.143
151	151	0.547
152	152	0.0887
153	153	0.233
154	154	0.83
155	155	0.6
156	156	0.378
157	157	0.657
158	158	0.993
159	159	0.726
160	160	0.151
161	161	0.985
162	162	0.335
163	163	0.482
164	164	0.0415
165	165	0.458
166	166	0.233
167	167	0.414
168	168	0.902
169	169	7.85895e-4
17	17	0.051
18	18	0.934
19	19	0.0163
2	2	0.862
20	20	0.43
21	21	0.305
22	22	0.137
23	23	0.309
24	24	0.316
25	25	0.708
26	26	0.00146
27	27	0.83
28	28	0.463
29	29	0.29
3	3	0.0632
30	30	0.89
31	31	0.383
32	32	0.208
33	33	0.314
34	34	0.873
35	35	0.683
36	36	0.0533
37	37	0.0668
38	38	0.199
39	39	0.297
4	4	0.917
40	40	0.116
41	41	0.517
42	42	0.379
43	43	0.0623
44	44	0.179
45	45	0.634
46	46	0.119
47	47	0.429
48	48	0.164
49	49	0.0449
5	5	0.136
50	50	0.641
51	51	0.323
52	52	0.372
53	53	0.621
54	54	0.507
55	55	0.586
56	56	0.428
57	57	0.996
58	58	0.286
59	59	0.304
6	6	0.667
60	60	0.163
61	61	0.256
62	62	0.133
63	63	0.11
64	64	0.682
65	65	0.161
66	66	0.779
67	67	0.889
68	68	0.141
69	69	0.828
7	7	0.138
70	70	0.105
71	71	0.0573
72	72	0.627
73	73	0.0797
74	74	0.792
75	75	0.0302
76	76	0.827
77	77	0.513
78	78	0.0177
79	79	0.856
8	8	0.0166
80	80	0.606
81	81	0.64
82	82	0.0521
83	83	0.529
84	84	0.144
85	85	0.0424
86	86	0.163
87	87	0.764
88	88	0.644
89	89	0.0562
9	9	0.816
90	90	0.0869
91	91	0.346
92	92	0.304
93	93	0.0733
94	94	0.686
95	95	0.282
96	96	0.2
97	97	0.419
98	98	0.585
99	99	0.117

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: CNhs11220

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011429 mouse liver- neonate N20 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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000308 (mouse neonate N20 sample)
0011429 (mouse liver- neonate N20 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@SAMD00005799
+|accession_numbers=CAGE;DRX009027;DRR009901;DRZ001326;DRZ002709;DRZ012676;DRZ014059
 |ancestors_in_anatomy_facet=UBERON:0000468,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=chr1:173144144..173144176,+!p1@Nr1i3!2.28!190.19!Nr1i3;;chr10:80555320..80555378,-!p1@Creb3l3!2.14!158.37!Creb3l3;;chr10:88969376..88969395,-!p1@Nr1h4!2.10!125.28!Nr1h4;;chr2:163372884..163372904,+!p1@Hnf4a!2.10!124.52!Hnf4a;;chr4:133109285..133109308,+!p1@Nr0b2!2.03!106.59!Nr0b2;;chr5:135582751..135582788,+!p1@Mlxipl!1.96!341.49!Mlxipl;;chr1:173144100..173144138,+!p2@Nr1i3!1.95!87.14!Nr1i3;;chr7:19608891..19608895,-!p1@Foxa3!1.93!108.86!Foxa3;;chr16:38294860..38294924,-!p1@Nr1i2!1.80!62.64!Nr1i2;;chr10:88996295..88996335,-!p3@Nr1h4!1.76!66.93!Nr1h4;;chr11:90249521..90249551,-!p3@Hlf!1.68!46.73!Hlf;;chr10:88996336..88996380,-!p2@Nr1h4!1.66!54.30!Nr1h4;;chr15:85566184..85566238,+!p1@Ppara!1.53!48.75!Ppara;;chr18:64499674..64499696,+!p1@Onecut2!1.51!52.79!Onecut2;;chr2:77357622..77357704,-!p1@Zfp385b!1.39!62.64!Zfp385b;;chr15:85566537..85566552,+!p2@Ppara!1.39!23.49!Ppara;;chr2:147872790..147872821,-!p2@Foxa2!1.38!23.24!Foxa2;;chr18:64499706..64499721,+!p2@Onecut2!1.37!31.07!Onecut2;;chr2:163372869..163372882,+!p3@Hnf4a!1.36!21.72!Hnf4a;;chr11:100683839..100683890,-!p2@Stat5b!1.33!46.47!Stat5b;;chr6:90415250..90415271,+!p4@Klf15!1.33!20.46!Klf15;;chr2:27531961..27531974,+!p7@Rxra!1.32!19.70!Rxra;;chr9:74709695..74709722,+!p1@Onecut1!1.24!16.42!Onecut1;;chr13:31650185..31650201,+!p1@Foxq1!1.22!53.80!Foxq1;;chr17:87153519..87153533,+!p5@Epas1!1.22!22.73!Epas1;;chr2:91034924..91034946,-!p2@Nr1h3!1.20!18.19!Nr1h3;;chr5:115421065..115421088,-!p1@Hnf1a!1.20!14.90!Hnf1a;;chr6:90412582..90412601,+!p1@Klf15!1.19!67.69!Klf15;;chr1:138857076..138857105,-!p1@Nr5a2!1.17!13.64!Nr5a2;;chr1:191994550..191994623,-!p1@Prox1!1.16!92.19!Prox1;;chr14:63864056..63864102,-!p1@Gata4!1.16!23.24!Gata4;;chr2:91035254..91035271,-!p3@Nr1h3!1.15!16.42!Nr1h3;;chr15:85602655..85602680,+!p5@Ppara!1.14!12.88!Ppara;;chr19:37509324..37509337,+!p1@Hhex!1.09!79.31!Hhex;;chr14:100683884..100683908,-!p4@Klf12!1.09!21.47!Klf12;;chr17:87153505..87153516,+!p6@Epas1!1.09!15.66!Epas1;;chr2:147871627..147871641,-!p1@Foxa2!1.09!11.37!Foxa2;;chr10:22539932..22539956,-!p1@Tcf21!1.08!29.55!Tcf21;;chr6:90415281..90415295,+!p5@Klf15!1.08!11.11!Klf15;;chr11:60023912..60023930,-!p1@Srebf1!1.07!263.19!Srebf1;;chr1:191993385..191993405,-!p3@Prox1!1.07!10.86!Prox1;;chr1:138857048..138857071,-!p2@Nr5a2!1.07!10.86!Nr5a2;;chr11:83664365..83664383,+!p1@Hnf1b!1.04!9.85!Hnf1b;;chr10:88996274..88996286,-!p4@Nr1h4!1.04!9.85!Nr1h4;;chr8:59799772..59799789,+!p1@Hand2!1.03!28.04!Hand2;;chr1:138845748..138845766,-!p4@Nr5a2!1.01!12.12!Nr5a2;;chr1:138846009..138846038,-!p3@Nr5a2!1.01!10.36!Nr5a2;;chr12:36219283..36219298,-!p2@Ahr!1.01!9.35!Ahr;;chr7:35904304..35904320,+!p1@Cebpa!0.99!181.86!Cebpa;;chr12:36219645..36219730,-!p1@Ahr!0.99!87.64!Ahr;;chr3:94176733..94176794,+!p1@Rorc!0.99!70.22!Rorc;;chr11:121380640..121380655,-!p1@Zfp750!0.99!14.65!Zfp750;;chr2:160698288..160698358,-!p3@Zhx3!0.98!27.03!Zhx3;;chr2:173044380..173044432,-!p1@Zbp1!0.98!20.96!Zbp1;;chr2:91035197..91035237,-!p1@Nr1h3!0.98!17.93!Nr1h3;;chr10:5734907..5734920,-!p11@Esr1!0.98!8.59!Esr1;;chr1:13364477..13364492,-!p6@Ncoa2!0.97!10.36!Ncoa2;;chr16:38294929..38294940,-!p2@Nr1i2!0.97!8.34!Nr1i2;;chr8:91568074..91568094,-!p1@Sall1!0.97!8.34!Sall1;;chr9:69137716..69137744,+!p1@Rora!0.96!52.03!Rora;;chr12:58646974..58647003,-!p1@Foxa1!0.96!11.11!Foxa1;;chr1:169548377..169548430,+!p1@Rxrg!0.95!7.83!Rxrg;;chr16:43363152..43363186,+!p3@Zbtb20!0.94!18.19!Zbtb20;;chr1:138846047..138846074,-!p5@Nr5a2!0.93!8.08!Nr5a2;;chr10:80555299..80555306,-!p3@Creb3l3!0.93!7.58!Creb3l3;;chr10:5734677..5734702,-!p4@Esr1!0.92!7.32!Esr1;;chr1:138846079..138846103,-!p6@Nr5a2!0.92!7.32!Nr5a2;;chr16:43363190..43363242,+!p2@Zbtb20!0.91!22.98!Zbtb20;;chr2:27532479..27532509,+!p3@Rxra!0.91!15.15!Rxra;;chr6:90412608..90412630,+!p2@Klf15!0.91!15.15!Klf15;;chr15:85566051..85566080,+!p4@Ppara!0.91!8.34!Ppara;;chr2:148506935..148506954,+!p2@Gzf1!0.90!14.14!Gzf1;;chr10:88145766..88145770,-!p1@Spic!0.90!9.35!Spic;;chr4:32334732..32334739,+!p7@Bach2!0.89!6.82!Bach2;;chr15:85566241..85566253,+!p6@Ppara!0.89!6.82!Ppara;;chr10:80555285..80555291,-!p4@Creb3l3!0.88!6.57!Creb3l3;;chr7:52071956..52071978,-!p1@Atf5!0.87!220.50!Atf5;;chr15:103164702..103164778,-!p3@Zfp385a!0.86!7.58!Zfp385a;;chr9:24578720..24578735,-!p1@Tbx20!0.86!6.31!Tbx20;;chr14:100683912..100683947,-!p2@Klf12!0.84!19.20!Klf12;;chr10:80555398..80555409,-!p2@Creb3l3!0.83!5.81!Creb3l3;;chr8:79426176..79426275,+!p1@Nr3c2!0.80!28.79!Nr3c2;;chr14:18493386..18493464,+!p1@Thrb!0.80!21.47!Thrb;;chr6:72185232..72185272,-!p1@Atoh8!0.80!16.17!Atoh8;;chr16:44173384..44173407,+!p2@Gm608!0.80!14.65!Gm608;;chr6:90412556..90412581,+!p3@Klf15!0.80!12.38!Klf15;;chr11:121380611..121380625,-!p3@Zfp750!0.80!6.57!Zfp750;;chr1:138857112..138857130,-!p7@Nr5a2!0.80!5.30!Nr5a2;;chr6:144730427..144730508,-!p1@Sox5!0.79!34.10!Sox5;;chr8:87643578..87643593,-!p1@Zfp791!0.79!11.37!Zfp791;;chr2:27532754..27532815,+!p1@Rxra!0.78!159.38!Rxra;;chr10:5734525..5734569,-!p3@Esr1!0.78!8.59!Esr1;;chr11:100720806..100720820,+!p6@Stat5a!0.78!5.05!Stat5a;;chr18:35020854..35020869,+!p1@Egr1!0.77!204.84!Egr1;;chr17:87153462..87153473,+!p3@Epas1!0.77!20.21!Epas1;;chr1:181733737..181733755,-!p2@Ahctf1!0.76!16.17!Ahctf1;;chr2:27532513..27532525,+!p8@Rxra!0.76!5.56!Rxra;;chr10:5734660..5734670,-!p7@Esr1!0.76!4.80!Esr1;;chr2:38206580..38206600,+!p2@Lhx2!0.75!5.81!Lhx2;;chr2:38206744..38206766,+!p1@Lhx2!0.74!5.56!Lhx2;;chr11:100720767..100720797,+!p4@Stat5a!0.74!4.55!Stat5a;;chr19:10315179..10315241,-!p1@Gm98!0.73!50.77!Gm98;;chr9:48644037..48644067,-!p2@Zbtb16!0.73!11.87!Zbtb16;;chr13:37949830..37949861,+!p7@Rreb1!0.72!8.59!Rreb1;;chr14:76887526..76887555,+!p10@Tsc22d1!0.70!4.04!Tsc22d1;;chr10:82226649..82226694,-!p2@Nfyb!0.69!28.04!Nfyb;;chr2:167514456..167514473,+!p1@Cebpb!0.68!192.72!Cebpb;;chr4:97444471..97444514,+!p1@Nfia!0.68!116.94!Nfia;;chr18:36441119..36441158,+!p2@Pura!0.68!10.10!Pura;;chr3:102768047..102768060,-!p1@Nr1h5!0.68!3.79!Nr1h5;;chr7:20408047..20408125,-!p1@Bcl3!0.67!48.75!Bcl3;;chr11:53583960..53584007,+!p2@Irf1!0.67!8.59!Irf1;;chr6:39068163..39068176,-!p2@Parp12!0.67!7.58!Parp12;;chr8:123608252..123608268,+!p1@Foxf1a!0.67!5.81!Foxf1a;;chr13:37918684..37918701,+!p12@Rreb1!0.67!4.55!Rreb1;;chr6:72185210..72185228,-!p3@Atoh8!0.66!6.57!Atoh8;;chr1:189433521..189433548,+!p5@Esrrg!0.66!3.54!Esrrg;;chr7:148452314..148452329,-!p1@Irf7!0.65!28.04!Irf7;;chr6:39068210..39068251,-!p1@Parp12!0.65!18.44!Parp12;;chr6:134780234..134780288,+!p1@Crebl2!0.65!12.63!Crebl2;;chr18:11052606..11052633,+!p4@Gata6!0.65!9.85!Gata6;;chr9:48644013..48644027,-!p5@Zbtb16!0.65!4.29!Zbtb16;;chr1:52176315..52176343,+!p1@Stat1!0.64!57.08!Stat1;;chr6:115310872..115310899,+!p2@Pparg!0.64!6.31!Pparg;;chr10:80889867..80889924,-!p1@Nfic!0.63!109.62!Nfic;;chr1:138846117..138846129,-!p8@Nr5a2!0.63!3.28!Nr5a2;;chr2:133377954..133377973,+!p1@Bmp2!0.62!11.62!Bmp2;;chrX:137135036..137135064,-!p4@Tsc22d3!0.62!6.82!Tsc22d3;;chr11:121380594..121380609,-!p2@Zfp750!0.62!6.06!Zfp750;;chr7:120351014..120351109,+!p1@Arntl!0.61!50.26!Arntl;;chr3:89197057..89197114,-!p1@Zbtb7b!0.61!12.12!Zbtb7b;;chr15:85565338..85565355,+!p7@Ppara!0.61!3.03!Ppara;;chr10:5734582..5734595,-!p10@Esr1!0.61!3.03!Esr1;;chr10:127707602..127707633,+!p1@Stat2!0.60!31.82!Stat2;;chr3:95238432..95238455,+!p2@Arnt!0.59!20.21!Arnt;;chr11:90250944..90250982,-!p2@Hlf!0.59!5.30!Hlf;;chr8:73905892..73905903,-!p5@Nr2f6!0.59!3.54!Nr2f6;;chr3:89197216..89197258,-!p3@Zbtb7b!0.58!6.57!Zbtb7b;;chrX:137077716..137077734,-!p1@Tsc22d3!0.57!23.74!Tsc22d3;;chr4:6917921..6917970,-!p2@Tox!0.57!8.84!Tox;;chr15:75799634..75799645,+!p4@Zfp707!0.57!3.28!Zfp707;;chr17:87153240..87153254,+!p1@Epas1!0.56!64.91!Epas1;;chr1:39250584..39250643,+!p1@Npas2!0.56!16.17!Npas2;;chr9:69137672..69137702,+!p2@Rora!0.56!13.64!Rora;;chr6:15135456..15135520,+!p3@Foxp2!0.56!6.57!Foxp2;;chr11:52096750..52096772,-!p4@Tcf7!0.56!4.55!Tcf7;;chr17:87153028..87153049,+!p2@Epas1!0.55!65.67!Epas1;;chr16:23988711..23988727,-!p1@Bcl6!0.55!38.14!Bcl6;;chr18:3281034..3281104,-!p1@Crem!0.55!22.73!Crem;;chr3:3508024..3508069,+!p2@Hnf4g!0.55!2.53!Hnf4g;;chr11:83664334..83664353,+!p2@Hnf1b!0.55!2.53!Hnf1b;;chr14:17407970..17408015,-!p2@Rarb!0.54!7.83!Rarb;;chr9:48644429..48644462,-!p3@Zbtb16!0.54!5.56!Zbtb16;;chr5:31262699..31262712,-!p2@Preb!0.54!4.55!Preb;;chr9:96619823..96619898,-!p2@Zbtb38!0.53!13.13!Zbtb38;;chrX:7339938..7339963,+!p1@Tfe3!0.52!14.65!Tfe3;;chr11:5420954..5420969,+!p2@Xbp1!0.51!36.62!Xbp1;;chr14:52640373..52640412,-!p1@Zfp219!0.51!16.67!Zfp219;;chr2:160698668..160698679,-!p4@Zhx3!0.51!4.80!Zhx3;;chr10:5734473..5734489,-!p5@Esr1!0.51!2.27!Esr1;;chr6:29476690..29476724,+!p1@Irf5!0.50!12.88!Irf5;;chr2:166888058..166888105,-!p2@Znfx1!0.50!8.59!Znfx1;;chr5:120120667..120120685,+!p3@Tbx3!0.50!4.80!Tbx3;;chr10:67599375..67599386,-!p3@Arid5b!0.50!4.55!Arid5b;;chr11:5420973..5420992,+!p1@Xbp1!0.49!294.00!Xbp1;;chr16:42907676..42907797,+!p1@Zbtb20!0.49!36.37!Zbtb20;;chr15:75799598..75799619,+!p3@Zfp707!0.49!5.30!Zfp707;;chr6:134780337..134780355,+!p3@Crebl2!0.49!3.03!Crebl2;;chr6:144157924..144157955,-!p2@Sox5!0.49!2.78!Sox5;;chr6:15135639..15135655,+!p9@Foxp2!0.49!2.78!Foxp2;;chr1:194979315..194979359,+!p1@Irf6!0.48!16.17!Irf6;;chr16:43363968..43364001,+!p7@Zbtb20!0.48!4.29!Zbtb20;;chr2:27532817..27532828,+!p6@Rxra!0.48!3.54!Rxra;;chr2:173044357..173044377,-!p2@Zbp1!0.48!3.28!Zbp1;;chr11:100683822..100683831,-!p8@Stat5b!0.48!2.02!Stat5b;;chr6:16848443..16848459,-!p3@Tfec!0.48!2.02!Tfec;;chr6:83299445..83299490,+!p1@Bola3!0.47!111.89!Bola3;;chr15:81977802..81977828,+!p2@Srebf2!0.47!22.23!Srebf2;;chr2:160698681..160698708,-!p2@Zhx3!0.47!20.96!Zhx3;;chr19:55816398..55816409,+!p5@Tcf7l2!0.47!12.12!Tcf7l2;;chr14:18493480..18493494,+!p2@Thrb!0.47!2.27!Thrb;;chr2:160698721..160698745,-!p1@Zhx3!0.46!37.13!Zhx3;;chr8:125778192..125778217,+!p2@Zfp276!0.46!6.82!Zfp276;;chr10:82226613..82226641,-!p4@Nfyb!0.46!6.57!Nfyb;;chr11:23670750..23670789,-!p2@Rel!0.46!4.29!Rel;;chr1:194979361..194979373,+!p2@Irf6!0.46!2.78!Irf6;;chr6:72185179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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011429
 |is_obsolete=
+|library_id=CNhs11220
+|library_id_phase_based=2:CNhs11220
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;823
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;823
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N20.CNhs11220.823-25A3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N20.CNhs11220.823-25A3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N20.CNhs11220.823-25A3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N20.CNhs11220.823-25A3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N20.CNhs11220.823-25A3.mm9.nobarcode.rdna.fa.gz
 |name=liver, neonate N20
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11220,LSID748,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.597918568364147,0,0,0,0,0,0.129016983313191,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.0940882668993376,0,0,0,1.24724161119566,0,0,0.097805083983237,0,0,0,0,0,0,0.434583813352861,0,0,0,0.514973856255353,0,0.168319270548289,-0.0417740847988257,-0.178217369419478,-0.739257562314481,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0.097805083983237,0,0.0317995364197966,0,0,0,0,0.0549581289003622,0,0.0489025419916185,0,0,0,0.107435723341601,0.236605633988123,-0.158091042771083,0.012309832994765,0,0,-0.062616935328401,0,0,0,0,-0.0862758067284626,0.0843012232853251,0.0987504259695683,0,0,0,0,0,0,0.0614049451396487,0.304910727937215,0.107838993812716,0,0,0,0,0
@@ Line 62: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 82: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:823-25A3;search_select_hide=table117:823-25A3
 }}

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FF:823-25A3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:21, 4 June 2020

CNhs11220

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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