FF:431-16C8: Difference between revisions

Latest revision as of 19:16, 4 June 2020

Name:	heart, embryo E15
Species:	Mouse (Mus musculus)
Library ID:	CNhs11017
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	heart
dev stage	15 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		SAMD00005258

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11017		CAGE		DRX008975		DRR009849

Accession ID Mm9

Library id		BAM		CTSS
CNhs11017		DRZ001274		DRZ002657

Accession ID Mm10

Library id		BAM		CTSS
CNhs11017		DRZ012624		DRZ014007

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

CNhs11017

0	0
1	0
10	0.201
100	0
1000	0.253
1001	0.343
1002	0.406
1003	-0.0271
1004	0
1005	0
1006	0.235
1007	0.0231
1008	0
1009	0.211
101	0.00274
1010	0
1011	-2.590399e-4
1012	0
1013	-0.297
1014	0.523
1015	0.0902
1016	0.165
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	0.552
1023	0
1024	0.165
1025	0
1026	0
1027	0
1028	0
1029	0.0762
103	0.0539
1030	0
1031	0.358
1032	0.034
1033	-0.0752
1034	0
1035	0.575
1036	0.0449
1037	0
1038	0.102
1039	0.0664
104	0
1040	0.115
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: CNhs11017

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0238
MA0003.1	MA0003.1	0.55
MA0004.1	MA0004.1	0.276
MA0006.1	MA0006.1	0.886
MA0007.1	MA0007.1	0.0901
MA0009.1	MA0009.1	0.669
MA0014.1	MA0014.1	0.527
MA0017.1	MA0017.1	0.00966
MA0018.2	MA0018.2	0.103
MA0019.1	MA0019.1	0.558
MA0024.1	MA0024.1	0.00262
MA0025.1	MA0025.1	0.208
MA0027.1	MA0027.1	0.098
MA0028.1	MA0028.1	0.668
MA0029.1	MA0029.1	0.505
MA0030.1	MA0030.1	0.0656
MA0031.1	MA0031.1	0.0971
MA0035.2	MA0035.2	0.21
MA0038.1	MA0038.1	0.883
MA0039.2	MA0039.2	0.034
MA0040.1	MA0040.1	0.044
MA0041.1	MA0041.1	0.249
MA0042.1	MA0042.1	0.396
MA0043.1	MA0043.1	0.436
MA0046.1	MA0046.1	8.0487e-16
MA0047.2	MA0047.2	0.0222
MA0048.1	MA0048.1	0.0214
MA0050.1	MA0050.1	1.59763e-4
MA0051.1	MA0051.1	0.0185
MA0052.1	MA0052.1	3.60077e-28
MA0055.1	MA0055.1	2.53487e-4
MA0057.1	MA0057.1	0.818
MA0058.1	MA0058.1	0.428
MA0059.1	MA0059.1	0.901
MA0060.1	MA0060.1	0.91
MA0061.1	MA0061.1	0.28
MA0062.2	MA0062.2	0.00705
MA0065.2	MA0065.2	0.201
MA0066.1	MA0066.1	0.72
MA0067.1	MA0067.1	0.395
MA0068.1	MA0068.1	0.195
MA0069.1	MA0069.1	0.285
MA0070.1	MA0070.1	0.534
MA0071.1	MA0071.1	0.926
MA0072.1	MA0072.1	0.143
MA0073.1	MA0073.1	0.871
MA0074.1	MA0074.1	0.696
MA0076.1	MA0076.1	0.16
MA0077.1	MA0077.1	0.839
MA0078.1	MA0078.1	0.296
MA0079.2	MA0079.2	0.72
MA0080.2	MA0080.2	0.0313
MA0081.1	MA0081.1	0.941
MA0083.1	MA0083.1	1.32254e-14
MA0084.1	MA0084.1	0.801
MA0087.1	MA0087.1	0.751
MA0088.1	MA0088.1	0.556
MA0090.1	MA0090.1	0.00245
MA0091.1	MA0091.1	0.774
MA0092.1	MA0092.1	0.832
MA0093.1	MA0093.1	0.31
MA0099.2	MA0099.2	6.11104e-8
MA0100.1	MA0100.1	0.792
MA0101.1	MA0101.1	0.503
MA0102.2	MA0102.2	0.00433
MA0103.1	MA0103.1	1.3511e-6
MA0104.2	MA0104.2	0.702
MA0105.1	MA0105.1	0.578
MA0106.1	MA0106.1	0.848
MA0107.1	MA0107.1	0.498
MA0108.2	MA0108.2	0.695
MA0111.1	MA0111.1	0.548
MA0112.2	MA0112.2	0.152
MA0113.1	MA0113.1	0.568
MA0114.1	MA0114.1	1.50481e-4
MA0115.1	MA0115.1	0.833
MA0116.1	MA0116.1	0.317
MA0117.1	MA0117.1	0.236
MA0119.1	MA0119.1	0.0372
MA0122.1	MA0122.1	0.841
MA0124.1	MA0124.1	0.408
MA0125.1	MA0125.1	0.735
MA0131.1	MA0131.1	0.963
MA0135.1	MA0135.1	0.266
MA0136.1	MA0136.1	0.0225
MA0137.2	MA0137.2	0.0217
MA0138.2	MA0138.2	0.24
MA0139.1	MA0139.1	0.541
MA0140.1	MA0140.1	0.148
MA0141.1	MA0141.1	6.26454e-5
MA0142.1	MA0142.1	0.237
MA0143.1	MA0143.1	0.945
MA0144.1	MA0144.1	0.186
MA0145.1	MA0145.1	0.282
MA0146.1	MA0146.1	0.945
MA0147.1	MA0147.1	0.665
MA0148.1	MA0148.1	0.0571
MA0149.1	MA0149.1	0.116
MA0150.1	MA0150.1	0.00334
MA0152.1	MA0152.1	0.973
MA0153.1	MA0153.1	4.81962e-11
MA0154.1	MA0154.1	0.59
MA0155.1	MA0155.1	0.24
MA0156.1	MA0156.1	6.13926e-4
MA0157.1	MA0157.1	0.237
MA0159.1	MA0159.1	0.141
MA0160.1	MA0160.1	0.0727
MA0162.1	MA0162.1	0.0922
MA0163.1	MA0163.1	0.198
MA0164.1	MA0164.1	0.363
MA0258.1	MA0258.1	0.717
MA0259.1	MA0259.1	0.389

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: CNhs11017

Novel motif	Logo	P-value
1	1	0.982
10	10	0.869
100	100	0.725
101	101	0.883
102	102	0.667
103	103	0.435
104	104	0.927
105	105	0.672
106	106	0.373
107	107	0.952
108	108	0.978
109	109	0.772
11	11	0.463
110	110	0.175
111	111	0.52
112	112	0.267
113	113	0.583
114	114	0.652
115	115	0.834
116	116	0.344
117	117	0.423
118	118	0.249
119	119	0.607
12	12	0.6
120	120	0.144
121	121	0.923
122	122	0.28
123	123	0.101
124	124	0.756
125	125	0.836
126	126	0.947
127	127	0.226
128	128	0.0439
129	129	0.864
13	13	0.00168
130	130	0.375
131	131	0.478
132	132	0.687
133	133	0.638
134	134	0.737
135	135	0.914
136	136	0.0743
137	137	0.502
138	138	0.164
139	139	0.605
14	14	0.923
140	140	0.669
141	141	0.365
142	142	0.8
143	143	0.512
144	144	0.119
145	145	0.0756
146	146	0.332
147	147	0.756
148	148	0.871
149	149	0.739
15	15	0.32
150	150	0.329
151	151	0.148
152	152	0.754
153	153	0.566
154	154	0.704
155	155	0.297
156	156	0.0189
157	157	0.596
158	158	0.36
159	159	0.0869
160	160	0.31
161	161	0.748
162	162	0.915
163	163	0.99
164	164	0.734
165	165	0.108
166	166	0.586
167	167	0.794
168	168	0.574
169	169	0.00506
17	17	0.288
18	18	0.104
19	19	0.246
2	2	0.343
20	20	0.247
21	21	0.739
22	22	0.447
23	23	0.284
24	24	0.614
25	25	0.473
26	26	0.0049
27	27	0.215
28	28	0.221
29	29	0.969
3	3	0.819
30	30	0.0391
31	31	0.461
32	32	0.505
33	33	0.111
34	34	0.528
35	35	0.25
36	36	0.138
37	37	0.272
38	38	0.585
39	39	0.455
4	4	0.513
40	40	0.00333
41	41	0.863
42	42	0.606
43	43	0.863
44	44	0.75
45	45	0.0453
46	46	0.951
47	47	0.843
48	48	0.954
49	49	0.569
5	5	0.973
50	50	0.525
51	51	0.953
52	52	0.695
53	53	0.741
54	54	0.654
55	55	0.183
56	56	0.766
57	57	0.323
58	58	0.886
59	59	0.324
6	6	0.0687
60	60	0.762
61	61	0.4
62	62	0.564
63	63	0.759
64	64	0.577
65	65	0.456
66	66	0.578
67	67	0.786
68	68	0.175
69	69	0.277
7	7	0.357
70	70	0.00975
71	71	0.0157
72	72	0.0814
73	73	0.547
74	74	0.891
75	75	0.33
76	76	0.544
77	77	0.617
78	78	0.393
79	79	0.373
8	8	0.712
80	80	0.0118
81	81	0.461
82	82	0.903
83	83	0.785
84	84	0.81
85	85	0.383
86	86	0.673
87	87	4.03396e-5
88	88	0.349
89	89	0.114
9	9	0.557
90	90	0.823
91	91	0.117
92	92	0.25
93	93	0.229
94	94	0.261
95	95	0.607
96	96	0.359
97	97	0.157
98	98	0.357
99	99	0.455

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: CNhs11017

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011347 mouse heart- embryo E15 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)
0007100 (primary circulatory organ)
0000948 (heart)
0000479 (tissue)
0010314 (structure with developmental contribution from neural crest)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003103 (compound organ)
0010317 (germ layer / neural crest derived structure)
0004535 (cardiovascular system)
0001009 (circulatory 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)
0000298 (mouse embryonic day 15 sample)
0011347 (mouse heart- embryo E15 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:0006603 (presumptive mesoderm)
UBERON:0004872 (splanchnic layer of lateral plate mesoderm)
UBERON:0004140 (primary heart field)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005258
+|accession_numbers=CAGE;DRX008975;DRR009849;DRZ001274;DRZ002657;DRZ012624;DRZ014007
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0007100,UBERON:0000948,UBERON:0000479,UBERON:0010314,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003103,UBERON:0010317,UBERON:0004535,UBERON:0001009
 |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=chr9:24578720..24578735,-!p1@Tbx20!2.46!284.91!Tbx20;;chr17:26978409..26978442,-!p1@Nkx2-5!1.95!89.13!Nkx2-5;;chr8:59799772..59799789,+!p1@Hand2!1.82!180.83!Hand2;;chr5:77543897..77543911,-!p2@Hopx!1.71!94.84!Hopx;;chr14:63864056..63864102,-!p1@Gata4!1.71!85.99!Gata4;;chr6:97879817..97879857,+!p2@Mitf!1.58!36.60!Mitf;;chr1:189821714..189821761,+!p1@Esrrg!1.36!40.53!Esrrg;;chr11:101755669..101755686,-!p1@Meox1!1.36!38.96!Meox1;;chr10:30562571..30562597,-!p1@Hey2!1.32!46.04!Hey2;;chr5:77544108..77544119,-!p7@Hopx!1.26!17.12!Hopx;;chr5:77544170..77544181,-!p6@Hopx!1.25!16.92!Hopx;;chr7:119885539..119885574,+!p3@Tead1!1.24!16.53!Tead1;;chr17:26978521..26978536,-!p2@Nkx2-5!1.24!16.33!Nkx2-5;;chr10:22539932..22539956,-!p1@Tcf21!1.23!42.50!Tcf21;;chr9:87626083..87626108,-!p1@Tbx18!1.22!34.04!Tbx18;;chr5:120285144..120285160,+!p1@Tbx5!1.19!14.56!Tbx5;;chr2:120365588..120365602,-!p2@Zfp106!1.18!23.61!Zfp106;;chr14:63890491..63890516,-!p2@Gata4!1.18!13.97!Gata4;;chr14:63890660..63890687,-!p7@Gata4!1.17!13.77!Gata4;;chr14:63890459..63890484,-!p4@Gata4!1.14!12.79!Gata4;;chr10:12810631..12810649,+!p1@Plagl1!1.10!299.08!Plagl1;;chr11:57645506..57645523,-!p1@Hand1!1.07!10.63!Hand1;;chr7:17647736..17647772,-!p1@Hif3a!1.05!36.60!Hif3a;;chr18:11052485..11052508,+!p2@Gata6!1.01!26.37!Gata6;;chr4:148178559..148178603,+!p1@Casz1!1.00!26.37!Casz1;;chr5:24107779..24107825,-!p1@Smarcd3!0.99!60.01!Smarcd3;;chr18:11052456..11052477,+!p3@Gata6!0.99!27.74!Gata6;;chr10:30562617..30562637,-!p2@Hey2!0.97!10.63!Hey2;;chr5:77543935..77543947,-!p4@Hopx!0.97!8.26!Hopx;;chr13:73397958..73397994,+!p1@Irx4!0.97!8.26!Irx4;;chr18:11052642..11052659,+!p1@Gata6!0.93!39.75!Gata6;;chr14:63890691..63890718,-!p8@Gata4!0.92!7.28!Gata4;;chr4:150482563..150482655,-!p2@Camta1!0.89!25.38!Camta1;;chr14:63890519..63890539,-!p3@Gata4!0.89!6.69!Gata4;;chr1:92895299..92895373,+!p2@Lrrfip1!0.88!142.46!Lrrfip1;;chr4:148178529..148178548,+!p3@Casz1!0.88!16.33!Casz1;;chr2:180069370..180069409,-!p1@Gata5!0.87!7.67!Gata5;;chr17:26978449..26978458,-!p3@Nkx2-5!0.87!6.49!Nkx2-5;;chr14:64562503..64562524,+!p1@Sox7!0.83!36.60!Sox7;;chr2:168415815..168415872,-!p1@Nfatc2!0.83!33.25!Nfatc2;;chr1:170362437..170362478,-!p5@Pbx1!0.82!18.50!Pbx1;;chrX:137135036..137135064,-!p4@Tsc22d3!0.81!11.22!Tsc22d3;;chr14:63890545..63890560,-!p5@Gata4!0.80!5.31!Gata4;;chr6:53523358..53523388,+!p1@Creb5!0.79!67.69!Creb5;;chr18:80909801..80909819,-!p1@Nfatc1!0.77!31.48!Nfatc1;;chr1:189432907..189432926,+!p3@Esrrg!0.77!4.92!Esrrg;;chr15:40486566..40486600,+!p1@Zfpm2!0.75!30.10!Zfpm2;;chr1:191994550..191994623,-!p1@Prox1!0.74!34.43!Prox1;;chr10:62327990..62328025,-!p2@Tet1!0.74!7.28!Tet1;;chr10:30562939..30562969,-!p5@Hey2!0.74!4.53!Hey2;;chr1:189432881..189432903,+!p2@Esrrg!0.74!4.53!Esrrg;;chr5:120285130..120285141,+!p3@Tbx5!0.74!4.53!Tbx5;;chr17:26978464..26978469,-!p4@Nkx2-5!0.74!4.53!Nkx2-5;;chr4:120488308..120488366,-!p1@Nfyc!0.73!27.94!Nfyc;;chr7:6649134..6649167,-!p1@Zim1!0.73!26.37!Zim1;;chr13:72766279..72766296,+!p2@Irx2!0.73!6.89!Irx2;;chr2:17976799..17976829,+!p5@Mllt10!0.73!5.51!Mllt10;;chr7:119822957..119822980,+!p2@Tead1!0.71!22.23!Tead1;;chr12:34642510..34642530,+!p1@Twist1!0.71!14.56!Twist1;;chr5:120285161..120285176,+!p2@Tbx5!0.71!4.13!Tbx5;;chr9:87625971..87625992,-!p2@Tbx18!0.71!4.13!Tbx18;;chr2:104966766..104966786,+!p1@Wt1!0.70!6.69!Wt1;;chr3:128917187..128917223,+!p2@Pitx2!0.70!4.72!Pitx2;;chr4:154010918..154010931,-!p1@Prdm16!0.69!12.79!Prdm16;;chr13:72766250..72766273,+!p1@Irx2!0.68!6.30!Irx2;;chr2:30700788..30700824,+!p2@Prrx2!0.68!6.10!Prrx2;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.67!16.53!Ppp1r13l;;chr8:92872242..92872285,-!p1@Tox3!0.67!10.43!Tox3;;chr4:87452180..87452196,-!p3@Mllt3!0.67!7.87!Mllt3;;chrX:45245644..45245666,-!p2@Smarca1!0.66!12.99!Smarca1;;chr8:94881733..94881790,+!p1@Irx5!0.66!7.67!Irx5;;chr14:63864337..63864381,-!p6@Gata4!0.66!3.54!Gata4;;chr6:97879802..97879816,+!p5@Mitf!0.66!3.54!Mitf;;chr15:40486615..40486628,+!p3@Zfpm2!0.64!5.71!Zfpm2;;chr13:73398004..73398017,+!p2@Irx4!0.64!3.34!Irx4;;chr5:77524250..77524300,-!p1@Hopx!0.63!77.72!Hopx;;chr11:98789140..98789168,+!p5@Rara!0.63!5.71!Rara;;chr4:135840573..135840601,+!p1@Zfp46!0.62!29.71!Zfp46;;chr8:94325321..94325366,-!p1@Irx3!0.62!8.66!Irx3;;chr4:82151148..82151159,-!p5@Nfib!0.61!10.03!Nfib;;chr15:40486883..40486903,+!p4@Zfpm2!0.61!4.33!Zfpm2;;chr7:123174485..123174514,-!p6@Sox6!0.61!3.94!Sox6;;chr16:43363152..43363186,+!p3@Zbtb20!0.59!7.48!Zbtb20;;chr7:17642053..17642066,-!p2@Hif3a!0.59!4.33!Hif3a;;chr2:151969288..151969294,+!p1@Tcf15!0.58!4.72!Tcf15;;chr5:138187775..138187845,+!p7@Tsc22d4!0.58!4.13!Tsc22d4;;chr5:20387850..20387869,-!p1@Phtf2!0.57!34.43!Phtf2;;chr8:92872177..92872201,-!p2@Tox3!0.57!5.31!Tox3;;chr7:119822915..119822936,+!p5@Tead1!0.57!4.92!Tead1;;chr10:92773591..92773623,-!p1@Elk3!0.56!74.18!Elk3;;chr12:39506873..39506913,+!p1@Etv1!0.56!33.65!Etv1;;chr12:28027561..28027591,-!p1@Sox11!0.56!21.05!Sox11;;chr4:154010940..154010962,-!p3@Prdm16!0.56!6.69!Prdm16;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!0.56!5.51!Zbtb38;;chr11:70043257..70043263,-!p1@Bcl6b!0.56!5.12!Bcl6b;;chr4:135129538..135129558,-!p1@Grhl3!0.56!4.33!Grhl3;;chr7:17642018..17642045,-!p4@Hif3a!0.56!3.15!Hif3a;;chr12:84828663..84828679,-!p1@Dpf3!0.55!24.79!Dpf3;;chr9:63869751..63869767,-!p1@Smad6!0.55!7.87!Smad6;;chr2:152223441..152223465,-!p2@Sox12!0.54!12.59!Sox12;;chr12:37835141..37835194,+!p1@Meox2!0.54!9.25!Meox2;;chr10:119913546..119913583,-!p3@Hmga2!0.54!5.90!Hmga2;;chr13:83663868..83663894,+!p2@Mef2c!0.53!44.27!Mef2c;;chr13:72101178..72101203,-!p1@Irx1!0.53!4.13!Irx1;;chrX:58146612..58146615,-!p1@Sox3!0.53!2.36!Sox3;;chr13:72101161..72101177,-!p2@Irx1!0.52!3.54!Irx1;;chr17:46693107..46693137,-!p1@Srf!0.51!28.53!Srf;;chr15:40486754..40486771,+!p2@Zfpm2!0.51!4.53!Zfpm2;;chr12:3891810..3891829,+!p2@Dnmt3a!0.51!3.94!Dnmt3a;;chr18:14131126..14131211,-!p1@Zfp521!0.50!60.80!Zfp521;;chr1:193007123..193007139,-!p1@Atf3!0.50!15.54!Atf3;;chr8:87225670..87225697,+!p2@Lyl1!0.50!7.87!Lyl1;;chr7:123174606..123174636,-!p5@Sox6!0.50!2.95!Sox6;;chr18:11052516..11052525,+!p5@Gata6!0.50!2.16!Gata6;;chr3:29911808..29911833,-!p8@Mecom!0.50!2.16!Mecom;;chr1:189821700..189821713,+!p4@Esrrg!0.50!2.16!Esrrg;;chr2:147190749..147190769,+!p1@Pax1!0.50!2.16!Pax1;;chr2:104966933..104966966,+!p3@Wt1!0.50!2.16!Wt1;;chr13:83663902..83663927,+!p1@Mef2c!0.49!67.69!Mef2c;;chr18:55152206..55152251,-!p1@Zfp608!0.49!26.76!Zfp608;;chr4:120624269..120624302,-!p1@Zfp69!0.49!9.44!Zfp69;;chr9:96653072..96653154,-!p1@Zbtb38!0.49!6.89!Zbtb38;;chr12:3891753..3891801,+!p4@Dnmt3a!0.49!3.94!Dnmt3a;;chr2:152223586..152223604,-!p5@Sox12!0.49!3.34!Sox12;;chr15:40486540..40486550,+!p6@Zfpm2!0.49!3.15!Zfpm2;;chr7:74517658..74517731,-!p1@Mef2a!0.48!123.57!Mef2a;;chr4:82151178..82151262,-!p1@Nfib!0.48!109.40!Nfib;;chr16:95680889..95680991,-!p1@Erg!0.48!21.84!Erg;;chr1:170362040..170362113,-!p2@Pbx1!0.48!20.86!Pbx1;;chr14:17407970..17408015,-!p2@Rarb!0.48!6.69!Rarb;;chr1:120879128..120879183,-!p3@Gli2!0.48!4.53!Gli2;;chr8:123640063..123640077,+!p1@Foxc2!0.48!4.33!Foxc2;;chr16:43503493..43503570,+!p9@Zbtb20!0.48!3.94!Zbtb20;;chr15:40486854..40486867,+!p7@Zfpm2!0.48!2.56!Zfpm2;;chr7:52471143..52471186,+!p1@Tead2!0.47!27.94!Tead2;;chr12:12948633..12948651,-!p1@Mycn!0.47!25.38!Mycn;;chrX:45245679..45245702,-!p1@Smarca1!0.47!11.41!Smarca1;;chr4:148275237..148275311,+!p2@Casz1!0.47!10.43!Casz1;;chr11:74981654..74981658,-!p1@Hic1!0.47!10.03!Hic1;;chr18:11052606..11052633,+!p4@Gata6!0.47!6.10!Gata6;;chr14:17407878..17407926,-!p1@Rarb!0.47!5.31!Rarb;;chr8:94325814..94325839,-!p2@Irx3!0.47!4.92!Irx3;;chr4:13712168..13712218,+!p4@Runx1t1!0.47!3.74!Runx1t1;;chr11:98602203..98602266,+!p4@Thra!0.47!3.54!Thra;;chr15:40486427..40486437,+!p5@Zfpm2!0.47!2.75!Zfpm2;;chr13:31898767..31898785,+!p4@Foxc1!0.47!2.56!Foxc1;;chr4:133109285..133109308,+!p1@Nr0b2!0.47!1.97!Nr0b2;;chr9:87625998..87626007,-!p4@Tbx18!0.47!1.97!Tbx18;;chr15:85565338..85565355,+!p7@Ppara!0.47!1.97!Ppara;;chr2:17976830..17976848,+!p12@Mllt10!0.47!1.97!Mllt10;;chr1:191993385..191993405,-!p3@Prox1!0.47!1.97!Prox1;;chr4:97444012..97444045,+!p4@Nfia!0.46!19.48!Nfia;;chr18:65741358..65741415,+!p1@Zfp532!0.46!10.63!Zfp532;;chr17:46693078..46693097,-!p3@Srf!0.46!10.03!Srf;;chr2:152223881..152223933,-!p3@Sox12!0.46!8.26!Sox12;;chr2:152223783..152223812,-!p4@Sox12!0.46!5.31!Sox12;;chr4:87452200..87452229,-!p2@Mllt3!0.46!4.92!Mllt3;;chr7:74517982..74518012,-!p2@Mef2a!0.46!4.13!Mef2a;;chr3:30408384..30408431,-!p4@Mecom!0.46!2.56!Mecom;;chr8:81552152..81552208,+!p1@Zfp827!0.45!18.10!Zfp827;;chr4:3865501..3865548,-!p1@Plag1!0.45!12.59!Plag1;;chr11:98789099..98789124,+!p3@Rara!0.45!7.48!Rara;;chr18:55152179..55152194,-!p5@Zfp608!0.45!6.69!Zfp608;;chr4:13712228..13712267,+!p3@Runx1t1!0.45!3.74!Runx1t1;;chr16:43364215..43364252,+!p14@Zbtb20!0.45!2.56!Zbtb20;;chr4:135129447..135129467,-!p2@Grhl3!0.45!2.36!Grhl3;;chr10:88996295..88996335,-!p3@Nr1h4!0.45!2.36!Nr1h4;;chr2:44965593..44965624,-!p3@Zeb2!0.44!13.58!Zeb2;;chr2:115891409..115891425,-!p2@Meis2!0.44!6.69!Meis2;;chr18:14130694..14130697,-!p2@Zfp521!0.44!5.12!Zfp521;;chr4:82151126..82151133,-!p8@Nfib!0.44!2.56!Nfib;;chr13:72101141..72101158,-!p3@Irx1!0.44!2.36!Irx1;;chr2:105003277..105003280,+!p5@Wt1!0.44!1.77!Wt1;;chr6:37392095..37392154,-!p1@Creb3l2!0.43!76.93!Creb3l2;;chr4:82151274..82151290,-!p3@Nfib!0.43!39.16!Nfib;;chr7:144506077..144506128,-!p1@Ebf3!0.43!4.92!Ebf3;;chr2:115891381..115891392,-!p5@Meis2!0.43!4.13!Meis2;;chr13:96095097..96095114,+!p5@Zbed3!0.43!3.54!Zbed3;;chr7:119822940..119822945,+!p6@Tead1!0.43!2.36!Tead1;;chr2:181406327..181406350,-!p1@Sox18!0.42!74.77!Sox18;;chr10:119913278..119913298,-!p2@Hmga2!0.42!4.72!Hmga2;;chr5:77524304..77524315,-!p5@Hopx!0.42!4.33!Hopx;;chr17:47873985..47874056,+!p1@Tfeb!0.41!18.50!Tfeb;;chr13:96095150..96095184,+!p2@Zbed3!0.41!15.94!Zbed3;;chr6:53018556..53018650,-!p1@Jazf1!0.41!15.15!Jazf1;;chr19:7342725..7342784,+!p1@Rcor2!0.41!9.05!Rcor2;;chr10:62328047..62328076,-!p3@Tet1!0.41!2.75!Tet1;;chr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Zfp595!0.12!2.16!Zfp595;;chr11:100683839..100683890,-!p2@Stat5b!0.12!1.97!Stat5b;;chr14:56443806..56443848,+!p1@Nfatc4!0.12!1.57!Nfatc4;;chr19:55816278..55816287,+!p10@Tcf7l2!0.12!1.57!Tcf7l2;;chr14:56443698..56443726,+!p2@Nfatc4!0.12!1.38!Nfatc4;;chr2:35960919..35960954,-!p1@Lhx6!0.12!1.38!Lhx6;;chrX:7339674..7339688,+!p6@Tfe3!0.12!0.98!Tfe3;;chr10:67599361..67599372,-!p5@Arid5b!0.12!0.98!Arid5b;;chr19:55817590..55817625,+!p11@Tcf7l2!0.12!0.98!Tcf7l2;;chr2:115890294..115890334,-!p9@Meis2!0.12!0.79!Meis2;;chr13:78339428..78339466,-!p2@Nr2f1!0.12!0.79!Nr2f1;;chr18:65740031..65740054,+!p5@Zfp532!0.12!0.59!Zfp532;;chr18:61336630..61336641,-!p3@Hmgxb3!0.12!0.59!Hmgxb3;;chr5:65203575..65203589,+!p11@Klf3!0.12!0.59!Klf3;;chr1:165243272..165243283,-!p6@Prrx1!0.12!0.59!Prrx1;;chr2:120389480..120389491,-!p6@Zfp106!0.12!0.59!Zfp106;;chr11:49016787..49016800,+!p3@Zfp62!0.12!0.59!Zfp62;;chr10:44178575..44178590,-!p5@Prdm1!0.12!0.59!Prdm1;;chr12:109241728..109241781,-!p2@Bcl11b!0.12!0.39!Bcl11b;;chr2:168032563..168032642,-!p2@Adnp!0.11!69.26!Adnp;;chr13:58503810..58503833,-!p2@Hnrnpk!0.11!61.59!Hnrnpk;;chr17:34729193..34729274,+!p1@Pbx2!0.11!54.70!Pbx2;;chr15:102301149..102301221,+!p2@Pcbp2!0.11!42.89!Pcbp2;;chr7:30880169..30880211,+!p1@Zfp260!0.11!37.19!Zfp260;;chr4:149655682..149655742,+!p1@Rere!0.11!35.81!Rere;;chr7:4947646..4947696,-!p1@Zfp579!0.11!31.68!Zfp579;;chr18:24113169..24113205,+!p1@Zfp397!0.11!30.30!Zfp397;;chr17:32501375..32501433,-!p1@Wiz!0.11!26.96!Wiz;;chr18:70728080..70728160,+!p2@Mbd2!0.11!22.04!Mbd2;;chr4:102787007..102787050,+!p1@Mier1!0.11!18.30!Mier1;;chr4:117354838..117354884,-!p1@Dmap1!0.11!15.94!Dmap1;;chr3:9610090..9610124,-!p1@Zfp704!0.11!14.76!Zfp704;;chr4:133310237..133310293,-!p2@Arid1a!0.11!13.97!Arid1a;;chr3:100773567..100773599,-!p1@Ttf2!0.11!12.20!Ttf2;;chr10:57206160..57206220,+!p1@Hsf2!0.11!12.00!Hsf2;;chr6:131338400..131338415,-!p3@Csda!0.11!11.22!Csda;;chr14:31832311..31832343,+!p1@Pbrm1!0.11!10.63!Pbrm1;;chr10:79862223..79862261,-!p4@Mbd3!0.11!10.43!Mbd3;;chr8:108375881..108375936,-!p1@Cenpt!0.11!9.25!Cenpt;;chr14:31832369..31832400,+!p3@Pbrm1!0.11!9.05!Pbrm1;;chr9:122832168..122832210,+!p1@Zfp105!0.11!8.26!Zfp105;;chr19:5637528..5637548,+!p2@Rela!0.11!6.10!Rela;;chr6:72849893..72849945,-!p3@Kcmf1!0.11!5.51!Kcmf1;;chr8:72520162..72520197,-!p4@Gatad2a!0.11!5.31!Gatad2a;;chrX:137077653..137077669,-!p3@Tsc22d3!0.11!4.53!Tsc22d3;;chr14:52634412..52634500,-!p2@Zfp219!0.11!4.53!Zfp219;;chr7:17200019..17200060,-!p4@Grlf1!0.11!4.33!Grlf1;;chr15:75447105..75447159,+!p1@Zfp41!0.11!3.94!Zfp41;;chr12:77470507..77470572,-!p2@Zbtb25!0.11!3.74!Zbtb25;;chr17:24592183..24592202,-!p2@E4f1!0.11!3.34!E4f1;;chr15:102301130..102301147,+!p3@Pcbp2!0.11!2.75!Pcbp2;;chr13:67830046..67830082,-!p2@Zfp71-rs1!0.11!2.56!Zfp71-rs1;;chr7:135020324..135020368,-!p4@Zfp668!0.11!2.56!Zfp668;;chr2:181100223..181100237,+!p4@Zgpat!0.11!2.36!Zgpat;;chr16:44173384..44173407,+!p2@Gm608!0.11!2.16!Gm608;;chr18:55149735..55149776,-!p4@Zfp608!0.11!1.97!Zfp608;;chr1:33871319..33871333,-!p3@Zfp451!0.11!1.97!Zfp451;;chr4:87678743..87678767,-!p7@Mllt3!0.11!1.97!Mllt3;;chr17:47874123..47874156,+!p2@Tfeb!0.11!1.77!Tfeb;;chr1:172797876..172797887,-!p5@Atf6!0.11!1.77!Atf6;;chr5:34163132..34163158,+!p3@Whsc1!0.11!1.57!Whsc1;;chr18:75979866..75979890,+!p3@Zbtb7c!0.11!1.57!Zbtb7c;;chr17:51951634..51951651,-!p6@Satb1!0.11!1.38!Satb1;;chr12:9581284..9581303,+!p2@Osr1!0.11!1.38!Osr1;;chr12:3806962..3806973,+!p6@Dnmt3a!0.11!1.38!Dnmt3a;;chr13:99954688..99954710,+!p2@Zfp366!0.11!1.38!Zfp366;;
@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011347
 |is_obsolete=
+|library_id=CNhs11017
+|library_id_phase_based=2:CNhs11017
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;431
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;431
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E15.CNhs11017.431-16C8.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E15.CNhs11017.431-16C8.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E15.CNhs11017.431-16C8.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E15.CNhs11017.431-16C8.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E15.CNhs11017.431-16C8.mm9.nobarcode.rdna.fa.gz
 |name=heart, embryo E15
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11017,LSID731,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.051490952693367,0,0,0,0,0.0645148607578885,1.31672064458686,0,0.0779553794298951,0,0,0.891591465735651,0,0,0,0,0,0,0.184199704568984,0,0,0,0,0,0,0,0,0,0,0,0,0,0.228035454881055,0,0,0,0,0,-0.0215671661287404,-0.0142562095353262,0.137358031385019,0.155342666213159,0.172748779918774,0,0,0,0,0,0,0,0,0,0,0.0780086007519514,0,0.344622204430489,0,0,0,0,0.110433686652274,0,0.0390043003759757,0,0.0780086007519514,0,0.119049193094785,-0.166534813524018,0.3422012319095,0.00241159137912223,0,0,0,-0.00831205709947735,0.144115843815369,0,0.0094784948708215,-0.158294348347329,-0.0694243012231643,-0.0788315948399074,0,0,0,0,0,0,-0.0362376209192079,0.0317138786980409,0.0669947844854903,0,0,0,0,0
 |rna_box=16
 |rna_catalog_number=
@@ Line 61: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 81: / Line 97: @@
 |top_motifs=HOX{A5,B5}:3.25770262386;EVI1:2.74239457396;MEF2{A,B,C,D}:2.74129535873;GATA4:2.60198871133;NR5A1,2:2.51422250775;SRF:2.18360698325;HIF1A:1.77002527716;IKZF2:1.74831723024;NKX2-1,4:1.74471732868;FOXL1:1.6564236242;RXR{A,B,G}:1.61980426147;TEAD1:1.5338219603;NFE2L1:1.35849228675;PRDM1:1.27789259339;HMGA1,2:1.2443247768;NR3C1:1.24352602947;POU3F1..4:1.17004300561;T:1.14701061968;ALX1:1.14321213268;UFEwm:1.01968896849;NANOG{mouse}:1.00710712051;GATA6:0.985121823835;SOX{8,9,10}:0.959683101906;NKX2-2,8:0.947686106319;SOX5:0.923230331755;TGIF1:0.92013325949;KLF4:0.884992873391;PAX4:0.798753548307;MYBL2:0.746095200654;NFATC1..3:0.721129414039;IKZF1:0.70687596543;GFI1:0.701965779936;MZF1:0.698851304437;ESRRA:0.695397671753;ZNF143:0.684213075245;PITX1..3:0.680885026765;FOXP1:0.665686272581;E2F1..5:0.598914269668;TLX1..3_NFIC{dimer}:0.535900517474;HBP1_HMGB_SSRP1_UBTF:0.526613542876;NR6A1:0.519621080972;GCM1,2:0.516718606786;RXR{A,B,G}_{NR1H2,PPAR}dimers:0.501159682175;CDX1,2,4:0.497038422975;EP300:0.469774806499;CUX2:0.4541504311;RREB1:0.423685977142;TOPORS:0.405270534734;ZNF384:0.385271362791;EN1,2:0.376719556014;PATZ1:0.371683889977;AR:0.365975267638;GFI1B:0.364372309558;TEF:0.348375093667;CDC5L:0.329196890593;NRF1:0.28571670166;SPIB:0.277464463417;ZBTB16:0.271093808011;EBF1:0.262754204762;MAFB:0.262369843015;SOX17:0.24624569687;SMAD1..7,9:0.221612151039;BREu{core}:0.219308069333;MAZ:0.212499615992;PAX2:0.187714522271;FOSL2:0.184285992135;NFE2L2:0.174126643872;NKX3-1:0.174016710639;TFAP4:0.138816392127;NFY{A,B,C}:0.122764445633;ARID5B:0.0930207168507;TFCP2:0.0926949266515;NKX6-1,2:0.0863866077239;ZNF238:0.0777224468528;FOX{I1,J2}:0.0711666870938;SOX2:0.0631122731064;PAX5:0.0622886366514;SP1:0.0453776765463;ELF1,2,4:0.0379946619679;PDX1:0.0156717726775;ATF2:-0.028584535438;XCPE1{core}:-0.0417297308904;FOXD3:-0.0542830911142;FOXO1,3,4:-0.0554664021717;ZFP161:-0.0580016854801;TFAP2B:-0.0740500351104;SPI1:-0.0822038630488;GTF2A1,2:-0.0941305715896;CRX:-0.113936392572;VSX1,2:-0.11690122674;NANOG:-0.117626726966;CREB1:-0.126404275375;ZIC1..3:-0.138242217621;NKX3-2:-0.140224551246;NKX2-3_NKX2-5:-0.141393774679;MYB:-0.14476642859;DBP:-0.152103884313;GLI1..3:-0.157108780855;MTE{core}:-0.159079201723;TBP:-0.165022858249;TFDP1:-0.167001322531;RFX2..5_RFXANK_RFXAP:-0.169125170453;YY1:-0.170205426001;ELK1,4_GABP{A,B1}:-0.192328637553;POU1F1:-0.22394412904;NHLH1,2:-0.224731491361;ATF4:-0.224736476384;GTF2I:-0.226068411504;ETS1,2:-0.226580277952;HOX{A4,D4}:-0.231817415257;EGR1..3:-0.247695027553;TFAP2{A,C}:-0.249693208044;HIC1:-0.252310789596;ZNF423:-0.268907256458;AIRE:-0.2783638153;PAX8:-0.28868248836;HAND1,2:-0.316531013504;SREBF1,2:-0.32556546448;BPTF:-0.331558801685;FOXA2:-0.364344313092;RORA:-0.370169266176;ESR1:-0.374023960955;RBPJ:-0.389511018277;PAX1,9:-0.397127499912;JUN:-0.416676566633;MTF1:-0.419327486358;FOXP3:-0.423398369978;IRF1,2:-0.429371381386;TLX2:-0.479482522646;ALX4:-0.482351889933;RFX1:-0.48662694719;MED-1{core}:-0.489684400297;IRF7:-0.500072534805;ZNF148:-0.511747673549;HSF1,2:-0.523610475358;HOXA9_MEIS1:-0.532911763065;FOX{D1,D2}:-0.551312083198;ZBTB6:-0.562871309017;TP53:-0.586212890827;OCT4_SOX2{dimer}:-0.601508408552;RUNX1..3:-0.626628367064;GZF1:-0.628675214517;DMAP1_NCOR{1,2}_SMARC:-0.628928098803;NFIL3:-0.631488735878;AHR_ARNT_ARNT2:-0.634442722965;HNF1A:-0.63550248229;ONECUT1,2:-0.637999812707;HES1:-0.647515384684;HNF4A_NR2F1,2:-0.654224467997;NFKB1_REL_RELA:-0.666202245874;RXRA_VDR{dimer}:-0.668632965982;POU5F1:-0.673670909035;STAT1,3:-0.684384535031;REST:-0.685696534377;TBX4,5:-0.711930683021;PAX6:-0.718269381616;LHX3,4:-0.75596141917;NFE2:-0.787099854176;NFIX:-0.794321917972;POU6F1:-0.798547683077;MYFfamily:-0.83281814611;BACH2:-0.83289005557;bHLH_family:-0.838926315469;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.846607999292;NR1H4:-0.865518278578;FOXN1:-0.910840587353;ATF5_CREB3:-0.928525638472;SNAI1..3:-0.935501268844;HMX1:-0.936869721909;FOX{F1,F2,J1}:-0.943706303609;FOS_FOS{B,L1}_JUN{B,D}:-0.960182823293;HLF:-0.963158885676;ZEB1:-0.999227803939;ADNP_IRX_SIX_ZHX:-1.03679678575;POU2F1..3:-1.06565390738;LEF1_TCF7_TCF7L1,2:-1.07299569231;PBX1:-1.08581542837;PRRX1,2:-1.11778750524;LMO2:-1.13473671468;SPZ1:-1.13861660656;MYOD1:-1.14473612451;FOXQ1:-1.15673053333;ATF6:-1.20734238168;CEBPA,B_DDIT3:-1.22845966073;TAL1_TCF{3,4,12}:-1.34271392337;STAT5{A,B}:-1.44842806432;STAT2,4,6:-1.50165645712;PPARG:-1.848113563;FOXM1:-1.99471937794
 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:431-16C8;search_select_hide=table117:431-16C8
 }}

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FF:431-16C8: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:16, 4 June 2020

CNhs11017

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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