FF:178-9A3: Difference between revisions

Latest revision as of 19:08, 4 June 2020

Name:	intestine, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10496
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	Klotho
tissue	intestine
dev stage	adult
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		SAMD00004890

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10496		CAGE		DRX008989		DRR009863

Accession ID Mm9

Library id		BAM		CTSS
CNhs10496		DRZ001288		DRZ002671

Accession ID Mm10

Library id		BAM		CTSS
CNhs10496		DRZ012638		DRZ014021

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

CNhs10496

0	0
1	0
10	0
100	0
1000	0.0155
1001	-0.0353
1002	-0.0179
1003	-0.113
1004	0
1005	0.192
1006	-0.0408
1007	-0.0218
1008	2.207
1009	-0.19
101	-0.047
1010	0
1011	-0.298
1012	0
1013	0.282
1014	-0.0851
1015	-0.267
1016	-0.495
1017	0
1018	0.494
1019	0
102	0
1020	0
1021	0
1022	-0.0115
1023	0
1024	-0.288
1025	0.313
1026	0
1027	-0.048
1028	0
1029	0.386
103	-0.0659
1030	0
1031	-0.418
1032	0.577
1033	0.00318
1034	0
1035	0
1036	-0.176
1037	0
1038	-0.0125
1039	-0.139
104	0
1040	-0.325
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: CNhs10496

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	3.79891e-4
MA0003.1	MA0003.1	0.176
MA0004.1	MA0004.1	0.938
MA0006.1	MA0006.1	0.0599
MA0007.1	MA0007.1	0.402
MA0009.1	MA0009.1	0.155
MA0014.1	MA0014.1	0.466
MA0017.1	MA0017.1	1.62093e-34
MA0018.2	MA0018.2	0.138
MA0019.1	MA0019.1	0.192
MA0024.1	MA0024.1	0.0501
MA0025.1	MA0025.1	0.648
MA0027.1	MA0027.1	0.418
MA0028.1	MA0028.1	0.37
MA0029.1	MA0029.1	0.621
MA0030.1	MA0030.1	0.704
MA0031.1	MA0031.1	0.807
MA0035.2	MA0035.2	3.75995e-6
MA0038.1	MA0038.1	0.967
MA0039.2	MA0039.2	0.00175
MA0040.1	MA0040.1	0.152
MA0041.1	MA0041.1	0.238
MA0042.1	MA0042.1	0.326
MA0043.1	MA0043.1	0.0166
MA0046.1	MA0046.1	1.66693e-41
MA0047.2	MA0047.2	0.0138
MA0048.1	MA0048.1	0.56
MA0050.1	MA0050.1	1.06481e-6
MA0051.1	MA0051.1	2.43281e-6
MA0052.1	MA0052.1	9.53432e-4
MA0055.1	MA0055.1	0.997
MA0057.1	MA0057.1	0.0541
MA0058.1	MA0058.1	0.733
MA0059.1	MA0059.1	0.982
MA0060.1	MA0060.1	0.101
MA0061.1	MA0061.1	0.512
MA0062.2	MA0062.2	0.102
MA0065.2	MA0065.2	4.49523e-18
MA0066.1	MA0066.1	0.2
MA0067.1	MA0067.1	0.35
MA0068.1	MA0068.1	0.0296
MA0069.1	MA0069.1	0.375
MA0070.1	MA0070.1	0.0191
MA0071.1	MA0071.1	0.146
MA0072.1	MA0072.1	0.539
MA0073.1	MA0073.1	0.922
MA0074.1	MA0074.1	0.104
MA0076.1	MA0076.1	0.758
MA0077.1	MA0077.1	0.878
MA0078.1	MA0078.1	0.932
MA0079.2	MA0079.2	0.372
MA0080.2	MA0080.2	6.00372e-5
MA0081.1	MA0081.1	0.573
MA0083.1	MA0083.1	0.593
MA0084.1	MA0084.1	0.763
MA0087.1	MA0087.1	0.867
MA0088.1	MA0088.1	0.139
MA0090.1	MA0090.1	0.721
MA0091.1	MA0091.1	0.489
MA0092.1	MA0092.1	0.601
MA0093.1	MA0093.1	0.837
MA0099.2	MA0099.2	4.11847e-5
MA0100.1	MA0100.1	0.283
MA0101.1	MA0101.1	0.899
MA0102.2	MA0102.2	0.458
MA0103.1	MA0103.1	6.53781e-6
MA0104.2	MA0104.2	0.29
MA0105.1	MA0105.1	0.374
MA0106.1	MA0106.1	0.617
MA0107.1	MA0107.1	0.96
MA0108.2	MA0108.2	0.466
MA0111.1	MA0111.1	0.887
MA0112.2	MA0112.2	8.26733e-5
MA0113.1	MA0113.1	0.524
MA0114.1	MA0114.1	6.5817e-36
MA0115.1	MA0115.1	1.24654e-19
MA0116.1	MA0116.1	0.253
MA0117.1	MA0117.1	0.761
MA0119.1	MA0119.1	0.0318
MA0122.1	MA0122.1	0.867
MA0124.1	MA0124.1	0.413
MA0125.1	MA0125.1	0.554
MA0131.1	MA0131.1	0.56
MA0135.1	MA0135.1	0.448
MA0136.1	MA0136.1	2.51448e-6
MA0137.2	MA0137.2	0.108
MA0138.2	MA0138.2	0.468
MA0139.1	MA0139.1	0.0605
MA0140.1	MA0140.1	0.0102
MA0141.1	MA0141.1	8.11301e-7
MA0142.1	MA0142.1	0.326
MA0143.1	MA0143.1	0.0879
MA0144.1	MA0144.1	0.0295
MA0145.1	MA0145.1	0.00481
MA0146.1	MA0146.1	0.19
MA0147.1	MA0147.1	0.354
MA0148.1	MA0148.1	0.00282
MA0149.1	MA0149.1	0.00783
MA0150.1	MA0150.1	0.115
MA0152.1	MA0152.1	0.0619
MA0153.1	MA0153.1	1.28782e-41
MA0154.1	MA0154.1	0.0422
MA0155.1	MA0155.1	0.8
MA0156.1	MA0156.1	4.04664e-4
MA0157.1	MA0157.1	0.679
MA0159.1	MA0159.1	6.31063e-4
MA0160.1	MA0160.1	4.08454e-5
MA0162.1	MA0162.1	0.283
MA0163.1	MA0163.1	0.122
MA0164.1	MA0164.1	0.887
MA0258.1	MA0258.1	0.00781
MA0259.1	MA0259.1	0.477

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: CNhs10496

Novel motif	Logo	P-value
1	1	0.137
10	10	0.156
100	100	0.946
101	101	0.895
102	102	0.781
103	103	0.284
104	104	0.77
105	105	0.24
106	106	0.0424
107	107	0.0915
108	108	0.638
109	109	0.0432
11	11	0.193
110	110	0.19
111	111	0.0472
112	112	0.0218
113	113	0.581
114	114	0.0658
115	115	0.558
116	116	0.147
117	117	0.125
118	118	0.554
119	119	0.0675
12	12	0.832
120	120	0.597
121	121	0.518
122	122	0.667
123	123	0.353
124	124	0.267
125	125	0.362
126	126	0.0634
127	127	0.143
128	128	0.12
129	129	0.198
13	13	6.41804e-4
130	130	0.579
131	131	0.694
132	132	0.314
133	133	0.776
134	134	0.92
135	135	0.711
136	136	0.113
137	137	0.927
138	138	0.777
139	139	0.037
14	14	0.703
140	140	0.689
141	141	0.175
142	142	0.846
143	143	0.191
144	144	0.335
145	145	0.0897
146	146	0.211
147	147	0.892
148	148	0.54
149	149	0.681
15	15	0.109
150	150	0.36
151	151	0.487
152	152	0.0694
153	153	0.796
154	154	0.87
155	155	0.565
156	156	0.045
157	157	0.613
158	158	0.672
159	159	0.531
160	160	0.545
161	161	0.515
162	162	0.879
163	163	0.229
164	164	0.174
165	165	0.898
166	166	0.895
167	167	0.88
168	168	0.598
169	169	0.00965
17	17	0.0583
18	18	0.958
19	19	0.162
2	2	0.351
20	20	0.858
21	21	0.917
22	22	0.296
23	23	0.28
24	24	0.65
25	25	0.419
26	26	0.00389
27	27	0.722
28	28	0.489
29	29	0.193
3	3	0.169
30	30	0.364
31	31	0.744
32	32	0.12
33	33	0.151
34	34	0.747
35	35	0.522
36	36	0.606
37	37	0.0472
38	38	0.285
39	39	0.189
4	4	0.44
40	40	0.19
41	41	0.942
42	42	0.448
43	43	0.296
44	44	0.0664
45	45	0.303
46	46	0.25
47	47	0.276
48	48	0.198
49	49	0.229
5	5	0.418
50	50	0.504
51	51	0.618
52	52	0.121
53	53	0.973
54	54	0.529
55	55	0.776
56	56	0.511
57	57	0.886
58	58	0.316
59	59	0.107
6	6	0.512
60	60	0.044
61	61	0.306
62	62	0.233
63	63	0.116
64	64	0.619
65	65	0.187
66	66	0.89
67	67	0.276
68	68	0.151
69	69	0.956
7	7	0.0382
70	70	0.0211
71	71	0.0719
72	72	0.36
73	73	0.0827
74	74	0.991
75	75	0.0641
76	76	0.902
77	77	0.0887
78	78	0.0525
79	79	0.855
8	8	0.191
80	80	0.515
81	81	0.746
82	82	0.133
83	83	0.175
84	84	0.134
85	85	0.0446
86	86	0.158
87	87	0.138
88	88	0.436
89	89	0.4
9	9	0.693
90	90	0.0849
91	91	0.397
92	92	0.225
93	93	0.0878
94	94	0.879
95	95	0.162
96	96	0.867
97	97	0.782
98	98	0.541
99	99	0.0846

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: CNhs10496

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011285 mouse intestine- adult 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)
0007023 (adult organism)
0000160 (intestine)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0005409 (gastrointestinal system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011285 (mouse intestine- adult 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:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
 |DRA_sample_Accession=CAGE@SAMD00004890
-|accession_numbers=CAGE;DRX008989;DRR009863;DRZ001288;DRZ002671
+|accession_numbers=CAGE;DRX008989;DRR009863;DRZ001288;DRZ002671;DRZ012638;DRZ014021
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000160,UBERON:0000479,UBERON:0001007,UBERON:0004119,UBERON:0011216,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0004921,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0010317,UBERON:0001555,UBERON:0005409
 |ancestors_in_cell_lineage_facet=
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr3:3634145..3634161,+!p1@Hnf4g!2.64!432.38!Hnf4g;;chr10:80555320..80555378,-!p1@Creb3l3!2.49!353.31!Creb3l3;;chr5:148118639..148118715,-!p1@Cdx2!2.16!143.07!Cdx2;;chr1:137155026..137155042,-!p1@Elf3!2.01!552.70!Elf3;;chr16:38294860..38294924,-!p1@Nr1i2!1.95!87.80!Nr1i2;;chr10:88969376..88969395,-!p1@Nr1h4!1.91!80.66!Nr1h4;;chr2:163372884..163372904,+!p1@Hnf4a!1.89!77.22!Hnf4a;;chr15:97738692..97738747,-!p1@Vdr!1.85!359.12!Vdr;;chr8:77396591..77396639,+!p1@Isx!1.82!64.79!Isx;;chr2:180069370..180069409,-!p1@Gata5!1.81!74.31!Gata5;;chr2:163332558..163332596,+!p2@Hnf4a!1.76!56.86!Hnf4a;;chr1:173144100..173144138,+!p2@Nr1i3!1.71!50.25!Nr1i3;;chr6:86619104..86619119,-!p1@Mxd1!1.69!373.67!Mxd1;;chr2:103123925..103123959,-!p3@Ehf!1.62!40.73!Ehf;;chr14:63864056..63864102,-!p1@Gata4!1.54!57.12!Gata4;;chr14:99697871..99697934,+!p1@Klf5!1.50!581.79!Klf5;;chr3:3508024..3508069,+!p2@Hnf4g!1.49!29.88!Hnf4g;;chr5:135582751..135582788,+!p1@Mlxipl!1.47!110.80!Mlxipl;;chr7:148452314..148452329,-!p1@Irf7!1.45!182.21!Irf7;;chr18:64499674..64499696,+!p1@Onecut2!1.45!46.01!Onecut2;;chr19:5560600..5560617,-!p1@Ovol1!1.45!33.06!Ovol1;;chr6:64679112..64679126,+!p1@Atoh1!1.44!26.71!Atoh1;;chr10:80555398..80555409,-!p2@Creb3l3!1.44!26.45!Creb3l3;;chr2:173044380..173044432,-!p1@Zbp1!1.41!57.91!Zbp1;;chr4:133109285..133109308,+!p1@Nr0b2!1.40!24.33!Nr0b2;;chr8:77397095..77397127,+!p2@Isx!1.38!23.01!Isx;;chr5:148118840..148118857,-!p2@Cdx2!1.33!20.63!Cdx2;;chr19:53384910..53384937,+!p3@Mxi1!1.31!53.95!Mxi1;;chr18:61195843..61195864,-!p2@Cdx1!1.30!19.04!Cdx1;;chr17:27865882..27865901,-!p1@Spdef!1.30!18.78!Spdef;;chr18:61195865..61195880,-!p1@Cdx1!1.28!18.25!Cdx1;;chr8:77397492..77397514,+!p3@Isx!1.28!17.98!Isx;;chr8:77396650..77396662,+!p4@Isx!1.27!17.72!Isx;;chr18:64499706..64499721,+!p2@Onecut2!1.26!24.33!Onecut2;;chr18:11052485..11052508,+!p2@Gata6!1.24!45.22!Gata6;;chr14:63890545..63890560,-!p5@Gata4!1.22!15.60!Gata4;;chr8:77397190..77397202,+!p5@Isx!1.22!15.60!Isx;;chr2:163372869..163372882,+!p3@Hnf4a!1.21!15.34!Hnf4a;;chr1:173144144..173144176,+!p1@Nr1i3!1.21!15.34!Nr1i3;;chr11:60023912..60023930,-!p1@Srebf1!1.18!341.67!Srebf1;;chr14:63890519..63890539,-!p3@Gata4!1.18!14.02!Gata4;;chr5:115421065..115421088,-!p1@Hnf1a!1.18!14.02!Hnf1a;;chr5:148118792..148118806,-!p3@Cdx2!1.16!13.49!Cdx2;;chr10:127095407..127095440,+!p3@Stat6!1.12!15.07!Stat6;;chr1:165219345..165219366,-!p7@Prrx1!1.10!11.64!Prrx1;;chr2:166888058..166888105,-!p2@Znfx1!1.07!34.91!Znfx1;;chr2:173044357..173044377,-!p2@Zbp1!1.07!15.60!Zbp1;;chr3:30039329..30039355,-!p5@Mecom!1.06!10.58!Mecom;;chr19:55816546..55816556,+!p3@Tcf7l2!1.05!39.40!Tcf7l2;;chr4:148178559..148178603,+!p1@Casz1!1.04!29.09!Casz1;;chr19:43686789..43686811,+!p1@Nkx2-3!1.03!9.78!Nkx2-3;;chr5:120121446..120121461,+!p2@Tbx3!1.02!31.47!Tbx3;;chr2:180069410..180069421,-!p3@Gata5!1.02!9.52!Gata5;;chr11:57645506..57645523,-!p1@Hand1!1.01!9.26!Hand1;;chr3:94176733..94176794,+!p1@Rorc!1.00!71.93!Rorc;;chr1:194979315..194979359,+!p1@Irf6!1.00!55.80!Irf6;;chr2:103143336..103143367,-!p1@Ehf!1.00!14.81!Ehf;;chr1:138857048..138857071,-!p2@Nr5a2!0.99!8.73!Nr5a2;;chr14:63890491..63890516,-!p2@Gata4!0.99!8.73!Gata4;;chr19:5560570..5560582,-!p2@Ovol1!0.99!8.73!Ovol1;;chr5:144951153..144951203,+!p1@Bhlha15!0.98!12.69!Bhlha15;;chr11:53583544..53583559,+!p1@Irf1!0.97!142.54!Irf1;;chr6:39068163..39068176,-!p2@Parp12!0.97!15.87!Parp12;;chr5:120121020..120121049,+!p1@Tbx3!0.96!51.57!Tbx3;;chr3:89197057..89197114,-!p1@Zbtb7b!0.96!28.03!Zbtb7b;;chr7:19608891..19608895,-!p1@Foxa3!0.96!10.58!Foxa3;;chr3:3508005..3508021,+!p3@Hnf4g!0.96!8.20!Hnf4g;;chr14:76887526..76887555,+!p10@Tsc22d1!0.96!8.20!Tsc22d1;;chr5:148118809..148118832,-!p5@Cdx2!0.95!7.93!Cdx2;;chr6:39068181..39068206,-!p3@Parp12!0.94!16.13!Parp12;;chr15:35225845..35225867,+!p1@Osr2!0.93!19.30!Osr2;;chr5:120121169..120121171,+!p4@Tbx3!0.93!13.75!Tbx3;;chr1:194979361..194979373,+!p2@Irf6!0.93!10.31!Irf6;;chr10:20880629..20880683,-!p1@Myb!0.92!21.68!Myb;;chr10:22539932..22539956,-!p1@Tcf21!0.92!20.10!Tcf21;;chr2:180069640..180069660,-!p4@Gata5!0.92!7.40!Gata5;;chr2:79296783..79296801,-!p1@Neurod1!0.92!7.40!Neurod1;;chr4:148178529..148178548,+!p3@Casz1!0.91!17.45!Casz1;;chr10:61595830..61595846,+!p1@Neurog3!0.91!7.14!Neurog3;;chr2:180069423..180069434,-!p2@Gata5!0.91!7.14!Gata5;;chr8:123260252..123260264,+!p1@Irf8!0.90!50.77!Irf8;;chr7:20408047..20408125,-!p1@Bcl3!0.89!80.92!Bcl3;;chr18:11052456..11052477,+!p3@Gata6!0.89!21.68!Gata6;;chr2:91035197..91035237,-!p1@Nr1h3!0.88!14.02!Nr1h3;;chr4:87452180..87452196,-!p3@Mllt3!0.88!13.49!Mllt3;;chr10:80555299..80555306,-!p3@Creb3l3!0.88!6.61!Creb3l3;;chr15:85566051..85566080,+!p4@Ppara!0.87!7.67!Ppara;;chr9:51021788..51021802,+!p1@Pou2af1!0.87!7.67!Pou2af1;;chr6:99216375..99216395,-!p5@Foxp1!0.87!6.35!Foxp1;;chr2:160192793..160192809,-!p1@Mafb!0.86!99.17!Mafb;;chr4:124805061..124805087,-!p1@Zc3h12a!0.86!20.10!Zc3h12a;;chr13:30841099..30841116,+!p1@Irf4!0.86!10.05!Irf4;;chr18:11052642..11052659,+!p1@Gata6!0.85!32.79!Gata6;;chr1:133904946..133904974,+!p7@Elk4!0.84!9.26!Elk4;;chr13:30076280..30076334,-!p3@E2f3!0.83!17.98!E2f3;;chr11:98614335..98614349,+!p8@Thra!0.83!5.82!Thra;;chr11:5420655..5420659,+!p3@Xbp1!0.82!5.55!Xbp1;;chr3:128918394..128918413,+!p5@Pitx2!0.82!5.55!Pitx2;;chr8:124806048..124806094,+!p1@Zfpm1!0.80!52.36!Zfpm1;;chr18:11052606..11052633,+!p4@Gata6!0.80!14.28!Gata6;;chr6:37391910..37391928,-!p3@Creb3l2!0.80!6.08!Creb3l2;;chr10:80555285..80555291,-!p4@Creb3l3!0.80!5.29!Creb3l3;;chr19:53384985..53385042,+!p1@Mxi1!0.79!174.01!Mxi1;;chr8:79426176..79426275,+!p1@Nr3c2!0.79!27.77!Nr3c2;;chr8:123608252..123608268,+!p1@Foxf1a!0.79!7.93!Foxf1a;;chr6:52664406..52664434,+!p3@Tax1bp1!0.78!6.08!Tax1bp1;;chr5:115421126..115421137,-!p4@Hnf1a!0.78!5.02!Hnf1a;;chr5:148081686..148081715,+!p1@Pdx1!0.78!5.02!Pdx1;;chr8:77397169..77397182,+!p7@Isx!0.78!5.02!Isx;;chr8:77397026..77397036,+!p6@Isx!0.78!5.02!Isx;;chr13:44825008..44825066,+!p5@Jarid2!0.77!10.05!Jarid2;;chr13:31717548..31717596,+!p1@Foxf2!0.76!10.05!Foxf2;;chr2:91035254..91035271,-!p3@Nr1h3!0.76!6.08!Nr1h3;;chr4:148178459..148178482,+!p4@Casz1!0.76!4.76!Casz1;;chr11:70500401..70500460,-!p3@Camta2!0.76!4.76!Camta2;;chr5:115420882..115420896,-!p3@Hnf1a!0.76!4.76!Hnf1a;;chr1:138857076..138857105,-!p1@Nr5a2!0.76!4.76!Nr5a2;;chr15:85565338..85565355,+!p7@Ppara!0.76!4.76!Ppara;;chr2:75542527..75542590,-!p1@Nfe2l2!0.75!456.97!Nfe2l2;;chr19:6996243..6996293,-!p1@Esrra!0.74!55.53!Esrra;;chr13:37918684..37918701,+!p12@Rreb1!0.74!5.55!Rreb1;;chr2:24278519..24278530,-!p3@Pax8!0.74!4.50!Pax8;;chr16:55822241..55822258,-!p1@Nfkbiz!0.73!150.74!Nfkbiz;;chr10:80600749..80600766,+!p2@Zbtb7a!0.73!25.39!Zbtb7a;;chr12:58646974..58647003,-!p1@Foxa1!0.73!6.08!Foxa1;;chr17:27693788..27693803,+!p3@Hmga1,p4@Hmga1-rs1!0.72!21.16!Hmga1;;chr8:59799772..59799789,+!p1@Hand2!0.72!13.49!Hand2;;chr4:154010918..154010931,-!p1@Prdm16!0.72!13.49!Prdm16;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!0.72!8.99!Hmga1;;chr17:28409136..28409150,+!p3@Ppard!0.72!4.23!Ppard;;chr2:75543089..75543122,-!p3@Nfe2l2!0.72!4.23!Nfe2l2;;chr12:86814833..86814846,+!p1@Fos!0.71!109.22!Fos;;chr1:39250584..39250643,+!p1@Npas2!0.70!22.74!Npas2;;chr11:98822047..98822072,+!p9@Rara!0.70!3.97!Rara;;chr10:79884592..79884621,-!p5@Tcf3!0.70!3.97!Tcf3;;chr6:99216360..99216372,-!p8@Foxp1!0.70!3.97!Foxp1;;chr4:87452200..87452229,-!p2@Mllt3!0.69!8.99!Mllt3;;chr11:98636531..98636559,-!p1@Nr1d1!0.68!24.33!Nr1d1;;chr10:20880698..20880717,-!p3@Myb!0.68!6.35!Myb;;chr5:120120981..120120992,+!p5@Tbx3!0.68!5.29!Tbx3;;chr11:100948597..100948637,+!p1@Mlx!0.67!101.28!Mlx;;chr15:85566014..85566045,+!p3@Ppara!0.67!5.29!Ppara;;chr3:90046995..90047031,-!p2@Creb3l4!0.67!4.76!Creb3l4;;chr3:128918433..128918448,+!p8@Pitx2!0.67!3.70!Pitx2;;chr11:83664365..83664383,+!p1@Hnf1b!0.67!3.70!Hnf1b;;chr5:148118614..148118625,-!p4@Cdx2!0.67!3.70!Cdx2;;chr9:31720903..31720918,-!p2@Barx2!0.67!3.70!Barx2;;chr4:135728581..135728668,+!p1@E2f2!0.66!19.30!E2f2;;chr14:79915425..79915501,+!p1@Elf1!0.65!35.44!Elf1;;chr12:78063146..78063159,-!p2@Max!0.65!10.05!Max;;chr17:27693706..27693724,+!p4@Hmga1,p5@Hmga1-rs1!0.65!9.52!Hmga1;;chr17:32506357..32506377,-!p3@Wiz!0.65!7.93!Wiz;;chr15:85566184..85566238,+!p1@Ppara!0.65!5.55!Ppara;;chr15:35225873..35225889,+!p2@Osr2!0.65!3.44!Osr2;;chr5:32438831..32438878,+!p1@Fosl2!0.64!40.99!Fosl2;;chr10:127707602..127707633,+!p1@Stat2!0.64!34.64!Stat2;;chr4:148275237..148275311,+!p2@Casz1!0.64!16.13!Casz1;;chr9:31720843..31720888,-!p1@Barx2!0.63!3.70!Barx2;;chr5:77524250..77524300,-!p1@Hopx!0.62!76.69!Hopx;;chr1:52176315..52176343,+!p1@Stat1!0.62!54.21!Stat1;;chr11:60036258..60036276,-!p3@Srebf1!0.62!6.08!Srebf1;;chr14:99698164..99698208,+!p2@Klf5!0.62!3.70!Klf5;;chr6:52664439..52664461,+!p4@Tax1bp1!0.62!3.17!Tax1bp1;;chr3:128916868..128916890,+!p1@Pitx2!0.61!4.50!Pitx2;;chr5:65194752..65194769,+!p1@Klf3!0.60!120.33!Klf3;;chr6:39068210..39068251,-!p1@Parp12!0.60!16.13!Parp12;;chr3:89197551..89197606,-!p2@Zbtb7b!0.60!11.90!Zbtb7b;;chr17:87153519..87153533,+!p5@Epas1!0.60!4.76!Epas1;;chr12:109242266..109242295,-!p1@Bcl11b!0.59!29.09!Bcl11b;;chr2:103143315..103143328,-!p2@Ehf!0.59!2.91!Ehf;;chr5:76733981..76734018,-!p3@Clock!0.58!6.88!Clock;;chr3:89197216..89197258,-!p3@Zbtb7b!0.58!6.61!Zbtb7b;;chr14:18493386..18493464,+!p1@Thrb!0.57!12.43!Thrb;;chr11:53583960..53584007,+!p2@Irf1!0.57!6.61!Irf1;;chr4:55545337..55545357,-!p1@Klf4!0.56!48.92!Klf4;;chr19:10315179..10315241,-!p1@Gm98!0.56!34.11!Gm98;;chr1:57029281..57029326,-!p1@Satb2!0.56!4.50!Satb2;;chr17:87153505..87153516,+!p6@Epas1!0.56!3.97!Epas1;;chr1:194979383..194979393,+!p3@Irf6!0.56!2.64!Irf6;;chr4:151533683..151533698,+!p1@Hes2!0.56!2.64!Hes2;;chr5:148081667..148081678,+!p3@Pdx1!0.56!2.64!Pdx1;;chr10:107769168..107769215,+!p1@Pawr!0.55!32.26!Pawr;;chr8:118231678..118231692,-!p2@Maf!0.55!28.83!Maf;;chr11:53164533..53164548,+!p4@Aff4!0.55!8.73!Aff4;;chr11:53164556..53164567,+!p5@Aff4!0.55!4.50!Aff4;;chr7:134519473..134519502,-!p3@Zfp747!0.55!3.70!Zfp747;;chr13:37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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs10496
-|library_id_phase_based=1:CNhs10496
+|library_id_phase_based=2:CNhs10496
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;178
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;178
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520adult.CNhs10496.178-9A3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520adult.CNhs10496.178-9A3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520adult.CNhs10496.178-9A3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520adult.CNhs10496.178-9A3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520adult.CNhs10496.178-9A3.mm9.nobarcode.rdna.fa.gz
 |name=intestine, adult
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10496,LSID648,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.0651591543706085,0,0,0,0,0.00972191908907155,-0.151192450153425,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0,0,0,0,0,0,0,0,0.16017928474099,0,0.253665468807546,0,0,0,-0.0315390633957296,-0.0751399076592512,0.0238846391579683,-0.984211366477826,-0.0854892354225779,0,0,0,0,0,0,0,0,0,0,0.101901855392646,0,-0.0660055475634404,0,0,0,0,0.184379402587773,0,-0.0143441401823985,0,0,0,-0.151036076900384,-0.310650657339386,-0.158091042771083,-0.0736040111341955,0,-0.0780086007519514,-0.101136862614239,-0.16424917800427,0,0,-0.0285074383264573,-0.0560054959913321,0.122687196324452,-0.0788315948399074,0,0,0,0,0,0.253665468807546,0.117867249029114,0.170132479336145,0.0137315528018426,0,0,0.101901855392646,0,0
@@ Line 88: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:178-9A3;search_select_hide=table117:178-9A3
 }}

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FF:178-9A3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:08, 4 June 2020

CNhs10496

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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