FF:11729-123E1: Difference between revisions

Latest revision as of 18:16, 4 June 2020

Name:	Mouse Cardiac Myocytes, donor2
Species:	Mouse (Mus musculus)
Library ID:	CNhs12356
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	heart
dev stage	NA
sex	NA
age	NA
cell type	cardiac muscle cell
cell line	NA
company	Sciencell/3H
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	custom
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005910

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12356		CAGE		DRX008817		DRR009689

Accession ID Mm9

Library id		BAM		CTSS
CNhs12356		DRZ001114		DRZ002499

Accession ID Mm10

Library id		BAM		CTSS
CNhs12356		DRZ012464		DRZ013849

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

CNhs12356

0	0
1	0
10	0
100	0
1000	0.109
1001	-0.0275
1002	0.24
1003	-0.0137
1004	0
1005	0.00899
1006	-0.00124
1007	-0.0704
1008	0
1009	0.44
101	-0.105
1010	0
1011	-0.19
1012	0
1013	0.0706
1014	0.109
1015	-0.116
1016	0.102
1017	0
1018	0
1019	0
102	0
1020	0.478
1021	0
1022	0
1023	0
1024	-0.14
1025	0
1026	0
1027	0
1028	0.109
1029	-0.176
103	0.634
1030	0
1031	0.666
1032	0.0691
1033	0
1034	0
1035	0
1036	0.026
1037	0
1038	0.255
1039	-0.119
104	0
1040	0.594
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: CNhs12356

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.307
MA0003.1	MA0003.1	0.143
MA0004.1	MA0004.1	0.5
MA0006.1	MA0006.1	0.262
MA0007.1	MA0007.1	0.0453
MA0009.1	MA0009.1	0.977
MA0014.1	MA0014.1	0.394
MA0017.1	MA0017.1	0.01
MA0018.2	MA0018.2	0.0134
MA0019.1	MA0019.1	0.494
MA0024.1	MA0024.1	1.75864e-4
MA0025.1	MA0025.1	0.439
MA0027.1	MA0027.1	0.363
MA0028.1	MA0028.1	0.831
MA0029.1	MA0029.1	0.897
MA0030.1	MA0030.1	0.466
MA0031.1	MA0031.1	0.881
MA0035.2	MA0035.2	0.082
MA0038.1	MA0038.1	0.467
MA0039.2	MA0039.2	0.0325
MA0040.1	MA0040.1	0.11
MA0041.1	MA0041.1	0.779
MA0042.1	MA0042.1	0.349
MA0043.1	MA0043.1	0.207
MA0046.1	MA0046.1	5.09613e-9
MA0047.2	MA0047.2	0.112
MA0048.1	MA0048.1	0.38
MA0050.1	MA0050.1	0.065
MA0051.1	MA0051.1	0.253
MA0052.1	MA0052.1	0.748
MA0055.1	MA0055.1	0.107
MA0057.1	MA0057.1	0.0866
MA0058.1	MA0058.1	0.177
MA0059.1	MA0059.1	0.411
MA0060.1	MA0060.1	3.20421e-13
MA0061.1	MA0061.1	0.102
MA0062.2	MA0062.2	0.282
MA0065.2	MA0065.2	0.77
MA0066.1	MA0066.1	0.943
MA0067.1	MA0067.1	0.809
MA0068.1	MA0068.1	0.0347
MA0069.1	MA0069.1	0.683
MA0070.1	MA0070.1	0.932
MA0071.1	MA0071.1	0.213
MA0072.1	MA0072.1	0.481
MA0073.1	MA0073.1	0.557
MA0074.1	MA0074.1	0.37
MA0076.1	MA0076.1	0.228
MA0077.1	MA0077.1	0.181
MA0078.1	MA0078.1	0.778
MA0079.2	MA0079.2	0.00109
MA0080.2	MA0080.2	0.707
MA0081.1	MA0081.1	0.624
MA0083.1	MA0083.1	1.75853e-5
MA0084.1	MA0084.1	0.642
MA0087.1	MA0087.1	0.846
MA0088.1	MA0088.1	0.482
MA0090.1	MA0090.1	3.70177e-5
MA0091.1	MA0091.1	0.113
MA0092.1	MA0092.1	0.133
MA0093.1	MA0093.1	0.513
MA0099.2	MA0099.2	7.41901e-4
MA0100.1	MA0100.1	0.368
MA0101.1	MA0101.1	0.0168
MA0102.2	MA0102.2	0.748
MA0103.1	MA0103.1	6.68462e-7
MA0104.2	MA0104.2	0.102
MA0105.1	MA0105.1	0.415
MA0106.1	MA0106.1	0.01
MA0107.1	MA0107.1	0.0198
MA0108.2	MA0108.2	0.501
MA0111.1	MA0111.1	0.816
MA0112.2	MA0112.2	0.0184
MA0113.1	MA0113.1	0.111
MA0114.1	MA0114.1	0.0207
MA0115.1	MA0115.1	0.0484
MA0116.1	MA0116.1	0.745
MA0117.1	MA0117.1	0.33
MA0119.1	MA0119.1	0.409
MA0122.1	MA0122.1	0.885
MA0124.1	MA0124.1	0.502
MA0125.1	MA0125.1	0.0165
MA0131.1	MA0131.1	0.333
MA0135.1	MA0135.1	0.394
MA0136.1	MA0136.1	0.664
MA0137.2	MA0137.2	0.073
MA0138.2	MA0138.2	0.0293
MA0139.1	MA0139.1	0.451
MA0140.1	MA0140.1	0.235
MA0141.1	MA0141.1	0.224
MA0142.1	MA0142.1	0.0247
MA0143.1	MA0143.1	0.581
MA0144.1	MA0144.1	0.00969
MA0145.1	MA0145.1	0.0343
MA0146.1	MA0146.1	0.0295
MA0147.1	MA0147.1	0.0887
MA0148.1	MA0148.1	0.202
MA0149.1	MA0149.1	0.806
MA0150.1	MA0150.1	0.0936
MA0152.1	MA0152.1	0.0105
MA0153.1	MA0153.1	1.59794e-8
MA0154.1	MA0154.1	0.0119
MA0155.1	MA0155.1	0.402
MA0156.1	MA0156.1	0.543
MA0157.1	MA0157.1	0.347
MA0159.1	MA0159.1	0.818
MA0160.1	MA0160.1	0.172
MA0162.1	MA0162.1	0.162
MA0163.1	MA0163.1	0.156
MA0164.1	MA0164.1	0.976
MA0258.1	MA0258.1	0.866
MA0259.1	MA0259.1	0.768

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: CNhs12356

Novel motif	Logo	P-value
1	1	0.952
10	10	0.584
100	100	0.911
101	101	0.513
102	102	0.602
103	103	0.86
104	104	0.735
105	105	0.3
106	106	0.0202
107	107	0.152
108	108	0.595
109	109	0.00324
11	11	0.272
110	110	0.115
111	111	0.941
112	112	0.358
113	113	0.451
114	114	0.293
115	115	0.612
116	116	0.167
117	117	0.404
118	118	0.934
119	119	0.888
12	12	0.576
120	120	0.469
121	121	0.587
122	122	0.463
123	123	0.577
124	124	0.142
125	125	0.438
126	126	0.567
127	127	0.169
128	128	0.111
129	129	0.61
13	13	0.0924
130	130	0.418
131	131	0.138
132	132	0.92
133	133	0.911
134	134	0.838
135	135	0.716
136	136	0.152
137	137	0.482
138	138	0.624
139	139	0.631
14	14	0.704
140	140	0.307
141	141	0.0999
142	142	0.977
143	143	0.15
144	144	0.119
145	145	0.406
146	146	0.864
147	147	0.524
148	148	0.683
149	149	0.00115
15	15	0.247
150	150	0.0416
151	151	0.584
152	152	0.0189
153	153	0.674
154	154	0.431
155	155	0.9
156	156	1.08024e-37
157	157	0.602
158	158	0.156
159	159	0.0066
160	160	0.407
161	161	0.553
162	162	0.59
163	163	0.546
164	164	0.184
165	165	0.825
166	166	0.49
167	167	0.388
168	168	0.933
169	169	0.0148
17	17	0.254
18	18	0.483
19	19	0.0134
2	2	0.173
20	20	0.649
21	21	0.311
22	22	0.054
23	23	0.697
24	24	0.235
25	25	0.229
26	26	0.0452
27	27	0.503
28	28	0.586
29	29	0.171
3	3	0.455
30	30	0.845
31	31	0.79
32	32	0.126
33	33	0.491
34	34	0.747
35	35	0.0634
36	36	0.283
37	37	0.0556
38	38	0.934
39	39	0.276
4	4	0.836
40	40	0.675
41	41	0.761
42	42	0.599
43	43	0.052
44	44	0.7
45	45	0.573
46	46	0.908
47	47	0.44
48	48	0.612
49	49	0.813
5	5	0.3
50	50	0.0787
51	51	0.821
52	52	0.318
53	53	0.829
54	54	0.549
55	55	0.861
56	56	0.633
57	57	0.884
58	58	0.362
59	59	0.00715
6	6	0.335
60	60	0.349
61	61	0.544
62	62	0.494
63	63	0.234
64	64	0.696
65	65	0.647
66	66	0.698
67	67	0.409
68	68	0.228
69	69	0.777
7	7	0.667
70	70	0.0733
71	71	0.595
72	72	0.639
73	73	0.00961
74	74	0.617
75	75	0.286
76	76	0.988
77	77	0.0232
78	78	0.0667
79	79	0.656
8	8	0.467
80	80	0.0803
81	81	0.905
82	82	0.381
83	83	0.34
84	84	0.86
85	85	0.103
86	86	0.724
87	87	0.0114
88	88	0.796
89	89	0.346
9	9	0.557
90	90	0.741
91	91	0.957
92	92	0.166
93	93	0.555
94	94	0.662
95	95	0.00825
96	96	0.0271
97	97	0.215
98	98	0.437
99	99	0.914

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: CNhs12356

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000106 mouse cardiac myocyte 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

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0002371 (somatic cell)
0000393 (electrically responsive cell)
0000183 (contractile cell)
0000187 (muscle cell)
0000211 (electrically active cell)
0000255 (eukaryotic cell)
0002494 (cardiocyte)
0000737 (striated muscle cell)
0000746 (cardiac muscle cell)

UBERON: Anatomy
0000468 (multi-cellular organism)
0007100 (primary circulatory organ)
0000948 (heart)
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)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000106 (mouse cardiac myocyte 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
CL:0000355 (multi-potent skeletal muscle stem cell)
CL:0000222 (mesodermal cell)
CL:0000513 (cardiac muscle myoblast)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008707
+|DRA_sample_Accession=CAGE@SAMD00005910
-|accession_numbers=CAGE;DRX008817;DRR009689;DRZ001114;DRZ002499
+|accession_numbers=CAGE;DRX008817;DRR009689;DRZ001114;DRZ002499;DRZ012464;DRZ013849
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007100,UBERON:0000948,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=CL:0000000,CL:0000003,CL:0000548,CL:0002371,CL:0000393,CL:0000183,CL:0000187,CL:0000211,CL:0000255,CL:0002494,CL:0000737,CL:0000746
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr9:24578720..24578735,-!p1@Tbx20!2.56!362.46!Tbx20;;chr10:22539932..22539956,-!p1@Tcf21!2.38!616.05!Tcf21;;chr14:63864056..63864102,-!p1@Gata4!1.54!57.02!Gata4;;chr8:59799772..59799789,+!p1@Hand2!1.46!77.08!Hand2;;chr7:19895354..19895369,-!p1@Fosb!1.39!31.81!Fosb;;chr9:87626083..87626108,-!p1@Tbx18!1.29!40.40!Tbx18;;chr7:52071956..52071978,-!p1@Atf5!1.27!548.14!Atf5;;chr9:48644037..48644067,-!p2@Zbtb16!1.27!43.55!Zbtb16;;chr2:167363692..167363710,+!p1@Snai1!1.23!189.40!Snai1;;chr2:152758901..152758925,-!p1@Foxs1!1.22!67.62!Foxs1;;chr7:119822957..119822980,+!p2@Tead1!1.20!71.63!Tead1;;chr16:15887371..15887385,+!p1@Cebpd!1.17!465.04!Cebpd;;chr6:72185232..72185272,-!p1@Atoh8!1.16!38.11!Atoh8;;chr12:86814833..86814846,+!p1@Fos!1.15!300.57!Fos;;chr6:72185210..72185228,-!p3@Atoh8!1.12!20.63!Atoh8;;chr1:165243792..165243808,-!p1@Prrx1!1.08!38.68!Prrx1;;chr9:96653072..96653154,-!p1@Zbtb38!1.08!29.80!Zbtb38;;chr9:63869802..63869815,-!p3@Smad6!1.06!20.92!Smad6;;chrX:48499591..48499593,-!p3@Mbnl3!1.05!10.32!Mbnl3;;chr4:135699731..135699747,+!p1@Id3!1.04!1123.78!Id3;;chr11:5761889..5761969,+!p1@Aebp1!1.04!418.91!Aebp1;;chr16:43363190..43363242,+!p2@Zbtb20!1.04!30.95!Zbtb20;;chr8:87502608..87502623,-!p1@Junb!0.99!146.42!Junb;;chr10:88996295..88996335,-!p3@Nr1h4!0.99!10.60!Nr1h4;;chr11:96690797..96690813,-!p1@Nfe2l1!0.98!169.34!Nfe2l1;;chr9:63869751..63869767,-!p1@Smad6!0.98!23.21!Smad6;;chr16:43363152..43363186,+!p3@Zbtb20!0.97!19.48!Zbtb20;;chr7:19895384..19895399,-!p2@Fosb!0.97!12.03!Fosb;;chr2:152758938..152758954,-!p2@Foxs1!0.96!11.46!Foxs1;;chr18:11052485..11052508,+!p2@Gata6!0.95!22.92!Gata6;;chr18:11052606..11052633,+!p4@Gata6!0.93!19.77!Gata6;;chr11:5761979..5761992,+!p2@Aebp1!0.92!15.19!Aebp1;;chr13:5860776..5860796,+!p1@Klf6!0.91!178.80!Klf6;;chr18:35020854..35020869,+!p1@Egr1!0.89!271.35!Egr1;;chr7:144506077..144506128,-!p1@Ebf3!0.88!15.76!Ebf3;;chr17:87153240..87153254,+!p1@Epas1!0.86!129.23!Epas1;;chr9:63869510..63869530,-!p10@Smad6!0.85!6.02!Smad6;;chr18:11052456..11052477,+!p3@Gata6!0.84!19.48!Gata6;;chr9:63869850..63869873,-!p2@Smad6!0.84!18.62!Smad6;;chr7:17647736..17647772,-!p1@Hif3a!0.83!21.49!Hif3a;;chr12:34642682..34642753,+!p2@Twist1!0.82!15.76!Twist1;;chr10:88996336..88996380,-!p2@Nr1h4!0.82!7.16!Nr1h4;;chr18:11052642..11052659,+!p1@Gata6!0.81!29.51!Gata6;;chr11:96690779..96690790,-!p3@Nfe2l1!0.81!13.75!Nfe2l1;;chr18:75979866..75979890,+!p3@Zbtb7c!0.81!12.03!Zbtb7c;;chr6:72185553..72185612,-!p2@Atoh8!0.80!10.89!Atoh8;;chr9:63869834..63869849,-!p5@Smad6!0.80!9.46!Smad6;;chr17:87153028..87153049,+!p2@Epas1!0.78!114.04!Epas1;;chr9:48644013..48644027,-!p5@Zbtb16!0.78!6.30!Zbtb16;;chr12:86940338..86940357,+!p1@Jdp2!0.76!52.15!Jdp2;;chr2:91864300..91864379,-!p2@Creb3l1!0.76!14.90!Creb3l1;;chr4:13712228..13712267,+!p3@Runx1t1!0.75!8.31!Runx1t1;;chr2:167514456..167514473,+!p1@Cebpb!0.74!220.63!Cebpb;;chrX:137077653..137077669,-!p3@Tsc22d3!0.74!22.06!Tsc22d3;;chr19:23215673..23215753,+!p1@Klf9!0.73!70.77!Klf9;;chr10:67599432..67599444,-!p4@Arid5b!0.72!7.16!Arid5b;;chr18:75527009..75527027,+!p1@Smad7!0.71!97.42!Smad7;;chr5:24107779..24107825,-!p1@Smarcd3!0.71!30.95!Smarcd3;;chr6:72185179..72185196,-!p4@Atoh8!0.71!5.73!Atoh8;;chr6:144730427..144730508,-!p1@Sox5!0.70!27.51!Sox5;;chr19:23215469..23215494,+!p2@Klf9!0.70!6.59!Klf9;;chr16:55822241..55822258,-!p1@Nfkbiz!0.69!140.11!Nfkbiz;;chr10:67599319..67599360,-!p2@Arid5b!0.69!49.28!Arid5b;;chr6:90412582..90412601,+!p1@Klf15!0.69!20.63!Klf15;;chrX:137077682..137077692,-!p5@Tsc22d3!0.69!6.59!Tsc22d3;;chr10:126727842..126727859,+!p1@Ddit3!0.68!125.22!Ddit3;;chr10:107769168..107769215,+!p1@Pawr!0.68!43.84!Pawr;;chr9:87625998..87626007,-!p4@Tbx18!0.67!3.72!Tbx18;;chr4:97444471..97444514,+!p1@Nfia!0.66!110.60!Nfia;;chr11:74981654..74981658,-!p1@Hic1!0.66!16.05!Hic1;;chr10:75384291..75384298,-!p2@Smarcb1!0.66!8.60!Smarcb1;;chr9:63869729..63869749,-!p4@Smad6!0.66!7.74!Smad6;;chr11:44430812..44430838,+!p1@Ebf1!0.65!39.83!Ebf1;;chrX:137077716..137077734,-!p1@Tsc22d3!0.65!28.65!Tsc22d3;;chr18:75528166..75528170,+!p3@Smad7!0.65!9.74!Smad7;;chr19:23215509..23215523,+!p4@Klf9!0.65!4.58!Klf9;;chr7:89137163..89137200,-!p1@Bnc1!0.65!4.30!Bnc1;;chr1:165243272..165243283,-!p6@Prrx1!0.65!4.30!Prrx1;;chr2:104967357..104967379,+!p9@Wt1!0.65!3.44!Wt1;;chr2:91864661..91864686,-!p1@Creb3l1!0.64!85.67!Creb3l1;;chr15:40486566..40486600,+!p1@Zfpm2!0.64!23.21!Zfpm2;;chr3:135354903..135354945,-!p7@Nfkb1!0.64!8.60!Nfkb1;;chr2:104966766..104966786,+!p1@Wt1!0.64!5.73!Wt1;;chr15:79178029..79178044,+!p4@Maff!0.64!4.30!Maff;;chr11:44431687..44431706,+!p2@Ebf1!0.62!17.48!Ebf1;;chr7:20408047..20408125,-!p1@Bcl3!0.61!41.55!Bcl3;;chr9:48644306..48644364,-!p1@Zbtb16!0.61!14.61!Zbtb16;;chr4:97444590..97444607,+!p6@Nfia!0.60!25.79!Nfia;;chr11:16908650..16908690,-!p1@Plek!0.60!21.78!Plek;;chr11:5761871..5761882,+!p3@Aebp1!0.60!8.88!Aebp1;;chr5:24108047..24108106,-!p3@Smarcd3!0.60!5.73!Smarcd3;;chr5:32438395..32438406,+!p3@Fosl2!0.60!4.87!Fosl2;;chr18:75979828..75979864,+!p2@Zbtb7c!0.59!7.45!Zbtb7c;;chr2:91864449..91864492,-!p3@Creb3l1!0.59!5.16!Creb3l1;;chr15:79178013..79178028,+!p3@Maff!0.59!4.01!Maff;;chr8:74842952..74842970,+!p1@Klf2!0.58!233.24!Klf2;;chr12:56593574..56593592,-!p1@Nfkbia!0.57!173.07!Nfkbia;;chr17:87153440..87153451,+!p4@Epas1!0.57!6.30!Epas1;;chrX:7341077..7341091,+!p5@Tfe3!0.57!5.16!Tfe3;;chr7:119822940..119822945,+!p6@Tead1!0.57!3.72!Tead1;;chr7:119822841..119822887,+!p1@Tead1!0.56!105.73!Tead1;;chr16:14705925..14705951,+!p1@Snai2!0.56!22.64!Snai2;;chr7:20214704..20214800,-!p1@Relb!0.56!10.32!Relb;;chr10:119913278..119913298,-!p2@Hmga2!0.56!6.88!Hmga2;;chr1:92895299..92895373,+!p2@Lrrfip1!0.55!66.48!Lrrfip1;;chr10:107769750..107769799,+!p2@Pawr!0.55!6.30!Pawr;;chr19:46380235..46380277,+!p3@Nfkb2!0.55!6.30!Nfkb2;;chr10:67599361..67599372,-!p5@Arid5b!0.55!4.30!Arid5b;;chr16:43364215..43364252,+!p14@Zbtb20!0.55!3.44!Zbtb20;;chr11:96684043..96684069,-!p9@Nfe2l1!0.55!2.58!Nfe2l1;;chr11:96685444..96685473,-!p5@Nfe2l1!0.55!2.58!Nfe2l1;;chr11:112643496..112643562,+!p1@Sox9!0.54!118.05!Sox9;;chr4:97444297..97444323,+!p2@Nfia!0.54!48.42!Nfia;;chr18:75527030..75527055,+!p2@Smad7!0.54!19.48!Smad7;;chr1:193007123..193007139,-!p1@Atf3!0.54!17.19!Atf3;;chr16:43363968..43364001,+!p7@Zbtb20!0.54!5.16!Zbtb20;;chr7:119822915..119822936,+!p5@Tead1!0.54!4.58!Tead1;;chr7:144505980..144506010,-!p3@Ebf3!0.54!3.15!Ebf3;;chr16:8672256..8672279,-!p1@Carhsp1,p1@Gm9791!0.53!6.30!Carhsp1;;chr6:15135456..15135520,+!p3@Foxp2!0.53!6.02!Foxp2;;chr10:67375368..67375433,-!p1@Zfp365!0.53!4.87!Zfp365;;chr10:67599375..67599386,-!p3@Arid5b!0.53!4.87!Arid5b;;chr15:40486615..40486628,+!p3@Zfpm2!0.53!4.30!Zfpm2;;chrX:137077608..137077619,-!p6@Tsc22d3!0.53!3.44!Tsc22d3;;chr9:63869890..63869908,-!p6@Smad6!0.53!3.44!Smad6;;chr6:16848395..16848416,-!p2@Tfec!0.53!2.87!Tfec;;chr12:9581262..9581282,+!p1@Osr1!0.52!35.82!Osr1;;chr5:104121391..104121450,+!p3@Aff1!0.52!15.19!Aff1;;chr12:34642510..34642530,+!p1@Twist1!0.52!8.88!Twist1;;chr1:138521574..138521597,+!p3@Zfp281!0.52!6.59!Zfp281;;chr10:67000609..67000625,+!p1@Egr2!0.52!6.30!Egr2;;chr6:90412556..90412581,+!p3@Klf15!0.52!6.02!Klf15;;chr17:71201050..71201078,-!p9@Tgif1!0.52!2.29!Tgif1;;chr10:88996274..88996286,-!p4@Nr1h4!0.52!2.29!Nr1h4;;chr9:87625971..87625992,-!p2@Tbx18!0.52!2.29!Tbx18;;chr3:135354384..135354443,-!p1@Nfkb1!0.51!17.48!Nfkb1;;chr3:135354452..135354475,-!p5@Nfkb1!0.51!6.88!Nfkb1;;chr1:52176406..52176433,+!p2@Stat1!0.51!6.59!Stat1;;chr4:13712168..13712218,+!p4@Runx1t1!0.51!4.30!Runx1t1;;chr18:75527210..75527215,+!p4@Smad7!0.51!4.30!Smad7;;chr1:165243379..165243402,-!p3@Prrx1!0.51!3.72!Prrx1;;chr10:107769229..107769238,+!p3@Pawr!0.51!3.44!Pawr;;chr15:79178060..79178074,+!p2@Maff!0.51!3.15!Maff;;chr4:43575544..43575565,+!p2@Creb3!0.50!16.33!Creb3;;chrX:7339938..7339963,+!p1@Tfe3!0.50!14.04!Tfe3;;chr1:93698030..93698064,+!p1@Twist2!0.50!5.16!Twist2;;chr2:44972869..44972895,-!p12@Zeb2!0.50!4.87!Zeb2;;chr4:149943326..149943351,+!p4@Rere!0.50!4.87!Rere;;chr3:54559463..54559493,+!p3@Smad9!0.50!4.58!Smad9;;chr14:67853425..67853454,+!p1@Ebf2!0.50!3.44!Ebf2;;chr5:24107903..24107917,-!p6@Smarcd3!0.50!2.87!Smarcd3;;chr1:64167972..64168026,-!p1@Klf7!0.49!66.19!Klf7;;chr9:48644429..48644462,-!p3@Zbtb16!0.49!4.87!Zbtb16;;chr13:5860872..5860883,+!p3@Klf6!0.49!4.87!Klf6;;chr5:53981592..53981616,+!p3@Rbpj!0.49!4.58!Rbpj;;chr11:44430989..44431015,+!p4@Ebf1!0.49!4.30!Ebf1;;chr4:135840552..135840567,+!p4@Zfp46!0.49!3.72!Zfp46;;chr7:52960730..52960762,+!p3@Dbp!0.49!2.87!Dbp;;chr9:71743854..71743909,-!p1@Tcf12!0.48!21.20!Tcf12;;chr19:46380172..46380231,+!p2@Nfkb2!0.48!18.34!Nfkb2;;chr19:5637501..5637517,+!p4@Rela!0.48!10.60!Rela;;chr3:54559496..54559511,+!p1@Smad9!0.48!5.44!Smad9;;chr7:52963269..52963305,+!p4@Dbp!0.48!3.15!Dbp;;chr9:63869918..63869936,-!p9@Smad6!0.48!2.01!Smad6;;chr9:87626109..87626120,-!p3@Tbx18!0.48!2.01!Tbx18;;chr2:105003138..105003155,+!p13@Wt1!0.48!2.01!Wt1;;chr2:104966662..104966673,+!p4@Wt1!0.48!2.01!Wt1;;chr11:100800671..100800770,-!p1@Stat3!0.47!86.82!Stat3;;chr5:32438831..32438878,+!p1@Fosl2!0.47!26.93!Fosl2;;chr7:71083428..71083518,-!p3@Klf13!0.47!19.77!Klf13;;chr19:46379199..46379301,+!p1@Nfkb2!0.47!14.90!Nfkb2;;chr10:119913546..119913583,-!p3@Hmga2!0.47!4.87!Hmga2;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!0.47!4.30!Zbtb38;;chr1:165243591..165243625,-!p2@Prrx1!0.47!3.44!Prrx1;;chr7:144505957..144505972,-!p2@Ebf3!0.47!2.58!Ebf3;;chr11:72990702..72990737,+!p1@LOC100047518,p1@Tax1bp3!0.46!24.93!Tax1bp3;;chr14:18493386..18493464,+!p1@Thrb!0.46!9.46!Thrb;;chr17:45692676..45692695,+!p2@Nfkbie!0.46!4.58!Nfkbie;;chr4:97444563..97444572,+!p12@Nfia!0.46!4.58!Nfia;;chr13:53076396..53076452,-!p1@Nfil3!0.45!45.85!Nfil3;;chr5:104121453..104121479,+!p4@Aff1!0.45!11.17!Aff1;;chr5:24107993..24108036,-!p2@Smarcd3!0.45!5.44!Smarcd3;;chr6:90412608..90412630,+!p2@Klf15!0.45!4.58!Klf15;;chr5:65194810..65194819,+!p9@Klf3!0.45!4.30!Klf3;;chr10:67599450..67599456,-!p8@Arid5b!0.45!2.29!Arid5b;;chr18:5593564..5593584,+!p2@Zeb1!0.45!2.29!Zeb1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sc22d3!0.34!3.15!Tsc22d3;;chr18:69681483..69681514,+!p11@Tcf4!0.34!2.58!Tcf4;;chr19:23216132..23216157,+!p3@Klf9!0.34!2.29!Klf9;;chr19:23215430..23215441,+!p7@Klf9!0.34!1.72!Klf9;;chr3:30408384..30408431,-!p4@Mecom!0.34!1.72!Mecom;;chr2:72817045..72817123,-!p1@Sp3!0.33!62.75!Sp3;;chr4:124805092..124805135,-!p2@Zc3h12a!0.33!7.45!Zc3h12a;;chr6:14851440..14851497,+!p2@Foxp2!0.33!4.01!Foxp2;;chr10:119913792..119913820,-!p5@Hmga2!0.33!2.58!Hmga2;;chr14:100684036..100684068,-!p5@Klf12!0.33!2.58!Klf12;;chr19:5424878..5424890,-!p7@Drap1!0.33!2.29!Drap1;;chr13:59924319..59924331,-!p5@Zcchc6!0.33!2.01!Zcchc6;;chr11:44430877..44430899,+!p6@Ebf1!0.33!1.72!Ebf1;;chr11:96829969..96829987,-!p2@Sp2!0.33!1.15!Sp2;;chr3:66785201..66785226,-!p3@Shox2!0.33!1.15!Shox2;;chr14:63890491..63890516,-!p2@Gata4!0.33!1.15!Gata4;;chr14:63864337..63864381,-!p6@Gata4!0.33!1.15!Gata4;;chr16:43364012..43364030,+!p22@Zbtb20!0.33!1.15!Zbtb20;;chr17:26978409..26978442,-!p1@Nkx2-5!0.33!1.15!Nkx2-5;;chr18:5591866..5591900,+!p1@Zeb1!0.32!45.27!Zeb1;;chr19:10315179..10315241,-!p1@Gm98!0.32!19.20!Gm98;;chr11:98636531..98636559,-!p1@Nr1d1!0.32!10.03!Nr1d1;;chr2:181194069..181194144,-!p1@Zbtb46!0.32!10.03!Zbtb46;;chr6:97757008..97757061,+!p1@Mitf!0.32!7.45!Mitf;;chr11:102178937..102178956,-!p5@Ubtf!0.32!5.16!Ubtf;;chr14:52634536..52634572,-!p4@Zfp219!0.32!4.87!Zfp219;;chr10:127080141..127080160,+!p2@Stat6!0.32!4.30!Stat6;;chr19:5637475..5637486,+!p6@Rela!0.32!4.01!Rela;;chr10:26093876..26093894,-!p2@L3mbtl3!0.32!3.72!L3mbtl3;;chr15:98126545..98126588,-!p1@Zfp641!0.32!3.44!Zfp641;;chr1:133904862..133904893,+!p6@Elk4!0.32!3.15!Elk4;;chr2:91035197..91035237,-!p1@Nr1h3!0.32!3.15!Nr1h3;;chr15:61818965..61819046,+!p3@Myc!0.32!2.58!Myc;;chr13:31898496..31898519,+!p3@Foxc1!0.32!2.29!Foxc1;;chr3:54559550..54559570,+!p4@Smad9!0.32!2.01!Smad9;;chr6:37392095..37392154,-!p1@Creb3l2!0.31!57.88!Creb3l2;;chrX:70587953..70587968,+!p1@Zfp275!0.31!19.77!Zfp275;;chr16:17530781..17530882,-!p2@Thap7!0.31!10.32!Thap7;;chr13:15555079..15555136,+!p3@Gli3!0.31!5.16!Gli3;;chr17:44872561..44872615,-!p1@Runx2!0.31!3.44!Runx2;;chr13:5860740..5860747,+!p4@Klf6!0.31!3.15!Klf6;;chr10:107769719..107769745,+!p4@Pawr!0.31!2.01!Pawr;;chr15:40486883..40486903,+!p4@Zfpm2!0.31!1.72!Zfpm2;;chr18:5591389..5591406,+!p3@Zeb1!0.31!1.43!Zeb1;;chr1:165243638..165243649,-!p5@Prrx1!0.31!1.43!Prrx1;;chr10:127080031..127080090,+!p1@Stat6!0.30!39.26!Stat6;;chr10:80893549..80893590,-!p2@Nfic!0.30!20.06!Nfic;;chr16:4594740..4594759,+!p1@Glis2!0.30!20.06!Glis2;;chr6:133985993..133986029,+!p2@Etv6!0.30!11.17!Etv6;;chr5:140267476..140267493,+!p1@Mafk!0.30!9.46!Mafk;;chr6:65728988..65729056,+!p1@Prdm5!0.30!8.31!Prdm5;;chr7:37483021..37483078,+!p1@Tshz3!0.30!4.87!Tshz3;;chr7:97591412..97591431,+!p2@Crebzf!0.30!4.01!Crebzf;;chr2:91035254..91035271,-!p3@Nr1h3!0.30!1.43!Nr1h3;;chr18:14131126..14131211,-!p1@Zfp521!0.29!36.96!Zfp521;;chr9:32348943..32349001,-!p1@Fli1!0.29!13.75!Fli1;;chr10:92773818..92773906,-!p2@Elk3!0.29!7.74!Elk3;;chr2:115891454..115891471,-!p3@Meis2!0.29!4.58!Meis2;;chr15:50720601..50720630,-!p2@Trps1!0.29!3.44!Trps1;;chr11:98821937..98821987,+!p4@Rara!0.29!3.15!Rara;;chr16:50429979..50429997,-!p4@Bbx!0.29!2.01!Bbx;;chr15:81575472..81575481,+!p4@Zc3h7b!0.29!1.43!Zc3h7b;;chr4:99322820..99322845,+!p1@Foxd3!0.29!1.43!Foxd3;;chr6:128250380..128250442,-!p2@Tead4!0.29!1.43!Tead4;;chr4:149943647..149943707,+!p2@Rere!0.28!30.37!Rere;;chr2:44968737..44968758,-!p2@Zeb2!0.28!9.17!Zeb2;;chr9:96096665..96096699,+!p4@Tfdp2!0.28!5.16!Tfdp2;;chr1:133904901..133904934,+!p3@Elk4!0.28!4.30!Elk4;;chr6:133985709..133985735,+!p5@Etv6!0.28!4.01!Etv6;;chr4:97444616..97444631,+!p7@Nfia!0.28!4.01!Nfia;;chr2:165818178..165818187,+!p3@Ncoa3!0.28!2.87!Ncoa3;;chr4:149943593..149943605,+!p5@Rere!0.28!2.29!Rere;;chr13:31898637..31898653,+!p2@Foxc1!0.28!2.29!Foxc1;;chr17:84587077..84587097,-!p4@Zfp36l2!0.28!1.43!Zfp36l2;;chr15:75578637..75578669,-!p2@Mafa!0.28!1.15!Mafa;;chr5:107003699..107003717,-!p11@Zfp644!0.28!1.15!Zfp644;;chr10:67375223..67375240,-!p4@Zfp365!0.28!1.15!Zfp365;;chr10:127080230..127080241,+!p6@Stat6!0.28!1.15!Stat6;;chr8:107793737..107793757,+!p2@Hsf4!0.28!1.15!Hsf4;;chr2:32218712..32218782,+!p2@Ciz1!0.27!16.62!Ciz1;;chr16:92697560..92697592,-!p2@Runx1!0.27!10.03!Runx1;;chr19:5424822..5424845,-!p3@Drap1!0.27!6.02!Drap1;;chr11:80196900..80196917,+!p3@Zfp207!0.27!4.87!Zfp207;;chr14:17407970..17408015,-!p2@Rarb!0.27!3.72!Rarb;;chr17:37140628..37140631,+!p2@Zfp57!0.27!2.58!Zfp57;;chr15:102087737..102087801,-!p3@Rarg!0.27!2.01!Rarg;;chr10:22451765..22451795,-!p6@Tbpl1!0.27!1.72!Tbpl1;;chr19:23216166..23216191,+!p6@Klf9!0.27!1.43!Klf9;;chr6:134780337..134780355,+!p3@Crebl2!0.27!1.43!Crebl2;;chr6:72185396..72185413,-!p6@Atoh8!0.27!0.86!Atoh8;;chr6:16848460..16848471,-!p5@Tfec!0.27!0.86!Tfec;;chr7:144505906..144505913,-!p7@Ebf3!0.27!0.86!Ebf3;;chr6:15135215..15135244,+!p11@Foxp2!0.27!0.86!Foxp2;;chr6:14851377..14851396,+!p10@Foxp2!0.27!0.86!Foxp2;;chr12:86815639..86815664,+!p2@Fos!0.27!0.86!Fos;;chr13:112476407..1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@@ Line 44: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs12356
-|library_ids=CNhs12356
+|library_id_phase_based=2:CNhs12356
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11729
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11729
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Cardiac%2520Myocytes%252c%2520donor2.CNhs12356.11729-123E1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Cardiac%2520Myocytes%252c%2520donor2.CNhs12356.11729-123E1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Cardiac%2520Myocytes%252c%2520donor2.CNhs12356.11729-123E1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Cardiac%2520Myocytes%252c%2520donor2.CNhs12356.11729-123E1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Cardiac%2520Myocytes%252c%2520donor2.CNhs12356.11729-123E1.mm9.nobarcode.rdna.fa.gz
 |name=Mouse Cardiac Myocytes, donor2
 |namespace=FANTOM5
@@ Line 50: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12356,LSID913,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.0630850568417265,0,0,0,0,0,0.109018938166599,0,0,0,0,0.50284783134463,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0.196747187304978,0,0,0,0,0,0,0.494089399417784,-0.449001713326725,0,0,0,0,0,0.0384291637369302,0,0.0191592509279852,0.520199839477486,0.794654388599397,0.269419612201536,0,0,0,0,0,0,0,0,0,0.109421078997306,0,0.043415531433866,0.269419612201536,0,0,0,0,0,0.269419612201536,0.269419612201536,0.331656786275404,0,-0.117389802908326,-0.310650657339386,0.0386561445338959,-0.104012827772446,0,-0.0682667324946745,-0.0286602088560886,-0.0617333749910964,0,0,-0.0152567643183588,0,0.128197204302579,-0.0788315948399074,0,0,0,0,0.054710539498653,0,0.0481760989644019,0.0517663399847592,0.021611941155193,0,0,0.109421078997306,0.331656786275404,0
@@ Line 63: / Line 73: @@
 |rna_rin=
 |rna_sample_type=total RNA
-|rna_tube_id=123E1
+|rna_tube_id=1.23E+03
 |rna_weight_ug=10
 |sample_age=
@@ Line 87: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11729-123E1;search_select_hide=table117:11729-123E1
 }}

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FF:11729-123E1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:16, 4 June 2020

CNhs12356

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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