FF:1384-42G1: Difference between revisions

Latest revision as of 19:05, 4 June 2020

Name:	intestine, neonate N30
Species:	Mouse (Mus musculus)
Library ID:	CNhs11131
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	intestine
dev stage	30 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		SAMD00005553

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11131		CAGE		DRX009003		DRR009877

Accession ID Mm9

Library id		BAM		CTSS
CNhs11131		DRZ001302		DRZ002685

Accession ID Mm10

Library id		BAM		CTSS
CNhs11131		DRZ012652		DRZ014035

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

CNhs11131

0	0
1	0
10	0
100	0
1000	0.0768
1001	0.0611
1002	0.0554
1003	-0.0124
1004	0
1005	0.244
1006	0
1007	-0.0139
1008	2.192
1009	-0.00526
101	-0.127
1010	0
1011	-0.0943
1012	0
1013	0.27
1014	-0.0874
1015	-0.381
1016	-0.183
1017	0
1018	0.578
1019	0
102	0
1020	0
1021	0
1022	0.189
1023	0
1024	-0.011
1025	0.661
1026	0
1027	-0.0105
1028	0
1029	0.521
103	0
1030	0
1031	-0.231
1032	0.694
1033	0.0398
1034	0.146
1035	0.146
1036	-0.129
1037	0
1038	0.058
1039	0.0603
104	0.321
1040	-0.0982
1041	0.146

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: CNhs11131

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0259
MA0003.1	MA0003.1	0.236
MA0004.1	MA0004.1	0.558
MA0006.1	MA0006.1	0.0385
MA0007.1	MA0007.1	0.524
MA0009.1	MA0009.1	0.234
MA0014.1	MA0014.1	0.364
MA0017.1	MA0017.1	3.7894e-24
MA0018.2	MA0018.2	0.0162
MA0019.1	MA0019.1	0.344
MA0024.1	MA0024.1	0.0068
MA0025.1	MA0025.1	0.574
MA0027.1	MA0027.1	0.615
MA0028.1	MA0028.1	0.577
MA0029.1	MA0029.1	0.988
MA0030.1	MA0030.1	0.248
MA0031.1	MA0031.1	0.0774
MA0035.2	MA0035.2	1.03811e-5
MA0038.1	MA0038.1	0.645
MA0039.2	MA0039.2	2.00468e-4
MA0040.1	MA0040.1	0.0224
MA0041.1	MA0041.1	0.35
MA0042.1	MA0042.1	0.93
MA0043.1	MA0043.1	0.079
MA0046.1	MA0046.1	1.36682e-45
MA0047.2	MA0047.2	6.6959e-5
MA0048.1	MA0048.1	0.697
MA0050.1	MA0050.1	3.23669e-6
MA0051.1	MA0051.1	2.21811e-5
MA0052.1	MA0052.1	9.82261e-5
MA0055.1	MA0055.1	0.212
MA0057.1	MA0057.1	0.131
MA0058.1	MA0058.1	0.389
MA0059.1	MA0059.1	0.653
MA0060.1	MA0060.1	0.0105
MA0061.1	MA0061.1	0.602
MA0062.2	MA0062.2	0.729
MA0065.2	MA0065.2	1.41528e-13
MA0066.1	MA0066.1	0.396
MA0067.1	MA0067.1	0.229
MA0068.1	MA0068.1	0.274
MA0069.1	MA0069.1	0.275
MA0070.1	MA0070.1	0.15
MA0071.1	MA0071.1	0.181
MA0072.1	MA0072.1	0.907
MA0073.1	MA0073.1	0.794
MA0074.1	MA0074.1	0.175
MA0076.1	MA0076.1	0.298
MA0077.1	MA0077.1	0.442
MA0078.1	MA0078.1	0.438
MA0079.2	MA0079.2	0.679
MA0080.2	MA0080.2	2.46621e-4
MA0081.1	MA0081.1	0.373
MA0083.1	MA0083.1	0.952
MA0084.1	MA0084.1	0.408
MA0087.1	MA0087.1	0.914
MA0088.1	MA0088.1	0.666
MA0090.1	MA0090.1	0.86
MA0091.1	MA0091.1	0.834
MA0092.1	MA0092.1	0.382
MA0093.1	MA0093.1	0.533
MA0099.2	MA0099.2	0.00145
MA0100.1	MA0100.1	0.0858
MA0101.1	MA0101.1	0.874
MA0102.2	MA0102.2	0.367
MA0103.1	MA0103.1	5.90173e-6
MA0104.2	MA0104.2	0.0585
MA0105.1	MA0105.1	0.459
MA0106.1	MA0106.1	0.312
MA0107.1	MA0107.1	0.758
MA0108.2	MA0108.2	0.147
MA0111.1	MA0111.1	0.956
MA0112.2	MA0112.2	3.69009e-5
MA0113.1	MA0113.1	0.543
MA0114.1	MA0114.1	4.60054e-30
MA0115.1	MA0115.1	3.86876e-11
MA0116.1	MA0116.1	0.532
MA0117.1	MA0117.1	0.979
MA0119.1	MA0119.1	0.0135
MA0122.1	MA0122.1	0.693
MA0124.1	MA0124.1	0.363
MA0125.1	MA0125.1	0.313
MA0131.1	MA0131.1	0.384
MA0135.1	MA0135.1	0.811
MA0136.1	MA0136.1	6.46362e-4
MA0137.2	MA0137.2	0.995
MA0138.2	MA0138.2	0.33
MA0139.1	MA0139.1	0.0284
MA0140.1	MA0140.1	0.0412
MA0141.1	MA0141.1	3.12728e-5
MA0142.1	MA0142.1	0.148
MA0143.1	MA0143.1	0.0856
MA0144.1	MA0144.1	0.127
MA0145.1	MA0145.1	0.00191
MA0146.1	MA0146.1	0.272
MA0147.1	MA0147.1	0.102
MA0148.1	MA0148.1	9.83186e-7
MA0149.1	MA0149.1	0.0194
MA0150.1	MA0150.1	0.48
MA0152.1	MA0152.1	0.181
MA0153.1	MA0153.1	1.00364e-35
MA0154.1	MA0154.1	0.0468
MA0155.1	MA0155.1	0.525
MA0156.1	MA0156.1	0.0147
MA0157.1	MA0157.1	0.435
MA0159.1	MA0159.1	0.00834
MA0160.1	MA0160.1	0.00863
MA0162.1	MA0162.1	0.367
MA0163.1	MA0163.1	0.168
MA0164.1	MA0164.1	0.914
MA0258.1	MA0258.1	0.0163
MA0259.1	MA0259.1	0.194

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: CNhs11131

Novel motif	Logo	P-value
1	1	0.219
10	10	0.283
100	100	0.757
101	101	0.834
102	102	0.674
103	103	0.232
104	104	0.713
105	105	0.42
106	106	0.00877
107	107	0.0365
108	108	0.887
109	109	0.0586
11	11	0.193
110	110	0.331
111	111	0.201
112	112	0.0329
113	113	0.767
114	114	0.0701
115	115	0.681
116	116	0.444
117	117	0.481
118	118	0.529
119	119	0.109
12	12	0.789
120	120	0.743
121	121	0.994
122	122	0.599
123	123	0.224
124	124	0.844
125	125	0.679
126	126	0.0794
127	127	0.565
128	128	0.0477
129	129	0.309
13	13	0.00118
130	130	0.712
131	131	0.0264
132	132	0.602
133	133	0.526
134	134	0.654
135	135	0.454
136	136	0.118
137	137	0.476
138	138	0.471
139	139	0.0702
14	14	0.546
140	140	0.368
141	141	0.17
142	142	0.597
143	143	0.15
144	144	0.414
145	145	0.149
146	146	0.205
147	147	0.163
148	148	0.138
149	149	0.791
15	15	0.188
150	150	0.292
151	151	0.37
152	152	0.0353
153	153	0.911
154	154	0.5
155	155	0.413
156	156	0.126
157	157	0.755
158	158	0.757
159	159	0.625
160	160	0.262
161	161	0.482
162	162	0.867
163	163	0.247
164	164	0.1
165	165	0.282
166	166	0.987
167	167	0.949
168	168	0.806
169	169	0.00718
17	17	0.0739
18	18	0.183
19	19	0.0481
2	2	0.2
20	20	0.69
21	21	0.888
22	22	0.345
23	23	0.262
24	24	0.845
25	25	0.759
26	26	0.00875
27	27	0.544
28	28	0.488
29	29	0.345
3	3	0.251
30	30	0.32
31	31	0.649
32	32	0.0358
33	33	0.171
34	34	0.814
35	35	0.743
36	36	0.968
37	37	0.0245
38	38	0.321
39	39	0.206
4	4	0.463
40	40	0.306
41	41	0.678
42	42	0.603
43	43	0.273
44	44	0.449
45	45	0.275
46	46	0.27
47	47	0.469
48	48	0.356
49	49	0.175
5	5	0.589
50	50	0.572
51	51	0.603
52	52	0.0547
53	53	0.967
54	54	0.548
55	55	0.663
56	56	0.364
57	57	0.974
58	58	0.263
59	59	0.182
6	6	0.599
60	60	0.0311
61	61	0.235
62	62	0.304
63	63	0.17
64	64	0.769
65	65	0.154
66	66	0.485
67	67	0.0762
68	68	0.236
69	69	0.657
7	7	0.0842
70	70	0.0613
71	71	0.152
72	72	0.509
73	73	0.0859
74	74	0.914
75	75	0.142
76	76	0.715
77	77	0.104
78	78	0.0374
79	79	0.801
8	8	0.281
80	80	0.704
81	81	0.602
82	82	0.108
83	83	0.139
84	84	0.457
85	85	0.0336
86	86	0.145
87	87	0.294
88	88	0.832
89	89	0.265
9	9	0.709
90	90	0.21
91	91	0.244
92	92	0.485
93	93	0.651
94	94	0.5
95	95	0.105
96	96	0.985
97	97	0.321
98	98	0.705
99	99	0.0765

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: CNhs11131

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011481 mouse intestine- neonate N30 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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000310 (mouse neonate N30 sample)
0011481 (mouse intestine- neonate N30 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)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008866
+|DRA_sample_Accession=CAGE@SAMD00005553
-|accession_numbers=CAGE;DRX009003;DRR009877;DRZ001302;DRZ002685
+|accession_numbers=CAGE;DRX009003;DRR009877;DRZ001302;DRZ002685;DRZ012652;DRZ014035
 |ancestors_in_anatomy_facet=UBERON:0000468,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!2.78!597.42!Hnf4g;;chr10:80555320..80555378,-!p1@Creb3l3!2.23!194.56!Creb3l3;;chr5:148118639..148118715,-!p1@Cdx2!2.20!159.31!Cdx2;;chr16:38294860..38294924,-!p1@Nr1i2!2.00!99.37!Nr1i2;;chr10:88969376..88969395,-!p1@Nr1h4!2.00!98.18!Nr1h4;;chr2:163372884..163372904,+!p1@Hnf4a!1.93!84.44!Hnf4a;;chr1:137155026..137155042,-!p1@Elf3!1.91!446.08!Elf3;;chr15:97738692..97738747,-!p1@Vdr!1.89!393.70!Vdr;;chr2:163332558..163332596,+!p2@Hnf4a!1.81!63.33!Hnf4a;;chr3:3508024..3508069,+!p2@Hnf4g!1.74!54.37!Hnf4g;;chr6:86619104..86619119,-!p1@Mxd1!1.69!374.39!Mxd1;;chr8:77396591..77396639,+!p1@Isx!1.69!48.39!Isx;;chr18:61195843..61195864,-!p2@Cdx1!1.66!44.21!Cdx1;;chr1:173144100..173144138,+!p2@Nr1i3!1.64!42.82!Nr1i3;;chr2:103143336..103143367,-!p1@Ehf!1.58!58.95!Ehf;;chr18:61195865..61195880,-!p1@Cdx1!1.58!37.04!Cdx1;;chr5:135582751..135582788,+!p1@Mlxipl!1.57!140.79!Mlxipl;;chr6:64679112..64679126,+!p1@Atoh1!1.56!35.05!Atoh1;;chr17:27865882..27865901,-!p1@Spdef!1.53!32.66!Spdef;;chr2:180069370..180069409,-!p1@Gata5!1.51!36.24!Gata5;;chr2:103123925..103123959,-!p3@Ehf!1.49!29.87!Ehf;;chr14:63864056..63864102,-!p1@Gata4!1.47!48.99!Gata4;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!1.44!26.68!Ppard;;chr8:77397095..77397127,+!p2@Isx!1.41!24.69!Isx;;chr14:99697871..99697934,+!p1@Klf5!1.37!424.97!Klf5;;chr1:173144144..173144176,+!p1@Nr1i3!1.36!21.71!Nr1i3;;chr19:5560600..5560617,-!p1@Ovol1!1.35!25.89!Ovol1;;chr8:77397190..77397202,+!p5@Isx!1.30!19.12!Isx;;chr8:79426176..79426275,+!p1@Nr3c2!1.29!90.01!Nr3c2;;chr4:55545337..55545357,-!p1@Klf4!1.27!254.10!Klf4;;chr18:64499706..64499721,+!p2@Onecut2!1.27!24.69!Onecut2;;chr1:120524520..120524528,+!p1@Tfcp2l1!1.25!47.99!Tfcp2l1;;chr5:115421065..115421088,-!p1@Hnf1a!1.24!16.33!Hnf1a;;chr10:22539932..22539956,-!p1@Tcf21!1.23!42.22!Tcf21;;chr7:19608891..19608895,-!p1@Foxa3!1.21!19.71!Foxa3;;chr5:148118840..148118857,-!p2@Cdx2!1.20!14.94!Cdx2;;chr3:3508005..3508021,+!p3@Hnf4g!1.20!14.94!Hnf4g;;chr18:64499674..64499696,+!p1@Onecut2!1.19!25.09!Onecut2;;chr3:90046995..90047031,-!p2@Creb3l4!1.16!16.73!Creb3l4;;chr17:28409136..28409150,+!p3@Ppard!1.16!13.54!Ppard;;chr8:77397492..77397514,+!p3@Isx!1.16!13.54!Isx;;chr2:103143315..103143328,-!p2@Ehf!1.16!13.34!Ehf;;chr8:77396650..77396662,+!p4@Isx!1.13!12.35!Isx;;chr4:148178559..148178603,+!p1@Casz1!1.11!34.05!Casz1;;chr8:123608252..123608268,+!p1@Foxf1a!1.10!17.13!Foxf1a;;chr7:148452314..148452329,-!p1@Irf7!1.09!79.06!Irf7;;chr1:194979315..194979359,+!p1@Irf6!1.08!66.91!Irf6;;chr1:39250584..39250643,+!p1@Npas2!1.08!56.16!Npas2;;chr15:35225845..35225867,+!p1@Osr2!1.08!27.88!Osr2;;chr10:80555398..80555409,-!p2@Creb3l3!1.08!11.15!Creb3l3;;chr5:148118792..148118806,-!p3@Cdx2!1.08!10.95!Cdx2;;chr19:43686789..43686811,+!p1@Nkx2-3!1.07!10.75!Nkx2-3;;chr3:89197057..89197114,-!p1@Zbtb7b!1.05!35.25!Zbtb7b;;chr4:133109285..133109308,+!p1@Nr0b2!1.05!10.16!Nr0b2;;chr1:165219345..165219366,-!p7@Prrx1!1.05!10.16!Prrx1;;chr11:96055613..96055628,+!p1@Hoxb13!1.05!10.16!Hoxb13;;chr8:118231678..118231692,-!p2@Maf!1.04!92.00!Maf;;chr12:78063146..78063159,-!p2@Max!1.04!26.09!Max;;chr1:138857048..138857071,-!p2@Nr5a2!1.02!9.56!Nr5a2;;chr6:39068163..39068176,-!p2@Parp12!1.01!17.72!Parp12;;chr2:164228702..164228719,+!p1@Rbpjl!1.01!9.16!Rbpjl;;chr5:148081686..148081715,+!p1@Pdx1!0.99!8.76!Pdx1;;chr3:94176733..94176794,+!p1@Rorc!0.98!67.91!Rorc;;chr5:120121020..120121049,+!p1@Tbx3!0.97!52.37!Tbx3;;chr18:11052485..11052508,+!p2@Gata6!0.97!24.30!Gata6;;chr13:31650185..31650201,+!p1@Foxq1!0.96!28.88!Foxq1;;chr1:57029281..57029326,-!p1@Satb2!0.96!12.94!Satb2;;chr1:194979361..194979373,+!p2@Irf6!0.96!10.95!Irf6;;chr10:20880629..20880683,-!p1@Myb!0.94!22.90!Myb;;chr10:127095407..127095440,+!p3@Stat6!0.94!9.56!Stat6;;chr10:30375579..30375616,-!p3@Ncoa7!0.93!18.32!Ncoa7;;chr15:85566051..85566080,+!p4@Ppara!0.93!8.76!Ppara;;chr11:98614335..98614349,+!p8@Thra!0.93!7.57!Thra;;chr19:6996243..6996293,-!p1@Esrra!0.92!83.64!Esrra;;chr5:148081722..148081744,+!p2@Pdx1!0.91!7.17!Pdx1;;chr2:163372869..163372882,+!p3@Hnf4a!0.90!6.97!Hnf4a;;chr5:120121446..120121461,+!p2@Tbx3!0.89!23.50!Tbx3;;chr13:31717548..31717596,+!p1@Foxf2!0.89!13.74!Foxf2;;chr12:58646974..58647003,-!p1@Foxa1!0.89!9.16!Foxa1;;chr8:118231705..118231722,-!p3@Maf!0.88!55.36!Maf;;chr11:53583544..53583559,+!p1@Irf1!0.87!114.51!Irf1;;chr11:70500401..70500460,-!p3@Camta2!0.87!6.37!Camta2;;chr10:88996295..88996335,-!p3@Nr1h4!0.86!7.57!Nr1h4;;chr11:83664365..83664383,+!p1@Hnf1b!0.86!6.17!Hnf1b;;chr10:80555299..80555306,-!p3@Creb3l3!0.86!6.17!Creb3l3;;chr7:20213752..20213778,-!p2@Relb!0.86!6.17!Relb;;chr3:30039329..30039355,-!p5@Mecom!0.86!6.17!Mecom;;chr18:11052642..11052659,+!p1@Gata6!0.85!32.46!Gata6;;chr8:59799772..59799789,+!p1@Hand2!0.85!18.52!Hand2;;chr17:87153519..87153533,+!p5@Epas1!0.84!8.96!Epas1;;chr5:144951153..144951203,+!p1@Bhlha15!0.84!8.76!Bhlha15;;chr2:79296783..79296801,-!p1@Neurod1!0.84!5.97!Neurod1;;chr11:53583960..53584007,+!p2@Irf1!0.83!13.14!Irf1;;chr14:63890519..63890539,-!p3@Gata4!0.83!5.78!Gata4;;chr2:180069640..180069660,-!p4@Gata5!0.83!5.78!Gata5;;chr2:166888058..166888105,-!p2@Znfx1!0.82!19.12!Znfx1;;chr18:36441119..36441158,+!p2@Pura!0.82!14.34!Pura;;chr5:148118614..148118625,-!p4@Cdx2!0.82!5.58!Cdx2;;chr14:63890545..63890560,-!p5@Gata4!0.82!5.58!Gata4;;chr4:87452200..87452229,-!p2@Mllt3!0.81!12.35!Mllt3;;chr4:87452180..87452196,-!p3@Mllt3!0.81!11.15!Mllt3;;chr2:75543089..75543122,-!p3@Nfe2l2!0.80!5.38!Nfe2l2;;chr6:52190467..52190500,-!p1@Hoxa10!0.80!5.38!Hoxa10;;chr19:5560570..5560582,-!p2@Ovol1!0.80!5.38!Ovol1;;chr6:52168685..52168715,-!p9@Hoxa7!0.79!5.18!Hoxa7;;chr2:173044380..173044432,-!p1@Zbp1!0.78!12.75!Zbp1;;chr11:98822047..98822072,+!p9@Rara!0.78!4.98!Rara;;chr11:96055681..96055693,+!p2@Hoxb13!0.78!4.98!Hoxb13;;chr4:148178459..148178482,+!p4@Casz1!0.78!4.98!Casz1;;chr8:123260252..123260264,+!p1@Irf8!0.77!37.84!Irf8;;chr4:148178529..148178548,+!p3@Casz1!0.77!12.35!Casz1;;chr5:76733981..76734018,-!p3@Clock!0.77!11.15!Clock;;chr11:98636531..98636559,-!p1@Nr1d1!0.76!29.47!Nr1d1;;chr4:124805061..124805087,-!p1@Zc3h12a!0.76!15.73!Zc3h12a;;chr18:11052606..11052633,+!p4@Gata6!0.76!12.94!Gata6;;chr2:70313168..70313184,+!p1@Sp5!0.76!7.37!Sp5;;chr17:87153505..87153516,+!p6@Epas1!0.76!6.77!Epas1;;chr4:55545051..55545110,-!p2@Klf4!0.76!6.17!Klf4;;chr8:77397169..77397182,+!p7@Isx!0.76!4.78!Isx;;chr14:76887526..76887555,+!p10@Tsc22d1!0.75!4.58!Tsc22d1;;chr12:86814833..86814846,+!p1@Fos!0.74!117.29!Fos;;chr11:98636400..98636418,-!p4@Nr1d1!0.74!6.17!Nr1d1;;chr6:37391910..37391928,-!p3@Creb3l2!0.74!5.18!Creb3l2;;chr16:55822241..55822258,-!p1@Nfkbiz!0.73!152.14!Nfkbiz;;chr19:53384910..53384937,+!p3@Mxi1!0.73!13.54!Mxi1;;chr11:96153767..96153822,+!p1@Hoxb6!0.73!7.17!Hoxb6;;chr7:134519473..134519502,-!p3@Zfp747!0.73!6.17!Zfp747;;chr10:61595830..61595846,+!p1@Neurog3!0.73!4.38!Neurog3;;chr11:57645506..57645523,-!p1@Hand1!0.73!4.38!Hand1;;chr6:39068210..39068251,-!p1@Parp12!0.72!21.71!Parp12;;chr6:39068181..39068206,-!p3@Parp12!0.71!9.16!Parp12;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.71!6.97!Ncoa4;;chr4:114581497..114581519,-!p2@Foxd2!0.71!4.18!Foxd2;;chr2:19367259..19367278,+!p1@Ptf1a!0.71!4.18!Ptf1a;;chr2:180069410..180069421,-!p3@Gata5!0.70!3.98!Gata5;;chr1:138857076..138857105,-!p1@Nr5a2!0.70!3.98!Nr5a2;;chr4:151533683..151533698,+!p1@Hes2!0.70!3.98!Hes2;;chr5:148118809..148118832,-!p5@Cdx2!0.70!3.98!Cdx2;;chr5:115420882..115420896,-!p3@Hnf1a!0.70!3.98!Hnf1a;;chr10:80555285..80555291,-!p4@Creb3l3!0.70!3.98!Creb3l3;;chr11:96055650..96055665,+!p3@Hoxb13!0.70!3.98!Hoxb13;;chr3:89197551..89197606,-!p2@Zbtb7b!0.69!14.94!Zbtb7b;;chr3:89197216..89197258,-!p3@Zbtb7b!0.69!8.96!Zbtb7b;;chr13:44825008..44825066,+!p5@Jarid2!0.69!8.36!Jarid2;;chr5:138187583..138187602,+!p6@Tsc22d4!0.69!7.77!Tsc22d4;;chr10:88996336..88996380,-!p2@Nr1h4!0.69!4.98!Nr1h4;;chr4:55545152..55545194,-!p3@Klf4!0.69!4.78!Klf4;;chr11:98636373..98636387,-!p5@Nr1d1!0.69!4.58!Nr1d1;;chr13:5860776..5860796,+!p1@Klf6!0.68!106.14!Klf6;;chr11:100948597..100948637,+!p1@Mlx!0.67!101.96!Mlx;;chr6:115311030..115311065,+!p4@Pparg!0.67!5.58!Pparg;;chr2:91035254..91035271,-!p3@Nr1h3!0.67!4.78!Nr1h3;;chr5:65194752..65194769,+!p1@Klf3!0.66!139.60!Klf3;;chr2:24278519..24278530,-!p3@Pax8!0.66!3.58!Pax8;;chr2:147871627..147871641,-!p1@Foxa2!0.66!3.58!Foxa2;;chr1:194979383..194979393,+!p3@Irf6!0.66!3.58!Irf6;;chr19:43686882..43686906,+!p2@Nkx2-3!0.66!3.58!Nkx2-3;;chr13:31717597..31717613,+!p2@Foxf2!0.66!3.58!Foxf2;;chr2:91864661..91864686,-!p1@Creb3l1!0.64!86.23!Creb3l1;;chr4:148275237..148275311,+!p2@Casz1!0.64!16.13!Casz1;;chr15:35225873..35225889,+!p2@Osr2!0.64!3.39!Osr2;;chr14:76887566..76887579,+!p18@Tsc22d1!0.64!3.39!Tsc22d1;;chr11:83664334..83664353,+!p2@Hnf1b!0.64!3.39!Hnf1b;;chr1:194982959..194983007,+!p5@Irf6!0.64!3.39!Irf6;;chr19:55816770..55816793,+!p2@Tcf7l2!0.63!33.26!Tcf7l2;;chr14:18493386..18493464,+!p1@Thrb!0.63!14.34!Thrb;;chr5:140267510..140267555,+!p2@Mafk!0.63!8.56!Mafk;;chr2:91035197..91035237,-!p1@Nr1h3!0.63!7.57!Nr1h3;;chr8:79423144..79423178,+!p3@Nr3c2!0.63!4.78!Nr3c2;;chr9:111020710..111020721,+!p2@Lrrfip2!0.63!3.78!Lrrfip2;;chr1:138846047..138846074,-!p5@Nr5a2!0.63!3.58!Nr5a2;;chr7:120351014..120351109,+!p1@Arntl!0.62!52.18!Arntl;;chr6:52190668..52190682,-!p3@Hoxa10!0.62!3.19!Hoxa10;;chr3:128918394..128918413,+!p5@Pitx2!0.62!3.19!Pitx2;;chr14:63890491..63890516,-!p2@Gata4!0.62!3.19!Gata4;;chr17:87153462..87153473,+!p3@Epas1!0.61!13.54!Epas1;;chr17:32506357..32506377,-!p3@Wiz!0.61!7.17!Wiz;;chr2:173044357..173044377,-!p2@Zbp1!0.61!4.78!Zbp1;;chr5:120121091..120121100,+!p7@Tbx3!0.61!3.78!Tbx3;;chr13:55932591..55932622,-!p1@Pitx1!0.61!3.78!Pitx1;;chr16:44173384..44173407,+!p2@Gm608!0.60!8.76!Gm608;;chr6:86619130..86619158,-!p2@Mxd1!0.59!51.18!Mxd1;;chr2:75542527..75542590,-!p1@Nfe2l2!0.58!306.68!Nfe2l2;;chr5:77524250..77524300,-!p1@Hopx!0.58!70.50!Hopx;;chr2:133377954..133377973,+!p1@Bmp2!0.58!10.55!Bmp2;;chr5:65213356..65213412,+!p6@Klf3!0.58!6.77!Klf3;;chr5:12012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448..98407455,-!p12@Ikzf3!0.15!0.40!Ikzf3;;chr10:30562939..30562969,-!p5@Hey2!0.15!0.40!Hey2;;chr11:98407340..98407359,-!p4@Ikzf3!0.15!0.40!Ikzf3;;chr8:26951227..26951266,-!p1@Ash2l!0.14!49.98!Ash2l;;chr15:25914152..25914206,+!p1@Zfp622!0.14!29.67!Zfp622;;chr7:13420322..13420401,+!p1@Zfp110!0.14!24.49!Zfp110;;chr7:117205217..117205246,+!p1@Zfp143!0.14!23.90!Zfp143;;chr8:74474953..74475029,+!p1@Zfp961!0.14!19.91!Zfp961;;chr3:52072329..52072346,+!p1@Foxo1!0.14!18.52!Foxo1;;chr3:51144550..51144603,-!p2@Elf2!0.14!18.32!Elf2;;chr2:83484721..83484734,+!p3@Zc3h15!0.14!13.94!Zc3h15;;chr7:134565516..134565573,-!p1@Zfp688!0.14!13.74!Zfp688;;chr14:98568761..98568814,-!p2@Dach1!0.14!7.77!Dach1;;chr1:64168830..64168895,-!p2@Klf7!0.14!7.37!Klf7;;chr4:82151622..82151643,-!p4@Nfib!0.14!4.38!Nfib;;chr4:119960301..119960359,-!p1@Foxo6!0.14!3.19!Foxo6;;chr10:127984472..127984504,-!p2@Zc3h10!0.14!3.19!Zc3h10;;chr11:106134144..106134174,-!p3@Smarcd2!0.14!2.99!Smarcd2;;chr2:115891409..115891425,-!p2@Meis2!0.14!2.79!Meis2;;chr3:90097217..90097233,+!p3@Gatad2b!0.14!2.19!Gatad2b;;chr10:80812991..80813004,-!p3@Hmg20b!0.14!1.79!Hmg20b;;chr9:48644429..48644462,-!p3@Zbtb16!0.14!1.59!Zbtb16;;chr16:3872286..3872315,-!p3@Zfp597!0.14!1.59!Zfp597;;chr10:80599248..80599261,+!p3@Zbtb7a!0.14!1.39!Zbtb7a;;chr1:186556375..186556404,-!p3@Hlx!0.14!1.39!Hlx;;chr6:92041489..92041500,+!p4@Nr2c2!0.14!1.39!Nr2c2;;chr16:42875918..42875940,+!p13@Zbtb20!0.14!1.19!Zbtb20;;chr10:5734525..5734569,-!p3@Esr1!0.14!1.19!Esr1;;chr7:134592574..134592591,-!p2@Zfp689!0.14!1.00!Zfp689;;chr6:134780337..134780355,+!p3@Crebl2!0.14!0.80!Crebl2;;chr19:9018049..9018054,+!p5@Mta2!0.14!0.80!Mta2;;chr9:63869890..63869908,-!p6@Smad6!0.14!0.80!Smad6;;chr6:16848395..16848416,-!p2@Tfec!0.14!0.60!Tfec;;chr17:71201096..71201114,-!p6@Tgif1!0.14!0.60!Tgif1;;chr18:36441100..36441113,+!p3@Pura!0.14!0.60!Pura;;chr13:37918661..37918673,+!p17@Rreb1!0.14!0.60!Rreb1;;chr15:75799634..75799645,+!p4@Zfp707!0.14!0.60!Zfp707;;chr2:120389531..120389614,-!p1@Zfp106!0.13!89.22!Zfp106;;chr5:138526311..138526375,+!p1@Zkscan1!0.13!42.62!Zkscan1;;chr12:41172341..41172385,-!p1@Zfp277!0.13!41.62!Zfp277;;chr16:15887371..15887385,+!p1@Cebpd!0.13!41.62!Cebpd;;chr13:53076396..53076452,-!p1@Nfil3!0.13!21.11!Nfil3;;chr17:21145885..21145977,+!p1@Zfp160!0.13!15.93!Zfp160;;chr16:42907676..42907797,+!p1@Zbtb20!0.13!15.33!Zbtb20;;chr11:4604645..4604705,+!p1@Zmat5!0.13!15.33!Zmat5;;chr2:73730596..73730612,-!p3@Atf2,p3@LOC100047997!0.13!14.94!Atf2;;chr17:24806629..24806672,+!p1@Zfp598!0.13!12.75!Zfp598;;chr17:25152711..25152736,-!p1@Cramp1l!0.13!11.55!Cramp1l;;chr3:94758041..94758142,+!p1@Rfx5!0.13!10.36!Rfx5;;chr11:95574298..95574344,+!p1@Zfp652,p4@Phospho1!0.13!10.16!Zfp652;;chr17:88840054..88840081,+!p2@Foxn2!0.13!9.56!Foxn2;;chr2:120996843..120996894,-!p1@Zscan29!0.13!6.77!Zscan29;;chr17:46693153..46693169,-!p2@Srf!0.13!5.58!Srf;;chr2:181100154..181100181,+!p3@Zgpat!0.13!5.38!Zgpat;;chr13:67552527..67552574,-!p1@Zfp874a!0.13!4.58!Zfp874a;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.13!3.98!Ppp1r13l;;chr16:84835570..84835584,+!p4@Gabpa!0.13!2.99!Gabpa;;chr16:4214034..4214070,-!p@chr16:4214034..4214070,-!0.13!2.99!Crebbp;;chr9:63869751..63869767,-!p1@Smad6!0.13!2.39!Smad6;;chr16:92826249..92826325,-!p1@Runx1!0.13!2.19!Runx1;;chr16:43363152..43363186,+!p3@Zbtb20!0.13!1.99!Zbtb20;;chr13:5860740..5860747,+!p4@Klf6!0.13!1.79!Klf6;;chr4:87678673..87678706,-!p6@Mllt3!0.13!1.79!Mllt3;;chr19:55816278..55816287,+!p10@Tcf7l2!0.13!1.59!Tcf7l2;;chr6:128250471..128250519,-!p1@Tead4!0.13!1.59!Tead4;;chr2:181100194..181100205,+!p5@Zgpat!0.13!1.59!Zgpat;;chr5:147760297..147760304,+!p4@Gtf3a!0.13!1.39!Gtf3a;;chr15:57526345..57526392,+!p3@Zhx2!0.13!1.39!Zhx2;;chr7:4946900..4946921,-!p5@Zfp579!0.13!1.19!Zfp579;;chr18:80904923..80904933,-!p3@Nfatc1!0.13!0.80!Nfatc1;;chr9:63869705..63869713,-!p8@Smad6!0.13!0.60!Smad6;;chr4:6917793..6917809,-!p5@Tox!0.13!0.60!Tox;;chr14:32979290..32979309,+!p3@Gm6768,p3@Ncoa4!0.13!0.60!Ncoa4;;
@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11131
-|library_id_phase_based=1:CNhs11131
+|library_id_phase_based=2:CNhs11131
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1384
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1384
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520neonate%2520N30.CNhs11131.1384-42G1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520neonate%2520N30.CNhs11131.1384-42G1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520neonate%2520N30.CNhs11131.1384-42G1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520neonate%2520N30.CNhs11131.1384-42G1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520neonate%2520N30.CNhs11131.1384-42G1.mm9.nobarcode.rdna.fa.gz
 |name=intestine, neonate N30
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11131,LSID735,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.159577748190532,0,0.0049146063660879,0,0,0.0394351756113673,0.131910642629988,0,0.00467868007370756,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.0462984141001352,0,0,0,0.0788703512227347,0,0,0.203420156066496,0,0,0,0,0,0,0.343032508284776,0,0,0,0.0788703512227347,0,0.101412911814938,-0.0334601084270959,0.0515378565398297,-0.480345266251096,-0.124273701227912,0,0,0,0,0,0,0,0,0,0,0,0.0788703512227347,-0.0660055475634404,0,0,0,0,0.199699677463732,0,0.139689676498897,0,0,0.0216254392716385,0.0571177435161416,0.0307537207195617,0.183313335287865,0.023126504305673,0,0,0,-0.0802756832659149,0.0788703512227347,0,0,0.032499523850932,0.134956828713352,0.175611362312317,0,0,0,0,0.0394351756113673,0.0788703512227347,0.0725545325069948,0.21158659522958,0.0469795437137921,0,0,0,0,0
@@ 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=table111:1384-42G1;search_select_hide=table117:1384-42G1
 }}

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FF:1384-42G1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:05, 4 June 2020

CNhs11131

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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