FF:11804-124D4: Difference between revisions

Latest revision as of 18:21, 4 June 2020

Name:	neurospheres - sympathetic neuron derived, biol_rep1
Species:	Mouse (Mus musculus)
Library ID:	CNhs13081
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	ANATOMICAL SYSTEM
dev stage	NA
sex	NA
age	NA
cell type	NA
cell line	NA
company	NA
collaboration	Hideki Enomoto (RIKEN CDB)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	sym1
catalog number	NA
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005758

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13081		CAGE		DRX008868		DRR009740

Accession ID Mm9

Library id		BAM		CTSS
CNhs13081		DRZ001165		DRZ002550

Accession ID Mm10

Library id		BAM		CTSS
CNhs13081		DRZ012515		DRZ013900

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

CNhs13081

0	0
1	0
10	0
100	0
1000	0
1001	-0.0262
1002	-0.0708
1003	-0.0671
1004	0
1005	-0.0389
1006	-0.143
1007	-0.00185
1008	0
1009	0.2
101	-0.0182
1010	0
1011	-0.108
1012	0
1013	0.0497
1014	-0.0851
1015	0.248
1016	0.271
1017	0
1018	0
1019	0
102	0
1020	0.258
1021	0.0989
1022	-0.196
1023	0
1024	-0.14
1025	-0.0611
1026	0
1027	0.536
1028	0
1029	0.0747
103	-0.0317
1030	0
1031	0.449
1032	0.074
1033	0.148
1034	0
1035	0
1036	0.162
1037	0
1038	0.0602
1039	-0.181
104	0
1040	0.137
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: CNhs13081

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	7.62982e-6
MA0003.1	MA0003.1	0.00575
MA0004.1	MA0004.1	0.616
MA0006.1	MA0006.1	0.376
MA0007.1	MA0007.1	0.55
MA0009.1	MA0009.1	0.0988
MA0014.1	MA0014.1	0.916
MA0017.1	MA0017.1	9.75597e-5
MA0018.2	MA0018.2	0.00783
MA0019.1	MA0019.1	0.543
MA0024.1	MA0024.1	4.75145e-4
MA0025.1	MA0025.1	0.328
MA0027.1	MA0027.1	0.346
MA0028.1	MA0028.1	0.617
MA0029.1	MA0029.1	0.199
MA0030.1	MA0030.1	0.664
MA0031.1	MA0031.1	0.199
MA0035.2	MA0035.2	6.07397e-4
MA0038.1	MA0038.1	0.0825
MA0039.2	MA0039.2	0.118
MA0040.1	MA0040.1	0.514
MA0041.1	MA0041.1	0.415
MA0042.1	MA0042.1	0.83
MA0043.1	MA0043.1	0.204
MA0046.1	MA0046.1	1.26522e-12
MA0047.2	MA0047.2	0.00365
MA0048.1	MA0048.1	0.773
MA0050.1	MA0050.1	0.00783
MA0051.1	MA0051.1	0.00694
MA0052.1	MA0052.1	1.76075e-4
MA0055.1	MA0055.1	0.982
MA0057.1	MA0057.1	0.135
MA0058.1	MA0058.1	0.27
MA0059.1	MA0059.1	0.565
MA0060.1	MA0060.1	2.03227e-6
MA0061.1	MA0061.1	0.0757
MA0062.2	MA0062.2	0.842
MA0065.2	MA0065.2	5.04823e-6
MA0066.1	MA0066.1	0.22
MA0067.1	MA0067.1	0.783
MA0068.1	MA0068.1	0.166
MA0069.1	MA0069.1	0.651
MA0070.1	MA0070.1	0.0436
MA0071.1	MA0071.1	0.226
MA0072.1	MA0072.1	0.168
MA0073.1	MA0073.1	0.959
MA0074.1	MA0074.1	0.684
MA0076.1	MA0076.1	0.367
MA0077.1	MA0077.1	0.0335
MA0078.1	MA0078.1	0.202
MA0079.2	MA0079.2	0.582
MA0080.2	MA0080.2	7.48407e-9
MA0081.1	MA0081.1	0.641
MA0083.1	MA0083.1	0.636
MA0084.1	MA0084.1	0.704
MA0087.1	MA0087.1	0.743
MA0088.1	MA0088.1	0.73
MA0090.1	MA0090.1	0.479
MA0091.1	MA0091.1	0.33
MA0092.1	MA0092.1	0.993
MA0093.1	MA0093.1	0.532
MA0099.2	MA0099.2	0.406
MA0100.1	MA0100.1	0.451
MA0101.1	MA0101.1	0.321
MA0102.2	MA0102.2	0.724
MA0103.1	MA0103.1	4.26651e-4
MA0104.2	MA0104.2	0.973
MA0105.1	MA0105.1	3.93693e-4
MA0106.1	MA0106.1	0.0617
MA0107.1	MA0107.1	0.158
MA0108.2	MA0108.2	0.0142
MA0111.1	MA0111.1	0.928
MA0112.2	MA0112.2	1.3078e-5
MA0113.1	MA0113.1	0.19
MA0114.1	MA0114.1	6.60723e-5
MA0115.1	MA0115.1	0.0103
MA0116.1	MA0116.1	0.00121
MA0117.1	MA0117.1	0.805
MA0119.1	MA0119.1	0.13
MA0122.1	MA0122.1	0.539
MA0124.1	MA0124.1	0.616
MA0125.1	MA0125.1	0.152
MA0131.1	MA0131.1	0.599
MA0135.1	MA0135.1	0.0695
MA0136.1	MA0136.1	1.58515e-5
MA0137.2	MA0137.2	0.717
MA0138.2	MA0138.2	0.0491
MA0139.1	MA0139.1	0.058
MA0140.1	MA0140.1	2.43632e-5
MA0141.1	MA0141.1	0.00413
MA0142.1	MA0142.1	0.199
MA0143.1	MA0143.1	0.157
MA0144.1	MA0144.1	0.299
MA0145.1	MA0145.1	0.0281
MA0146.1	MA0146.1	0.461
MA0147.1	MA0147.1	0.642
MA0148.1	MA0148.1	0.0142
MA0149.1	MA0149.1	0.506
MA0150.1	MA0150.1	0.18
MA0152.1	MA0152.1	0.534
MA0153.1	MA0153.1	8.10987e-12
MA0154.1	MA0154.1	0.00556
MA0155.1	MA0155.1	0.437
MA0156.1	MA0156.1	0.00472
MA0157.1	MA0157.1	0.0868
MA0159.1	MA0159.1	0.307
MA0160.1	MA0160.1	0.0834
MA0162.1	MA0162.1	0.298
MA0163.1	MA0163.1	0.0083
MA0164.1	MA0164.1	0.782
MA0258.1	MA0258.1	0.01
MA0259.1	MA0259.1	0.823

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: CNhs13081

Novel motif	Logo	P-value
1	1	0.117
10	10	0.114
100	100	0.986
101	101	0.853
102	102	0.956
103	103	0.137
104	104	0.977
105	105	0.0687
106	106	0.0247
107	107	0.0485
108	108	0.973
109	109	0.0515
11	11	0.142
110	110	0.212
111	111	0.00828
112	112	0.0362
113	113	0.372
114	114	0.0256
115	115	0.338
116	116	0.537
117	117	0.627
118	118	0.464
119	119	0.046
12	12	0.484
120	120	0.951
121	121	0.241
122	122	0.371
123	123	0.451
124	124	0.722
125	125	0.68
126	126	0.373
127	127	0.189
128	128	0.0274
129	129	0.167
13	13	0.0525
130	130	0.498
131	131	0.795
132	132	0.351
133	133	0.979
134	134	0.945
135	135	0.773
136	136	0.954
137	137	0.419
138	138	0.703
139	139	0.0786
14	14	0.371
140	140	0.0134
141	141	0.108
142	142	0.893
143	143	0.996
144	144	0.999
145	145	0.511
146	146	0.606
147	147	0.82
148	148	0.645
149	149	0.19
15	15	0.106
150	150	0.381
151	151	0.297
152	152	0.18
153	153	0.986
154	154	0.922
155	155	0.885
156	156	6.70479e-8
157	157	0.351
158	158	0.522
159	159	0.11
160	160	0.0967
161	161	0.293
162	162	0.627
163	163	0.817
164	164	0.172
165	165	0.254
166	166	0.826
167	167	0.483
168	168	0.812
169	169	0.0187
17	17	0.0984
18	18	0.972
19	19	0.258
2	2	0.527
20	20	0.795
21	21	0.28
22	22	0.278
23	23	0.234
24	24	0.22
25	25	0.398
26	26	0.0686
27	27	0.291
28	28	0.355
29	29	0.776
3	3	0.134
30	30	0.529
31	31	0.817
32	32	0.0804
33	33	0.423
34	34	0.293
35	35	0.968
36	36	0.611
37	37	0.0927
38	38	0.212
39	39	0.399
4	4	0.667
40	40	0.515
41	41	0.669
42	42	0.33
43	43	0.224
44	44	0.165
45	45	0.299
46	46	0.244
47	47	0.237
48	48	0.138
49	49	0.131
5	5	0.21
50	50	0.629
51	51	0.518
52	52	0.285
53	53	0.309
54	54	0.584
55	55	0.97
56	56	0.66
57	57	0.826
58	58	0.0794
59	59	0.0608
6	6	0.68
60	60	0.0803
61	61	0.438
62	62	0.0408
63	63	0.112
64	64	0.457
65	65	0.149
66	66	0.538
67	67	0.916
68	68	0.525
69	69	0.998
7	7	0.0787
70	70	0.00414
71	71	0.25
72	72	0.284
73	73	0.35
74	74	0.967
75	75	0.227
76	76	0.786
77	77	0.226
78	78	0.108
79	79	0.349
8	8	0.14
80	80	0.546
81	81	0.545
82	82	0.026
83	83	0.241
84	84	0.472
85	85	0.129
86	86	0.424
87	87	0.44
88	88	0.865
89	89	0.013
9	9	0.481
90	90	0.942
91	91	0.354
92	92	0.166
93	93	0.336
94	94	0.519
95	95	0.217
96	96	0.327
97	97	0.465
98	98	0.11
99	99	0.311

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: CNhs13081

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011144 mouse neurospheres - sympathetic neuron derived sample

part_of relathionship
UBERON:0000013 sympathetic nervous system

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)
0000540 (neuron)
0000003 (native cell)
0000548 (animal cell)
0002371 (somatic cell)
0002319 (neural cell)
0000393 (electrically responsive cell)
0000211 (electrically active cell)
0000404 (electrically signaling cell)
0000255 (eukaryotic cell)
0000107 (autonomic neuron)

UBERON: Anatomy
0000468 (multi-cellular organism)
0000013 (sympathetic nervous system)
0004121 (ectoderm-derived structure)
0011216 (organ system subdivision)
0002410 (autonomic nervous system)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0000010 (peripheral nervous system)
0001016 (nervous system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000350 (experimentally modified sample)
0011144 (mouse neurospheres - sympathetic neuron derived 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:0000133 (neurectodermal cell)
CL:0000031 (neuroblast)
CL:0000221 (ectodermal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005758
+|accession_numbers=CAGE;DRX008868;DRR009740;DRZ001165;DRZ002550;DRZ012515;DRZ013900
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000013,UBERON:0004121,UBERON:0011216,UBERON:0002410,UBERON:0000061,UBERON:0000465,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0010317,UBERON:0000010,UBERON:0001016
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000540,CL:0000003,CL:0000548,CL:0002371,CL:0002319,CL:0000393,CL:0000211,CL:0000404,CL:0000255,CL:0000107
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr8:59799772..59799789,+!p1@Hand2!2.24!471.20!Hand2;;chr10:86956396..86956411,-!p1@Ascl1!2.17!223.86!Ascl1;;chr5:67490284..67490302,-!p1@Phox2b!2.15!139.66!Phox2b;;chr15:78994907..78994926,-!p1@Sox10!1.90!193.50!Sox10;;chr2:74583776..74583815,+!p3@Hoxd3!1.83!66.39!Hoxd3;;chr11:96164821..96164865,+!p1@Hoxb5!1.82!64.77!Hoxb5;;chr2:71384802..71384815,-!p1@Dlx2!1.75!67.20!Dlx2;;chr4:99322820..99322845,+!p1@Foxd3!1.74!67.20!Foxd3;;chr2:146047829..146047847,+!p1@Insm1!1.71!87.84!Insm1;;chr12:39510206..39510249,+!p3@Etv1!1.63!41.70!Etv1;;chr5:67490474..67490494,-!p2@Phox2b!1.58!37.24!Phox2b;;chr2:71367871..71367898,+!p1@Dlx1!1.54!33.60!Dlx1;;chr14:17407549..17407575,-!p3@Rarb!1.52!48.17!Rarb;;chr5:67490391..67490404,-!p3@Phox2b!1.52!31.98!Phox2b;;chr5:120120667..120120685,+!p3@Tbx3!1.44!50.60!Tbx3;;chr5:138199361..138199441,+!p2@Tsc22d4!1.41!45.34!Tsc22d4;;chr15:102865131..102865151,+!p2@Hoxc4!1.41!27.93!Hoxc4;;chr14:17407878..17407926,-!p1@Rarb!1.37!49.39!Rarb;;chr15:102865088..102865107,+!p1@Hoxc4!1.35!28.34!Hoxc4;;chr5:120121169..120121171,+!p4@Tbx3!1.33!36.03!Tbx3;;chr7:108966820..108966835,+!p1@Phox2a!1.32!19.84!Phox2a;;chr6:52154414..52154462,-!p1@Hoxa5!1.31!26.31!Hoxa5;;chr2:74565306..74565327,+!p2@Hoxd4!1.31!19.43!Hoxd4;;chr11:85646303..85646329,+!p1@Tbx2!1.28!118.20!Tbx2;;chr11:85646263..85646278,+!p2@Tbx2!1.27!44.53!Tbx2;;chr12:39510090..39510114,+!p6@Etv1!1.26!17.41!Etv1;;chr5:67490346..67490357,-!p4@Phox2b!1.26!17.00!Phox2b;;chr12:12948633..12948651,-!p1@Mycn!1.23!149.38!Mycn;;chr12:39510290..39510309,+!p5@Etv1!1.22!15.79!Etv1;;chr2:71384458..71384526,-!p2@Dlx2!1.22!15.79!Dlx2;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!1.21!25.91!Hoxb2;;chr2:71367142..71367167,+!p2@Dlx1!1.20!14.98!Dlx1;;chr3:34548909..34548927,+!p1@Sox2!1.19!24.29!Sox2;;chr13:44936126..44936164,+!p6@Jarid2!1.19!16.60!Jarid2;;chr7:38557887..38557910,-!p5@Zfp536!1.18!14.17!Zfp536;;chr6:52154386..52154407,-!p2@Hoxa5!1.14!16.19!Hoxa5;;chrX:58146612..58146615,-!p1@Sox3!1.14!12.95!Sox3;;chr18:69752912..69752928,+!p9@Tcf4!1.12!18.22!Tcf4;;chr3:34548946..34548972,+!p2@Sox2!1.11!13.36!Sox2;;chr5:67490333..67490342,-!p5@Phox2b!1.11!11.74!Phox2b;;chr12:39507680..39507715,+!p2@Etv1!1.09!22.26!Etv1;;chr10:119913278..119913298,-!p2@Hmga2!1.08!25.10!Hmga2;;chr1:179374784..179374800,+!p2@Zfp238!1.07!12.55!Zfp238;;chr2:71384401..71384424,-!p3@Dlx2!1.06!10.53!Dlx2;;chr11:85646341..85646352,+!p3@Tbx2!1.05!20.24!Tbx2;;chr5:67490412..67490421,-!p6@Phox2b!1.05!10.12!Phox2b;;chr9:71743854..71743909,-!p1@Tcf12!1.04!80.56!Tcf12;;chr2:71384425..71384456,-!p4@Dlx2!1.03!9.72!Dlx2;;chr3:5218629..5218684,+!p1@Zfhx4!1.02!31.17!Zfhx4;;chr12:28027561..28027591,-!p1@Sox11!1.01!61.53!Sox11;;chr11:96180069..96180089,+!p3@Hoxb4!1.01!9.31!Hoxb4;;chr11:96164905..96164919,+!p2@Hoxb5!1.00!8.91!Hoxb5;;chr11:85646469..85646488,+!p5@Tbx2!0.99!13.36!Tbx2;;chr11:96213434..96213452,+!p@chr11:96213434..96213452,+!0.99!11.74!Hoxb2;;chr17:25707623..25707639,-!p1@Sox8!0.98!37.24!Sox8;;chr13:40829137..40829205,-!p1@Tfap2a!0.98!9.72!Tfap2a;;chr12:39510042..39510069,+!p8@Etv1!0.98!8.50!Etv1;;chr14:17407857..17407875,-!p4@Rarb!0.98!8.50!Rarb;;chr15:102865048..102865073,+!p3@Hoxc4!0.97!10.53!Hoxc4;;chr11:96180045..96180059,+!p1@Hoxb4!0.94!10.93!Hoxb4;;chr12:30213247..30213333,+!p1@Myt1l!0.94!7.69!Myt1l;;chr18:84255841..84255883,-!p1@Tshz1!0.92!53.44!Tshz1;;chr7:38558574..38558611,-!p2@Zfp536!0.92!9.31!Zfp536;;chr6:83020355..83020371,-!p1@Tlx2!0.92!7.29!Tlx2;;chr5:67490447..67490458,-!p7@Phox2b!0.92!7.29!Phox2b;;chr3:95032091..95032183,-!p1@Mllt11!0.91!63.96!Mllt11;;chr8:111227641..111227672,+!p@chr8:111227641..111227672,+!0.90!19.03!Zfhx3;;chr11:96143666..96143725,+!p1@Hoxb8!0.90!8.10!Hoxb8;;chr11:96160426..96160443,+!p2@Hoxb6!0.90!6.88!Hoxb6;;chr9:106356211..106356242,+!p1@Pcbp4!0.89!138.45!Pcbp4;;chr4:22415443..22415506,-!p1@Pou3f2!0.87!6.48!Pou3f2;;chr11:85646427..85646451,+!p4@Tbx2!0.85!10.93!Tbx2;;chr5:120121262..120121282,+!p6@Tbx3!0.85!6.88!Tbx3;;chr11:96160360..96160397,+!p3@Hoxb6!0.85!6.07!Hoxb6;;chr14:17407970..17408015,-!p2@Rarb!0.84!16.60!Rarb;;chr3:32264530..32264544,-!p2@Zmat3!0.83!9.31!Zmat3;;chr4:150503457..150503498,-!p3@Camta1!0.83!6.48!Camta1;;chr7:38554763..38554780,-!p1@Zfp536!0.82!10.53!Zfp536;;chr2:74583741..74583750,+!p10@Hoxd3!0.82!5.67!Hoxd3;;chr11:96213183..96213188,+!p@chr11:96213183..96213188,+!0.82!5.67!Hoxb2;;chr18:3281034..3281104,-!p1@Crem!0.81!41.70!Crem;;chr6:52134126..52134150,-!p3@Hoxa3!0.80!5.26!Hoxa3;;chr14:34791937..34791977,-!p1@Zfp488!0.80!5.26!Zfp488;;chr9:106356243..106356264,+!p2@Pcbp4!0.78!23.48!Pcbp4;;chr11:96213264..96213282,+!p@chr11:96213264..96213282,+!0.78!6.48!Hoxb2;;chr1:38684260..38684312,-!p2@Aff3!0.77!37.24!Aff3;;chr14:52634234..52634281,-!p3@Zfp219!0.77!14.57!Zfp219;;chr9:106356278..106356292,+!p3@Pcbp4!0.77!8.91!Pcbp4;;chr10:76424613..76424689,-!p1@Pcbp3!0.76!111.73!Pcbp3;;chr12:39507404..39507441,+!p4@Etv1!0.76!6.88!Etv1;;chr18:69752638..69752665,+!p19@Tcf4!0.76!5.26!Tcf4;;chr6:53523358.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Zfp395!0.17!2.43!Zfp395;;chr18:55150248..55150308,-!p6@Zfp608!0.17!2.43!Zfp608;;chr17:28487603..28487626,-!p2@Tead3!0.17!2.02!Tead3;;chr2:153067079..153067090,-!p2@Plagl2!0.17!2.02!Plagl2;;chr11:18918982..18918993,-!p5@Meis1!0.17!2.02!Meis1;;chr18:35721821..35721828,+!p4@Matr3!0.17!1.62!Matr3;;chr5:147760297..147760304,+!p4@Gtf3a!0.17!1.62!Gtf3a;;chr5:138187411..138187422,+!p8@Tsc22d4!0.17!1.21!Tsc22d4;;chr10:67599361..67599372,-!p5@Arid5b!0.17!1.21!Arid5b;;chr11:99092280..99092302,-!p3@Smarce1!0.17!1.21!Smarce1;;chr3:103772552..103772584,+!p2@Phtf1!0.17!1.21!Phtf1;;chr14:98568532..98568561,-!p4@Dach1!0.17!1.21!Dach1;;chr17:15636925..15636940,+!p2@Tbp!0.17!1.21!Tbp;;chr2:34227659..34227674,-!p3@Pbx3!0.17!1.21!Pbx3;;chr6:108610474..108610491,+!p5@Bhlhe40!0.17!0.81!Bhlhe40;;chr11:98614826..98614845,+!p9@Thra!0.17!0.81!Thra;;chr7:25292033..25292043,+!p9@Zfp428!0.17!0.81!Zfp428;;chr7:135056024..135056042,+!p1@Myst1!0.16!37.24!Myst1;;chr7:31741846..31741930,-!p1@LOC100504922,p1@Usf2!0.16!32.79!Usf2;;chr13:83663902..83663927,+!p1@Mef2c!0.16!31.17!Mef2c;;chr3:19957802..19957857,+!p1@Hltf!0.16!22.26!Hltf;;chr13:44826722..44826742,+!p1@Jarid2!0.16!20.24!Jarid2;;chr4:97444297..97444323,+!p2@Nfia!0.16!19.84!Nfia;;chr10:30522881..30522960,-!p1@Ncoa7!0.16!14.98!Ncoa7;;chr15:61816932..61816952,+!p2@Myc!0.16!10.12!Myc;;chr7:135019614..135019666,-!p1@Zfp668!0.16!10.12!Zfp668;;chr2:91489908..91489941,-!p1@Zfp408!0.16!9.72!Zfp408;;chr17:4994904..4994953,+!p3@Arid1b!0.16!9.31!Arid1b;;chr9:122832168..122832210,+!p1@Zfp105!0.16!9.31!Zfp105;;chr6:53018556..53018650,-!p1@Jazf1!0.16!8.10!Jazf1;;chr6:131338483..131338494,-!p5@Csda!0.16!6.07!Csda;;chr13:56804721..56804792,+!p2@Smad5!0.16!6.07!Smad5;;chr11:50872733..50872809,+!p1@Zfp354a!0.16!5.26!Zfp354a;;chr9:96159665..96159680,+!p3@Tfdp2!0.16!5.26!Tfdp2;;chr18:69504195..69504213,+!p4@Tcf4!0.16!5.26!Tcf4;;chr8:114167325..114167350,+!p2@Zfp1!0.16!4.05!Zfp1;;chr15:102301130..102301147,+!p3@Pcbp2!0.16!3.24!Pcbp2;;chr7:87171233..87171255,+!p3@Zfp710!0.16!2.83!Zfp710;;chr7:25292160..25292213,+!p3@Zfp428!0.16!2.43!Zfp428;;chr6:115803317..115803361,-!p2@Mbd4!0.16!2.43!Mbd4;;chr17:71200558..71200572,-!p4@Tgif1!0.16!2.43!Tgif1;;chr17:27693706..27693724,+!p4@Hmga1,p5@Hmga1-rs1!0.16!2.43!Hmga1;;chr11:120494669..120494688,-!p2@Mafg!0.16!2.43!Mafg;;chr19:46380235..46380277,+!p3@Nfkb2!0.16!2.02!Nfkb2;;chr6:90412556..90412581,+!p3@Klf15!0.16!2.02!Klf15;;chr16:43363837..43363842,+!p11@Zbtb20!0.16!1.62!Zbtb20;;chr4:97444120..97444141,+!p13@Nfia!0.16!1.62!Nfia;;chr7:6238175..6238186,+!p2@Zfp667!0.16!1.21!Zfp667;;chr12:16817785..16817796,+!p2@E2f6!0.16!1.21!E2f6;;chrX:7339674..7339688,+!p6@Tfe3!0.16!1.21!Tfe3;;chr5:92391948..92391968,+!p3@Thap6!0.16!1.21!Thap6;;chr5:65213459..65213485,+!p12@Klf3!0.16!0.81!Klf3;;chr6:98978189..98978198,-!p10@Foxp1!0.16!0.81!Foxp1;;chr7:123177377..123177409,-!p7@Sox6!0.16!0.81!Sox6;;chr5:20387890..20387893,-!p3@Phtf2!0.16!0.81!Phtf2;;chr6:52141694..52141715,-!p1@Hoxa4!0.16!0.81!Hoxa4;;chr2:77654650..77654685,-!p3@Zfp385b!0.16!0.81!Zfp385b;;chr4:129118044..129118067,-!p1@Zbtb8b!0.16!0.81!Zbtb8b;;chr4:55545051..55545110,-!p2@Klf4!0.16!0.81!Klf4;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!0.16!0.81!Pou3f3;;chr11:101646480..101646496,-!p4@Etv4!0.16!0.81!Etv4;;chr11:3191741..3191769,+!p5@Patz1!0.16!0.81!Patz1;;chr10:119913839..119913869,-!p7@Hmga2!0.16!0.81!Hmga2;;chr15:76755821..76755835,-!p2@Zfp647!0.16!0.81!Zfp647;;chr11:99091744..99091778,-!p1@Smarce1!0.15!54.24!Smarce1;;chr8:26951227..26951266,-!p1@Ash2l!0.15!51.01!Ash2l;;chr11:87881744..87881791,+!p1@Vezf1!0.15!35.62!Vezf1;;chr16:4213951..4213995,-!p@chr16:4213951..4213995,-!0.15!35.22!Crebbp;;chr6:90319480..90319651,+!p1@Zxdc!0.15!32.38!Zxdc;;chr2:48805082..48805137,+!p1@Mbd5!0.15!26.31!Mbd5;;chr2:83484658..83484678,+!p2@Zc3h15!0.15!19.43!Zc3h15;;chr1:95651138..95651255,-!p1@Thap4!0.15!17.81!Thap4;;chr10:93610652..93610711,+!p1@Nr2c1!0.15!17.41!Nr2c1;;chr15:76701830..76701883,-!p1@Zfp251!0.15!16.60!Zfp251;;chr8:108939219..108939296,+!p1@Zfp90!0.15!12.95!Zfp90;;chr6:47827642..47827707,+!p1@Zfp282!0.15!12.95!Zfp282;;chr2:37298616..37298698,-!p1@Zbtb26,p2@Zbtb6!0.15!10.93!Zbtb26;;chr4:32325688..32325777,+!p1@Bach2!0.15!10.53!Bach2;;chr6:120314411..120314466,+!p2@Kdm5a!0.15!8.50!Kdm5a;;chr3:94641624..94641645,+!p2@Pogz!0.15!8.10!Pogz;;chr18:69504157..69504184,+!p3@Tcf4!0.15!7.29!Tcf4;;chr1:193961776..193961815,-!p2@Rcor3!0.15!6.07!Rcor3;;chr17:51952617..51952680,-!p3@Satb1!0.15!5.67!Satb1;;chr3:52072296..52072310,+!p3@Foxo1!0.15!5.67!Foxo1;;chr3:94819136..94819168,-!p2@Zfp687!0.15!5.67!Zfp687;;chr6:29998062..29998078,+!p2@Nrf1!0.15!5.26!Nrf1;;chr6:117813087..117813121,+!p1@Zfp239!0.15!4.05!Zfp239;;chr15:79177964..79177986,+!p1@Maff!0.15!3.64!Maff;;chr17:69732364..69732405,+!p2@Zfp161!0.15!3.64!Zfp161;;chr17:28369739..28369774,+!p2@Ppard!0.15!3.24!Ppard;;chr11:98821937..98821987,+!p4@Rara!0.15!2.02!Rara;;chr13:44826634..44826645,+!p7@Jarid2!0.15!1.62!Jarid2;;chr4:126700683..126700704,+!p6@Sfpq!0.15!1.62!Sfpq;;c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+|ffid_belonging_in_development=CL:0000133,CL:0000031,CL:0000221
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 40: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011144
 |is_obsolete=
+|library_id=CNhs13081
+|library_id_phase_based=2:CNhs13081
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11804
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11804
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520sympathetic%2520neuron%2520derived%252c%2520biol_rep1.CNhs13081.11804-124D4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520sympathetic%2520neuron%2520derived%252c%2520biol_rep1.CNhs13081.11804-124D4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520sympathetic%2520neuron%2520derived%252c%2520biol_rep1.CNhs13081.11804-124D4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520sympathetic%2520neuron%2520derived%252c%2520biol_rep1.CNhs13081.11804-124D4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520sympathetic%2520neuron%2520derived%252c%2520biol_rep1.CNhs13081.11804-124D4.mm9.nobarcode.rdna.fa.gz
 |name=neurospheres - sympathetic neuron derived, biol_rep1
 |namespace=
@@ Line 45: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13081,LSID1000,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.17401204504199,0,0,0,0,0,0.0672261053573465,0,0,0,0,0.0632785665799582,0,0,0,0,0,0,-0.0442755439060748,0,0,0,0,0,0,0,0,0,0,0,0,0.1476178069765,-0.410804985347532,0,0,0,0,0,-0.135513822007576,0.104710245449346,0.101443132864325,-0.726623642235451,-0.122250831033852,0.1476178069765,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,-0.0428469550828748,0,0.136878577807478,0.103305378545344,0.418175759869294,0,-0.114431916073083,-0.310650657339386,0.638659409128945,0.0067014585097113,0,0,0.027980100778167,-0.0270410715418815,0.1476178069765,0,0,0.100983364916326,0.434095810637975,-0.0788315948399074,0,0,0,0,0,0,0.180532688675619,0.0134253671289546,0.231092519085618,0,0,0,0.257587724242375,0
 |rna_box=124
 |rna_catalog_number=
@@ Line 60: / Line 76: @@
 |rna_weight_ug=12
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 80: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11804-124D4;search_select_hide=table117:11804-124D4
 }}

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FF:11804-124D4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:21, 4 June 2020

CNhs13081

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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