FF:479-18E5: Difference between revisions

Latest revision as of 19:17, 4 June 2020

Name:	heart, embryo E17
Species:	Mouse (Mus musculus)
Library ID:	CNhs11025
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	heart
dev stage	17 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		SAMD00005239

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11025		CAGE		DRX008977		DRR009851

Accession ID Mm9

Library id		BAM		CTSS
CNhs11025		DRZ001276		DRZ002659

Accession ID Mm10

Library id		BAM		CTSS
CNhs11025		DRZ012626		DRZ014009

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

CNhs11025

0	0
1	0
10	0.379
100	0
1000	0.315
1001	0.388
1002	0.373
1003	-0.0436
1004	0
1005	-0.0591
1006	0.295
1007	0.00559
1008	0
1009	0.116
101	-0.00755
1010	0
1011	-0.0122
1012	0
1013	-0.217
1014	0.6
1015	0.0579
1016	0.0775
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0216
1022	0.628
1023	0
1024	0.244
1025	0
1026	0
1027	0
1028	0
1029	0.374
103	0.165
1030	0
1031	0.113
1032	0.0259
1033	-0.0153
1034	0
1035	0.652
1036	-0.0454
1037	0
1038	0.0935
1039	0.313
104	0
1040	0.113
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: CNhs11025

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0554
MA0003.1	MA0003.1	0.414
MA0004.1	MA0004.1	0.334
MA0006.1	MA0006.1	0.919
MA0007.1	MA0007.1	0.604
MA0009.1	MA0009.1	0.954
MA0014.1	MA0014.1	0.463
MA0017.1	MA0017.1	0.0755
MA0018.2	MA0018.2	0.0257
MA0019.1	MA0019.1	0.688
MA0024.1	MA0024.1	0.249
MA0025.1	MA0025.1	0.0552
MA0027.1	MA0027.1	0.35
MA0028.1	MA0028.1	0.388
MA0029.1	MA0029.1	0.654
MA0030.1	MA0030.1	0.0722
MA0031.1	MA0031.1	0.0939
MA0035.2	MA0035.2	0.334
MA0038.1	MA0038.1	0.907
MA0039.2	MA0039.2	0.0184
MA0040.1	MA0040.1	0.0616
MA0041.1	MA0041.1	0.184
MA0042.1	MA0042.1	0.39
MA0043.1	MA0043.1	0.045
MA0046.1	MA0046.1	6.19788e-16
MA0047.2	MA0047.2	0.0853
MA0048.1	MA0048.1	0.00477
MA0050.1	MA0050.1	6.88672e-4
MA0051.1	MA0051.1	0.00829
MA0052.1	MA0052.1	1.95786e-22
MA0055.1	MA0055.1	0.00118
MA0057.1	MA0057.1	0.93
MA0058.1	MA0058.1	0.313
MA0059.1	MA0059.1	0.804
MA0060.1	MA0060.1	0.00567
MA0061.1	MA0061.1	0.427
MA0062.2	MA0062.2	2.19507e-5
MA0065.2	MA0065.2	0.849
MA0066.1	MA0066.1	0.612
MA0067.1	MA0067.1	0.336
MA0068.1	MA0068.1	0.276
MA0069.1	MA0069.1	0.352
MA0070.1	MA0070.1	0.528
MA0071.1	MA0071.1	0.324
MA0072.1	MA0072.1	0.23
MA0073.1	MA0073.1	0.909
MA0074.1	MA0074.1	0.317
MA0076.1	MA0076.1	0.0146
MA0077.1	MA0077.1	0.941
MA0078.1	MA0078.1	0.373
MA0079.2	MA0079.2	0.142
MA0080.2	MA0080.2	0.0031
MA0081.1	MA0081.1	0.664
MA0083.1	MA0083.1	9.52521e-12
MA0084.1	MA0084.1	0.621
MA0087.1	MA0087.1	0.706
MA0088.1	MA0088.1	0.731
MA0090.1	MA0090.1	0.00201
MA0091.1	MA0091.1	0.64
MA0092.1	MA0092.1	0.447
MA0093.1	MA0093.1	0.291
MA0099.2	MA0099.2	7.22051e-6
MA0100.1	MA0100.1	0.441
MA0101.1	MA0101.1	0.0842
MA0102.2	MA0102.2	0.00736
MA0103.1	MA0103.1	1.19286e-4
MA0104.2	MA0104.2	0.935
MA0105.1	MA0105.1	0.128
MA0106.1	MA0106.1	0.4
MA0107.1	MA0107.1	0.0946
MA0108.2	MA0108.2	0.589
MA0111.1	MA0111.1	0.797
MA0112.2	MA0112.2	0.00152
MA0113.1	MA0113.1	0.501
MA0114.1	MA0114.1	0.0213
MA0115.1	MA0115.1	0.909
MA0116.1	MA0116.1	0.352
MA0117.1	MA0117.1	0.854
MA0119.1	MA0119.1	0.0264
MA0122.1	MA0122.1	0.674
MA0124.1	MA0124.1	0.737
MA0125.1	MA0125.1	0.581
MA0131.1	MA0131.1	0.895
MA0135.1	MA0135.1	0.0416
MA0136.1	MA0136.1	3.34275e-4
MA0137.2	MA0137.2	0.0219
MA0138.2	MA0138.2	0.67
MA0139.1	MA0139.1	0.407
MA0140.1	MA0140.1	0.232
MA0141.1	MA0141.1	2.43975e-9
MA0142.1	MA0142.1	0.171
MA0143.1	MA0143.1	0.753
MA0144.1	MA0144.1	0.492
MA0145.1	MA0145.1	0.512
MA0146.1	MA0146.1	0.576
MA0147.1	MA0147.1	0.846
MA0148.1	MA0148.1	0.182
MA0149.1	MA0149.1	0.261
MA0150.1	MA0150.1	0.0224
MA0152.1	MA0152.1	0.317
MA0153.1	MA0153.1	8.1181e-11
MA0154.1	MA0154.1	0.131
MA0155.1	MA0155.1	0.199
MA0156.1	MA0156.1	7.43122e-7
MA0157.1	MA0157.1	0.34
MA0159.1	MA0159.1	0.00523
MA0160.1	MA0160.1	0.005
MA0162.1	MA0162.1	0.14
MA0163.1	MA0163.1	0.0859
MA0164.1	MA0164.1	0.416
MA0258.1	MA0258.1	0.0669
MA0259.1	MA0259.1	0.141

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: CNhs11025

Novel motif	Logo	P-value
1	1	0.184
10	10	0.399
100	100	0.798
101	101	0.61
102	102	0.847
103	103	0.595
104	104	0.818
105	105	0.56
106	106	0.995
107	107	0.407
108	108	0.923
109	109	0.307
11	11	0.877
110	110	0.0645
111	111	0.318
112	112	0.489
113	113	0.383
114	114	0.56
115	115	0.99
116	116	0.515
117	117	0.182
118	118	0.233
119	119	0.808
12	12	0.905
120	120	0.274
121	121	0.604
122	122	0.183
123	123	0.184
124	124	0.725
125	125	0.674
126	126	0.643
127	127	0.203
128	128	0.255
129	129	0.626
13	13	2.12805e-4
130	130	0.21
131	131	0.206
132	132	0.962
133	133	0.455
134	134	0.61
135	135	0.996
136	136	0.0203
137	137	0.585
138	138	0.104
139	139	0.716
14	14	0.979
140	140	0.244
141	141	0.495
142	142	0.751
143	143	0.665
144	144	0.0975
145	145	0.0814
146	146	0.374
147	147	0.738
148	148	0.722
149	149	0.329
15	15	0.806
150	150	0.131
151	151	0.521
152	152	0.776
153	153	0.905
154	154	0.688
155	155	0.316
156	156	8.8592e-7
157	157	0.717
158	158	0.214
159	159	0.0199
160	160	0.237
161	161	0.782
162	162	0.564
163	163	0.906
164	164	0.381
165	165	0.0983
166	166	0.594
167	167	0.832
168	168	0.494
169	169	1.28258e-4
17	17	0.726
18	18	0.234
19	19	0.173
2	2	0.449
20	20	0.133
21	21	0.904
22	22	0.235
23	23	0.427
24	24	0.587
25	25	0.972
26	26	0.00478
27	27	0.319
28	28	0.407
29	29	0.353
3	3	0.431
30	30	0.0103
31	31	0.826
32	32	0.914
33	33	0.126
34	34	0.883
35	35	0.894
36	36	0.154
37	37	0.0503
38	38	0.449
39	39	0.855
4	4	0.369
40	40	0.00891
41	41	0.955
42	42	0.918
43	43	0.354
44	44	0.422
45	45	0.115
46	46	0.465
47	47	0.788
48	48	0.524
49	49	0.219
5	5	0.287
50	50	0.453
51	51	0.984
52	52	0.727
53	53	0.503
54	54	0.706
55	55	0.109
56	56	0.953
57	57	0.103
58	58	0.989
59	59	0.165
6	6	0.163
60	60	0.81
61	61	0.721
62	62	0.967
63	63	0.36
64	64	0.938
65	65	0.52
66	66	0.364
67	67	0.459
68	68	0.477
69	69	0.441
7	7	0.069
70	70	0.275
71	71	0.00745
72	72	0.178
73	73	0.309
74	74	0.178
75	75	0.964
76	76	0.335
77	77	0.619
78	78	0.117
79	79	0.596
8	8	0.357
80	80	0.00839
81	81	0.631
82	82	0.604
83	83	0.951
84	84	0.591
85	85	0.132
86	86	0.679
87	87	3.08935e-6
88	88	0.339
89	89	0.121
9	9	0.529
90	90	0.4
91	91	0.0941
92	92	0.889
93	93	0.312
94	94	0.221
95	95	0.431
96	96	0.281
97	97	0.171
98	98	0.705
99	99	0.638

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: CNhs11025

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011367 mouse heart- embryo E17 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)
0000300 (mouse embryonic day 17 sample)
0011367 (mouse heart- embryo E17 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
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0007100,UBERON:0000948,UBERON:0000483,UBERON:0000926,UBERON:0000479,UBERON:0000062,UBERON:0004111,UBERON:0004120,UBERON:0000025,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0003914,UBERON:0002050,UBERON:0005423,UBERON:0000477,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0003103,UBERON:0005291,UBERON:0001048,UBERON:0006598,UBERON:0002532,UBERON:0004535,UBERON:0005498,UBERON:0003081,UBERON:0001009,UBERON:0004140,UBERON:0009881,UBERON:0006603,UBERON:0004141,UBERON:0004872,UBERON:0003084,UBERON:0007005,UBERON:0004139,UBERON:0004291
+|DRA_sample_Accession=CAGE@SAMD00005239
+|accession_numbers=CAGE;DRX008977;DRR009851;DRZ001276;DRZ002659;DRZ012626;DRZ014009
+|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=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000999,FF:0000292,FF:0000004,FF:0000300,FF:0011367
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr9:24578720..24578735,-!p1@Tbx20!2.41!256.95!Tbx20;;chr17:26978409..26978442,-!p1@Nkx2-5!2.00!98.13!Nkx2-5;;chr5:77543897..77543911,-!p2@Hopx!1.90!145.33!Hopx;;chr8:59799772..59799789,+!p1@Hand2!1.78!164.17!Hand2;;chr6:97879817..97879857,+!p2@Mitf!1.74!53.72!Mitf;;chr14:63864056..63864102,-!p1@Gata4!1.59!63.71!Gata4;;chr5:77544108..77544119,-!p7@Hopx!1.45!26.97!Hopx;;chr5:77544170..77544181,-!p6@Hopx!1.38!23.02!Hopx;;chr10:22539932..22539956,-!p1@Tcf21!1.35!55.81!Tcf21;;chr2:120365588..120365602,-!p2@Zfp106!1.31!32.32!Zfp106;;chr1:189821714..189821761,+!p1@Esrrg!1.22!28.60!Esrrg;;chr11:101755669..101755686,-!p1@Meox1!1.21!27.21!Meox1;;chr10:30562571..30562597,-!p1@Hey2!1.19!34.42!Hey2;;chr5:120285144..120285160,+!p1@Tbx5!1.19!14.65!Tbx5;;chr14:63890491..63890516,-!p2@Gata4!1.19!14.42!Gata4;;chr14:63890459..63890484,-!p4@Gata4!1.18!14.18!Gata4;;chr7:119885539..119885574,+!p3@Tead1!1.15!13.25!Tead1;;chr17:26978521..26978536,-!p2@Nkx2-5!1.12!12.32!Nkx2-5;;chr9:87626083..87626108,-!p1@Tbx18!1.10!25.35!Tbx18;;chr14:63890660..63890687,-!p7@Gata4!1.09!11.39!Gata4;;chr7:17647736..17647772,-!p1@Hif3a!1.08!39.53!Hif3a;;chr18:11052485..11052508,+!p2@Gata6!1.05!29.07!Gata6;;chr5:24107779..24107825,-!p1@Smarcd3!1.04!67.90!Smarcd3;;chr14:63890519..63890539,-!p3@Gata4!1.04!10.00!Gata4;;chr13:73397958..73397994,+!p1@Irx4!0.99!8.84!Irx4;;chr5:77543935..77543947,-!p4@Hopx!0.99!8.84!Hopx;;chr1:189432907..189432926,+!p3@Esrrg!0.98!8.60!Esrrg;;chr10:12810631..12810649,+!p1@Plagl1!0.97!222.30!Plagl1;;chr4:148178559..148178603,+!p1@Casz1!0.97!24.65!Casz1;;chr17:26978449..26978458,-!p3@Nkx2-5!0.95!7.91!Nkx2-5;;chr4:148178529..148178548,+!p3@Casz1!0.93!18.14!Casz1;;chr5:138187775..138187845,+!p7@Tsc22d4!0.92!10.23!Tsc22d4;;chr1:92895299..92895373,+!p2@Lrrfip1!0.91!154.64!Lrrfip1;;chr18:11052456..11052477,+!p3@Gata6!0.91!22.79!Gata6;;chr14:63890691..63890718,-!p8@Gata4!0.91!7.21!Gata4;;chr4:150482563..150482655,-!p2@Camta1!0.89!25.11!Camta1;;chr10:62327990..62328025,-!p2@Tet1!0.89!10.70!Tet1;;chr1:170362437..170362478,-!p5@Pbx1!0.86!20.46!Pbx1;;chr4:120488308..120488366,-!p1@Nfyc!0.84!36.74!Nfyc;;chr18:11052642..11052659,+!p1@Gata6!0.84!31.62!Gata6;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.84!24.88!Ppp1r13l;;chr13:72766279..72766296,+!p2@Irx2!0.84!9.07!Irx2;;chr14:64562503..64562524,+!p1@Sox7!0.81!34.65!Sox7;;chr10:30562617..30562637,-!p2@Hey2!0.81!6.98!Hey2;;chr6:97879802..97879816,+!p5@Mitf!0.79!5.12!Mitf;;chr2:168415815..168415872,-!p1@Nfatc2!0.78!29.53!Nfatc2;;chr1:191994550..191994623,-!p1@Prox1!0.77!37.21!Prox1;;chr12:37835141..37835194,+!p1@Meox2!0.75!15.58!Meox2;;chr2:104966766..104966786,+!p1@Wt1!0.75!7.67!Wt1;;chr11:57645506..57645523,-!p1@Hand1!0.75!4.65!Hand1;;chr4:133109285..133109308,+!p1@Nr0b2!0.75!4.65!Nr0b2;;chr5:120285130..120285141,+!p3@Tbx5!0.73!4.42!Tbx5;;chr7:6649134..6649167,-!p1@Zim1!0.72!25.58!Zim1;;chr16:43619101..43619151,+!p6@Zbtb20!0.72!11.16!Zbtb20;;chr15:40486566..40486600,+!p1@Zfpm2!0.71!27.44!Zfpm2;;chr1:189432881..189432903,+!p2@Esrrg!0.71!4.19!Esrrg;;chr15:85565338..85565355,+!p7@Ppara!0.71!4.19!Ppara;;chr10:30562939..30562969,-!p5@Hey2!0.71!4.19!Hey2;;chr18:80909801..80909819,-!p1@Nfatc1!0.70!26.51!Nfatc1;;chr15:85566184..85566238,+!p1@Ppara!0.70!6.28!Ppara;;chr5:77524250..77524300,-!p1@Hopx!0.69!89.53!Hopx;;chr1:191993385..191993405,-!p3@Prox1!0.69!3.95!Prox1;;chr6:53523358..53523388,+!p1@Creb5!0.68!52.09!Creb5;;chr4:135129538..135129558,-!p1@Grhl3!0.68!6.05!Grhl3;;chr9:32443818..32443854,+!p2@Ets1!0.67!18.37!Ets1;;chr4:154010918..154010931,-!p1@Prdm16!0.67!12.09!Prdm16;;chr18:11052606..11052633,+!p4@Gata6!0.67!10.23!Gata6;;chr16:43363152..43363186,+!p3@Zbtb20!0.65!8.84!Zbtb20;;chr7:17642053..17642066,-!p2@Hif3a!0.65!5.12!Hif3a;;chr3:128917187..128917223,+!p2@Pitx2!0.65!4.19!Pitx2;;chr2:180069370..180069409,-!p1@Gata5!0.65!4.19!Gata5;;chr5:120285161..120285176,+!p2@Tbx5!0.65!3.49!Tbx5;;chr14:63890545..63890560,-!p5@Gata4!0.65!3.49!Gata4;;chr4:135840573..135840601,+!p1@Zfp46!0.64!30.93!Zfp46;;chr4:148275237..148275311,+!p2@Casz1!0.64!15.81!Casz1;;chr2:151969288..151969294,+!p1@Tcf15!0.64!5.58!Tcf15;;chr12:84828663..84828679,-!p1@Dpf3!0.63!29.76!Dpf3;;chr17:46693078..46693097,-!p3@Srf!0.63!15.35!Srf;;chr7:123174606..123174636,-!p5@Sox6!0.63!4.42!Sox6;;chr4:82151126..82151133,-!p8@Nfib!0.63!4.42!Nfib;;chr7:119822957..119822980,+!p2@Tead1!0.60!16.97!Tead1;;chr8:94325814..94325839,-!p2@Irx3!0.60!6.98!Irx3;;chr18:11052516..11052525,+!p5@Gata6!0.60!3.02!Gata6;;chr4:82151148..82151159,-!p5@Nfib!0.59!9.53!Nfib;;chr18:14130694..14130697,-!p2@Zfp521!0.59!7.67!Zfp521;;chr11:74981654..74981658,-!p1@Hic1!0.58!13.25!Hic1;;chr8:94325321..94325366,-!p1@Irx3!0.58!7.91!Irx3;;chr5:77524304..77524315,-!p5@Hopx!0.58!6.74!Hopx;;chr4:108151497..108151514,+!p3@Zcchc11!0.58!6.28!Zcchc11;;chr13:73398004..73398017,+!p2@Irx4!0.58!2.79!Irx4;;chr13:73397921..73397935,+!p3@Irx4!0.58!2.79!Irx4;;chr2:104966874..104966907,+!p2@Wt1!0.58!2.79!Wt1;;chr4:126703093..126703158,+!p3@Sfpq!0.57!9.07!Sfpq;;chr13:72766250..72766273,+!p1@Irx2!0.57!4.65!Irx2;;chr2:17976799..17976829,+!p5@Mllt10!0.57!3.49!Mllt10;;chr7:123174485..123174514,-!p6@Sox6!0.57!3.49!Sox6;;chr7:17642018..17642045,-!p4@Hif3a!0.57!3.26!Hif3a;;chr17:46693107..46693137,-!p1@Srf!0.56!32.09!Srf;;chr4:126700722..126700753,+!p4@Sfpq!0.56!7.44!Sfpq;;chr14:17408052..17408073,-!p5@Rarb!0.55!2.56!Rarb;;chr7:74517658..74517731,-!p1@Mef2a!0.54!141.38!Mef2a;;chr5:20387850..20387869,-!p1@Phtf2!0.54!32.09!Phtf2;;chr15:40486754..40486771,+!p2@Zfpm2!0.54!4.88!Zfpm2;;chr11:98789140..98789168,+!p5@Rara!0.54!4.42!Rara;;chr13:83663902..83663927,+!p1@Mef2c!0.53!74.41!Mef2c;;chr12:39506873..39506913,+!p1@Etv1!0.53!31.16!Etv1;;chr14:17407878..17407926,-!p1@Rarb!0.53!6.28!Rarb;;chr10:92773591..92773623,-!p1@Elk3!0.52!67.67!Elk3;;chr1:193007123..193007139,-!p1@Atf3!0.52!16.28!Atf3;;chr2:17976830..17976848,+!p12@Mllt10!0.52!2.33!Mllt10;;chr2:105003277..105003280,+!p5@Wt1!0.52!2.33!Wt1;;chr1:189821700..189821713,+!p4@Esrrg!0.52!2.33!Esrrg;;chr5:120285104..120285113,+!p5@Tbx5!0.52!2.33!Tbx5;;chr2:152223441..152223465,-!p2@Sox12!0.51!11.63!Sox12;;chrX:137135036..137135064,-!p4@Tsc22d3!0.51!5.12!Tsc22d3;;chr4:13712228..13712267,+!p3@Runx1t1!0.51!4.42!Runx1t1;;chr1:4486481..4486501,-!p2@Sox17!0.51!3.72!Sox17;;chrX:45245644..45245666,-!p2@Smarca1!0.50!8.60!Smarca1;;chr16:43363190..43363242,+!p2@Zbtb20!0.50!8.14!Zbtb20;;chr11:96690797..96690813,-!p1@Nfe2l1!0.49!54.18!Nfe2l1;;chr8:87225670..87225697,+!p2@Lyl1!0.49!7.67!Lyl1;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!0.49!4.65!Zbtb38;;chr9:63869918..63869936,-!p9@Smad6!0.49!2.09!Smad6;;chr9:87626109..87626120,-!p3@Tbx18!0.49!2.09!Tbx18;;chr14:63864337..63864381,-!p6@Gata4!0.49!2.09!Gata4;;chr2:104966933..104966966,+!p3@Wt1!0.49!2.09!Wt1;;chr4:82151178..82151262,-!p1@Nfib!0.48!109.76!Nfib;;chr9:96653072..96653154,-!p1@Zbtb38!0.48!6.74!Zbtb38;;chr12:37835120..37835133,+!p2@Meox2!0.48!3.26!Meox2;;chr12:37835203..37835218,+!p3@Meox2!0.48!2.56!Meox2;;chr18:55152206..55152251,-!p1@Zfp608!0.47!25.81!Zfp608;;chrX:45245679..45245702,-!p1@Smarca1!0.47!11.39!Smarca1;;chr8:123640063..123640077,+!p1@Foxc2!0.47!4.19!Foxc2;;chr11:70043257..70043263,-!p1@Bcl6b!0.47!3.95!Bcl6b;;chr7:119822915..119822936,+!p5@Tead1!0.47!3.72!Tead1;;chr3:128916868..128916890,+!p1@Pitx2!0.47!3.02!Pitx2;;chr11:90251852..90251855,-!p4@Hlf!0.47!2.56!Hlf;;chr13:83663868..83663894,+!p2@Mef2c!0.46!36.97!Mef2c;;chr2:152758901..152758925,-!p1@Foxs1!0.46!11.16!Foxs1;;chr9:63869751..63869767,-!p1@Smad6!0.46!6.28!Smad6;;chr8:94325847..94325869,-!p3@Irx3!0.46!3.49!Irx3;;chrX:103070746..103070764,-!p5@Atrx!0.46!3.26!Atrx;;chr7:119822892..119822901,+!p7@Tead1!0.46!2.79!Tead1;;chr9:87625971..87625992,-!p2@Tbx18!0.46!1.86!Tbx18;;chr11:101755710..101755715,-!p2@Meox1!0.46!1.86!Meox1;;chr12:37835219..37835230,+!p5@Meox2!0.46!1.86!Meox2;;chr12:87762578..87762612,+!p1@Esrrb!0.46!1.86!Esrrb;;chr17:14011485..14011507,+!p2@Mllt4!0.46!1.86!Mllt4;;chr9:111020574..111020687,+!p1@Lrrfip2!0.45!113.24!Lrrfip2;;chr2:152223881..152223933,-!p3@Sox12!0.45!7.91!Sox12;;chr16:95680889..95680991,-!p1@Erg!0.44!20.00!Erg;;chr8:81552152..81552208,+!p1@Zfp827!0.44!17.44!Zfp827;;chr8:81552216..81552249,+!p3@Zfp827!0.44!6.51!Zfp827;;chr11:96690779..96690790,-!p3@Nfe2l1!0.44!5.35!Nfe2l1;;chr7:74517982..74518012,-!p2@Mef2a!0.44!3.95!Mef2a;;chr4:126700576..126700598,+!p7@Sfpq!0.44!3.95!Sfpq;;chr15:40486615..40486628,+!p3@Zfpm2!0.44!3.26!Zfpm2;;chr14:67853457..67853482,+!p2@Ebf2!0.44!2.79!Ebf2;;chr17:46693053..46693064,-!p4@Srf!0.44!2.79!Srf;;chr16:43619156..43619171,+!p16@Zbtb20!0.44!2.56!Zbtb20;;chr4:97444471..97444514,+!p1@Nfia!0.43!64.41!Nfia;;chr4:151235807..151235870,-!p1@Camta1!0.43!39.53!Camta1;;chr4:133276801..133276891,-!p3@Arid1a!0.43!25.35!Arid1a;;chr4:3865501..3865548,-!p1@Plag1!0.43!11.86!Plag1;;chr18:65741358..65741415,+!p1@Zfp532!0.43!10.00!Zfp532;;chr10:119913546..119913583,-!p3@Hmga2!0.43!4.42!Hmga2;;chr9:63869802..63869815,-!p3@Smad6!0.43!4.19!Smad6;;chr2:30700788..30700824,+!p2@Prrx2!0.43!3.02!Prrx2;;chr2:181406327..181406350,-!p1@Sox18!0.42!74.41!Sox18;;chr2:44965593..44965624,-!p3@Zeb2!0.42!13.02!Zeb2;;chr1:193961776..193961815,-!p2@Rcor3!0.42!12.09!Rcor3;;chr11:98789099..98789124,+!p3@Rara!0.42!6.74!Rara;;chr8:94881733..94881790,+!p1@Irx5!0.42!3.95!Irx5;;chr9:96159147..96159204,+!p2@Tfdp2!0.42!3.72!Tfdp2;;chr13:53568104..53568156,-!p1@Msx2!0.42!2.79!Msx2;;chr7:119822940..119822945,+!p6@Tead1!0.42!2.33!Tead1;;chr10:62328027..62328038,-!p6@Tet1!0.42!2.09!Tet1;;chr3:66785857..66785873,-!p1@Shox2!0.42!1.63!Shox2;;chr17:26978464..26978469,-!p4@Nkx2-5!0.42!1.63!Nkx2-5;;chr14:52634536..52634572,-!p4@Zfp219!0.41!6.28!Zfp219;;chr14:67853425..67853454,+!p1@Ebf2!0.41!2.56!Ebf2;;chr6:83299445..83299490,+!p1@Bola3!0.40!96.73!Bola3;;chr8:92872242..92872285,-!p1@Tox3!0.40!5.12!Tox3;;chr7:4947625..4947634,-!p6@Zfp579!0.40!3.02!Zfp579;;chr13:72101178..72101203,-!p1@Irx1!0.40!2.79!Irx1;;chr11:98602203..98602266,+!p4@Thra!0.40!2.79!Thra;;chr7:38558574..38558611,-!p2@Zfp536!0.40!2.09!Zfp536;;chr13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1a;;chr4:149655682..149655742,+!p1@Rere!0.15!39.76!Rere;;chr15:36937137..36937157,-!p2@Gm10193,p2@Zfp706!0.15!38.37!Zfp706;;chr6:116578973..116579022,-!p1@Zfp422!0.15!20.93!Zfp422;;chr9:19426523..19426584,+!p1@Zfp317!0.15!18.14!Zfp317;;chr6:128312937..128313076,+!p1@Foxm1!0.15!17.21!Foxm1;;chr13:44826694..44826710,+!p3@Jarid2!0.15!13.25!Jarid2;;chr2:17986272..17986332,+!p2@Mllt10!0.15!12.79!Mllt10;;chr6:72739185..72739232,-!p1@Tcf7l1!0.15!12.56!Tcf7l1;;chr19:55816770..55816793,+!p2@Tcf7l2!0.15!10.46!Tcf7l2;;chr1:162964925..162964963,-!p1@Zbtb37!0.15!7.67!Zbtb37;;chr13:21454695..21454752,+!p1@Zscan12!0.15!6.51!Zscan12;;chr1:133904670..133904731,+!p2@Elk4!0.15!5.81!Elk4;;chr8:72663347..72663398,+!p2@2310045N01Rik,p2@Mef2b!0.15!5.81!Mef2b;;chr1:165243792..165243808,-!p1@Prrx1!0.15!3.72!Prrx1;;chr13:58503894..58503895,-!p4@Hnrnpk!0.15!3.49!Hnrnpk;;chrX:91368698..91368751,-!p2@Zfx!0.15!3.02!Zfx;;chrX:7339829..7339855,+!p3@Tfe3!0.15!2.56!Tfe3;;chr13:56804865..56804898,+!p3@Smad5!0.15!2.56!Smad5;;chr13:37870307..37870337,+!p5@Rreb1!0.15!2.09!Rreb1;;chr16:3884438..3884470,-!p2@Zfp597!0.15!2.09!Zfp597;;chr18:76401074..76401118,+!p3@Smad2!0.15!2.09!Smad2;;chr3:8666997..8667012,-!p2@Hey1!0.15!2.09!Hey1;;chr11:58717721..58717738,-!p2@Zfp39!0.15!1.63!Zfp39;;chr11:100712053..100712077,-!p3@Stat5b!0.15!1.63!Stat5b;;chr13:96095097..96095114,+!p5@Zbed3!0.15!1.40!Zbed3;;chr7:4946990..4947016,-!p4@Zfp579!0.15!1.40!Zfp579;;chr4:151235776..151235788,-!p5@Camta1!0.15!1.40!Camta1;;chr11:18918434..18918489,-!p3@Meis1!0.15!1.16!Meis1;;chr11:99092002..99092018,-!p6@Smarce1!0.15!1.16!Smarce1;;chr11:98636685..98636696,-!p7@Nr1d1!0.15!1.16!Nr1d1;;chr5:134741947..134741948,-!p9@Gtf2i!0.15!1.16!Gtf2i;;chr2:154395552..154395561,-!p3@E2f1!0.15!0.93!E2f1;;chr2:152758938..152758954,-!p2@Foxs1!0.15!0.93!Foxs1;;chr1:165243638..165243649,-!p5@Prrx1!0.15!0.70!Prrx1;;chr7:123177120..123177138,-!p10@Sox6!0.15!0.70!Sox6;;chr7:144505980..144506010,-!p3@Ebf3!0.15!0.70!Ebf3;;chr11:98601972..98601986,+!p10@Thra!0.15!0.70!Thra;;chr7:6683123..6683142,-!p1@Peg3!0.14!64.64!Peg3;;chr1:172797892..172797915,-!p1@Atf6!0.14!34.42!Atf6;;chr13:5860776..5860796,+!p1@Klf6!0.14!29.53!Klf6;;chr11:23978022..23978076,+!p1@Bcl11a!0.14!26.74!Bcl11a;;chr6:48395743..48395820,-!p1@Zfp467!0.14!26.04!Zfp467;;chr3:51081233..51081365,-!p1@Elf2!0.14!25.81!Elf2;;chr17:3557742..3557775,-!p1@Tfb1m!0.14!16.74!Tfb1m;;chr10:57206160..57206220,+!p1@Hsf2!0.14!12.79!Hsf2;;chr11:98603119..98603130,+!p2@Thra!0.14!10.00!Thra;;chr7:13551180..13551243,+!p1@Zfp324!0.14!9.53!Zfp324;;chr10:62328186..62328219,-!p1@Tet1!0.14!6.74!Tet1;;chr15:68090396..68090442,-!p1@Zfat!0.14!6.51!Zfat;;chr8:72498134..72498156,-!p7@Gatad2a!0.14!3.95!Gatad2a;;chr7:46773114..46773155,+!p1@Zfp619!0.14!3.95!Zfp619;;chr1:64579440..64579451,+!p4@Creb1!0.14!3.49!Creb1;;chr6:14851287..14851342,+!p1@Foxp2!0.14!3.26!Foxp2;;chr2:115891409..115891425,-!p2@Meis2!0.14!2.79!Meis2;;chr6:133985971..133985991,+!p6@Etv6!0.14!2.56!Etv6;;chr13:65380103..65380116,+!p3@Zfp369!0.14!2.33!Zfp369;;chr15:57526316..57526332,+!p4@Zhx2!0.14!2.09!Zhx2;;chr6:72739234..72739256,-!p2@Tcf7l1!0.14!2.09!Tcf7l1;;chr17:47278081..47278103,+!p1@Trerf1!0.14!2.09!Trerf1;;chr12:72117645..72117677,+!p3@Arid4a!0.14!1.86!Arid4a;;chr13:55206625..55206636,+!p2@Zfp346!0.14!1.63!Zfp346;;chr13:5860872..5860883,+!p3@Klf6!0.14!1.63!Klf6;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!0.14!1.63!Hmga1;;chr7:87171256..87171280,+!p4@Zfp710!0.14!1.63!Zfp710;;chr7:148513574..148513593,-!p5@Deaf1!0.14!1.63!Deaf1;;chr12:16817785..16817796,+!p2@E2f6!0.14!1.16!E2f6;;chr8:87324311..87324316,-!p8@Nfix!0.14!1.16!Nfix;;chr11:106993203..106993214,-!p5@Bptf!0.14!1.16!Bptf;;chr11:44431016..44431045,+!p5@Ebf1!0.14!0.93!Ebf1;;chr10:44178474..44178487,-!p4@Prdm1!0.14!0.93!Prdm1;;chr10:88996336..88996380,-!p2@Nr1h4!0.14!0.70!Nr1h4;;chr11:101646480..101646496,-!p4@Etv4!0.14!0.70!Etv4;;chr5:138187466..138187477,+!p11@Tsc22d4!0.14!0.70!Tsc22d4;;chr7:25292223..25292234,+!p7@Zfp428!0.14!0.70!Zfp428;;chr8:111227455..111227464,+!p@chr8:111227455..111227464,+!0.14!0.70!Zfhx3;;chr7:25292033..25292043,+!p9@Zfp428!0.14!0.70!Zfp428;;chr8:124806111..124806122,+!p3@Zfpm1!0.14!0.70!Zfpm1;;chr13:30077917..30077928,-!p4@E2f3!0.14!0.70!E2f3;;chr12:81213989..81214006,-!p1@Zfp36l1!0.13!62.78!Zfp36l1;;chr7:30880169..30880211,+!p1@Zfp260!0.13!38.83!Zfp260;;chr7:4947646..4947696,-!p1@Zfp579!0.13!32.79!Zfp579;;chr19:5424768..5424811,-!p2@Drap1!0.13!22.79!Drap1;;chr12:3807017..3807063,+!p1@Dnmt3a!0.13!19.77!Dnmt3a;;chr17:23004085..23004108,-!p1@Zfp945!0.13!11.39!Zfp945;;chr4:97439116..97439202,+!p5@Nfia!0.13!10.23!Nfia;;chr8:97856080..97856150,-!p2@Zfp319!0.13!6.28!Zfp319;;chr13:44826095..44826185,+!p4@Jarid2!0.13!5.35!Jarid2;;chr10:70700755..70700772,-!p2@Tfam!0.13!5.12!Tfam;;chr15:102455492..102455531,-!p2@Atf7!0.13!3.95!Atf7;;chr17:69732364..69732405,+!p2@Zfp161!0.13!3.49!Zfp161;;chr1:135320962..135320981,-!p2@Sox13!0.13!3.26!Sox13;;chr19:8876976..8877011,+!p1@Zbtb3!0.13!3.26!Zbtb3;;chr12:110031207..110031224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+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006603,UBERON:0004872,UBERON:0004140,UBERON:0010316,FF:0000294
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 36: / Line 42: @@
 |has_quality=
 |id=FF:479-18E5
-|is_a=EFO:0002091;;FF:0000004;;FF:0000103;;FF:0011367
+|is_a=EFO:0002091;;FF:0011367
+|is_obsolete=
+|library_id=CNhs11025
+|library_id_phase_based=2:CNhs11025
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;479
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;479
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E17.CNhs11025.479-18E5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E17.CNhs11025.479-18E5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E17.CNhs11025.479-18E5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E17.CNhs11025.479-18E5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520embryo%2520E17.CNhs11025.479-18E5.mm9.nobarcode.rdna.fa.gz
 |name=heart, embryo E17
 |namespace=FANTOM5
@@ Line 42: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11025,LSID731,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.143122395795483,0,0,0,0.165857749845381,0.0213745420568342,1.48276198843051,0,0,0,0,1.18686508376314,0,0,0,0,0,0,0.0379424849281985,0,0,0,0,0,0,0,0,0,0,0,0,0,0.211191768023405,0,0,0,0,0,0.0632773735100936,0,0.181206823398666,0.408810085077929,0.0651215623792372,0,0,0,0,0,0,0,0,0,0,0.0907988888537607,0,0.313336900603018,0,0,0,0,0.0241530492501657,0,0.188193375095795,0.0907988888537607,0.0907988888537607,0.0198969032907848,0.103727300457786,0.108931340228157,0.00776670707429863,0.123724653335413,0,0.165857749845381,-0.0249392964017389,-0.00558963004844126,0.0907988888537607,0.0453994444268803,0.0165908875329654,-0.13499451489168,0.0086288129801414,-0.0788315948399074,0,0,0,0,0,0,0.0591089763984898,0.325557740533685,0.0873633220466243,0.00683489693606747,0,0,0,0.0907988888537607
 |rna_box=18
 |rna_catalog_number=
@@ Line 54: / Line 73: @@
 |rna_rin=
 |rna_sample_type=
-|rna_tube_id=18E5
+|rna_tube_id=1.80E+06
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 76: / Line 96: @@
 |sample_tissue=heart
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+|xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:479-18E5;search_select_hide=table117:479-18E5
 }}

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FF:479-18E5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:17, 4 June 2020

CNhs11025

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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