FF:1368-26H1: Difference between revisions

Latest revision as of 19:04, 4 June 2020

Name:	liver, neonate N25
Species:	Mouse (Mus musculus)
Library ID:	CNhs11198
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	liver
dev stage	25 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		SAMD00004760

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11198		CAGE		DRX009028		DRR009902

Accession ID Mm9

Library id		BAM		CTSS
CNhs11198		DRZ001327		DRZ002710

Accession ID Mm10

Library id		BAM		CTSS
CNhs11198		DRZ012677		DRZ014060

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

CNhs11198

0	0
1	0
10	0
100	0
1000	0.162
1001	0.116
1002	-0.116
1003	0.0278
1004	0
1005	0.00294
1006	0.107
1007	-0.0939
1008	0
1009	0.0434
101	0.00851
1010	0
1011	-0.182
1012	0
1013	0.496
1014	-0.0874
1015	-0.37
1016	-0.362
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.116
1022	0.523
1023	0
1024	0
1025	0.235
1026	0
1027	0
1028	0
1029	-0.0428
103	-0.0563
1030	0
1031	-0.217
1032	-0.268
1033	0
1034	0.862
1035	0
1036	-0.208
1037	0
1038	-0.191
1039	0.718
104	0
1040	-0.141
1041	0.0717

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: CNhs11198

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.316
MA0003.1	MA0003.1	0.517
MA0004.1	MA0004.1	0.657
MA0006.1	MA0006.1	0.236
MA0007.1	MA0007.1	0.268
MA0009.1	MA0009.1	0.629
MA0014.1	MA0014.1	0.263
MA0017.1	MA0017.1	3.06405e-24
MA0018.2	MA0018.2	7.55013e-5
MA0019.1	MA0019.1	0.572
MA0024.1	MA0024.1	0.0625
MA0025.1	MA0025.1	0.181
MA0027.1	MA0027.1	0.687
MA0028.1	MA0028.1	0.429
MA0029.1	MA0029.1	0.483
MA0030.1	MA0030.1	0.0144
MA0031.1	MA0031.1	0.00237
MA0035.2	MA0035.2	0.0432
MA0038.1	MA0038.1	0.324
MA0039.2	MA0039.2	0.248
MA0040.1	MA0040.1	0.589
MA0041.1	MA0041.1	0.826
MA0042.1	MA0042.1	0.997
MA0043.1	MA0043.1	0.23
MA0046.1	MA0046.1	1.42394e-103
MA0047.2	MA0047.2	2.78536e-8
MA0048.1	MA0048.1	0.341
MA0050.1	MA0050.1	0.00401
MA0051.1	MA0051.1	0.00288
MA0052.1	MA0052.1	0.97
MA0055.1	MA0055.1	0.213
MA0057.1	MA0057.1	0.531
MA0058.1	MA0058.1	0.441
MA0059.1	MA0059.1	0.135
MA0060.1	MA0060.1	0.889
MA0061.1	MA0061.1	0.527
MA0062.2	MA0062.2	0.842
MA0065.2	MA0065.2	1.71533e-16
MA0066.1	MA0066.1	0.0397
MA0067.1	MA0067.1	0.0905
MA0068.1	MA0068.1	0.287
MA0069.1	MA0069.1	0.0737
MA0070.1	MA0070.1	0.2
MA0071.1	MA0071.1	2.32266e-5
MA0072.1	MA0072.1	1.85889e-6
MA0073.1	MA0073.1	0.907
MA0074.1	MA0074.1	0.306
MA0076.1	MA0076.1	0.967
MA0077.1	MA0077.1	0.0275
MA0078.1	MA0078.1	0.586
MA0079.2	MA0079.2	0.281
MA0080.2	MA0080.2	0.332
MA0081.1	MA0081.1	0.536
MA0083.1	MA0083.1	0.0841
MA0084.1	MA0084.1	0.444
MA0087.1	MA0087.1	0.255
MA0088.1	MA0088.1	0.203
MA0090.1	MA0090.1	0.436
MA0091.1	MA0091.1	0.844
MA0092.1	MA0092.1	0.196
MA0093.1	MA0093.1	0.665
MA0099.2	MA0099.2	0.559
MA0100.1	MA0100.1	0.364
MA0101.1	MA0101.1	0.844
MA0102.2	MA0102.2	0.158
MA0103.1	MA0103.1	0.181
MA0104.2	MA0104.2	0.933
MA0105.1	MA0105.1	0.086
MA0106.1	MA0106.1	0.0333
MA0107.1	MA0107.1	0.758
MA0108.2	MA0108.2	0.0968
MA0111.1	MA0111.1	0.697
MA0112.2	MA0112.2	8.34929e-6
MA0113.1	MA0113.1	0.432
MA0114.1	MA0114.1	1.72291e-24
MA0115.1	MA0115.1	4.96652e-12
MA0116.1	MA0116.1	0.0996
MA0117.1	MA0117.1	0.717
MA0119.1	MA0119.1	0.00825
MA0122.1	MA0122.1	0.577
MA0124.1	MA0124.1	0.562
MA0125.1	MA0125.1	0.612
MA0131.1	MA0131.1	0.87
MA0135.1	MA0135.1	0.621
MA0136.1	MA0136.1	0.156
MA0137.2	MA0137.2	0.0558
MA0138.2	MA0138.2	0.377
MA0139.1	MA0139.1	0.152
MA0140.1	MA0140.1	0.546
MA0141.1	MA0141.1	1.22638e-7
MA0142.1	MA0142.1	0.0921
MA0143.1	MA0143.1	0.213
MA0144.1	MA0144.1	0.29
MA0145.1	MA0145.1	0.0654
MA0146.1	MA0146.1	0.153
MA0147.1	MA0147.1	0.829
MA0148.1	MA0148.1	6.03629e-11
MA0149.1	MA0149.1	0.00896
MA0150.1	MA0150.1	0.00301
MA0152.1	MA0152.1	0.573
MA0153.1	MA0153.1	4.45591e-68
MA0154.1	MA0154.1	0.129
MA0155.1	MA0155.1	0.65
MA0156.1	MA0156.1	0.534
MA0157.1	MA0157.1	0.00113
MA0159.1	MA0159.1	2.42461e-4
MA0160.1	MA0160.1	8.98409e-6
MA0162.1	MA0162.1	0.314
MA0163.1	MA0163.1	0.00276
MA0164.1	MA0164.1	0.805
MA0258.1	MA0258.1	0.00115
MA0259.1	MA0259.1	0.606

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: CNhs11198

Novel motif	Logo	P-value
1	1	0.0758
10	10	0.178
100	100	0.581
101	101	0.952
102	102	0.125
103	103	0.011
104	104	0.669
105	105	0.421
106	106	0.132
107	107	0.12
108	108	0.388
109	109	0.0515
11	11	0.0726
110	110	0.0276
111	111	0.0482
112	112	0.0142
113	113	0.965
114	114	0.0477
115	115	0.557
116	116	0.894
117	117	0.0688
118	118	0.541
119	119	0.0758
12	12	0.637
120	120	0.388
121	121	0.432
122	122	0.351
123	123	0.126
124	124	0.805
125	125	0.196
126	126	0.302
127	127	0.879
128	128	0.151
129	129	0.598
13	13	2.2796e-5
130	130	0.875
131	131	0.184
132	132	0.57
133	133	0.593
134	134	0.56
135	135	0.599
136	136	0.376
137	137	0.955
138	138	0.406
139	139	0.825
14	14	0.417
140	140	0.179
141	141	0.43
142	142	0.197
143	143	0.995
144	144	0.634
145	145	0.0615
146	146	0.322
147	147	0.456
148	148	0.231
149	149	0.301
15	15	0.178
150	150	0.248
151	151	0.666
152	152	0.148
153	153	0.251
154	154	0.711
155	155	0.938
156	156	0.114
157	157	0.471
158	158	0.593
159	159	0.413
160	160	0.169
161	161	0.718
162	162	0.65
163	163	0.242
164	164	0.0645
165	165	0.351
166	166	0.137
167	167	0.412
168	168	0.691
169	169	6.09801e-4
17	17	0.0591
18	18	0.822
19	19	0.036
2	2	0.899
20	20	0.455
21	21	0.39
22	22	0.122
23	23	0.405
24	24	0.224
25	25	0.57
26	26	0.00338
27	27	0.87
28	28	0.492
29	29	0.247
3	3	0.0612
30	30	0.86
31	31	0.363
32	32	0.239
33	33	0.224
34	34	0.844
35	35	0.483
36	36	0.0646
37	37	0.0638
38	38	0.262
39	39	0.25
4	4	0.809
40	40	0.11
41	41	0.898
42	42	0.384
43	43	0.113
44	44	0.0429
45	45	0.675
46	46	0.135
47	47	0.34
48	48	0.135
49	49	0.092
5	5	0.127
50	50	0.602
51	51	0.295
52	52	0.4
53	53	0.581
54	54	0.404
55	55	0.535
56	56	0.505
57	57	0.972
58	58	0.292
59	59	0.255
6	6	0.81
60	60	0.203
61	61	0.265
62	62	0.136
63	63	0.0955
64	64	0.52
65	65	0.196
66	66	0.926
67	67	0.844
68	68	0.443
69	69	0.945
7	7	0.14
70	70	0.0922
71	71	0.0439
72	72	0.798
73	73	0.0886
74	74	0.545
75	75	0.0264
76	76	0.682
77	77	0.423
78	78	0.00948
79	79	0.996
8	8	0.0122
80	80	0.502
81	81	0.638
82	82	0.0428
83	83	0.477
84	84	0.398
85	85	0.0349
86	86	0.163
87	87	0.144
88	88	0.768
89	89	0.0752
9	9	0.804
90	90	0.0748
91	91	0.382
92	92	0.384
93	93	0.089
94	94	0.964
95	95	0.184
96	96	0.281
97	97	0.324
98	98	0.627
99	99	0.092

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: CNhs11198

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011485 mouse liver- neonate N25 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)
0000309 (mouse neonate N25 sample)
0011485 (mouse liver- neonate N25 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@SAMD00004760
+|accession_numbers=CAGE;DRX009028;DRR009902;DRZ001327;DRZ002710;DRZ012677;DRZ014060
+|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=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000004,FF:0000303,FF:0000309,FF:0011485
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr10:80555320..80555378,-!p1@Creb3l3!2.14!157.87!Creb3l3;;chr10:88969376..88969395,-!p1@Nr1h4!2.12!130.78!Nr1h4;;chr5:135582751..135582788,+!p1@Mlxipl!2.04!411.36!Mlxipl;;chr2:163372884..163372904,+!p1@Hnf4a!1.98!95.44!Hnf4a;;chr9:74709695..74709722,+!p1@Onecut1!1.83!66.74!Onecut1;;chr1:173144100..173144138,+!p2@Nr1i3!1.77!58.48!Nr1i3;;chr10:88996295..88996335,-!p3@Nr1h4!1.75!65.66!Nr1h4;;chr4:133109285..133109308,+!p1@Nr0b2!1.74!54.00!Nr0b2;;chr10:88996336..88996380,-!p2@Nr1h4!1.73!64.22!Nr1h4;;chr1:173144144..173144176,+!p1@Nr1i3!1.73!52.74!Nr1i3;;chr7:19608891..19608895,-!p1@Foxa3!1.72!65.66!Foxa3;;chr16:38294860..38294924,-!p1@Nr1i2!1.72!51.49!Nr1i2;;chr11:90249521..90249551,-!p3@Hlf!1.65!44.13!Hlf;;chr18:64499674..64499696,+!p1@Onecut2!1.46!47.54!Onecut2;;chr2:77357622..77357704,-!p1@Zfp385b!1.45!70.68!Zfp385b;;chr4:32334732..32334739,+!p7@Bach2!1.43!25.83!Bach2;;chr15:85566184..85566238,+!p1@Ppara!1.42!37.67!Ppara;;chr16:43363190..43363242,+!p2@Zbtb20!1.35!63.69!Zbtb20;;chr18:64499706..64499721,+!p2@Onecut2!1.35!29.60!Onecut2;;chr16:43247391..43247422,+!p12@Zbtb20!1.34!20.63!Zbtb20;;chr19:37509324..37509337,+!p1@Hhex!1.33!139.75!Hhex;;chr2:147872790..147872821,-!p2@Foxa2!1.31!19.37!Foxa2;;chr11:100683839..100683890,-!p2@Stat5b!1.27!40.54!Stat5b;;chr11:60023912..60023930,-!p1@Srebf1!1.22!372.07!Srebf1;;chr2:163372869..163372882,+!p3@Hnf4a!1.21!15.07!Hnf4a;;chr1:138857076..138857105,-!p1@Nr5a2!1.21!15.07!Nr5a2;;chr15:85566537..85566552,+!p2@Ppara!1.20!14.89!Ppara;;chr5:115421065..115421088,-!p1@Hnf1a!1.20!14.89!Hnf1a;;chr7:35904304..35904320,+!p1@Cebpa!1.19!291.34!Cebpa;;chr6:90415250..90415271,+!p4@Klf15!1.19!14.53!Klf15;;chr1:138857048..138857071,-!p2@Nr5a2!1.18!14.17!Nr5a2;;chr2:91035254..91035271,-!p3@Nr1h3!1.17!17.04!Nr1h3;;chr2:27531961..27531974,+!p7@Rxra!1.15!13.10!Rxra;;chr9:74714303..74714318,+!p2@Onecut1!1.15!13.10!Onecut1;;chr7:52071956..52071978,-!p1@Atf5!1.10!377.27!Atf5;;chr2:173044380..173044432,-!p1@Zbp1!1.09!27.09!Zbp1;;chr16:43363152..43363186,+!p3@Zbtb20!1.07!24.76!Zbtb20;;chr12:58646974..58647003,-!p1@Foxa1!1.06!14.17!Foxa1;;chr13:31650185..31650201,+!p1@Foxq1!1.05!36.42!Foxq1;;chr10:88996274..88996286,-!p4@Nr1h4!1.05!10.23!Nr1h4;;chr2:91035197..91035237,-!p1@Nr1h3!1.04!20.81!Nr1h3;;chr14:63864056..63864102,-!p1@Gata4!1.03!17.04!Gata4;;chr11:83664365..83664383,+!p1@Hnf1b!1.02!9.51!Hnf1b;;chr1:191994550..191994623,-!p1@Prox1!1.01!64.22!Prox1;;chr6:90415281..90415295,+!p5@Klf15!1.00!8.97!Klf15;;chr10:5734677..5734702,-!p4@Esr1!0.97!8.25!Esr1;;chr10:80555299..80555306,-!p3@Creb3l3!0.97!8.25!Creb3l3;;chr3:94176733..94176794,+!p1@Rorc!0.96!65.30!Rorc;;chr8:91568074..91568094,-!p1@Sall1!0.96!8.07!Sall1;;chr11:60036258..60036276,-!p3@Srebf1!0.94!13.81!Srebf1;;chr17:87153519..87153533,+!p5@Epas1!0.94!11.66!Epas1;;chr17:87153505..87153516,+!p6@Epas1!0.94!10.76!Epas1;;chr1:138857112..138857130,-!p7@Nr5a2!0.92!7.36!Nr5a2;;chr11:121380640..121380655,-!p1@Zfp750!0.90!11.66!Zfp750;;chr15:85566241..85566253,+!p6@Ppara!0.90!7.00!Ppara;;chr2:91034924..91034946,-!p2@Nr1h3!0.89!8.43!Nr1h3;;chr10:80555285..80555291,-!p4@Creb3l3!0.89!6.82!Creb3l3;;chr2:147871627..147871641,-!p1@Foxa2!0.89!6.82!Foxa2;;chr9:69137716..69137744,+!p1@Rora!0.87!42.52!Rora;;chr10:5734907..5734920,-!p11@Esr1!0.87!6.46!Esr1;;chr8:59799772..59799789,+!p1@Hand2!0.86!19.02!Hand2;;chr2:160698288..160698358,-!p3@Zhx3!0.85!19.73!Zhx3;;chr15:75799634..75799645,+!p4@Zfp707!0.85!7.18!Zfp707;;chr1:138846009..138846038,-!p3@Nr5a2!0.85!7.00!Nr5a2;;chr6:90412582..90412601,+!p1@Klf15!0.84!29.60!Klf15;;chr9:24578720..24578735,-!p1@Tbx20!0.84!5.92!Tbx20;;chr14:18493386..18493464,+!p1@Thrb!0.83!23.50!Thrb;;chr12:36219283..36219298,-!p2@Ahr!0.83!5.74!Ahr;;chr2:148506935..148506954,+!p2@Gzf1!0.82!11.84!Gzf1;;chr13:37949830..37949861,+!p7@Rreb1!0.82!10.94!Rreb1;;chr15:85566051..85566080,+!p4@Ppara!0.81!6.46!Ppara;;chr1:138846047..138846074,-!p5@Nr5a2!0.81!5.92!Nr5a2;;chr10:22539932..22539956,-!p1@Tcf21!0.80!14.89!Tcf21;;chr1:13364477..13364492,-!p6@Ncoa2!0.80!6.64!Ncoa2;;chr1:191993385..191993405,-!p3@Prox1!0.80!5.38!Prox1;;chr9:74714281..74714296,+!p5@Onecut1!0.80!5.38!Onecut1;;chr10:5734525..5734569,-!p3@Esr1!0.79!8.97!Esr1;;chr14:100683884..100683908,-!p4@Klf12!0.78!9.87!Klf12;;chr1:169548377..169548430,+!p1@Rxrg!0.78!5.02!Rxrg;;chr10:80555398..80555409,-!p2@Creb3l3!0.78!5.02!Creb3l3;;chr15:85602655..85602680,+!p5@Ppara!0.78!5.02!Ppara;;chr19:37511111..37511115,+!p2@Hhex!0.78!5.02!Hhex;;chr11:121380611..121380625,-!p3@Zfp750!0.77!6.10!Zfp750;;chr16:38294929..38294940,-!p2@Nr1i2!0.77!4.84!Nr1i2;;chr18:3281034..3281104,-!p1@Crem!0.75!35.88!Crem;;chr1:194979315..194979359,+!p1@Irf6!0.75!30.86!Irf6;;chr1:181733737..181733755,-!p2@Ahctf1!0.75!15.79!Ahctf1;;chr9:74709682..74709691,+!p3@Onecut1!0.75!4.66!Onecut1;;chr1:138846079..138846103,-!p6@Nr5a2!0.74!4.48!Nr5a2;;chr16:43235969..43235989,+!p20@Zbtb20!0.74!4.48!Zbtb20;;chr2:27532754..27532815,+!p1@Rxra!0.73!144.41!Rxra;;chr6:144730427..144730508,-!p1@Sox5!0.73!30.14!Sox5;;chr5:31262699..31262712,-!p2@Preb!0.73!7.53!Preb;;chr7:148452314..148452329,-!p1@Irf7!0.72!32.65!Irf7;;chr1:133904946..133904974,+!p7@Elk4!0.72!6.82!Elk4;;chr10:88145766..88145770,-!p1@Spic!0.72!5.74!Spic;;chr4:82151500..82151505,-!p11@Nfib!0.72!5.38!Nfib;;chr16:44173384..44173407,+!p2@Gm608!0.71!11.66!Gm608;;chr1:138845748..138845766,-!p4@Nr5a2!0.71!5.56!Nr5a2;;chr1:52176315..52176343,+!p1@Stat1!0.70!66.20!Stat1;;chr2:173044357..173044377,-!p2@Zbp1!0.70!6.10!Zbp1;;chr18:36441119..36441158,+!p2@Pura!0.67!9.87!Pura;;chr2:27532479..27532509,+!p3@Rxra!0.67!8.25!Rxra;;chr8:73905892..73905903,-!p5@Nr2f6!0.67!4.48!Nr2f6;;chr2:27532513..27532525,+!p8@Rxra!0.67!4.31!Rxra;;chr17:87153462..87153473,+!p3@Epas1!0.66!15.43!Epas1;;chr14:17407970..17408015,-!p2@Rarb!0.66!10.58!Rarb;;chr10:127707602..127707633,+!p1@Stat2!0.65!36.06!Stat2;;chr6:134780234..134780288,+!p1@Crebl2!0.65!12.74!Crebl2;;chr6:90412608..90412630,+!p2@Klf15!0.63!7.53!Klf15;;chr10:5734717..5734727,-!p12@Esr1!0.63!3.23!Esr1;;chr11:83664334..83664353,+!p2@Hnf1b!0.63!3.23!Hnf1b;;chr2:147871948..147871977,-!p3@Foxa2!0.63!3.23!Foxa2;;chr11:5420954..5420969,+!p2@Xbp1!0.62!46.82!Xbp1;;chr7:20408047..20408125,-!p1@Bcl3!0.62!42.70!Bcl3;;chr3:95238432..95238455,+!p2@Arnt!0.62!21.35!Arnt;;chr9:69137672..69137702,+!p2@Rora!0.62!15.79!Rora;;chr14:100683912..100683947,-!p2@Klf12!0.62!11.30!Klf12;;chr8:107793688..107793736,+!p1@Hsf4!0.62!4.31!Hsf4;;chr8:79426176..79426275,+!p1@Nr3c2!0.61!18.12!Nr3c2;;chr6:39068163..39068176,-!p2@Parp12!0.61!6.46!Parp12;;chr16:43363837..43363842,+!p11@Zbtb20!0.61!6.28!Zbtb20;;chr14:76887526..76887555,+!p10@Tsc22d1!0.61!3.05!Tsc22d1;;chr11:5420655..5420659,+!p3@Xbp1!0.61!3.05!Xbp1;;chr10:5734660..5734670,-!p7@Esr1!0.61!3.05!Esr1;;chr1:39250584..39250643,+!p1@Npas2!0.60!17.94!Npas2;;chr1:194979361..194979373,+!p2@Irf6!0.60!4.31!Irf6;;chr10:80889867..80889924,-!p1@Nfic!0.59!99.21!Nfic;;chr7:120351014..120351109,+!p1@Arntl!0.59!48.80!Arntl;;chr15:81977802..81977828,+!p2@Srebf2!0.59!29.78!Srebf2;;chr11:98636531..98636559,-!p1@Nr1d1!0.59!19.91!Nr1d1;;chr6:39068210..39068251,-!p1@Parp12!0.59!15.97!Parp12;;chr18:3337503..3337536,-!p7@Crem!0.59!5.56!Crem;;chr6:90416275..90416286,+!p9@Klf15!0.59!2.87!Klf15;;chr11:100720767..100720797,+!p4@Stat5a!0.59!2.87!Stat5a;;chr4:97444471..97444514,+!p1@Nfia!0.58!91.13!Nfia;;chr12:36219645..36219730,-!p1@Ahr!0.58!33.73!Ahr;;chr10:82226649..82226694,-!p2@Nfyb!0.58!21.53!Nfyb;;chr2:120365588..120365602,-!p2@Zfp106!0.58!5.20!Zfp106;;chr6:134780337..134780355,+!p3@Crebl2!0.58!3.95!Crebl2;;chr6:83299445..83299490,+!p1@Bola3!0.57!142.80!Bola3;;chr11:121380594..121380609,-!p2@Zfp750!0.57!5.20!Zfp750;;chr3:3508024..3508069,+!p2@Hnf4g!0.57!2.69!Hnf4g;;chr15:85565338..85565355,+!p7@Ppara!0.57!2.69!Ppara;;chr1:93309740..93309811,-!p1@Hes6!0.56!66.92!Hes6;;chr9:48644037..48644067,-!p2@Zbtb16!0.56!7.71!Zbtb16;;chr15:75799598..75799619,+!p3@Zfp707!0.56!6.28!Zfp707;;chr19:10315179..10315241,-!p1@Gm98!0.55!33.37!Gm98;;chr6:115310872..115310899,+!p2@Pparg!0.55!5.02!Pparg;;chr14:17407549..17407575,-!p3@Rarb!0.55!4.31!Rarb;;chr6:144157924..144157955,-!p2@Sox5!0.55!3.41!Sox5;;chr13:83643159..83643226,+!p3@Mef2c!0.55!2.51!Mef2c;;chr11:98821937..98821987,+!p4@Rara!0.54!6.46!Rara;;chr3:89197216..89197258,-!p3@Zbtb7b!0.53!5.74!Zbtb7b;;chr13:53076382..53076393,-!p2@Nfil3!0.53!4.31!Nfil3;;chr17:87153028..87153049,+!p2@Epas1!0.52!62.25!Epas1;;chr11:53583960..53584007,+!p2@Irf1!0.52!5.92!Irf1;;chr15:103164702..103164778,-!p3@Zfp385a!0.52!2.87!Zfp385a;;chr14:18493480..18493494,+!p2@Thrb!0.52!2.69!Thrb;;chr3:54559496..54559511,+!p1@Smad9!0.51!5.92!Smad9;;chr7:56136349..56136360,-!p5@E2f8!0.51!3.05!E2f8;;chr2:133377954..133377973,+!p1@Bmp2!0.50!8.61!Bmp2;;chr1:170362437..170362478,-!p5@Pbx1!0.50!8.25!Pbx1;;chr1:133904901..133904934,+!p3@Elk4!0.50!7.89!Elk4;;chr2:160698668..160698679,-!p4@Zhx3!0.50!4.66!Zhx3;;chr6:15135639..15135655,+!p9@Foxp2!0.50!2.87!Foxp2;;chr11:100683794..100683805,-!p4@Stat5b!0.50!2.15!Stat5b;;chr3:102768047..102768060,-!p1@Nr1h5!0.50!2.15!Nr1h5;;chr18:3281750..3281776,-!p2@Crem!0.49!5.02!Crem;;chr11:23670750..23670789,-!p2@Rel!0.49!4.66!Rel;;chr3:54559463..54559493,+!p3@Smad9!0.49!4.48!Smad9;;chr5:144951153..144951203,+!p1@Bhlha15!0.49!3.41!Bhlha15;;chr5:31262609..31262693,-!p1@Preb!0.48!140.65!Preb;;chr11:96690797..96690813,-!p1@Nfe2l1!0.48!52.92!Nfe2l1;;chr17:15701263..15701277,-!p2@Prdm9!0.48!5.92!Prdm9;;chr2:38206580..38206600,+!p2@Lhx2!0.48!2.69!Lhx2;;chr2:166888058..166888105,-!p2@Znfx1!0.47!7.89!Znfx1;;chr16:43619057..43619078,+!p8@Zbtb20!0.47!4.84!Zbtb20;;chr5:3647720..3647733,-!p3@Gatad1!0.47!4.31!Gatad1;;chr2:38206744..38206766,+!p1@Lhx2!0.47!2.51!Lhx2;;chr16:91270004..91270023,+!p1@Olig1!0.47!2.33!Olig1;;chr10:106931775..106931798,-!p1@Myf6!0.47!1.97!Myf6;;chr2:75543161..75543173,-!p5@Nfe2l2!0.47!1.97!Nfe2l2;;chr11:100948597..100948637,+!p1@Mlx!0.46!61.53!Mlx;;chr13:53076396..53076452,-!p1@Nfil3!0.46!46.82!Nfil3;;chr14:52640373..52640412,-!p1@Zfp219!0.46!14.71!Zfp219;;chr6:29476690..29476724,+!p1@Irf5!0.46!11.48!Irf5;;chr6:72185232..72185272,-!p1@Atoh8!0.46!6.82!Atoh8;;chr10:67599319..67599360,-!p2@Arid5b!0.45!27.99!Arid5b;;chr18:11052606..11052633,+!p4@Gata6!0.45!5.74!Gata6;;chr6:72849280..72849297,-!p6@Kcmf1!0.45!4.31!Kcmf1;;chr10:67599432..67599444,-!p4@Arid5b!0.45!3.41!Arid5b;;chr2:27532817..27532828,+!p6@Rxra!0.45!3.23!Rxra;;chr8:79423144..79423178,+!p3@Nr3c2!0.45!2.87!Nr3c2;;chr13:37918684..37918701,+!p12@Rreb1!0.45!2.33!Rreb1;;chr9:74709664..74709671,+!p6@Onecut1!0.45!1.79!Onecut1;;chr11:100720806..100720820,+!p6@Stat5a!0.45!1.79!Stat5a;;chr1:172797892..172797915,-!p1@Atf6!0.44!69.25!Atf6;;chr17:87153240..87153254,+!p1@Epas1!0.44!49.15!Epas1;;chr15:85566014..85566045,+!p3@Ppara!0.44!2.69!Ppara;;chr19:23215673..23215753,+!p1@Klf9!0.43!35.16!Klf9;;chr3:89197057..89197114,-!p1@Zbtb7b!0.43!7.53!Zbtb7b;;chr1:172797864..172797873,-!p2@Atf6!0.43!6.10!Atf6;;chr7:97591412..97591431,+!p2@Crebzf!0.43!5.74!Crebzf;;chr6:39068181..39068206,-!p3@Parp12!0.43!4.31!Parp12;;chr14:52640355..52640369,-!p9@Zfp219!0.43!2.69!Zfp219;;chr5:77524250..77524300,-!p1@Hopx!0.42!47.54!Hopx;;chr4:97444446..97444470,+!p3@Nfia!0.42!22.25!Nfia;;chr15:103085660..103085681,-!p1@Nfe2!0.42!2.87!Nfe2;;chr8:107793737..107793757,+!p2@Hsf4!0.42!1.97!Hsf4;;chr2:164228702..164228719,+!p1@Rbpjl!0.42!1.61!Rbpjl;;chr1:189433521..189433548,+!p5@Esrrg!0.42!1.61!Esrrg;;chr9:30838206..30838285,+!p2@Zbtb44!0.41!30.14!Zbtb44;;chr16:42907676..42907797,+!p1@Zbtb20!0.41!29.96!Zbtb20;;chr19:55816414..55816425,+!p4@Tcf7l2!0.41!11.66!Tcf7l2;;chr10:82226613..82226641,-!p4@Nfyb!0.41!5.74!Nfyb;;chr17:15701286..15701323,-!p1@Prdm9!0.40!8.25!Prdm9;;chr17:87153440..87153451,+!p4@Epas1!0.40!3.95!Epas1;;chr16:43363968..43364001,+!p7@Zbtb20!0.40!3.41!Zbtb20;;chr12:25780945..25780961,-!p1@Id2!0.39!375.12!Id2;;chr11:5420973..5420992,+!p1@Xbp1!0.39!233.58!Xbp1;;chr18:39649430..39649522,-!p2@Nr3c1!0.39!21.17!Nr3c1;;chr18:3337537..3337598,-!p4@Crem!0.39!6.10!Crem;;chr16:43619101..43619151,+!p6@Zbtb20!0.39!4.66!Zbtb20;;chr8:73905344..73905381,-!p2@Nr2f6!0.39!4.66!Nr2f6;;chr6:15135456..15135520,+!p3@Foxp2!0.39!4.13!Foxp2;;chr6:90412556..90412581,+!p3@Klf15!0.39!4.13!Klf15;;chr16:43619156..43619171,+!p16@Zbtb20!0.39!2.15!Zbtb20;;chr1:138846117..138846129,-!p8@Nr5a2!0.39!1.44!Nr5a2;;chr7:119885539..119885574,+!p3@Tead1!0.39!1.44!Tead1;;chr5:115420882..115420896,-!p3@Hnf1a!0.39!1.44!Hnf1a;;chr3:95021853..95021911,-!p1@Gabpb2!0.38!16.15!Gabpb2;;chr19:26679615..26679646,+!p3@Smarca2!0.38!14.35!Smarca2;;chr15:81977766..81977789,+!p3@Srebf2!0.38!13.10!Srebf2;;chr19:55816398..55816409,+!p5@Tcf7l2!0.38!9.69!Tcf7l2;;chrX:7339938..7339963,+!p1@Tfe3!0.37!10.05!Tfe3;;chr3:89197551..89197606,-!p2@Zbtb7b!0.37!6.64!Zbtb7b;;chr15:57526206..57526241,+!p2@Zhx2!0.37!6.46!Zhx2;;chr11:53164533..53164548,+!p4@Aff4!0.37!5.56!Aff4;;chr19:26681226..26681299,+!p7@Smarca2!0.37!4.31!Smarca2;;chr5:77524304..77524315,-!p5@Hopx!0.37!3.77!Hopx;;chr19:23215469..23215494,+!p2@Klf9!0.37!2.51!Klf9;;chr9:48644013..48644027,-!p5@Zbtb16!0.37!1.79!Zbtb16;;chr3:99057269..99057306,+!p1@Tbx15!0.37!1.79!Tbx15;;chr9:111020710..111020721,+!p2@Lrrfip2!0.37!1.61!Lrrfip2;;chr11:53583544..53583559,+!p1@Irf1!0.36!34.44!Irf1;;chr2:160192793..160192809,-!p1@Mafb!0.36!30.68!Mafb;;chr19:5637528..5637548,+!p2@Rela!0.36!11.66!Rela;;chr13:64253718..64253763,-!p2@Zfp367!0.36!4.66!Zfp367;;chr10:57206224..57206260,+!p2@Hsf2!0.36!4.13!Hsf2;;chr16:43236133..43236154,+!p17@Zbtb20!0.36!1.61!Zbtb20;;chr2:167514456..167514473,+!p1@Cebpb!0.35!89.34!Cebpb;;chr17:3557742..3557775,-!p1@Tfb1m!0.35!27.99!Tfb1m;;chr11:98636657..98636668,-!p6@Nr1d1!0.35!2.69!Nr1d1;;chr1:167932722..167932740,-!p2@Pou2f1!0.35!2.69!Pou2f1;;chr8:108583683..108583693,+!p3@Nfatc3!0.35!2.15!Nfatc3;;chr15:85602581..85602598,+!p8@Ppara!0.35!1.26!Ppara;;chr11:98822047..98822072,+!p9@Rara!0.35!1.26!Rara;;chr14:76888344..76888348,+!p26@Tsc22d1!0.35!1.26!Tsc22d1;;chr14:63890491..63890516,-!p2@Gata4!0.35!1.26!Gata4;;chr14:63890519..63890539,-!p3@Gata4!0.35!1.26!Gata4;;chr7:35841486..35841575,-!p1@Cebpg!0.34!50.23!Cebpg;;chr10:79862223..79862261,-!p4@Mbd3!0.34!18.30!Mbd3;;chr13:64254457..64254497,-!p1@Zfp367!0.34!8.25!Zfp367;;chr8:47825166..47825178,+!p2@Irf2!0.34!2.33!Irf2;;chr5:120121446..120121461,+!p2@Tbx3!0.33!5.74!Tbx3;;chr2:27532734..27532749,+!p2@Rxra!0.33!4.84!Rxra;;chr14:17407878..17407926,-!p1@Rarb!0.33!3.59!Rarb;;chr7:25917492..25917512,-!p1@Pou2f2!0.33!2.51!Pou2f2;;chr6:16848395..16848416,-!p2@Tfec!0.33!1.44!Tfec;;chr2:160698721..160698745,-!p1@Zhx3!0.32!26.55!Zhx3;;chr16:23988711..23988727,-!p1@Bcl6!0.32!22.07!Bcl6;;chr17:24806629..24806672,+!p1@Zfp598!0.32!20.27!Zfp598;;chr17:71199121..71199165,-!p2@Tgif1!0.32!13.10!Tgif1;;chr10:80600749..80600766,+!p2@Zbtb7a!0.32!9.33!Zbtb7a;;chr8:72519989..72520007,-!p5@Gatad2a!0.32!8.61!Gatad2a;;chr8:125778192..125778217,+!p2@Zfp276!0.32!4.66!Zfp276;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.32!4.66!Tfcp2l1;;chr10:67599375..67599386,-!p3@Arid5b!0.32!2.69!Arid5b;;chr5:92391948..92391968,+!p3@Thap6!0.32!2.15!Thap6;;chr14:3297929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+|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:0011485
 |is_obsolete=
+|library_id=CNhs11198
+|library_id_phase_based=2:CNhs11198
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1368
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1368
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N25.CNhs11198.1368-26H1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N25.CNhs11198.1368-26H1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N25.CNhs11198.1368-26H1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N25.CNhs11198.1368-26H1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/liver%252c%2520neonate%2520N25.CNhs11198.1368-26H1.mm9.nobarcode.rdna.fa.gz
 |name=liver, neonate N25
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11198,LSID747,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.267553652069007,0,0,0,0,0,-0.00391533494457341,0,0,0,0,-0.0843392403965415,0,0,0,0,0.0358300855065507,0,-0.0587394660482866,0,0,0,0.278064370169132,0,0,0,0,0,0,0,0,0,0.314217456974374,0,0,0,0.661618512544427,0,-0.00371359799411615,-0.0749204895820585,-0.269695353791872,-0.797200750258497,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0.0716601710131013,0,0.0671483372708476,0.0716601710131013,0,0,0,0.133153884834288,0,0,0,0.0716601710131013,0,-0.0275801501060634,-0.0325862871702545,-0.158091042771083,-0.0382806553435982,0,0.0572316039684793,-0.0787037500278776,-0.0841466688556176,0,0,-0.0265087588878159,-0.114429410456118,0.353157154521036,0.108179021379422,0,0,0,0,0,0,0.120493502418678,0.4138090484517,0.10011102351325,0,0,0,0,0.0487930769673716
 |rna_box=26
 |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=table111:1368-26H1;search_select_hide=table117:1368-26H1
 }}

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FF:1368-26H1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:04, 4 June 2020

CNhs11198

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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