FF:1289-20F7: Difference between revisions

Latest revision as of 18:47, 4 June 2020

Name:	intestine, embryo E18
Species:	Mouse (Mus musculus)
Library ID:	CNhs10526
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	intestine
dev stage	18 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		SAMD00005646

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10526		CAGE		DRX008995		DRR009869

Accession ID Mm9

Library id		BAM		CTSS
CNhs10526		DRZ001294		DRZ002677

Accession ID Mm10

Library id		BAM		CTSS
CNhs10526		DRZ012644		DRZ014027

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

CNhs10526

0	0
1	0
10	0
100	0
1000	0.0756
1001	0
1002	0.168
1003	-0.0672
1004	0
1005	0.266
1006	-0.00239
1007	-0.039
1008	0.0756
1009	0.0555
101	-0.0482
1010	0.0756
1011	-0.0106
1012	0
1013	0.161
1014	0.111
1015	-0.0385
1016	-0.0487
1017	0
1018	0.335
1019	0
102	0
1020	0
1021	0
1022	-0.0777
1023	0
1024	0.0946
1025	0.626
1026	0
1027	0.0147
1028	0
1029	0.22
103	0.0756
1030	0
1031	0.174
1032	0.199
1033	0
1034	0
1035	0
1036	-0.105
1037	0
1038	-0.0724
1039	-0.0487
104	0
1040	-0.0452
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: CNhs10526

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.199
MA0003.1	MA0003.1	0.144
MA0004.1	MA0004.1	0.32
MA0006.1	MA0006.1	0.0537
MA0007.1	MA0007.1	0.546
MA0009.1	MA0009.1	0.764
MA0014.1	MA0014.1	0.544
MA0017.1	MA0017.1	9.03868e-33
MA0018.2	MA0018.2	0.00652
MA0019.1	MA0019.1	0.133
MA0024.1	MA0024.1	0.109
MA0025.1	MA0025.1	0.15
MA0027.1	MA0027.1	0.12
MA0028.1	MA0028.1	0.404
MA0029.1	MA0029.1	0.96
MA0030.1	MA0030.1	0.247
MA0031.1	MA0031.1	0.334
MA0035.2	MA0035.2	3.31046e-10
MA0038.1	MA0038.1	0.377
MA0039.2	MA0039.2	7.50531e-5
MA0040.1	MA0040.1	0.0628
MA0041.1	MA0041.1	0.163
MA0042.1	MA0042.1	0.393
MA0043.1	MA0043.1	0.00425
MA0046.1	MA0046.1	8.99535e-109
MA0047.2	MA0047.2	4.89959e-5
MA0048.1	MA0048.1	0.891
MA0050.1	MA0050.1	0.0476
MA0051.1	MA0051.1	0.108
MA0052.1	MA0052.1	0.00626
MA0055.1	MA0055.1	0.528
MA0057.1	MA0057.1	0.192
MA0058.1	MA0058.1	0.0462
MA0059.1	MA0059.1	0.95
MA0060.1	MA0060.1	0.0296
MA0061.1	MA0061.1	0.679
MA0062.2	MA0062.2	0.368
MA0065.2	MA0065.2	8.22535e-11
MA0066.1	MA0066.1	0.284
MA0067.1	MA0067.1	0.3
MA0068.1	MA0068.1	0.354
MA0069.1	MA0069.1	0.032
MA0070.1	MA0070.1	0.579
MA0071.1	MA0071.1	0.93
MA0072.1	MA0072.1	0.614
MA0073.1	MA0073.1	0.775
MA0074.1	MA0074.1	0.116
MA0076.1	MA0076.1	0.271
MA0077.1	MA0077.1	0.441
MA0078.1	MA0078.1	0.24
MA0079.2	MA0079.2	0.28
MA0080.2	MA0080.2	0.02
MA0081.1	MA0081.1	0.11
MA0083.1	MA0083.1	0.0157
MA0084.1	MA0084.1	0.619
MA0087.1	MA0087.1	0.989
MA0088.1	MA0088.1	0.343
MA0090.1	MA0090.1	0.331
MA0091.1	MA0091.1	0.646
MA0092.1	MA0092.1	0.194
MA0093.1	MA0093.1	0.214
MA0099.2	MA0099.2	0.142
MA0100.1	MA0100.1	0.00867
MA0101.1	MA0101.1	0.592
MA0102.2	MA0102.2	0.328
MA0103.1	MA0103.1	3.93249e-5
MA0104.2	MA0104.2	0.288
MA0105.1	MA0105.1	0.632
MA0106.1	MA0106.1	0.386
MA0107.1	MA0107.1	0.484
MA0108.2	MA0108.2	7.75867e-5
MA0111.1	MA0111.1	0.346
MA0112.2	MA0112.2	0.00535
MA0113.1	MA0113.1	0.762
MA0114.1	MA0114.1	3.50262e-39
MA0115.1	MA0115.1	2.45094e-8
MA0116.1	MA0116.1	0.35
MA0117.1	MA0117.1	0.741
MA0119.1	MA0119.1	0.189
MA0122.1	MA0122.1	0.775
MA0124.1	MA0124.1	0.322
MA0125.1	MA0125.1	0.488
MA0131.1	MA0131.1	0.774
MA0135.1	MA0135.1	0.0037
MA0136.1	MA0136.1	0.111
MA0137.2	MA0137.2	0.0845
MA0138.2	MA0138.2	0.374
MA0139.1	MA0139.1	0.0105
MA0140.1	MA0140.1	1.23902e-4
MA0141.1	MA0141.1	0.00495
MA0142.1	MA0142.1	0.0239
MA0143.1	MA0143.1	0.122
MA0144.1	MA0144.1	0.0148
MA0145.1	MA0145.1	0.0126
MA0146.1	MA0146.1	0.102
MA0147.1	MA0147.1	0.0957
MA0148.1	MA0148.1	1.82876e-6
MA0149.1	MA0149.1	0.0819
MA0150.1	MA0150.1	0.801
MA0152.1	MA0152.1	0.755
MA0153.1	MA0153.1	1.46858e-68
MA0154.1	MA0154.1	0.0511
MA0155.1	MA0155.1	0.0693
MA0156.1	MA0156.1	0.0537
MA0157.1	MA0157.1	0.611
MA0159.1	MA0159.1	0.0236
MA0160.1	MA0160.1	0.0218
MA0162.1	MA0162.1	0.34
MA0163.1	MA0163.1	0.0672
MA0164.1	MA0164.1	0.613
MA0258.1	MA0258.1	0.131
MA0259.1	MA0259.1	0.217

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: CNhs10526

Novel motif	Logo	P-value
1	1	0.617
10	10	0.752
100	100	0.44
101	101	0.697
102	102	0.39
103	103	0.228
104	104	0.969
105	105	0.331
106	106	0.0422
107	107	0.0436
108	108	0.983
109	109	0.0407
11	11	0.366
110	110	0.613
111	111	0.564
112	112	0.0498
113	113	0.56
114	114	0.753
115	115	0.934
116	116	0.245
117	117	0.998
118	118	0.685
119	119	0.227
12	12	0.726
120	120	0.624
121	121	0.534
122	122	0.988
123	123	0.213
124	124	0.399
125	125	0.446
126	126	0.0936
127	127	0.408
128	128	0.221
129	129	0.705
13	13	7.92339e-4
130	130	0.831
131	131	0.1
132	132	0.202
133	133	0.214
134	134	0.641
135	135	0.578
136	136	0.0728
137	137	0.694
138	138	0.101
139	139	0.145
14	14	0.774
140	140	0.0536
141	141	0.332
142	142	0.294
143	143	0.046
144	144	0.262
145	145	0.181
146	146	0.116
147	147	0.625
148	148	0.227
149	149	0.137
15	15	0.579
150	150	0.248
151	151	0.656
152	152	0.03
153	153	0.0423
154	154	0.439
155	155	0.76
156	156	0.0104
157	157	0.354
158	158	0.212
159	159	0.759
160	160	0.0781
161	161	0.369
162	162	0.39
163	163	0.141
164	164	0.418
165	165	0.609
166	166	0.788
167	167	0.28
168	168	0.218
169	169	0.0722
17	17	0.253
18	18	0.177
19	19	0.0435
2	2	0.0859
20	20	0.316
21	21	0.835
22	22	0.171
23	23	0.292
24	24	0.803
25	25	0.784
26	26	0.0403
27	27	0.437
28	28	0.971
29	29	0.758
3	3	0.605
30	30	0.123
31	31	0.766
32	32	0.198
33	33	0.253
34	34	0.265
35	35	0.604
36	36	0.924
37	37	0.134
38	38	0.35
39	39	0.443
4	4	0.186
40	40	0.0988
41	41	0.56
42	42	0.868
43	43	0.327
44	44	0.584
45	45	0.0881
46	46	0.65
47	47	0.485
48	48	0.436
49	49	0.682
5	5	0.881
50	50	0.442
51	51	0.689
52	52	0.0384
53	53	0.549
54	54	0.667
55	55	0.224
56	56	0.393
57	57	0.135
58	58	0.562
59	59	0.12
6	6	0.754
60	60	0.0569
61	61	0.464
62	62	0.915
63	63	0.499
64	64	0.526
65	65	0.226
66	66	0.869
67	67	0.0711
68	68	0.894
69	69	0.611
7	7	0.0758
70	70	0.616
71	71	0.23
72	72	0.286
73	73	0.166
74	74	0.906
75	75	0.528
76	76	0.164
77	77	0.0118
78	78	0.0466
79	79	0.981
8	8	0.932
80	80	0.595
81	81	0.782
82	82	0.305
83	83	0.926
84	84	0.237
85	85	0.192
86	86	0.521
87	87	0.0908
88	88	0.652
89	89	0.149
9	9	0.652
90	90	0.641
91	91	0.463
92	92	0.607
93	93	0.513
94	94	0.0966
95	95	0.203
96	96	0.352
97	97	0.517
98	98	0.935
99	99	0.0271

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: CNhs10526

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011511 mouse intestine- embryo E18 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)
0000302 (mouse embryonic day 18 sample)
0011511 (mouse intestine- embryo E18 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@SAMD00005646
+|accession_numbers=CAGE;DRX008995;DRR009869;DRZ001294;DRZ002677;DRZ012644;DRZ014027
 |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 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr3:3634145..3634161,+!p1@Hnf4g!2.27!186.42!Hnf4g;;chr10:88969376..88969395,-!p1@Nr1h4!2.21!161.31!Nr1h4;;chr5:148118639..148118715,-!p1@Cdx2!2.15!141.15!Cdx2;;chr10:80555320..80555378,-!p1@Creb3l3!2.10!143.81!Creb3l3;;chr1:137155026..137155042,-!p1@Elf3!1.90!430.86!Elf3;;chr2:163372884..163372904,+!p1@Hnf4a!1.67!45.65!Hnf4a;;chr16:38294860..38294924,-!p1@Nr1i2!1.66!44.89!Nr1i2;;chr8:77396591..77396639,+!p1@Isx!1.63!42.04!Isx;;chr19:43686789..43686811,+!p1@Nkx2-3!1.45!27.01!Nkx2-3;;chr8:123608252..123608268,+!p1@Foxf1a!1.42!37.47!Foxf1a;;chr10:22539932..22539956,-!p1@Tcf21!1.41!65.06!Tcf21;;chr3:3508024..3508069,+!p2@Hnf4g!1.39!23.40!Hnf4g;;chr2:163332558..163332596,+!p2@Hnf4a!1.38!23.21!Hnf4a;;chr17:27865882..27865901,-!p1@Spdef!1.38!23.02!Spdef;;chr18:61195865..61195880,-!p1@Cdx1!1.36!21.88!Cdx1;;chr14:63864056..63864102,-!p1@Gata4!1.35!36.71!Gata4;;chr18:61195843..61195864,-!p2@Cdx1!1.33!20.16!Cdx1;;chr2:180069370..180069409,-!p1@Gata5!1.32!23.21!Gata5;;chr7:17647736..17647772,-!p1@Hif3a!1.31!68.10!Hif3a;;chr8:77397095..77397127,+!p2@Isx!1.31!19.21!Isx;;chr5:148118840..148118857,-!p2@Cdx2!1.30!18.83!Cdx2;;chr8:59799772..59799789,+!p1@Hand2!1.28!51.17!Hand2;;chr10:80555398..80555409,-!p2@Creb3l3!1.27!17.50!Creb3l3;;chr2:103143336..103143367,-!p1@Ehf!1.24!26.44!Ehf;;chr6:64679112..64679126,+!p1@Atoh1!1.24!16.55!Atoh1;;chr2:164228702..164228719,+!p1@Rbpjl!1.23!15.98!Rbpjl;;chr2:103123925..103123959,-!p3@Ehf!1.20!15.03!Ehf;;chr1:173144144..173144176,+!p1@Nr1i3!1.20!15.03!Nr1i3;;chr7:17642177..17642223,-!p3@Hif3a!1.17!13.89!Hif3a;;chr5:148118792..148118806,-!p3@Cdx2!1.17!13.89!Cdx2;;chr1:173144100..173144138,+!p2@Nr1i3!1.17!13.70!Nr1i3;;chr11:57645506..57645523,-!p1@Hand1!1.16!13.51!Hand1;;chr13:31717548..31717596,+!p1@Foxf2!1.15!26.25!Foxf2;;chr10:88996336..88996380,-!p2@Nr1h4!1.15!16.36!Nr1h4;;chr18:64499674..64499696,+!p1@Onecut2!1.14!22.07!Onecut2;;chr10:44178521..44178557,-!p1@Prdm1!1.13!22.26!Prdm1;;chr14:99697871..99697934,+!p1@Klf5!1.11!233.98!Klf5;;chr7:19608891..19608895,-!p1@Foxa3!1.11!15.60!Foxa3;;chr10:127095407..127095440,+!p3@Stat6!1.11!14.65!Stat6;;chr3:30039329..30039355,-!p5@Mecom!1.11!11.79!Mecom;;chr5:115421065..115421088,-!p1@Hnf1a!1.09!11.41!Hnf1a;;chr18:11052485..11052508,+!p2@Gata6!1.07!30.25!Gata6;;chr1:165219345..165219366,-!p7@Prrx1!1.07!10.65!Prrx1;;chr10:44178375..44178390,-!p2@Prdm1!1.06!14.46!Prdm1;;chr2:19367259..19367278,+!p1@Ptf1a!1.05!10.27!Ptf1a;;chr18:64499706..64499721,+!p2@Onecut2!1.04!14.08!Onecut2;;chr8:77396650..77396662,+!p4@Isx!1.04!9.89!Isx;;chr2:153067445..153067460,-!p6@Plagl2!1.04!9.89!Plagl2;;chr4:133109285..133109308,+!p1@Nr0b2!1.02!9.51!Nr0b2;;chr11:98614335..98614349,+!p8@Thra!1.01!9.32!Thra;;chr5:148118614..148118625,-!p4@Cdx2!1.01!9.13!Cdx2;;chr7:17642018..17642045,-!p4@Hif3a!1.00!10.46!Hif3a;;chr10:44178493..44178520,-!p3@Prdm1!0.96!11.41!Prdm1;;chr9:59797503..59797513,-!p3@Nr2e3!0.96!8.18!Nr2e3;;chr18:11052456..11052477,+!p3@Gata6!0.95!25.30!Gata6;;chr8:77397492..77397514,+!p3@Isx!0.95!7.99!Isx;;chr5:144951153..144951203,+!p1@Bhlha15!0.94!11.41!Bhlha15;;chr5:67490284..67490302,-!p1@Phox2b!0.94!7.80!Phox2b;;chr7:108966820..108966835,+!p1@Phox2a!0.94!7.80!Phox2a;;chr6:99216375..99216395,-!p5@Foxp1!0.94!7.80!Foxp1;;chr2:103143315..103143328,-!p2@Ehf!0.94!7.80!Ehf;;chr5:148118809..148118832,-!p5@Cdx2!0.93!7.61!Cdx2;;chr9:59797525..59797538,-!p2@Nr2e3!0.93!7.61!Nr2e3;;chr6:16848443..16848459,-!p3@Tfec!0.93!7.42!Tfec;;chr1:194979315..194979359,+!p1@Irf6!0.92!46.61!Irf6;;chr7:148452314..148452329,-!p1@Irf7!0.91!51.93!Irf7;;chr6:83020355..83020371,-!p1@Tlx2!0.91!7.04!Tlx2;;chr19:5560600..5560617,-!p1@Ovol1!0.89!8.37!Ovol1;;chr8:118231678..118231692,-!p2@Maf!0.88!62.39!Maf;;chr9:59796270..59796294,-!p4@Nr2e3!0.87!6.47!Nr2e3;;chr2:163372869..163372882,+!p3@Hnf4a!0.87!6.47!Hnf4a;;chr14:63890545..63890560,-!p5@Gata4!0.87!6.47!Gata4;;chr11:96164821..96164865,+!p1@Hoxb5!0.87!6.47!Hoxb5;;chr10:44178474..44178487,-!p4@Prdm1!0.86!9.32!Prdm1;;chr8:77397190..77397202,+!p5@Isx!0.86!6.28!Isx;;chr3:3508005..3508021,+!p3@Hnf4g!0.86!6.28!Hnf4g;;chr3:90046995..90047031,-!p2@Creb3l4!0.85!7.80!Creb3l4;;chr2:153067233..153067236,-!p4@Plagl2!0.85!7.61!Plagl2;;chr10:12810631..12810649,+!p1@Plagl1!0.84!164.16!Plagl1;;chr2:160192793..160192809,-!p1@Mafb!0.84!95.11!Mafb;;chr7:17642053..17642066,-!p2@Hif3a!0.82!8.18!Hif3a;;chr6:16848395..16848416,-!p2@Tfec!0.82!6.66!Tfec;;chr2:153067094..153067130,-!p1@Plagl2!0.81!147.04!Plagl2;;chr2:153067138..153067147,-!p3@Plagl2!0.81!9.32!Plagl2;;chr1:194982959..194983007,+!p5@Irf6!0.80!5.33!Irf6;;chr2:153067079..153067090,-!p2@Plagl2!0.79!11.41!Plagl2;;chr19:43686882..43686906,+!p2@Nkx2-3!0.79!5.14!Nkx2-3;;chr13:55932591..55932622,-!p1@Pitx1!0.78!6.09!Pitx1;;chr18:11052642..11052659,+!p1@Gata6!0.77!27.20!Gata6;;chr2:79296783..79296801,-!p1@Neurod1!0.77!4.95!Neurod1;;chr12:39510206..39510249,+!p3@Etv1!0.77!4.95!Etv1;;chr10:119913310..119913366,-!p1@Hmga2!0.76!41.09!Hmga2;;chr10:86956396..86956411,-!p1@Ascl1!0.76!7.61!Ascl1;;chr9:59796330..59796350,-!p6@Nr2e3!0.76!4.76!Nr2e3;;chr9:59797133..59797145,-!p7@Nr2e3!0.76!4.76!Nr2e3;;chr8:77397026..77397036,+!p6@Isx!0.76!4.76!Isx;;chr2:77357622..77357704,-!p1@Zfp385b!0.75!13.51!Zfp385b;;chr2:74583776..74583815,+!p3@Hoxd3!0.75!4.57!Hoxd3;;chr15:102828658..102828678,+!p1@Hoxc6!0.75!4.57!Hoxc6;;chr6:99216360..99216372,-!p8@Foxp1!0.75!4.57!Foxp1;;chr6:52154414..52154462,-!p1@Hoxa5!0.73!6.28!Hoxa5;;chr12:58646974..58647003,-!p1@Foxa1!0.73!6.09!Foxa1;;chr1:138857048..138857071,-!p2@Nr5a2!0.73!4.38!Nr5a2;;chr6:86619104..86619119,-!p1@Mxd1!0.72!39.00!Mxd1;;chr11:96153767..96153822,+!p1@Hoxb6!0.71!6.66!Hoxb6;;chr10:61595830..61595846,+!p1@Neurog3!0.71!4.18!Neurog3;;chr2:180069410..180069421,-!p3@Gata5!0.71!4.18!Gata5;;chr14:63890519..63890539,-!p3@Gata4!0.71!4.18!Gata4;;chr1:194979361..194979373,+!p2@Irf6!0.70!5.71!Irf6;;chr6:16848347..16848391,-!p1@Tfec!0.70!5.52!Tfec;;chr10:44178575..44178590,-!p5@Prdm1!0.70!5.14!Prdm1;;chr14:63890491..63890516,-!p2@Gata4!0.70!3.99!Gata4;;chr3:94176733..94176794,+!p1@Rorc!0.69!34.24!Rorc;;chr5:135582751..135582788,+!p1@Mlxipl!0.68!17.31!Mlxipl;;chr5:120121446..120121461,+!p2@Tbx3!0.68!14.08!Tbx3;;chr1:57029281..57029326,-!p1@Satb2!0.68!6.28!Satb2;;chr2:180069640..180069660,-!p4@Gata5!0.68!3.80!Gata5;;chr8:123651727..123651748,+!p1@ENSMUST00000062634!0.68!3.80!Foxl1;;chr5:120121020..120121049,+!p1@Tbx3!0.67!25.87!Tbx3;;chr10:80598968..80599012,+!p5@Zbtb7a!0.67!4.95!Zbtb7a;;chr10:126778916..126778974,-!p1@Gli1!0.66!8.94!Gli1;;chr3:128916868..128916890,+!p1@Pitx2!0.66!5.14!Pitx2;;chr13:31717597..31717613,+!p2@Foxf2!0.66!3.61!Foxf2;;chr5:115421126..115421137,-!p4@Hnf1a!0.66!3.61!Hnf1a;;chr19:6996243..6996293,-!p1@Esrra!0.65!44.89!Esrra;;chr1:138846009..138846038,-!p3@Nr5a2!0.65!3.99!Nr5a2;;chr7:35904304..35904320,+!p1@Cebpa!0.64!81.61!Cebpa;;chr8:123260252..123260264,+!p1@Irf8!0.64!27.39!Irf8;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.64!10.84!Tfcp2l1;;chr8:118231705..118231722,-!p3@Maf!0.63!31.01!Maf;;chr18:11052606..11052633,+!p4@Gata6!0.63!9.32!Gata6;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.63!6.09!Hoxb2;;chr6:52190467..52190500,-!p1@Hoxa10!0.63!3.23!Hoxa10;;chr15:35225845..35225867,+!p1@Osr2!0.62!9.13!Osr2;;chr6:52154386..52154407,-!p2@Hoxa5!0.62!4.18!Hoxa5;;chr7:56136362..56136400,-!p1@E2f8!0.61!23.78!E2f8;;chr13:31650185..31650201,+!p1@Foxq1!0.61!12.36!Foxq1;;chr1:138846047..138846074,-!p5@Nr5a2!0.61!3.42!Nr5a2;;chr6:52195795..52195825,-!p1@Hoxa11!0.61!3.04!Hoxa11;;chr11:83664365..83664383,+!p1@Hnf1b!0.61!3.04!Hnf1b;;chr9:59796372..59796383,-!p8@Nr2e3!0.61!3.04!Nr2e3;;chr14:79915425..79915501,+!p1@Elf1!0.60!31.77!Elf1;;chrX:45245679..45245702,-!p1@Smarca1!0.60!15.79!Smarca1;;chr15:85566014..85566045,+!p3@Ppara!0.60!4.38!Ppara;;chr10:88996295..88996335,-!p3@Nr1h4!0.59!3.61!Nr1h4;;chr11:60023912..60023930,-!p1@Srebf1!0.57!82.75!Srebf1;;chr13:44825008..44825066,+!p5@Jarid2!0.56!5.90!Jarid2;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.56!4.57!Ncoa4;;chr2:71384802..71384815,-!p1@Dlx2!0.56!3.42!Dlx2;;chr3:128916838..128916856,+!p4@Pitx2!0.56!2.66!Pitx2;;chr2:180069423..180069434,-!p2@Gata5!0.56!2.66!Gata5;;chr9:59797088..59797101,-!p9@Nr2e3!0.56!2.66!Nr2e3;;chr5:29805118..29805137,-!p1@Mnx1!0.56!2.66!Mnx1;;chr7:6649134..6649167,-!p1@Zim1!0.55!16.93!Zim1;;chr19:53384910..53384937,+!p3@Mxi1!0.55!8.56!Mxi1;;chr13:31650026..31650045,+!p2@Foxq1!0.55!4.76!Foxq1;;chr7:86956107..86956152,+!p@chr7:86956107..86956152,+!0.55!4.38!Mesp2;;chr11:96145450..96145517,+!p2@Hoxb7!0.55!4.18!Hoxb7;;chr7:56136349..56136360,-!p5@E2f8!0.55!3.42!E2f8;;chr11:53583544..53583559,+!p1@Irf1!0.54!52.50!Irf1;;chr1:120879128..120879183,-!p3@Gli2!0.54!5.33!Gli2;;chr2:91035254..91035271,-!p3@Nr1h3!0.54!3.23!Nr1h3;;chr15:85566051..85566080,+!p4@Ppara!0.54!3.04!Ppara;;chr15:79178559..79178584,+!p8@Maff!0.54!2.47!Maff;;chr8:77397169..77397182,+!p7@Isx!0.54!2.47!Isx;;chr13:55932739..55932756,-!p5@Pitx1!0.54!2.47!Pitx1;;chr15:79177964..79177986,+!p1@Maff!0.53!10.08!Maff;;chr16:87699206..87699229,+!p3@Bach1!0.52!15.79!Bach1;;chr6:39068163..39068176,-!p2@Parp12!0.52!4.95!Parp12;;chr5:115420882..115420896,-!p3@Hnf1a!0.52!2.28!Hnf1a;;chr6:16848460..16848471,-!p5@Tfec!0.52!2.28!Tfec;;chr12:30213247..30213333,+!p1@Myt1l!0.52!2.28!Myt1l;;chr19:5560570..5560582,-!p2@Ovol1!0.52!2.28!Ovol1;;chr9:74709695..74709722,+!p1@Onecut1!0.52!2.28!Onecut1;;chr11:83664334..83664353,+!p2@Hnf1b!0.52!2.28!Hnf1b;;chr2:166888058..166888105,-!p2@Znfx1!0.51!8.94!Znfx1;;chr2:133377954..133377973,+!p1@Bmp2!0.51!8.75!Bmp2;;chr6:52114821..52114828,-!p1@Hoxa2!0.51!3.80!Hoxa2;;chr6:52664406..52664434,+!p3@Tax1bp1!0.51!2.85!Tax1bp1;;chr6:108610610..108610676,+!p1@Bhlhe40!0.50!141.53!Bhlhe40;;chr12:39507680..39507715,+!p2@Etv1!0.50!4.95!Etv1;;chr1:138845748..138845766,-!p4@Nr5a2!0.50!3.04!Nr5a2;;chr19:10315179..10315241,-!p1@Gm98!0.49!28.72!Gm98;;chr4:154010918..154010931,-!p1@Prdm16!0.49!7.61!Prdm16;;chr1:186556323..186556370,-!p2@Hlx!0.49!7.04!Hlx;;chr11:60036258..60036276,-!p3@Srebf1!0.49!4.18!Srebf1;;chr11:9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@Pbx3!0.11!0.38!Pbx3;;chr7:51809271..51809325,-!p1@Nr1h2!0.10!63.15!Nr1h2;;chr17:27693558..27693580,+!p1@Hmga1-rs1,p1@Hmga1!0.10!52.88!Hmga1;;chr8:107821563..107821642,+!p1@E2f4!0.10!31.77!E2f4;;chr16:95924005..95924042,+!p2@Ets2!0.10!19.97!Ets2;;chr17:46693107..46693137,-!p1@Srf!0.10!10.46!Srf;;chr18:55152206..55152251,-!p1@Zfp608!0.10!10.46!Zfp608;;chr11:101413151..101413207,-!p1@Brca1!0.10!10.27!Brca1;;chr17:71199121..71199165,-!p2@Tgif1!0.10!7.42!Tgif1;;chr19:37509324..37509337,+!p1@Hhex!0.10!7.23!Hhex;;chr10:127176572..127176648,+!p1@Zbtb39!0.10!6.47!Zbtb39;;chr2:48805015..48805042,+!p2@Mbd5!0.10!6.09!Mbd5;;chr17:23701084..23701128,-!p1@Zfp213!0.10!4.76!Zfp213;;chr13:67552527..67552574,-!p1@Zfp874a!0.10!4.18!Zfp874a;;chr2:163028808..163028869,+!p1@Tox2!0.10!3.23!Tox2;;chr16:33380851..33380873,+!p3@Zfp148!0.10!3.23!Zfp148;;chr11:101646566..101646603,-!p1@Etv4!0.10!2.85!Etv4;;chr10:127984472..127984504,-!p2@Zc3h10!0.10!2.85!Zc3h10;;chr4:124805061..124805087,-!p1@Zc3h12a!0.10!2.66!Zc3h12a;;chr11:53164533..53164548,+!p4@Aff4!0.10!2.47!Aff4;;chr7:119822828..119822839,+!p4@Tead1!0.10!2.47!Tead1;;chr5:134790326..134790343,-!p8@Gtf2i!0.10!1.90!Gtf2i;;chr16:8672256..8672279,-!p1@Carhsp1,p1@Gm9791!0.10!1.71!Carhsp1;;chr17:27693818..27693830,+!p7@Hmga1-rs1,p8@Hmga1!0.10!1.71!Hmga1;;chr1:170361991..170362015,-!p6@Pbx1!0.10!1.71!Pbx1;;chr2:153475381..153475419,+!p3@Dnmt3b!0.10!1.52!Dnmt3b;;chr11:70501599..70501634,-!p2@Camta2,p2@LOC100048818!0.10!1.52!Camta2;;chr11:100712053..100712077,-!p3@Stat5b!0.10!1.33!Stat5b;;chr7:130644017..130644092,-!p1@Zkscan2!0.10!1.33!Zkscan2;;chr6:72185553..72185612,-!p2@Atoh8!0.10!1.33!Atoh8;;chr9:122812356..122812381,+!p@chr9:122812356..122812381,+!0.10!1.33!Gm8008;;chr2:65683890..65683907,+!p1@Csrnp3!0.10!1.33!Csrnp3;;chr17:3557785..3557797,-!p3@Tfb1m!0.10!1.33!Tfb1m;;chr18:79306603..79306620,-!p4@Setbp1!0.10!0.95!Setbp1;;chr19:28754600..28754612,-!p2@Glis3!0.10!0.95!Glis3;;chr19:53385060..53385069,+!p6@Mxi1!0.10!0.76!Mxi1;;chr17:46693053..46693064,-!p4@Srf!0.10!0.76!Srf;;chr6:47785727..47785738,+!p6@Zfp398!0.10!0.76!Zfp398;;chr5:108494686..108494701,+!p3@Mtf2!0.10!0.76!Mtf2;;chr10:127080091..127080100,+!p4@Stat6!0.10!0.76!Stat6;;chr10:126779021..126779032,-!p2@Gli1!0.10!0.57!Gli1;;chr6:128250380..128250442,-!p2@Tead4!0.10!0.57!Tead4;;chr16:43364215..43364252,+!p14@Zbtb20!0.10!0.57!Zbtb20;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!0.10!0.57!Pou3f3;;chr2:77654815..77654872,-!p2@Zfp385b!0.10!0.57!Zfp385b;;chr2:77654650..77654685,-!p3@Zfp385b!0.10!0.57!Zfp385b;;chr8:111227455..111227464,+!p@chr8:111227455..111227464,+!0.10!0.57!Zfhx3;;chr8:79423672..79423727,+!p2@Nr3c2!0.10!0.57!Nr3c2;;chr7:24867205..24867217,+!p2@Zfp180!0.10!0.38!Zfp180;;chr14:22806778..22806795,-!p5@Zfp503!0.10!0.38!Zfp503;;chr11:44431191..44431205,+!p11@Ebf1!0.10!0.38!Ebf1;;chr3:29912154..29912168,-!p11@Mecom!0.10!0.38!Mecom;;chr6:124662297..124662371,+!p1@Phb2!0.09!221.80!Phb2;;chr5:138187195..138187255,+!p1@Tsc22d4!0.09!47.37!Tsc22d4;;chr16:15887371..15887385,+!p1@Cebpd!0.09!37.28!Cebpd;;chr2:27532754..27532815,+!p1@Rxra!0.09!31.77!Rxra;;chr10:76424613..76424689,-!p1@Pcbp3!0.09!22.83!Pcbp3;;chr19:41557122..41557178,+!p1@Lcor!0.09!22.45!Lcor;;chr7:117205217..117205246,+!p1@Zfp143!0.09!21.31!Zfp143;;chr9:96096707..96096772,+!p1@Tfdp2!0.09!16.17!Tfdp2;;chr11:101087728..101087769,-!p1@Ezh1!0.09!15.79!Ezh1;;chr11:4604645..4604705,+!p1@Zmat5!0.09!13.89!Zmat5;;chr10:30522881..30522960,-!p1@Ncoa7!0.09!12.75!Ncoa7;;chr18:39650303..39650371,-!p1@Nr3c1!0.09!11.98!Nr3c1;;chr7:24993112..24993158,-!p1@Zfp111!0.09!10.84!Zfp111;;chr6:124959279..124959335,+!p1@Zfp384!0.09!10.08!Zfp384;;chr7:105851601..105851647,+!p2@Prkrir!0.09!9.70!Prkrir;;chr7:50835064..50835134,+!p1@Zfp719!0.09!7.99!Zfp719;;
@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011511
 |is_obsolete=
+|library_id=CNhs10526
+|library_id_phase_based=2:CNhs10526
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1289
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1289
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E18.CNhs10526.1289-20F7.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E18.CNhs10526.1289-20F7.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E18.CNhs10526.1289-20F7.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E18.CNhs10526.1289-20F7.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestine%252c%2520embryo%2520E18.CNhs10526.1289-20F7.mm9.nobarcode.rdna.fa.gz
 |name=intestine, embryo E18
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10526,LSID649,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.181103580465662,0,0,0,0,0,-0.162501226035956,0,0,0,0,0.0556818346399973,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0,0.196086850610712,0,0,0,0,0,0,0.0483464714880941,0,0,0,0.626733994843793,0,-0.0164445324105608,-0.0197114341312223,-0.038113091445058,0.245699529270329,0.24636355114708,0,0,0,0,0,0,0,0,0,0,0,0,0.130081303047272,0.0756292965920817,0,0,0,0,0,-0.101035423293598,0,0,0,-0.0473792653900568,-0.235021360747305,-0.0824617461790008,-0.0345339393347739,0,0,-0.00100079842271572,-0.0643765326134028,0,0,0,0.0498995057385436,-0.194203377739198,-0.00320229824782572,0,0,0,0,0,0,-0.1445914937959,-0.223319812794894,-0.12978192719486,0,0,0,0,0
@@ Line 62: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 82: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:1289-20F7;search_select_hide=table117:1289-20F7
 }}

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FF:1289-20F7: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:47, 4 June 2020

CNhs10526

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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