FF:463-22H4: Difference between revisions

Latest revision as of 19:17, 4 June 2020

Name:	intestine, embryo E16
Species:	Mouse (Mus musculus)
Library ID:	CNhs10585
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	intestine
dev stage	16 days embryo
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		SAMD00005161

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10585		CAGE		DRX008993		DRR009867

Accession ID Mm9

Library id		BAM		CTSS
CNhs10585		DRZ001292		DRZ002675

Accession ID Mm10

Library id		BAM		CTSS
CNhs10585		DRZ012642		DRZ014025

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

CNhs10585

0	0
1	0
10	0
100	0
1000	0.107
1001	0.0627
1002	0.321
1003	-0.038
1004	0
1005	0.038
1006	-0.0706
1007	0.0044
1008	0
1009	0.0155
101	0.059
1010	0.205
1011	-0.0923
1012	0
1013	0.0177
1014	0.218
1015	0.0279
1016	0.0522
1017	0
1018	0.205
1019	0
102	0
1020	0
1021	0
1022	-0.0704
1023	0
1024	-0.0101
1025	0.776
1026	0
1027	0.0318
1028	0
1029	0.27
103	0.116
1030	0
1031	0.278
1032	0.134
1033	0
1034	0
1035	0.0282
1036	-0.00386
1037	0
1038	0.0146
1039	-0.0982
104	0
1040	0
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: CNhs10585

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.492
MA0003.1	MA0003.1	0.259
MA0004.1	MA0004.1	0.0872
MA0006.1	MA0006.1	0.108
MA0007.1	MA0007.1	0.633
MA0009.1	MA0009.1	0.865
MA0014.1	MA0014.1	0.94
MA0017.1	MA0017.1	1.70269e-25
MA0018.2	MA0018.2	3.08014e-4
MA0019.1	MA0019.1	0.151
MA0024.1	MA0024.1	0.001
MA0025.1	MA0025.1	0.0284
MA0027.1	MA0027.1	0.372
MA0028.1	MA0028.1	0.0638
MA0029.1	MA0029.1	0.867
MA0030.1	MA0030.1	0.662
MA0031.1	MA0031.1	0.919
MA0035.2	MA0035.2	9.37987e-7
MA0038.1	MA0038.1	0.0738
MA0039.2	MA0039.2	0.00542
MA0040.1	MA0040.1	0.567
MA0041.1	MA0041.1	0.571
MA0042.1	MA0042.1	0.546
MA0043.1	MA0043.1	0.0136
MA0046.1	MA0046.1	1.89447e-90
MA0047.2	MA0047.2	8.56919e-4
MA0048.1	MA0048.1	0.229
MA0050.1	MA0050.1	0.00952
MA0051.1	MA0051.1	0.0353
MA0052.1	MA0052.1	1.77495e-5
MA0055.1	MA0055.1	0.313
MA0057.1	MA0057.1	0.795
MA0058.1	MA0058.1	0.0209
MA0059.1	MA0059.1	0.692
MA0060.1	MA0060.1	2.74001e-5
MA0061.1	MA0061.1	0.945
MA0062.2	MA0062.2	0.00631
MA0065.2	MA0065.2	4.96742e-6
MA0066.1	MA0066.1	0.802
MA0067.1	MA0067.1	0.084
MA0068.1	MA0068.1	0.37
MA0069.1	MA0069.1	0.0915
MA0070.1	MA0070.1	0.646
MA0071.1	MA0071.1	0.528
MA0072.1	MA0072.1	0.157
MA0073.1	MA0073.1	0.895
MA0074.1	MA0074.1	0.0412
MA0076.1	MA0076.1	0.0229
MA0077.1	MA0077.1	0.55
MA0078.1	MA0078.1	0.685
MA0079.2	MA0079.2	0.43
MA0080.2	MA0080.2	0.339
MA0081.1	MA0081.1	0.0228
MA0083.1	MA0083.1	0.0201
MA0084.1	MA0084.1	0.922
MA0087.1	MA0087.1	0.605
MA0088.1	MA0088.1	0.504
MA0090.1	MA0090.1	0.205
MA0091.1	MA0091.1	0.82
MA0092.1	MA0092.1	0.504
MA0093.1	MA0093.1	0.0431
MA0099.2	MA0099.2	0.456
MA0100.1	MA0100.1	0.00231
MA0101.1	MA0101.1	0.288
MA0102.2	MA0102.2	0.265
MA0103.1	MA0103.1	1.28349e-4
MA0104.2	MA0104.2	0.747
MA0105.1	MA0105.1	0.709
MA0106.1	MA0106.1	0.357
MA0107.1	MA0107.1	0.218
MA0108.2	MA0108.2	0.68
MA0111.1	MA0111.1	0.403
MA0112.2	MA0112.2	0.152
MA0113.1	MA0113.1	0.563
MA0114.1	MA0114.1	1.241e-38
MA0115.1	MA0115.1	1.34759e-5
MA0116.1	MA0116.1	0.54
MA0117.1	MA0117.1	0.114
MA0119.1	MA0119.1	0.702
MA0122.1	MA0122.1	0.548
MA0124.1	MA0124.1	0.455
MA0125.1	MA0125.1	0.668
MA0131.1	MA0131.1	0.556
MA0135.1	MA0135.1	0.00953
MA0136.1	MA0136.1	0.763
MA0137.2	MA0137.2	0.921
MA0138.2	MA0138.2	0.465
MA0139.1	MA0139.1	0.0428
MA0140.1	MA0140.1	0.0171
MA0141.1	MA0141.1	0.0491
MA0142.1	MA0142.1	0.285
MA0143.1	MA0143.1	0.4
MA0144.1	MA0144.1	0.314
MA0145.1	MA0145.1	0.178
MA0146.1	MA0146.1	0.289
MA0147.1	MA0147.1	0.304
MA0148.1	MA0148.1	6.14761e-5
MA0149.1	MA0149.1	0.873
MA0150.1	MA0150.1	0.0439
MA0152.1	MA0152.1	0.652
MA0153.1	MA0153.1	9.39258e-58
MA0154.1	MA0154.1	0.0914
MA0155.1	MA0155.1	0.00944
MA0156.1	MA0156.1	0.32
MA0157.1	MA0157.1	0.465
MA0159.1	MA0159.1	0.164
MA0160.1	MA0160.1	0.276
MA0162.1	MA0162.1	0.236
MA0163.1	MA0163.1	0.0867
MA0164.1	MA0164.1	0.482
MA0258.1	MA0258.1	0.986
MA0259.1	MA0259.1	0.671

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: CNhs10585

Novel motif	Logo	P-value
1	1	0.828
10	10	0.825
100	100	0.462
101	101	0.693
102	102	0.25
103	103	0.747
104	104	0.959
105	105	0.379
106	106	0.0538
107	107	0.0274
108	108	0.94
109	109	0.864
11	11	0.956
110	110	0.558
111	111	0.906
112	112	0.388
113	113	0.217
114	114	0.283
115	115	0.597
116	116	0.964
117	117	0.416
118	118	0.587
119	119	0.524
12	12	0.507
120	120	0.726
121	121	0.925
122	122	0.824
123	123	0.215
124	124	0.512
125	125	0.621
126	126	0.0393
127	127	0.795
128	128	0.738
129	129	0.886
13	13	1.74716e-4
130	130	0.257
131	131	0.914
132	132	0.429
133	133	0.119
134	134	0.39
135	135	0.419
136	136	0.407
137	137	0.45
138	138	0.0199
139	139	0.98
14	14	0.559
140	140	0.0371
141	141	0.418
142	142	0.48
143	143	0.0489
144	144	0.29
145	145	0.272
146	146	0.0274
147	147	0.302
148	148	0.857
149	149	0.363
15	15	0.744
150	150	0.358
151	151	0.703
152	152	0.0763
153	153	0.097
154	154	0.365
155	155	0.991
156	156	0.319
157	157	0.625
158	158	0.374
159	159	0.0311
160	160	0.0186
161	161	0.551
162	162	0.967
163	163	0.462
164	164	0.692
165	165	0.698
166	166	0.49
167	167	0.642
168	168	0.189
169	169	0.271
17	17	0.586
18	18	0.0429
19	19	0.0509
2	2	0.287
20	20	0.423
21	21	0.955
22	22	0.267
23	23	0.684
24	24	0.351
25	25	0.522
26	26	0.0885
27	27	0.632
28	28	0.222
29	29	0.966
3	3	0.801
30	30	0.19
31	31	0.636
32	32	0.77
33	33	0.0921
34	34	0.355
35	35	0.499
36	36	0.836
37	37	0.381
38	38	0.999
39	39	0.314
4	4	0.369
40	40	0.154
41	41	0.181
42	42	0.696
43	43	0.903
44	44	0.501
45	45	0.0798
46	46	0.785
47	47	0.983
48	48	0.94
49	49	0.226
5	5	0.555
50	50	0.391
51	51	0.752
52	52	0.0268
53	53	0.623
54	54	0.941
55	55	0.128
56	56	0.905
57	57	0.0926
58	58	0.956
59	59	0.673
6	6	0.869
60	60	0.145
61	61	0.265
62	62	0.118
63	63	0.889
64	64	0.949
65	65	0.908
66	66	0.79
67	67	0.0649
68	68	0.469
69	69	0.337
7	7	0.151
70	70	0.284
71	71	0.433
72	72	0.767
73	73	0.814
74	74	0.895
75	75	0.973
76	76	0.168
77	77	0.0373
78	78	0.401
79	79	0.287
8	8	0.466
80	80	0.148
81	81	0.367
82	82	0.787
83	83	0.391
84	84	0.399
85	85	0.919
86	86	0.484
87	87	0.858
88	88	0.579
89	89	0.664
9	9	0.792
90	90	0.431
91	91	0.148
92	92	0.977
93	93	0.386
94	94	0.0331
95	95	0.924
96	96	0.113
97	97	0.288
98	98	0.643
99	99	0.0661

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: CNhs10585

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011362 mouse intestine- embryo E16 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)
0000922 (embryo)
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)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000299 (mouse embryonic day 16 sample)
0011362 (mouse intestine- embryo E16 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@DRS008856
+|DRA_sample_Accession=CAGE@SAMD00005161
+|accession_numbers=CAGE;DRX008993;DRR009867;DRZ001292;DRZ002675;DRZ012642;DRZ014025
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,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 8: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr3:3634145..3634161,+!p1@Hnf4g!2.19!153.28!Hnf4g;;chr10:88969376..88969395,-!p1@Nr1h4!2.06!114.96!Nr1h4;;chr5:148118639..148118715,-!p1@Cdx2!2.01!100.24!Cdx2;;chr1:137155026..137155042,-!p1@Elf3!1.77!323.10!Elf3;;chr10:80555320..80555378,-!p1@Creb3l3!1.70!56.47!Creb3l3;;chr8:77396591..77396639,+!p1@Isx!1.69!48.20!Isx;;chr2:164228702..164228719,+!p1@Rbpjl!1.66!45.18!Rbpjl;;chr16:38294860..38294924,-!p1@Nr1i2!1.55!34.89!Nr1i2;;chr3:3508024..3508069,+!p2@Hnf4g!1.55!34.69!Hnf4g;;chr2:163332558..163332596,+!p2@Hnf4a!1.51!31.06!Hnf4a;;chr10:22539932..22539956,-!p1@Tcf21!1.49!77.24!Tcf21;;chr19:43686789..43686811,+!p1@Nkx2-3!1.49!29.65!Nkx2-3;;chr8:59799772..59799789,+!p1@Hand2!1.45!75.23!Hand2;;chr2:163372884..163372904,+!p1@Hnf4a!1.43!25.61!Hnf4a;;chr7:17647736..17647772,-!p1@Hif3a!1.41!85.11!Hif3a;;chr8:123608252..123608268,+!p1@Foxf1a!1.38!33.68!Foxf1a;;chr14:63864056..63864102,-!p1@Gata4!1.35!36.71!Gata4;;chr5:148118840..148118857,-!p2@Cdx2!1.34!20.98!Cdx2;;chr8:77397095..77397127,+!p2@Isx!1.30!18.96!Isx;;chr5:148118792..148118806,-!p3@Cdx2!1.29!18.55!Cdx2;;chr2:19367259..19367278,+!p1@Ptf1a!1.28!18.15!Ptf1a;;chr18:64499674..64499696,+!p1@Onecut2!1.22!26.62!Onecut2;;chr10:127095407..127095440,+!p3@Stat6!1.21!18.96!Stat6;;chr17:27865882..27865901,-!p1@Spdef!1.21!15.33!Spdef;;chr13:31717548..31717596,+!p1@Foxf2!1.20!29.45!Foxf2;;chr18:61195865..61195880,-!p1@Cdx1!1.20!14.72!Cdx1;;chr18:64499706..64499721,+!p2@Onecut2!1.17!19.56!Onecut2;;chr11:57645506..57645523,-!p1@Hand1!1.16!13.31!Hand1;;chr1:173144100..173144138,+!p2@Nr1i3!1.15!13.11!Nr1i3;;chr5:144951153..144951203,+!p1@Bhlha15!1.13!18.15!Bhlha15;;chr18:61195843..61195864,-!p2@Cdx1!1.12!12.30!Cdx1;;chr7:17642053..17642066,-!p2@Hif3a!1.11!16.74!Hif3a;;chr10:61595830..61595846,+!p1@Neurog3!1.11!11.90!Neurog3;;chr7:108966820..108966835,+!p1@Phox2a!1.10!11.70!Phox2a;;chr14:99697871..99697934,+!p1@Klf5!1.09!225.68!Klf5;;chr2:180069370..180069409,-!p1@Gata5!1.08!12.91!Gata5;;chr6:52154414..52154462,-!p1@Hoxa5!1.06!14.32!Hoxa5;;chr3:30039329..30039355,-!p5@Mecom!1.06!10.49!Mecom;;chr2:103143336..103143367,-!p1@Ehf!1.05!16.54!Ehf;;chr1:173144144..173144176,+!p1@Nr1i3!1.04!10.08!Nr1i3;;chr5:67490284..67490302,-!p1@Phox2b!1.04!10.08!Phox2b;;chr6:99216360..99216372,-!p8@Foxp1!1.03!9.68!Foxp1;;chr11:98614335..98614349,+!p8@Thra!1.03!9.68!Thra;;chr7:19608891..19608895,-!p1@Foxa3!1.02!12.30!Foxa3;;chr10:12810631..12810649,+!p1@Plagl1!1.01!243.43!Plagl1;;chr5:115421065..115421088,-!p1@Hnf1a!1.01!9.28!Hnf1a;;chr6:99216375..99216395,-!p5@Foxp1!1.00!9.08!Foxp1;;chr7:17642018..17642045,-!p4@Hif3a!0.98!9.88!Hif3a;;chr5:148118614..148118625,-!p4@Cdx2!0.98!8.47!Cdx2;;chr10:119913310..119913366,-!p1@Hmga2!0.97!66.35!Hmga2;;chr1:165219345..165219366,-!p7@Prrx1!0.97!8.27!Prrx1;;chr3:3508005..3508021,+!p3@Hnf4g!0.97!8.27!Hnf4g;;chr19:5560600..5560617,-!p1@Ovol1!0.96!10.08!Ovol1;;chr10:119913546..119913583,-!p3@Hmga2!0.95!16.74!Hmga2;;chr10:86956396..86956411,-!p1@Ascl1!0.95!12.30!Ascl1;;chr8:77396650..77396662,+!p4@Isx!0.95!7.87!Isx;;chr10:44178521..44178557,-!p1@Prdm1!0.94!13.92!Prdm1;;chr10:44178375..44178390,-!p2@Prdm1!0.93!10.49!Prdm1;;chr6:83020355..83020371,-!p1@Tlx2!0.93!7.46!Tlx2;;chr6:64679112..64679126,+!p1@Atoh1!0.93!7.46!Atoh1;;chr10:80555398..80555409,-!p2@Creb3l3!0.92!7.26!Creb3l3;;chr11:96153767..96153822,+!p1@Hoxb6!0.91!11.29!Hoxb6;;chr7:17642177..17642223,-!p3@Hif3a!0.91!7.06!Hif3a;;chr12:58646974..58647003,-!p1@Foxa1!0.90!9.48!Foxa1;;chr18:11052485..11052508,+!p2@Gata6!0.88!19.16!Gata6;;chr2:103123925..103123959,-!p3@Ehf!0.88!6.66!Ehf;;chr2:163372869..163372882,+!p3@Hnf4a!0.87!6.45!Hnf4a;;chr1:194979315..194979359,+!p1@Irf6!0.86!39.93!Irf6;;chr1:138846009..138846038,-!p3@Nr5a2!0.85!6.86!Nr5a2;;chr2:79296783..79296801,-!p1@Neurod1!0.85!6.05!Neurod1;;chr2:74583776..74583815,+!p3@Hoxd3!0.85!6.05!Hoxd3;;chr10:126778916..126778974,-!p1@Gli1!0.84!13.92!Gli1;;chr2:153067079..153067090,-!p2@Plagl2!0.84!13.11!Plagl2;;chr14:63890545..63890560,-!p5@Gata4!0.84!5.85!Gata4;;chr11:96164821..96164865,+!p1@Hoxb5!0.82!5.65!Hoxb5;;chr5:148118809..148118832,-!p5@Cdx2!0.82!5.65!Cdx2;;chr14:63890519..63890539,-!p3@Gata4!0.81!5.45!Gata4;;chr15:102828658..102828678,+!p1@Hoxc6!0.81!5.45!Hoxc6;;chr14:63890491..63890516,-!p2@Gata4!0.81!5.45!Gata4;;chr18:11052642..11052659,+!p1@Gata6!0.80!29.04!Gata6;;chr1:194982959..194983007,+!p5@Irf6!0.80!5.24!Irf6;;chr1:138857048..138857071,-!p2@Nr5a2!0.78!5.04!Nr5a2;;chr6:52154386..52154407,-!p2@Hoxa5!0.77!6.45!Hoxa5;;chr11:83664365..83664383,+!p1@Hnf1b!0.77!4.84!Hnf1b;;chr8:77397190..77397202,+!p5@Isx!0.77!4.84!Isx;;chr2:153067094..153067130,-!p1@Plagl2!0.76!128.67!Plagl2;;chr6:52163319..52163342,-!p1@Hoxa3!0.76!7.26!Hoxa3;;chr10:44178474..44178487,-!p4@Prdm1!0.76!7.06!Prdm1;;chr10:44178493..44178520,-!p3@Prdm1!0.76!6.86!Prdm1;;chr10:88996336..88996380,-!p2@Nr1h4!0.76!6.05!Nr1h4;;chr18:11052456..11052477,+!p3@Gata6!0.75!15.53!Gata6;;chr1:138857076..138857105,-!p1@Nr5a2!0.75!4.64!Nr5a2;;chr9:74709695..74709722,+!p1@Onecut1!0.75!4.64!Onecut1;;chr12:39510206..39510249,+!p3@Etv1!0.75!4.64!Etv1;;chr7:6649134..6649167,-!p1@Zim1!0.74!27.03!Zim1;;chr15:102865088..102865107,+!p1@Hoxc4!0.74!6.25!Hoxc4;;chr18:11052606..11052633,+!p4@Gata6!0.73!12.10!Gata6;;chr13:55932591..55932622,-!p1@Pitx1!0.73!5.45!Pitx1;;chr16:14705961..14705978,+!p2@Snai2!0.72!21.98!Snai2;;chr5:135582751..135582788,+!p1@Mlxipl!0.72!18.76!Mlxipl;;chr13:44825008..44825066,+!p5@Jarid2!0.72!8.87!Jarid2;;chr12:12948633..12948651,-!p1@Mycn!0.71!44.37!Mycn;;chr10:119913792..119913820,-!p5@Hmga2!0.70!7.26!Hmga2;;chr6:16848443..16848459,-!p3@Tfec!0.70!4.03!Tfec;;chr2:103143315..103143328,-!p2@Ehf!0.70!4.03!Ehf;;chr16:14705925..14705951,+!p1@Snai2!0.68!30.25!Snai2;;chr3:128916868..128916890,+!p1@Pitx2!0.68!5.45!Pitx2;;chr10:119913839..119913869,-!p7@Hmga2!0.68!5.04!Hmga2;;chr10:44178575..44178590,-!p5@Prdm1!0.68!4.84!Prdm1;;chr6:16848460..16848471,-!p5@Tfec!0.68!3.83!Tfec;;chr4:133109285..133109308,+!p1@Nr0b2!0.67!3.63!Nr0b2;;chr2:153067445..153067460,-!p6@Plagl2!0.67!3.63!Plagl2;;chr8:123651727..123651748,+!p1@ENSMUST00000062634!0.67!3.63!Foxl1;;chr13:31717597..31717613,+!p2@Foxf2!0.67!3.63!Foxf2;;chr12:109242266..109242295,-!p1@Bcl11b!0.66!34.49!Bcl11b;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.66!6.66!Hoxb2;;chr2:153067233..153067236,-!p4@Plagl2!0.66!4.44!Plagl2;;chr6:16848395..16848416,-!p2@Tfec!0.66!4.24!Tfec;;chr1:138846117..138846129,-!p8@Nr5a2!0.65!3.43!Nr5a2;;chr8:77397492..77397514,+!p3@Isx!0.65!3.43!Isx;;chr9:59796372..59796383,-!p8@Nr2e3!0.65!3.43!Nr2e3;;chr2:77357622..77357704,-!p1@Zfp385b!0.64!10.29!Zfp385b;;chr1:120879128..120879183,-!p3@Gli2!0.64!7.06!Gli2;;chr1:194979361..194979373,+!p2@Irf6!0.64!4.84!Irf6;;chr10:119914001..119914078,-!p4@Hmga2!0.64!4.84!Hmga2;;chr15:37162796..37162828,+!p1@Grhl2!0.63!5.85!Grhl2;;chr1:57029281..57029326,-!p1@Satb2!0.63!5.45!Satb2;;chr3:90046995..90047031,-!p2@Creb3l4!0.63!4.24!Creb3l4;;chr6:52190467..52190500,-!p1@Hoxa10!0.63!3.23!Hoxa10;;chr1:138846079..138846103,-!p6@Nr5a2!0.63!3.23!Nr5a2;;chr19:10315179..10315241,-!p1@Gm98!0.62!39.53!Gm98;;chr10:79389784..79389833,+!p1@Arid3a!0.62!19.97!Arid3a;;chr6:14851287..14851342,+!p1@Foxp2!0.62!11.90!Foxp2;;chr14:79915425..79915501,+!p1@Elf1!0.61!32.27!Elf1;;chr5:120121020..120121049,+!p1@Tbx3!0.61!22.19!Tbx3;;chr4:84320893..84320910,-!p1@Bnc2!0.61!7.66!Bnc2;;chr10:80598968..80599012,+!p5@Zbtb7a!0.61!4.24!Zbtb7a;;chr1:138846047..138846074,-!p5@Nr5a2!0.61!3.43!Nr5a2;;chr8:118231678..118231692,-!p2@Maf!0.60!32.07!Maf;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.60!9.88!Tfcp2l1;;chr19:43686882..43686906,+!p2@Nkx2-3!0.60!3.03!Nkx2-3;;chr11:60036258..60036276,-!p3@Srebf1!0.59!5.65!Srebf1;;chr2:74549968..74549996,+!p1@Hoxd3!0.59!3.83!Hoxd3;;chr15:102865131..102865151,+!p2@Hoxc4!0.59!3.43!Hoxc4;;chr2:153067138..153067147,-!p3@Plagl2!0.58!5.04!Plagl2;;chr2:81893535..81893548,+!p1@Zfp804a!0.58!2.82!Zfp804a;;chr19:5560570..5560582,-!p2@Ovol1!0.58!2.82!Ovol1;;chr10:119913278..119913298,-!p2@Hmga2!0.57!7.06!Hmga2;;chr17:32506357..32506377,-!p3@Wiz!0.57!6.45!Wiz;;chr11:96180045..96180059,+!p1@Hoxb4!0.56!4.03!Hoxb4;;chr11:96164905..96164919,+!p2@Hoxb5!0.56!2.62!Hoxb5;;chr11:83664334..83664353,+!p2@Hnf1b!0.56!2.62!Hnf1b;;chr15:102820964..102821006,+!p1@Hoxc8!0.56!2.62!Hoxc8;;chr15:102828642..102828653,+!p2@Hoxc6!0.56!2.62!Hoxc6;;chr5:148081686..148081715,+!p1@Pdx1!0.56!2.62!Pdx1;;chr11:18918917..18918944,-!p1@Meis1!0.55!40.94!Meis1;;chrX:45245679..45245702,-!p1@Smarca1!0.54!13.51!Smarca1;;chrX:45245644..45245666,-!p2@Smarca1!0.54!9.48!Smarca1;;chr15:78994907..78994926,-!p1@Sox10!0.54!7.46!Sox10;;chr13:15555670..15555771,+!p2@Gli3!0.53!7.26!Gli3;;chr6:14851440..14851497,+!p2@Foxp2!0.53!6.86!Foxp2;;chr1:189821714..189821761,+!p1@Esrrg!0.53!5.04!Esrrg;;chr6:16848347..16848391,-!p1@Tfec!0.53!3.43!Tfec;;chr15:102865048..102865073,+!p3@Hoxc4!0.53!3.23!Hoxc4;;chr12:30213247..30213333,+!p1@Myt1l!0.53!2.42!Myt1l;;chr17:28409136..28409150,+!p3@Ppard!0.53!2.42!Ppard;;chr10:79884592..79884621,-!p5@Tcf3!0.53!2.42!Tcf3;;chr2:169458799..169458832,+!p5@Tshz2!0.52!4.24!Tshz2;;chr6:52114821..52114828,-!p1@Hoxa2!0.52!3.83!Hoxa2;;chr11:96145450..96145517,+!p2@Hoxb7!0.52!3.83!Hoxb7;;chr8:118231705..118231722,-!p3@Maf!0.51!22.99!Maf;;chr8:81552152..81552208,+!p1@Zfp827!0.51!20.98!Zfp827;;chr4:154010918..154010931,-!p1@Prdm16!0.51!8.07!Prdm16;;chr14:56443806..56443848,+!p1@Nfatc4!0.51!5.24!Nfatc4;;chr12:39510290..39510309,+!p5@Etv1!0.51!2.22!Etv1;;chr2:180069423..180069434,-!p2@Gata5!0.51!2.22!Gata5;;chr8:77397026..77397036,+!p6@Isx!0.51!2.22!Isx;;chr6:52184901..52184959,-!p2@Hoxa10!0.51!2.22!Hoxa10;;chr7:35904304..35904320,+!p1@Cebpa!0.50!59.09!Cebpa;;chr2:71384802..71384815,-!p1@Dlx2!0.50!2.82!Dlx2;;chr11:96143666..96143725,+!p1@Hoxb8!0.50!2.62!Hoxb8;;chr2:115891534..115891589,-!p1@Meis2!0.49!39.13!Meis2;;chr1:186556323..186556370,-!p2@Hlx!0.49!7.06!Hlx;;chr15:37162834..37162849,+!p2@Grhl2!0.49!2.62!Grhl2;;chr17:48061381..48061399,-!p1@Foxp4!0.48!31.06!Foxp4;;chr18:69504195..69504213,+!p4@Tcf4!0.48!11.9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423!0.15!0.40!Zfp423;;chrX:108009761..108009788,+!p1@Pou3f4!0.15!0.40!Pou3f4;;chr9:74714281..74714296,+!p5@Onecut1!0.15!0.40!Onecut1;;chr7:38554684..38554696,-!p10@Zfp536!0.15!0.40!Zfp536;;chr8:87425854..87425891,+!p1@Klf1!0.15!0.40!Klf1;;chr11:83665637..83665671,+!p6@Hnf1b!0.15!0.40!Hnf1b;;chr10:129717274..129717298,-!p1@Neurod4!0.15!0.40!Neurod4;;chr11:96143728..96143745,+!p4@Hoxb8!0.15!0.40!Hoxb8;;chr11:23978206..23978219,+!p12@Bcl11a!0.15!0.40!Bcl11a;;chr11:120624106..120624107,+!p13@Hmga1-rs1,p14@Hmga1!0.15!0.40!Hmga1;;chr11:120494983..120494990,-!p13@Mafg!0.15!0.40!Mafg;;chr11:69749367..69749385,+!p4@Ybx2!0.15!0.40!Ybx2;;chr11:98822081..98822092,+!p14@Rara!0.15!0.40!Rara;;chr10:88996274..88996286,-!p4@Nr1h4!0.15!0.40!Nr1h4;;chr10:67599527..67599530,-!p9@Arid5b!0.15!0.40!Arid5b;;chr11:96132767..96132796,+!p2@Hoxb9!0.15!0.40!Hoxb9;;chr11:96685444..96685473,-!p5@Nfe2l1!0.15!0.40!Nfe2l1;;chr10:5734677..5734702,-!p4@Esr1!0.15!0.40!Esr1;;chr11:96160403..96160416,+!p4@Hoxb6!0.15!0.40!Hoxb6;;chr2:74543397..74543435,+!p2@Hoxd8!0.15!0.40!Hoxd8;;chr4:13678514..13678539,+!p14@Runx1t1!0.15!0.40!Runx1t1;;chr2:71367855..71367864,+!p6@Dlx1!0.15!0.40!Dlx1;;chr2:71367142..71367167,+!p2@Dlx1!0.15!0.40!Dlx1;;chr2:74583733..74583738,+!p13@Hoxd3!0.15!0.40!Hoxd3;;chr2:74517609..74517621,+!p3@Hoxd11!0.15!0.40!Hoxd11;;chr3:5218819..5218830,+!p10@Zfhx4!0.15!0.40!Zfhx4;;chr4:97248473..97248496,+!p16@Nfia!0.15!0.40!Nfia;;chr2:71366660..71366702,+!p3@Dlx1!0.15!0.40!Dlx1;;chr4:119487109..119487131,+!p4@Hivep3!0.15!0.40!Hivep3;;chr2:74583741..74583750,+!p10@Hoxd3!0.15!0.40!Hoxd3;;chr2:71384401..71384424,-!p3@Dlx2!0.15!0.40!Dlx2;;chr4:99322855..99322867,+!p2@Foxd3!0.15!0.40!Foxd3;;chr3:94181355..94181373,+!p5@Rorc!0.15!0.40!Rorc;;chr2:71384425..71384456,-!p4@Dlx2!0.15!0.40!Dlx2;;chr4:154010313..154010324,-!p9@Prdm16!0.15!0.40!Prdm16;;chr4:154010882..154010889,-!p10@Prdm16!0.15!0.40!Prdm16;;chr3:90046983..90046994,-!p6@Creb3l4!0.15!0.40!Creb3l4;;chr2:77654793..77654805,-!p7@Zfp385b!0.15!0.40!Zfp385b;;chr14:34791937..34791977,-!p1@Zfp488!0.15!0.40!Zfp488;;chr14:63864337..63864381,-!p6@Gata4!0.15!0.40!Gata4;;chr12:39510042..39510069,+!p8@Etv1!0.15!0.40!Etv1;;chr14:56443742..56443756,+!p6@Nfatc4!0.15!0.40!Nfatc4;;chr12:81214217..81214219,-!p2@Zfp36l1!0.15!0.40!Zfp36l1;;chr15:102839976..102839989,+!p4@Hoxc6!0.15!0.40!Hoxc6;;chr15:37163041..37163061,+!p5@Grhl2!0.15!0.40!Grhl2;;chr13:31717662..31717669,+!p6@Foxf2!0.15!0.40!Foxf2;;chr15:25914088..25914091,+!p6@Zfp622!0.15!0.40!Zfp622;;chr13:31717775..31717788,+!p4@Foxf2!0.15!0.40!Foxf2;;chr15:35225873..35225889,+!p2@Osr2!0.15!0.40!Osr2;;chr14:33412570..33412586,+!p1@Prrxl1!0.15!0.40!Prrxl1;;chr13:44825163..44825176,+!p18@Jarid2!0.15!0.40!Jarid2;;chrX:7544943..7545001,-!p1@Gata1!0.15!0.40!Gata1;;chr1:186556307..186556318,-!p7@Hlx!0.15!0.40!Hlx;;chr2:105515826..105515837,+!p7@Pax6!0.15!0.40!Pax6;;chr1:169619683..169619694,+!p1@Lmx1a!0.15!0.40!Lmx1a;;chr1:189432881..189432903,+!p2@Esrrg!0.15!0.40!Esrrg;;chr1:57028606..57028625,-!p4@Satb2!0.15!0.40!Satb2;;chr2:105515793..105515808,+!p3@Pax6!0.15!0.40!Pax6;;chr2:147871948..147871977,-!p3@Foxa2!0.15!0.40!Foxa2;;chr2:104966909..104966920,+!p8@Wt1!0.15!0.40!Wt1;;chr2:104966662..104966673,+!p4@Wt1!0.15!0.40!Wt1;;chr2:169458593..169458603,+!p13@Tshz2!0.15!0.40!Tshz2;;chr1:87495371..87495397,-!p1@Sp110!0.15!0.40!Sp110;;chr6:52108291..52108323,-!p1@Hoxa1!0.15!0.40!Hoxa1;;chr6:144157991..144158007,-!p9@Sox5!0.15!0.40!Sox5;;chr5:92391970..92391984,+!p5@Thap6!0.15!0.40!Thap6;;chr6:70906450..70906454,+!p1@Foxi3!0.15!0.40!Foxi3;;chr6:52161666..52161711,-!p1@Hoxa6!0.15!0.40!Hoxa6;;chr5:29805170..29805178,-!p2@Mnx1!0.15!0.40!Mnx1;;chr7:122989632..122989668,-!p2@Sox6!0.15!0.40!Sox6;;chr5:120120834..120120845,+!p8@Tbx3!0.15!0.40!Tbx3;;chr6:29476684..29476685,+!p6@Irf5!0.15!0.40!Irf5;;chr6:52663997..52664043,+!p2@Tax1bp1!0.15!0.40!Tax1bp1;;chr6:52195795..52195825,-!p1@Hoxa11!0.15!0.40!Hoxa11;;chr5:77544170..77544181,-!p6@Hopx!0.15!0.40!Hopx;;chr6:30908793..30908815,-!p1@Klf14!0.15!0.40!Klf14;;chr6:52167434..52167450,-!p3@Hoxa7!0.15!0.40!Hoxa7;;chr5:120130377..120130432,+!p10@Tbx3!0.15!0.40!Tbx3;;chr6:52134126..52134150,-!p3@Hoxa3!0.15!0.40!Hoxa3;;chr16:55838743..55838754,-!p6@Nfkbiz!0.15!0.40!Nfkbiz;;chr16:18587052..18587063,-!p3@Tbx1!0.15!0.40!Tbx1;;chr15:85566537..85566552,+!p2@Ppara!0.15!0.40!Ppara;;chr17:71201572..71201601,-!p10@Tgif1!0.15!0.40!Tgif1;;chr16:38294929..38294940,-!p2@Nr1i2!0.15!0.40!Nr1i2;;chr16:14705668..14705683,+!p3@Snai2!0.15!0.40!Snai2;;chr15:85565338..85565355,+!p7@Ppara!0.15!0.40!Ppara;;chrX:98624993..98625047,+!p1@Nono!0.14!211.57!Nono;;chr15:81977668..81977705,+!p1@Srebf2!0.14!95.80!Srebf2;;chr13:58503810..58503833,-!p2@Hnrnpk!0.14!65.95!Hnrnpk;;chr11:112643496..112643562,+!p1@Sox9!0.14!45.78!Sox9;;chr6:64992569..64992656,+!p1@Smarcad1!0.14!36.50!Smarcad1;;chr9:20757246..20757278,-!p1@Dnmt1!0.14!35.70!Dnmt1;;chr7:4966247..4966286,-!p1@Fiz1!0.14!23.80!Fiz1;;chr16:91044718..91044765,-!p2@Gcfc1!0.14!21.18!Gcfc1;;chr7:148513456..148513506,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@@ Line 42: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011362
 |is_obsolete=
-|library_ids=CNhs10585
+|library_id=CNhs10585
+|library_id_phase_based=2:CNhs10585
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;463
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;463
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E16.CNhs10585.463-22H4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E16.CNhs10585.463-22H4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E16.CNhs10585.463-22H4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E16.CNhs10585.463-22H4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E16.CNhs10585.463-22H4.mm9.nobarcode.rdna.fa.gz
 |name=intestine, embryo E16
 |namespace=FANTOM5
@@ Line 48: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10585,LSID653,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.146959306624424,0,0,0,0.0797901069290224,0,-0.0938237159463148,0,0.00678821061074625,0,0,0.423316805942687,0,0,0,0,0,0,0.152518799227941,0,0,0,0,0,0,0.147171275172461,0,0,0,0,0,0,0.176939539409102,0,0,0,0.558934755066766,0,-0.0329927272940896,0.0156361465227524,-0.00857361461618922,0.447428564196344,0.264183156119603,0,0,0,0,0,0,0,0,0,0,0.147171275172461,0,0.278406602547075,0,0,0,0,0,0,0,0,0.147171275172461,0,0.062995508856944,-0.163479382166926,0.0473976784599296,0.00330234446765775,0,0,0,-0.0135832497306483,0.0797901069290224,0,0,-0.0141822164025278,-0.0134459097257287,0.000958512089115002,0.00084635197585606,0,0,0,0,0,-0.0370545873388001,-0.412079052843733,-0.101460828229186,0,0,0,0,0
@@ Line 85: / Line 97: @@
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 |xref=
-}} {{DRAAccessionNumbers
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:463-22H4;search_select_hide=table117:463-22H4
-|DRA_sample_Accession=CAGE@DRS008856
-|accession_numbers=DRX008993;DRR009867;DRZ001292;DRZ002675;CAGE
-|library_id=CNhs10585
 }}

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FF:463-22H4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:17, 4 June 2020

CNhs10585

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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