FF:11485-119D9: Difference between revisions

Latest revision as of 18:04, 4 June 2020

Name:	Mouse Aortic Smooth Muscle cells - differentiated, biol_rep2
Species:	Mouse (Mus musculus)
Library ID:	CNhs11056
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	NA
dev stage	NA
sex	NA
age	NA
cell type	NA
cell line	NA
company	Cell Applications
collaboration	NA
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	NA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.17

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005597

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11056		CAGE		DRX008804		DRR009676

Accession ID Mm9

Library id		BAM		CTSS
CNhs11056		DRZ001101		DRZ002486

Accession ID Mm10

Library id		BAM		CTSS
CNhs11056		DRZ012451		DRZ013836

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

CNhs11056

0	0
1	0
10	0
100	0
1000	0.0419
1001	0.00318
1002	0.356
1003	0.243
1004	0
1005	0
1006	-0.143
1007	-0.129
1008	0
1009	0.758
101	0.024
1010	0
1011	-0.0656
1012	0
1013	0.286
1014	-0.051
1015	0.0124
1016	0.218
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	-0.0704
1023	0
1024	-0.129
1025	0
1026	0
1027	-0.048
1028	0.818
1029	-0.135
103	0.0842
1030	0
1031	0.215
1032	0.306
1033	0
1034	0
1035	0
1036	-0.0446
1037	0
1038	0.213
1039	-0.0124
104	0
1040	0.776
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: CNhs11056

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.924
MA0003.1	MA0003.1	0.445
MA0004.1	MA0004.1	0.00353
MA0006.1	MA0006.1	0.706
MA0007.1	MA0007.1	0.397
MA0009.1	MA0009.1	0.137
MA0014.1	MA0014.1	0.0862
MA0017.1	MA0017.1	5.99092e-4
MA0018.2	MA0018.2	0.384
MA0019.1	MA0019.1	0.816
MA0024.1	MA0024.1	0.0101
MA0025.1	MA0025.1	0.522
MA0027.1	MA0027.1	0.297
MA0028.1	MA0028.1	9.35158e-4
MA0029.1	MA0029.1	0.485
MA0030.1	MA0030.1	0.321
MA0031.1	MA0031.1	0.348
MA0035.2	MA0035.2	2.00761e-5
MA0038.1	MA0038.1	0.484
MA0039.2	MA0039.2	0.295
MA0040.1	MA0040.1	0.426
MA0041.1	MA0041.1	0.845
MA0042.1	MA0042.1	0.445
MA0043.1	MA0043.1	0.499
MA0046.1	MA0046.1	2.88563e-8
MA0047.2	MA0047.2	0.00796
MA0048.1	MA0048.1	0.00194
MA0050.1	MA0050.1	6.09535e-5
MA0051.1	MA0051.1	0.00111
MA0052.1	MA0052.1	0.00164
MA0055.1	MA0055.1	0.00174
MA0057.1	MA0057.1	0.744
MA0058.1	MA0058.1	1.10511e-4
MA0059.1	MA0059.1	0.344
MA0060.1	MA0060.1	8.47853e-7
MA0061.1	MA0061.1	0.0845
MA0062.2	MA0062.2	0.00584
MA0065.2	MA0065.2	0.0398
MA0066.1	MA0066.1	0.836
MA0067.1	MA0067.1	0.696
MA0068.1	MA0068.1	0.0247
MA0069.1	MA0069.1	0.933
MA0070.1	MA0070.1	0.892
MA0071.1	MA0071.1	0.504
MA0072.1	MA0072.1	0.717
MA0073.1	MA0073.1	0.624
MA0074.1	MA0074.1	0.75
MA0076.1	MA0076.1	0.0106
MA0077.1	MA0077.1	0.188
MA0078.1	MA0078.1	0.828
MA0079.2	MA0079.2	0.0543
MA0080.2	MA0080.2	0.00232
MA0081.1	MA0081.1	0.736
MA0083.1	MA0083.1	0.00309
MA0084.1	MA0084.1	0.797
MA0087.1	MA0087.1	0.785
MA0088.1	MA0088.1	0.0325
MA0090.1	MA0090.1	0.00127
MA0091.1	MA0091.1	0.549
MA0092.1	MA0092.1	0.481
MA0093.1	MA0093.1	0.0031
MA0099.2	MA0099.2	1.04817e-5
MA0100.1	MA0100.1	0.425
MA0101.1	MA0101.1	0.011
MA0102.2	MA0102.2	0.593
MA0103.1	MA0103.1	1.37638e-7
MA0104.2	MA0104.2	0.778
MA0105.1	MA0105.1	0.976
MA0106.1	MA0106.1	1.96814e-7
MA0107.1	MA0107.1	0.0465
MA0108.2	MA0108.2	6.15564e-6
MA0111.1	MA0111.1	0.284
MA0112.2	MA0112.2	0.401
MA0113.1	MA0113.1	0.775
MA0114.1	MA0114.1	3.04246e-4
MA0115.1	MA0115.1	0.0869
MA0116.1	MA0116.1	0.836
MA0117.1	MA0117.1	0.579
MA0119.1	MA0119.1	0.287
MA0122.1	MA0122.1	0.681
MA0124.1	MA0124.1	0.883
MA0125.1	MA0125.1	0.196
MA0131.1	MA0131.1	0.626
MA0135.1	MA0135.1	0.289
MA0136.1	MA0136.1	0.0899
MA0137.2	MA0137.2	0.00964
MA0138.2	MA0138.2	0.00811
MA0139.1	MA0139.1	0.426
MA0140.1	MA0140.1	1.20103e-4
MA0141.1	MA0141.1	0.194
MA0142.1	MA0142.1	0.0222
MA0143.1	MA0143.1	0.727
MA0144.1	MA0144.1	0.037
MA0145.1	MA0145.1	0.144
MA0146.1	MA0146.1	0.00542
MA0147.1	MA0147.1	0.753
MA0148.1	MA0148.1	0.0327
MA0149.1	MA0149.1	0.906
MA0150.1	MA0150.1	0.00883
MA0152.1	MA0152.1	0.0309
MA0153.1	MA0153.1	4.00583e-6
MA0154.1	MA0154.1	0.858
MA0155.1	MA0155.1	0.673
MA0156.1	MA0156.1	0.706
MA0157.1	MA0157.1	0.206
MA0159.1	MA0159.1	0.366
MA0160.1	MA0160.1	0.0336
MA0162.1	MA0162.1	0.322
MA0163.1	MA0163.1	0.118
MA0164.1	MA0164.1	0.839
MA0258.1	MA0258.1	0.415
MA0259.1	MA0259.1	0.448

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: CNhs11056

Novel motif	Logo	P-value
1	1	0.868
10	10	0.308
100	100	0.446
101	101	0.191
102	102	0.262
103	103	0.73
104	104	0.882
105	105	0.911
106	106	0.747
107	107	0.735
108	108	0.761
109	109	0.0436
11	11	0.334
110	110	0.0549
111	111	0.182
112	112	0.505
113	113	0.102
114	114	0.17
115	115	0.986
116	116	0.309
117	117	0.19
118	118	0.985
119	119	0.521
12	12	0.419
120	120	0.626
121	121	0.431
122	122	0.757
123	123	0.342
124	124	0.573
125	125	0.778
126	126	0.495
127	127	0.367
128	128	0.227
129	129	0.703
13	13	0.108
130	130	0.826
131	131	0.195
132	132	0.674
133	133	0.0124
134	134	0.896
135	135	0.0816
136	136	0.0749
137	137	0.625
138	138	0.992
139	139	0.0793
14	14	0.867
140	140	0.0978
141	141	0.559
142	142	0.1
143	143	0.766
144	144	0.261
145	145	0.904
146	146	0.581
147	147	0.914
148	148	0.414
149	149	0.289
15	15	0.891
150	150	0.0572
151	151	0.69
152	152	0.0675
153	153	0.598
154	154	0.818
155	155	0.666
156	156	0.0305
157	157	0.591
158	158	0.0453
159	159	0.0295
160	160	0.186
161	161	0.47
162	162	0.666
163	163	0.999
164	164	0.0422
165	165	0.466
166	166	0.827
167	167	0.333
168	168	0.27
169	169	0.0203
17	17	0.85
18	18	0.716
19	19	0.286
2	2	0.907
20	20	0.24
21	21	0.536
22	22	0.11
23	23	0.997
24	24	0.594
25	25	0.361
26	26	0.106
27	27	0.275
28	28	0.988
29	29	0.283
3	3	0.297
30	30	0.231
31	31	0.467
32	32	0.278
33	33	0.906
34	34	0.324
35	35	0.0715
36	36	0.242
37	37	0.0452
38	38	0.911
39	39	0.258
4	4	0.189
40	40	0.0351
41	41	0.772
42	42	0.581
43	43	0.566
44	44	0.758
45	45	0.978
46	46	0.811
47	47	0.525
48	48	0.748
49	49	0.285
5	5	0.679
50	50	0.277
51	51	0.665
52	52	0.776
53	53	0.812
54	54	0.389
55	55	0.859
56	56	0.949
57	57	0.961
58	58	0.177
59	59	0.956
6	6	0.745
60	60	0.56
61	61	0.697
62	62	0.422
63	63	0.789
64	64	0.663
65	65	0.699
66	66	0.512
67	67	0.842
68	68	0.0464
69	69	0.0767
7	7	0.915
70	70	0.11
71	71	0.55
72	72	0.713
73	73	0.00858
74	74	0.845
75	75	0.131
76	76	0.111
77	77	0.779
78	78	0.128
79	79	0.421
8	8	0.222
80	80	0.00691
81	81	0.477
82	82	0.288
83	83	0.244
84	84	0.417
85	85	0.267
86	86	0.356
87	87	0.00342
88	88	0.772
89	89	0.222
9	9	0.818
90	90	0.293
91	91	0.375
92	92	0.72
93	93	0.298
94	94	0.249
95	95	0.0236
96	96	0.3
97	97	0.111
98	98	0.026
99	99	0.868

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: CNhs11056

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000104 mouse aortic smooth muscle cell 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)
0000192 (smooth muscle cell)
0000211 (electrically active cell)
0000255 (eukaryotic cell)
0000359 (vascular associated smooth muscle cell)
0002539 (aortic smooth muscle cell)

UBERON: Anatomy
0000468 (multi-cellular organism)
0001135 (smooth muscle tissue)
0000947 (aorta)
0001637 (artery)
0000483 (epithelium)
0000479 (tissue)
0000055 (vessel)
0004111 (anatomical conduit)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0003914 (epithelial tube)
0000025 (tube)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0000119 (cell layer)
0004573 (systemic artery)
0002385 (muscle tissue)
0003509 (arterial blood vessel)
0007500 (epithelial tube open at both ends)
0001981 (blood vessel)
0004237 (blood vessel smooth muscle)
0004695 (arterial system smooth muscle)
0002049 (vasculature)
0010317 (germ layer / neural crest derived structure)
0002111 (artery smooth muscle tissue)
0007798 (vascular system)
0001015 (musculature)
0004178 (aorta smooth muscle tissue)
0002204 (musculoskeletal system)
0004535 (cardiovascular system)
0004571 (systemic arterial system)
0010191 (aortic system)
0000383 (musculature of body)
0004572 (arterial system)
0004537 (blood vasculature)
0001009 (circulatory system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000104 (mouse aortic smooth muscle cell 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:0000514 (smooth muscle myoblast)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005597
+|accession_numbers=CAGE;DRX008804;DRR009676;DRZ001101;DRZ002486;DRZ012451;DRZ013836
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0001135,UBERON:0000947,UBERON:0001637,UBERON:0000483,UBERON:0000479,UBERON:0000055,UBERON:0004111,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0003914,UBERON:0000025,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0000119,UBERON:0004573,UBERON:0002385,UBERON:0003509,UBERON:0007500,UBERON:0001981,UBERON:0004237,UBERON:0004695,UBERON:0002049,UBERON:0010317,UBERON:0002111,UBERON:0007798,UBERON:0001015,UBERON:0004178,UBERON:0002204,UBERON:0004535,UBERON:0004571,UBERON:0010191,UBERON:0000383,UBERON:0004572,UBERON:0004537,UBERON:0001009
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0002371,CL:0000393,CL:0000183,CL:0000187,CL:0000192,CL:0000211,CL:0000255,CL:0000359,CL:0002539
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr11:5761979..5761992,+!p2@Aebp1!1.80!123.38!Aebp1;;chr11:5761889..5761969,+!p1@Aebp1!1.61!1564.75!Aebp1;;chr1:165243792..165243808,-!p1@Prrx1!1.58!124.19!Prrx1;;chr10:119913278..119913298,-!p2@Hmga2!1.50!67.72!Hmga2;;chr19:5447886..5447905,+!p1@Fosl1!1.44!26.26!Fosl1;;chr6:83661226..83661282,+!p1@Vax2!1.38!22.91!Vax2;;chr16:15887371..15887385,+!p1@Cebpd!1.27!583.53!Cebpd;;chr1:140739014..140739032,-!p1@Lhx9!1.21!19.26!Lhx9;;chr2:152758901..152758925,-!p1@Foxs1!1.19!64.07!Foxs1;;chr10:67599319..67599360,-!p2@Arid5b!1.18!153.18!Arid5b;;chr1:165243591..165243625,-!p2@Prrx1!1.18!21.80!Prrx1;;chr10:126727842..126727859,+!p1@Ddit3!1.16!381.89!Ddit3;;chr1:93698030..93698064,+!p1@Twist2!1.11!23.92!Twist2;;chr11:96147952..96147967,+!p1@Hoxb7!1.11!14.70!Hoxb7;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!1.08!20.68!Zbtb38;;chr1:165243653..165243664,-!p4@Prrx1!1.08!15.61!Prrx1;;chr11:98636531..98636559,-!p1@Nr1d1!1.06!60.12!Nr1d1;;chr10:67375146..67375208,-!p2@Zfp365!1.06!16.02!Zfp365;;chr1:165243379..165243402,-!p3@Prrx1!1.06!15.71!Prrx1;;chr1:165243272..165243283,-!p6@Prrx1!1.06!12.67!Prrx1;;chr19:5447692..5447711,+!p2@Fosl1!1.06!10.44!Fosl1;;chr10:119913546..119913583,-!p3@Hmga2!1.05!21.80!Hmga2;;chr12:34642510..34642530,+!p1@Twist1!1.02!30.62!Twist1;;chr13:72766250..72766273,+!p1@Irx2!1.02!14.90!Irx2;;chr10:5636374..5636421,-!p1@Esr1!1.01!11.56!Esr1;;chr9:96632719..96632745,-!p7@Zbtb38!1.01!9.23!Zbtb38;;chr3:32264565..32264613,-!p1@Zmat3!1.00!101.38!Zmat3;;chr5:120121169..120121171,+!p4@Tbx3!1.00!16.42!Tbx3;;chr10:67599375..67599386,-!p3@Arid5b!0.99!16.22!Arid5b;;chr10:67375223..67375240,-!p4@Zfp365!0.98!9.73!Zfp365;;chr7:52071956..52071978,-!p1@Atf5!0.97!273.82!Atf5;;chr9:96653072..96653154,-!p1@Zbtb38!0.97!23.01!Zbtb38;;chr12:50484072..50484092,+!p4@Foxg1!0.97!8.41!Foxg1;;chr10:107769168..107769215,+!p1@Pawr!0.96!85.16!Pawr;;chr11:96213434..96213452,+!p@chr11:96213434..96213452,+!0.96!10.95!Hoxb2;;chr14:22807083..22807104,-!p1@Zfp503!0.95!142.03!Zfp503;;chr10:119913310..119913366,-!p1@Hmga2!0.95!63.77!Hmga2;;chr14:22807216..22807231,-!p3@Zfp503!0.94!13.28!Zfp503;;chr12:34642682..34642753,+!p2@Twist1!0.93!20.78!Twist1;;chr11:5761871..5761882,+!p3@Aebp1!0.93!19.97!Aebp1;;chr19:55816546..55816556,+!p3@Tcf7l2!0.91!28.18!Tcf7l2;;chr4:13712228..13712267,+!p3@Runx1t1!0.90!12.37!Runx1t1;;chr19:59533221..59533271,+!p1@Emx2!0.90!8.62!Emx2;;chr11:96684043..96684069,-!p9@Nfe2l1!0.90!7.00!Nfe2l1;;chr10:119913792..119913820,-!p5@Hmga2!0.89!11.96!Hmga2;;chr19:10315179..10315241,-!p1@Gm98!0.87!70.96!Gm98;;chr4:124805061..124805087,-!p1@Zc3h12a!0.87!20.78!Zc3h12a;;chr10:67375368..67375433,-!p1@Zfp365!0.87!11.76!Zfp365;;chr3:32264530..32264544,-!p2@Zmat3!0.87!10.24!Zmat3;;chr17:37140628..37140631,+!p2@Zfp57!0.86!12.87!Zfp57;;chr2:74542918..74542971,+!p1@Hoxd8!0.86!9.73!Hoxd8;;chr10:107769229..107769238,+!p3@Pawr!0.86!8.92!Pawr;;chr2:152758938..152758954,-!p2@Foxs1!0.86!8.82!Foxs1;;chr14:22806778..22806795,-!p5@Zfp503!0.86!7.00!Zfp503;;chrX:7341077..7341091,+!p5@Tfe3!0.84!10.44!Tfe3;;chr11:96180045..96180059,+!p1@Hoxb4!0.84!8.62!Hoxb4;;chr7:89137163..89137200,-!p1@Bnc1!0.84!7.20!Bnc1;;chr11:96160426..96160443,+!p2@Hoxb6!0.84!5.98!Hoxb6;;chr1:122498955..122498968,+!p1@En1!0.84!5.88!En1;;chr15:81633165..81633188,+!p2@Tef!0.83!50.18!Tef;;chr7:20214704..20214800,-!p1@Relb!0.83!19.87!Relb;;chr17:84586544..84586592,-!p3@Zfp36l2!0.83!8.11!Zfp36l2;;chr11:96143666..96143725,+!p1@Hoxb8!0.82!6.59!Hoxb8;;chr10:5636354..5636373,-!p2@Esr1!0.80!5.27!Esr1;;chr15:40486566..40486600,+!p1@Zfpm2!0.79!32.85!Zfpm2;;chr6:72185232..72185272,-!p1@Atoh8!0.79!15.81!Atoh8;;chr8:87297280..87297326,-!p2@Nfix!0.79!12.77!Nfix;;chr2:167514456..167514473,+!p1@Cebpb!0.78!241.38!Cebpb;;chr11:96690797..96690813,-!p1@Nfe2l1!0.78!104.82!Nfe2l1;;chr16:43363190..43363242,+!p2@Zbtb20!0.78!16.42!Zbtb20;;chr10:13686815..13686846,+!p3@Hivep2!0.78!12.06!Hivep2;;chr5:32438831..32438878,+!p1@Fosl2!0.77!55.05!Fosl2;;chr10:5734525..5734569,-!p3@Esr1!0.77!8.52!Esr1;;chr13:72101178..72101203,-!p1@Irx1!0.77!7.91!Irx1;;chr15:79178029..79178044,+!p4@Maff!0.77!6.08!Maff;;chr10:119913266..119913277,-!p6@Hmga2!0.77!4.87!Hmga2;;chr19:46379199..46379301,+!p1@Nfkb2!0.76!29.80!Nfkb2;;chr6:72185210..72185228,-!p3@Atoh8!0.76!8.52!Atoh8;;chr9:96632690..96632703,-!p20@Zbtb38!0.76!4.76!Zbtb38;;chr3:99057677..99057730,+!p2@Tbx15!0.76!4.76!Tbx15;;chr18:14131126..14131211,-!p1@Zfp521!0.75!108.07!Zfp521;;chr14:19071466..19071550,-!p1@Nr1d2!0.75!35.08!Nr1d2;;chr17:34784073..34784118,+!p2@Atf6b!0.75!20.28!Atf6b;;chr18:11052606..11052633,+!p4@Gata6!0.75!12.57!Gata6;;chr15:79178060..79178074,+!p2@Maff!0.75!6.29!Maff;;chr19:59534008..59534046,+!p7@Emx2!0.75!4.66!Emx2;;chr18:11052485..11052508,+!p2@Gata6!0.74!13.69!Gata6;;chr10:67599432..67599444,-!p4@Arid5b!0.74!7.70!Arid5b;;chr10:119914001..119914078,-!p4@Hmga2!0.74!6.39!Hmga2;;chr4:55545051..55545110,-!p2@Klf4!0.74!5.78!Klf4;;chr1:165243638..165243649,-!p5@Prrx1!0.74!5.58!Prrx1;;chr5:65194853..65194866,+!p5@Klf3!0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hr11:23670750..23670789,-!p2@Rel!0.32!2.84!Rel;;chr15:25914217..25914232,+!p3@Zfp622!0.32!2.84!Zfp622;;chr13:31898637..31898653,+!p2@Foxc1!0.32!2.64!Foxc1;;chr18:83079981..83080037,+!p6@Zfp516!0.32!2.53!Zfp516;;chr15:81633139..81633152,+!p4@Tef!0.32!2.43!Tef;;chr11:18918434..18918489,-!p3@Meis1!0.32!2.23!Meis1;;chr15:100058302..100058309,+!p3@Gm1862,p5@Atf1!0.32!1.93!Atf1;;chr6:128250380..128250442,-!p2@Tead4!0.32!1.62!Tead4;;chr17:28487692..28487765,-!p1@Tead3!0.31!36.50!Tead3;;chr10:33670996..33671069,-!p1@Zufsp!0.31!35.89!Zufsp;;chr10:80893549..80893590,-!p2@Nfic!0.31!20.38!Nfic;;chr7:50835064..50835134,+!p1@Zfp719!0.31!13.89!Zfp719;;chr19:26681929..26681987,+!p4@Smarca2!0.31!9.83!Smarca2;;chr11:69579401..69579427,+!p2@Zbtb4!0.31!6.49!Zbtb4;;chr9:63605691..63605705,-!p3@Smad3!0.31!4.06!Smad3;;chr13:64253718..64253763,-!p2@Zfp367!0.31!4.06!Zfp367;;chr5:32438894..32438908,+!p2@Fosl2!0.31!3.14!Fosl2;;chr14:56443781..56443800,+!p3@Nfatc4!0.31!1.62!Nfatc4;;chr2:75542592..75542609,-!p2@Nfe2l2!0.30!30.31!Nfe2l2;;chr11:18918917..18918944,-!p1@Meis1!0.30!22.71!Meis1;;chr13:21545538..21545569,-!p2@Zfp187!0.30!7.60!Zfp187;;chr1:186556410..186556424,-!p1@Hlx!0.30!4.97!Hlx;;chr1:170361730..170361769,-!p7@Pbx1!0.30!3.35!Pbx1;;chr18:75979828..75979864,+!p2@Zbtb7c!0.30!3.35!Zbtb7c;;chr17:44873393..44873418,-!p4@Runx2!0.30!2.33!Runx2;;chr6:52114821..52114828,-!p1@Hoxa2!0.30!1.93!Hoxa2;;chr13:29045131..29045159,-!p3@Sox4!0.30!1.82!Sox4;;chr12:32635051..32635062,-!p2@Hbp1!0.30!1.82!Hbp1;;chr17:46692970..46692977,-!p5@Srf!0.30!1.62!Srf;;chr17:71200967..71200983,-!p8@Tgif1!0.30!1.52!Tgif1;;chr16:55838743..55838754,-!p6@Nfkbiz!0.30!1.01!Nfkbiz;;chr3:17954233..17954249,+!p1@Bhlhe22!0.30!1.01!Bhlhe22;;chr3:99057256..99057268,+!p3@Tbx15!0.30!1.01!Tbx15;;chr1:64167972..64168026,-!p1@Klf7!0.29!40.96!Klf7;;chr12:36219645..36219730,-!p1@Ahr!0.29!16.93!Ahr;;chr13:67601387..67601448,-!p2@Zfp58!0.29!13.89!Zfp58;;chr9:71743854..71743909,-!p1@Tcf12!0.29!13.28!Tcf12;;chr17:28369739..28369774,+!p2@Ppard!0.29!4.76!Ppard;;chr17:71200558..71200572,-!p4@Tgif1!0.29!3.65!Tgif1;;chr10:80812991..80813004,-!p3@Hmg20b!0.29!2.94!Hmg20b;;chr15:100058358..100058374,+!p2@Gm1862,p4@Atf1!0.29!2.43!Atf1;;chr11:44431710..44431725,+!p7@Ebf1!0.29!2.03!Ebf1;;chr5:107003725..107003746,-!p5@Zfp644!0.29!1.52!Zfp644;;chr7:52960730..52960762,+!p3@Dbp!0.29!1.42!Dbp;;chr6:145813964..145813994,-!p3@Bhlhe41!0.29!1.42!Bhlhe41;;chr11:74644437..74644507,+!p1@Mnt!0.28!45.11!Mnt;;chr11:87881569..87881633,+!p2@Vezf1!0.28!12.98!Vezf1;;chr6:133985993..133986029,+!p2@Etv6!0.28!10.54!Etv6;;chr14:52640373..52640412,-!p1@Zfp219!0.28!9.43!Zfp219;;chr13:67209482..67209545,-!p1@Zfp708!0.28!7.30!Zfp708;;chr6:39068210..39068251,-!p1@Parp12!0.28!7.30!Parp12;;chr11:44431687..44431706,+!p2@Ebf1!0.28!7.30!Ebf1;;chr2:44965856..44965896,-!p5@Zeb2!0.28!5.98!Zeb2;;chr15:35225845..35225867,+!p1@Osr2!0.28!3.55!Osr2;;chr5:107125778..107125803,-!p4@Zfp644!0.28!3.04!Zfp644;;chr16:23988686..23988693,-!p2@Bcl6!0.28!2.74!Bcl6;;chr4:82151583..82151594,-!p6@Nfib!0.28!2.64!Nfib;;chr9:106355684..106355744,+!p5@Pcbp4!0.28!1.82!Pcbp4;;chr13:29045274..29045293,-!p6@Sox4!0.28!1.32!Sox4;;chr9:87626109..87626120,-!p3@Tbx18!0.28!0.91!Tbx18;;chr17:71201050..71201078,-!p9@Tgif1!0.28!0.91!Tgif1;;chr19:46380399..46380417,+!p4@Nfkb2!0.28!0.91!Nfkb2;;chr1:122499088..122499099,+!p2@En1!0.28!0.91!En1;;chr2:74565247..74565258,+!p3@Hoxd4!0.28!0.91!Hoxd4;;chr4:149611832..149611846,+!p3@LOC100045967,p3@LOC100503183,p4@Eno1,p4@Gm5506!0.28!0.91!Eno1;;chr11:96160098..96160112,+!p8@Hoxb6!0.28!0.91!Hoxb6;;chr10:119913301..119913302,-!p11@Hmga2!0.28!0.91!Hmga2;;chr10:119913766..119913779,-!p10@Hmga2!0.28!0.91!Hmga2;;chr11:120624106..120624107,+!p13@Hmga1-rs1,p14@Hmga1!0.28!0.91!Hmga1;;chr3:94758041..94758142,+!p1@Rfx5!0.27!14.90!Rfx5;;chr14:19071567..19071612,-!p2@Nr1d2!0.27!5.78!Nr1d2;;chr17:28487603..28487626,-!p2@Tead3!0.27!2.74!Tead3;;chr9:63869729..63869749,-!p4@Smad6!0.27!2.53!Smad6;;chr5:139060979..139060986,-!p4@Zfp68!0.27!2.43!Zfp68;;chr19:10315252..10315266,-!p2@Gm98!0.27!1.82!Gm98;;chr9:56266504..56266516,+!p5@Hmg20a!0.27!1.12!Hmg20a;;chr11:112643496..112643562,+!p1@Sox9!0.26!61.64!Sox9;;chr11:69393868..69393884,+!p2@Trp53!0.26!21.90!Trp53;;chr18:76401314..76401395,+!p2@Smad2!0.26!11.05!Smad2;;chr19:26679615..26679646,+!p3@Smarca2!0.26!10.64!Smarca2;;chr11:99092233..99092273,-!p2@Smarce1!0.26!7.20!Smarce1;;chrX:53599567..53599592,+!p1@Zfp449!0.26!6.08!Zfp449;;chr15:38230415..38230426,-!p2@Klf10!0.26!5.07!Klf10;;chrX:108810678..108810736,-!p1@Hdx!0.26!4.87!Hdx;;chr3:135354452..135354475,-!p5@Nfkb1!0.26!3.45!Nfkb1;;chr6:98978868..98978918,-!p6@Foxp1!0.26!2.03!Foxp1;;chr10:80600725..80600737,+!p9@Zbtb7a!0.26!1.72!Zbtb7a;;chr13:29044875..29044928,-!p4@Sox4!0.26!1.42!Sox4;;chr13:29045252..29045271,-!p5@Sox4!0.26!1.22!Sox4;;chr6:15135639..15135655,+!p9@Foxp2!0.26!1.22!Foxp2;;chr3:34548946..34548972,+!p2@Sox2!0.26!1.01!Sox2;;chr2:71367142..71367167,+!p2@Dlx1!0.26!0.81!Dlx1;;chr4:82145196..82145229,-!p7@Nfib!0.26!0.81!Nfib;;ch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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000104
 |is_obsolete=
+|library_id=CNhs11056
+|library_id_phase_based=2:CNhs11056
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11485
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11485
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Aortic%2520Smooth%2520Muscle%2520cells%2520-%2520differentiated%252c%2520biol_rep2.CNhs11056.11485-119D9.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Aortic%2520Smooth%2520Muscle%2520cells%2520-%2520differentiated%252c%2520biol_rep2.CNhs11056.11485-119D9.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Aortic%2520Smooth%2520Muscle%2520cells%2520-%2520differentiated%252c%2520biol_rep2.CNhs11056.11485-119D9.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Aortic%2520Smooth%2520Muscle%2520cells%2520-%2520differentiated%252c%2520biol_rep2.CNhs11056.11485-119D9.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Aortic%2520Smooth%2520Muscle%2520cells%2520-%2520differentiated%252c%2520biol_rep2.CNhs11056.11485-119D9.mm9.nobarcode.rdna.fa.gz
 |name=Mouse Aortic Smooth Muscle cells - differentiated, biol_rep2
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11056,LSID722,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.0968276084559585,0,0,0,0,0,0.0322779971071257,0,0,0,0,-0.0843392403965415,0,0,0,0,0.0209679878844212,0,-0.0138133401986524,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.212750515942851,0,0,0,0,0,-0.0284458429830929,-0.0234488336026682,0.0381924208538742,-0.984211366477826,0.196429682586742,0,0,0,0,0,0,0,0,0,0,0,0.0801767602395476,-0.0660055475634404,0,0,0,0,0,0,0.258891007268029,0.0489959268851488,0.14783323689664,0,0.0258769217711209,-0.310650657339386,-0.158091042771083,-0.0187482333794795,0.0419359757688424,0.0419359757688424,-0.0289345509025095,-0.0621358937014851,0,0,-0.0517505412582112,-0.0676481690712002,0.172434040867632,-0.036895619071065,0,0,0,0,0,0,0.0364507985440577,0.024875234668857,0.0628283018049008,0,0,0.0801767602395476,0,0
@@ Line 83: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11485-119D9;search_select_hide=table117:11485-119D9
 }}

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FF:11485-119D9: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:04, 4 June 2020

CNhs11056

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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