FF:1349-25I2: Difference between revisions

Latest revision as of 19:00, 4 June 2020

Name:	heart, neonate N03
Species:	Mouse (Mus musculus)
Library ID:	CNhs11221
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	heart
dev stage	3 days neonate
sex	mixture
age	NA
cell type	CELL MIXTURE - tissue sample
cell line	NA
company	NA
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	NA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005457

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11221		CAGE		DRX008980		DRR009854

Accession ID Mm9

Library id		BAM		CTSS
CNhs11221		DRZ001279		DRZ002662

Accession ID Mm10

Library id		BAM		CTSS
CNhs11221		DRZ012629		DRZ014012

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

CNhs11221

0	0
1	0
10	0.519
100	0
1000	0.477
1001	0.485
1002	0.202
1003	0.0694
1004	0
1005	-0.0389
1006	0.486
1007	0.0286
1008	0
1009	0.204
101	-0.0146
1010	0
1011	-0.0214
1012	0.0662
1013	-0.0931
1014	0.168
1015	-0.0417
1016	0.167
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0544
1022	0.732
1023	0
1024	0.272
1025	0
1026	0
1027	0
1028	0
1029	0.0266
103	0.174
1030	0
1031	0.206
1032	0.132
1033	0
1034	0
1035	0.633
1036	-0.194
1037	0
1038	0.194
1039	0.303
104	0
1040	0.122
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: CNhs11221

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0067
MA0003.1	MA0003.1	0.651
MA0004.1	MA0004.1	0.0282
MA0006.1	MA0006.1	0.259
MA0007.1	MA0007.1	0.33
MA0009.1	MA0009.1	0.721
MA0014.1	MA0014.1	0.552
MA0017.1	MA0017.1	0.119
MA0018.2	MA0018.2	0.375
MA0019.1	MA0019.1	0.755
MA0024.1	MA0024.1	0.142
MA0025.1	MA0025.1	0.922
MA0027.1	MA0027.1	0.422
MA0028.1	MA0028.1	0.0621
MA0029.1	MA0029.1	0.576
MA0030.1	MA0030.1	0.211
MA0031.1	MA0031.1	0.114
MA0035.2	MA0035.2	0.0987
MA0038.1	MA0038.1	0.624
MA0039.2	MA0039.2	0.0466
MA0040.1	MA0040.1	0.0934
MA0041.1	MA0041.1	0.446
MA0042.1	MA0042.1	0.542
MA0043.1	MA0043.1	0.708
MA0046.1	MA0046.1	5.26522e-16
MA0047.2	MA0047.2	0.183
MA0048.1	MA0048.1	0.0551
MA0050.1	MA0050.1	0.00155
MA0051.1	MA0051.1	0.0384
MA0052.1	MA0052.1	8.16666e-44
MA0055.1	MA0055.1	3.86953e-4
MA0057.1	MA0057.1	0.955
MA0058.1	MA0058.1	0.0464
MA0059.1	MA0059.1	0.104
MA0060.1	MA0060.1	0.0015
MA0061.1	MA0061.1	0.148
MA0062.2	MA0062.2	5.24898e-7
MA0065.2	MA0065.2	0.944
MA0066.1	MA0066.1	0.716
MA0067.1	MA0067.1	0.542
MA0068.1	MA0068.1	0.145
MA0069.1	MA0069.1	0.237
MA0070.1	MA0070.1	1
MA0071.1	MA0071.1	0.0467
MA0072.1	MA0072.1	0.863
MA0073.1	MA0073.1	0.951
MA0074.1	MA0074.1	0.128
MA0076.1	MA0076.1	0.00465
MA0077.1	MA0077.1	0.458
MA0078.1	MA0078.1	0.554
MA0079.2	MA0079.2	0.575
MA0080.2	MA0080.2	1.99029e-4
MA0081.1	MA0081.1	0.621
MA0083.1	MA0083.1	1.38686e-17
MA0084.1	MA0084.1	0.847
MA0087.1	MA0087.1	0.377
MA0088.1	MA0088.1	0.268
MA0090.1	MA0090.1	3.129e-5
MA0091.1	MA0091.1	0.919
MA0092.1	MA0092.1	0.497
MA0093.1	MA0093.1	0.0322
MA0099.2	MA0099.2	7.48963e-5
MA0100.1	MA0100.1	0.0877
MA0101.1	MA0101.1	0.186
MA0102.2	MA0102.2	0.00745
MA0103.1	MA0103.1	3.78641e-6
MA0104.2	MA0104.2	0.0681
MA0105.1	MA0105.1	0.0887
MA0106.1	MA0106.1	0.796
MA0107.1	MA0107.1	0.333
MA0108.2	MA0108.2	0.645
MA0111.1	MA0111.1	0.593
MA0112.2	MA0112.2	0.0453
MA0113.1	MA0113.1	0.884
MA0114.1	MA0114.1	0.0127
MA0115.1	MA0115.1	0.597
MA0116.1	MA0116.1	0.0451
MA0117.1	MA0117.1	0.989
MA0119.1	MA0119.1	0.249
MA0122.1	MA0122.1	0.314
MA0124.1	MA0124.1	0.564
MA0125.1	MA0125.1	0.418
MA0131.1	MA0131.1	0.687
MA0135.1	MA0135.1	0.176
MA0136.1	MA0136.1	1.33612e-5
MA0137.2	MA0137.2	0.0512
MA0138.2	MA0138.2	0.997
MA0139.1	MA0139.1	0.216
MA0140.1	MA0140.1	0.251
MA0141.1	MA0141.1	4.60659e-11
MA0142.1	MA0142.1	0.0487
MA0143.1	MA0143.1	0.85
MA0144.1	MA0144.1	0.986
MA0145.1	MA0145.1	0.615
MA0146.1	MA0146.1	0.173
MA0147.1	MA0147.1	0.0511
MA0148.1	MA0148.1	0.234
MA0149.1	MA0149.1	0.332
MA0150.1	MA0150.1	0.161
MA0152.1	MA0152.1	0.971
MA0153.1	MA0153.1	4.26692e-11
MA0154.1	MA0154.1	0.659
MA0155.1	MA0155.1	0.214
MA0156.1	MA0156.1	4.66318e-7
MA0157.1	MA0157.1	0.195
MA0159.1	MA0159.1	9.40527e-4
MA0160.1	MA0160.1	1.79819e-5
MA0162.1	MA0162.1	0.139
MA0163.1	MA0163.1	0.165
MA0164.1	MA0164.1	0.146
MA0258.1	MA0258.1	0.204
MA0259.1	MA0259.1	0.936

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: CNhs11221

Novel motif	Logo	P-value
1	1	0.269
10	10	0.737
100	100	0.933
101	101	0.558
102	102	0.689
103	103	0.349
104	104	0.619
105	105	0.371
106	106	0.979
107	107	0.541
108	108	0.876
109	109	0.546
11	11	0.685
110	110	0.306
111	111	0.28
112	112	0.335
113	113	0.65
114	114	0.921
115	115	0.993
116	116	0.383
117	117	0.917
118	118	0.614
119	119	0.828
12	12	0.843
120	120	0.175
121	121	0.692
122	122	0.178
123	123	0.16
124	124	0.391
125	125	0.61
126	126	0.423
127	127	0.227
128	128	0.257
129	129	0.613
13	13	5.58485e-4
130	130	0.278
131	131	0.537
132	132	0.627
133	133	0.396
134	134	0.599
135	135	0.928
136	136	0.213
137	137	0.251
138	138	0.0669
139	139	0.547
14	14	0.405
140	140	0.495
141	141	0.355
142	142	0.776
143	143	0.247
144	144	0.248
145	145	0.469
146	146	0.624
147	147	0.693
148	148	0.798
149	149	0.201
15	15	0.799
150	150	0.133
151	151	0.535
152	152	0.253
153	153	0.859
154	154	0.863
155	155	0.0892
156	156	0.349
157	157	0.764
158	158	0.1
159	159	0.0196
160	160	0.513
161	161	0.817
162	162	0.453
163	163	0.423
164	164	0.723
165	165	0.0475
166	166	0.374
167	167	0.91
168	168	0.297
169	169	9.35689e-4
17	17	0.844
18	18	0.0517
19	19	0.0993
2	2	0.625
20	20	0.397
21	21	0.498
22	22	0.187
23	23	0.473
24	24	0.684
25	25	0.662
26	26	0.0407
27	27	0.27
28	28	0.33
29	29	0.412
3	3	0.902
30	30	0.0488
31	31	0.829
32	32	0.875
33	33	0.162
34	34	0.295
35	35	0.379
36	36	0.0634
37	37	0.0981
38	38	0.956
39	39	0.849
4	4	0.211
40	40	0.0144
41	41	0.813
42	42	0.408
43	43	0.471
44	44	0.882
45	45	0.424
46	46	0.683
47	47	0.866
48	48	0.847
49	49	0.306
5	5	0.828
50	50	0.769
51	51	0.919
52	52	0.482
53	53	0.527
54	54	0.964
55	55	0.112
56	56	0.719
57	57	0.388
58	58	0.989
59	59	0.112
6	6	0.0527
60	60	0.555
61	61	0.652
62	62	0.649
63	63	0.36
64	64	0.703
65	65	0.564
66	66	0.363
67	67	0.834
68	68	0.351
69	69	0.123
7	7	0.142
70	70	0.0663
71	71	0.211
72	72	0.136
73	73	0.131
74	74	0.752
75	75	0.176
76	76	0.832
77	77	0.788
78	78	0.148
79	79	0.878
8	8	0.876
80	80	0.0118
81	81	0.663
82	82	0.656
83	83	0.801
84	84	0.48
85	85	0.232
86	86	0.548
87	87	2.72525e-5
88	88	0.415
89	89	0.157
9	9	0.279
90	90	0.811
91	91	0.255
92	92	0.842
93	93	0.401
94	94	0.674
95	95	0.283
96	96	0.447
97	97	0.281
98	98	0.787
99	99	0.811

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: CNhs11221

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011474 mouse heart- neonate N03 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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000311 (mouse neonate N3 sample)
0011474 (mouse heart- neonate N03 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@SAMD00005457
+|accession_numbers=CAGE;DRX008980;DRR009854;DRZ001279;DRZ002662;DRZ012629;DRZ014012
+|ancestors_in_anatomy_facet=UBERON:0000468,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:0000004,FF:0000303,FF:0000311,FF:0011474
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr9:24578720..24578735,-!p1@Tbx20!2.41!255.56!Tbx20;;chr17:26978409..26978442,-!p1@Nkx2-5!2.03!106.14!Nkx2-5;;chr5:77543897..77543911,-!p2@Hopx!1.83!123.42!Hopx;;chr6:97879817..97879857,+!p2@Mitf!1.68!47.06!Mitf;;chr8:59799772..59799789,+!p1@Hand2!1.67!125.89!Hand2;;chr14:63864056..63864102,-!p1@Gata4!1.65!74.71!Gata4;;chr10:22539932..22539956,-!p1@Tcf21!1.35!55.29!Tcf21;;chr5:77544170..77544181,-!p6@Hopx!1.32!20.08!Hopx;;chr2:120365588..120365602,-!p2@Zfp106!1.29!30.61!Zfp106;;chr5:77544108..77544119,-!p7@Hopx!1.25!16.95!Hopx;;chr5:138187775..138187845,+!p7@Tsc22d4!1.20!20.08!Tsc22d4;;chr18:11052485..11052508,+!p2@Gata6!1.18!39.17!Gata6;;chr14:63890491..63890516,-!p2@Gata4!1.17!13.82!Gata4;;chr11:101755669..101755686,-!p1@Meox1!1.16!24.19!Meox1;;chr5:120285144..120285160,+!p1@Tbx5!1.14!12.84!Tbx5;;chr5:24107779..24107825,-!p1@Smarcd3!1.13!84.25!Smarcd3;;chr5:77543935..77543947,-!p4@Hopx!1.10!11.68!Hopx;;chr14:63890459..63890484,-!p4@Gata4!1.09!11.35!Gata4;;chr14:63890660..63890687,-!p7@Gata4!1.08!11.03!Gata4;;chr18:11052642..11052659,+!p1@Gata6!1.03!49.37!Gata6;;chr9:87626083..87626108,-!p1@Tbx18!1.03!21.72!Tbx18;;chr7:119885539..119885574,+!p3@Tead1!1.03!9.71!Tead1;;chr1:92895299..92895373,+!p2@Lrrfip1!1.01!195.00!Lrrfip1;;chr5:77524250..77524300,-!p1@Hopx!0.99!181.02!Hopx;;chr4:150482563..150482655,-!p2@Camta1!0.99!31.76!Camta1;;chr16:43363152..43363186,+!p3@Zbtb20!0.94!17.94!Zbtb20;;chr4:148178559..148178603,+!p1@Casz1!0.93!22.38!Casz1;;chr17:26978449..26978458,-!p3@Nkx2-5!0.93!7.57!Nkx2-5;;chr17:26978521..26978536,-!p2@Nkx2-5!0.92!7.24!Nkx2-5;;chr10:30562571..30562597,-!p1@Hey2!0.91!17.44!Hey2;;chr1:189432907..189432926,+!p3@Esrrg!0.91!7.08!Esrrg;;chr12:37835141..37835194,+!p1@Meox2!0.90!22.38!Meox2;;chr14:63890691..63890718,-!p8@Gata4!0.90!6.91!Gata4;;chr18:11052456..11052477,+!p3@Gata6!0.89!21.89!Gata6;;chr4:133109285..133109308,+!p1@Nr0b2!0.89!6.75!Nr0b2;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.88!27.15!Ppp1r13l;;chr15:40486566..40486600,+!p1@Zfpm2!0.87!39.66!Zfpm2;;chr13:73397958..73397994,+!p1@Irx4!0.87!6.42!Irx4;;chr1:189821714..189821761,+!p1@Esrrg!0.86!12.01!Esrrg;;chr15:85566184..85566238,+!p1@Ppara!0.85!9.22!Ppara;;chr3:128917187..128917223,+!p2@Pitx2!0.85!7.08!Pitx2;;chr8:94325321..94325366,-!p1@Irx3!0.84!15.14!Irx3;;chr14:63890519..63890539,-!p3@Gata4!0.84!5.92!Gata4;;chr2:151969288..151969294,+!p1@Tcf15!0.83!9.22!Tcf15;;chr17:14011485..14011507,+!p2@Mllt4!0.83!5.76!Mllt4;;chr14:64562503..64562524,+!p1@Sox7!0.82!35.38!Sox7;;chr4:154010918..154010931,-!p1@Prdm16!0.79!16.13!Prdm16;;chr2:104966766..104966786,+!p1@Wt1!0.79!8.39!Wt1;;chr7:123174606..123174636,-!p5@Sox6!0.78!6.58!Sox6;;chr1:191994550..191994623,-!p1@Prox1!0.77!37.19!Prox1;;chr1:170362437..170362478,-!p5@Pbx1!0.77!16.46!Pbx1;;chr5:120285161..120285176,+!p2@Tbx5!0.77!4.94!Tbx5;;chr2:168415815..168415872,-!p1@Nfatc2!0.75!27.98!Nfatc2;;chr7:119822915..119822936,+!p5@Tead1!0.75!8.06!Tead1;;chr7:4947625..4947634,-!p6@Zfp579!0.75!7.90!Zfp579;;chr14:63864337..63864381,-!p6@Gata4!0.75!4.61!Gata4;;chr7:119822957..119822980,+!p2@Tead1!0.73!23.53!Tead1;;chr10:12810631..12810649,+!p1@Plagl1!0.72!124.74!Plagl1;;chr5:138199361..138199441,+!p2@Tsc22d4!0.72!8.56!Tsc22d4;;chr11:70043257..70043263,-!p1@Bcl6b!0.72!7.73!Bcl6b;;chr4:148178529..148178548,+!p3@Casz1!0.69!10.20!Casz1;;chr4:120488308..120488366,-!p1@Nfyc!0.68!24.68!Nfyc;;chr1:189432881..189432903,+!p2@Esrrg!0.68!3.78!Esrrg;;chr8:94325814..94325839,-!p2@Irx3!0.67!8.39!Irx3;;chr5:20387850..20387869,-!p1@Phtf2!0.66!41.96!Phtf2;;chr17:46693078..46693097,-!p3@Srf!0.66!16.62!Srf;;chrX:137135036..137135064,-!p4@Tsc22d3!0.66!7.57!Tsc22d3;;chr8:94325847..94325869,-!p3@Irx3!0.66!6.09!Irx3;;chr17:46693107..46693137,-!p1@Srf!0.65!39.66!Srf;;chr5:125538737..125538781,-!p2@Ncor2!0.65!14.32!Ncor2;;chr16:43363190..43363242,+!p2@Zbtb20!0.65!12.01!Zbtb20;;chr6:97879802..97879816,+!p5@Mitf!0.65!3.46!Mitf;;chr13:64253718..64253763,-!p2@Zfp367!0.64!9.71!Zfp367;;chr5:77524231..77524245,-!p3@Hopx!0.64!9.38!Hopx;;chr7:74517658..74517731,-!p1@Mef2a!0.63!174.27!Mef2a;;chr2:180069370..180069409,-!p1@Gata5!0.63!3.95!Gata5;;chr13:73398004..73398017,+!p2@Irx4!0.63!3.29!Irx4;;chr14:63890545..63890560,-!p5@Gata4!0.63!3.29!Gata4;;chr11:69749320..69749345,+!p2@Ybx2!0.62!5.60!Ybx2;;chr13:72766279..72766296,+!p2@Irx2!0.62!5.10!Irx2;;chr7:123174485..123174514,-!p6@Sox6!0.62!4.11!Sox6;;chr5:120285130..120285141,+!p3@Tbx5!0.62!3.13!Tbx5;;chr1:191993385..191993405,-!p3@Prox1!0.62!3.13!Prox1;;chr18:80909801..80909819,-!p1@Nfatc1!0.61!21.56!Nfatc1;;chr14:17407970..17408015,-!p2@Rarb!0.61!9.38!Rarb;;chr6:83299445..83299490,+!p1@Bola3!0.60!154.03!Bola3;;chr12:87702062..87702081,+!p4@Esrrb!0.60!2.96!Esrrb;;chr13:73397921..73397935,+!p3@Irx4!0.60!2.96!Irx4;;chr1:169548377..169548430,+!p1@Rxrg!0.60!2.96!Rxrg;;chr10:30562617..30562637,-!p2@Hey2!0.59!3.78!Hey2;;chr13:64254457..64254497,-!p1@Zfp367!0.57!14.65!Zfp367;;chr18:11052606..11052633,+!p4@Gata6!0.57!8.06!Gata6;;chr5:77524304..77524315,-!p5@Hopx!0.57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r8:87297706..87297711,-!p19@Nfix!0.12!0.33!Nfix;;chr6:128250448..128250453,-!p8@Tead4!0.12!0.33!Tead4;;chr6:98978428..98978450,-!p15@Foxp1!0.12!0.33!Foxp1;;chr5:92391970..92391984,+!p5@Thap6!0.12!0.33!Thap6;;chr6:97941770..97941784,+!p4@Mitf!0.12!0.33!Mitf;;chr5:138187867..138187879,+!p21@Tsc22d4!0.12!0.33!Tsc22d4;;chr7:108966820..108966835,+!p1@Phox2a!0.12!0.33!Phox2a;;chr5:125523164..125523188,-!p8@Ncor2!0.12!0.33!Ncor2;;chr6:29479308..29479325,+!p3@Irf5!0.12!0.33!Irf5;;chr5:138187918..138187929,+!p20@Tsc22d4!0.12!0.33!Tsc22d4;;chr6:115372058..115372085,+!p3@Pparg!0.12!0.33!Pparg;;chr5:77695258..77695269,+!p12@Rest!0.12!0.33!Rest;;chr6:51382662..51382673,+!p3@Nfe2l3!0.12!0.33!Nfe2l3;;chr6:15135215..15135244,+!p11@Foxp2!0.12!0.33!Foxp2;;chr5:42155788..42155800,-!p1@Nkx3-2!0.12!0.33!Nkx3-2;;chr18:35020854..35020869,+!p1@Egr1!0.11!44.60!Egr1;;chr16:91044627..91044703,-!p1@Gcfc1!0.11!36.70!Gcfc1;;chr13:53076396..53076452,-!p1@Nfil3!0.11!20.41!Nfil3;;chrX:91368426..91368498,-!p1@Zfx!0.11!20.24!Zfx;;chr15:100058266..100058287,+!p1@Atf1!0.11!17.61!Atf1;;chr17:21145885..21145977,+!p1@Zfp160!0.11!15.14!Zfp160;;chr6:72849716..72849805,-!p1@Kcmf1!0.11!13.82!Kcmf1;;chr15:81575569..81575599,+!p2@Zc3h7b!0.11!12.34!Zc3h7b;;chr3:100773567..100773599,-!p1@Ttf2!0.11!12.01!Ttf2;;chr15:101097270..101097290,+!p1@Nr4a1!0.11!11.19!Nr4a1;;chr2:37278415..37278478,-!p1@Rc3h2!0.11!9.71!Rc3h2;;chr7:52960555..52960662,+!p1@Dbp!0.11!9.22!Dbp;;chr5:31754831..31754876,+!p1@Zfp512!0.11!7.73!Zfp512;;chr11:72990738..72990763,+!p2@LOC100047518,p2@Tax1bp3!0.11!5.76!Tax1bp3;;chr18:35721834..35721851,+!p2@Matr3!0.11!5.43!Matr3;;chr11:62545367..62545412,-!p1@Zfp287!0.11!3.95!Zfp287;;chr12:110031310..110031342,+!p4@Yy1!0.11!3.95!Yy1;;chr17:84105477..84105509,+!p3@Mta3!0.11!3.78!Mta3;;chr5:134790428..134790441,-!p5@Gtf2i!0.11!3.46!Gtf2i;;chr19:8876976..8877011,+!p1@Zbtb3!0.11!3.13!Zbtb3;;chr18:39649534..39649569,-!p3@Nr3c1!0.11!2.96!Nr3c1;;chr7:20214704..20214800,-!p1@Relb!0.11!2.96!Relb;;chr15:100430414..100430470,-!p1@Pou6f1!0.11!2.80!Pou6f1;;chr12:77471500..77471515,+!p2@Zbtb1!0.11!2.47!Zbtb1;;chr13:22036953..22037009,+!p1@Zfp184!0.11!2.30!Zfp184;;chr18:5334765..5334833,-!p2@Zfp438!0.11!2.30!Zfp438;;chr13:67182439..67182491,-!p2@Zfp708!0.11!2.14!Zfp708;;chr5:34530277..34530292,-!p3@Mxd4!0.11!2.14!Mxd4;;chr5:110539286..110539317,+!p2@Zfp605!0.11!1.97!Zfp605;;chr14:65977427..65977452,+!p4@Zfp395!0.11!1.97!Zfp395;;chr8:73905344..73905381,-!p2@Nr2f6!0.11!1.97!Nr2f6;;chr13:37870307..37870337,+!p5@Rreb1!0.11!1.81!Rreb1;;chr13:5860740..5860747,+!p4@Klf6!0.11!1.65!Klf6;;chr4:133276779..133276796,-!p8@Arid1a!0.11!1.48!Arid1a;;chr9:96159147..96159204,+!p2@Tfdp2!0.11!1.32!Tfdp2;;chr11:85646427..85646451,+!p4@Tbx2!0.11!1.15!Tbx2;;chr11:98636657..98636668,-!p6@Nr1d1!0.11!1.15!Nr1d1;;chr12:16817785..16817796,+!p2@E2f6!0.11!0.99!E2f6;;chr14:52935860..52935874,-!p3@Sall2!0.11!0.82!Sall2;;chr11:98605517..98605539,+!p5@Thra!0.11!0.82!Thra;;chr3:9610233..9610247,-!p4@Zfp704!0.11!0.82!Zfp704;;chr6:53523332..53523343,+!p2@Creb5!0.11!0.82!Creb5;;chr6:133986042..133986052,+!p7@Etv6!0.11!0.66!Etv6;;chr18:14131020..14131033,-!p4@Zfp521!0.11!0.66!Zfp521;;chr4:151235871..151235882,-!p7@Camta1!0.11!0.66!Camta1;;chr4:48057987..48057996,+!p7@Nr4a3!0.11!0.49!Nr4a3;;chr5:137042233..137042245,-!p4@Cux1!0.11!0.49!Cux1;;chr7:52960780..52960793,+!p5@Dbp!0.11!0.49!Dbp;;chr9:96159689..96159696,+!p13@Tfdp2!0.11!0.49!Tfdp2;;chr2:152223734..152223756,-!p6@Sox12!0.11!0.49!Sox12;;chr18:69752608..69752625,+!p17@Tcf4!0.11!0.49!Tcf4;;chr10:67599450..67599456,-!p8@Arid5b!0.11!0.49!Arid5b;;
+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006603,UBERON:0004872,UBERON:0004140,UBERON:0010316,FF:0000294
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 38: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011474
 |is_obsolete=
+|library_id=CNhs11221
+|library_id_phase_based=2:CNhs11221
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1349
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1349
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/heart%252c%2520neonate%2520N03.CNhs11221.1349-25I2.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/heart%252c%2520neonate%2520N03.CNhs11221.1349-25I2.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520neonate%2520N03.CNhs11221.1349-25I2.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520neonate%2520N03.CNhs11221.1349-25I2.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/heart%252c%2520neonate%2520N03.CNhs11221.1349-25I2.mm9.nobarcode.rdna.fa.gz
 |name=heart, neonate N03
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11221,LSID748,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.064618568580675,0,0,0,0,0.0617820475192945,1.11254938595319,0,0,0,0,0.475921088709032,0,0,0,0,0,0,0.0688454902321358,0,0,0,0,0,0,0,0,0,0,0,0,0,0.202921260228397,0,0,0,0,0.0049621943421323,-0.0601845516710982,0,0.0556000478682201,-0.019104133802664,0.0629572718772785,0,0,0,0,0,0,0.0661618130246221,0,0,0,0,0,0.232270800086015,0,0,0,0,0.0233148579417473,0,0.033080906512311,0,0,0.00698963431987633,0.105707848236442,-0.0123743096899306,-0.0919292297464605,0.106311812384722,0,0.0962488342729768,0.00769059082779666,0.0306961869425406,0,0,0.0399419211548626,-0.0843935133678408,-0.173390945212932,0.140815634898622,0,0,0,0,0,0,-0.0496827913857466,0.078923272261386,-0.0728506698496705,0,0,0,0,0.00430022693361027
 |rna_box=25
 |rna_catalog_number=
@@ Line 58: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 78: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:1349-25I2;search_select_hide=table117:1349-25I2
 }}

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FF:1349-25I2: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:00, 4 June 2020

CNhs11221

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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