FF:11806-124D6: Difference between revisions

Latest revision as of 18:21, 4 June 2020

Name:	neurospheres - sympathetic neuron derived, biol_rep3
Species:	Mouse (Mus musculus)
Library ID:	CNhs13083
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	sym3
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		SAMD00005204

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13083		CAGE		DRX008870		DRR009742

Accession ID Mm9

Library id		BAM		CTSS
CNhs13083		DRZ001167		DRZ002552

Accession ID Mm10

Library id		BAM		CTSS
CNhs13083		DRZ012517		DRZ013902

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

CNhs13083

0	0
1	0.0786
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.115
1003	0.032
1004	0
1005	-0.123
1006	0.107
1007	-0.0872
1008	0
1009	0.0874
101	-0.00897
1010	0
1011	0.00247
1012	0
1013	-0.072
1014	-0.0851
1015	0.18
1016	0.297
1017	0
1018	0
1019	0
102	0
1020	0.253
1021	0
1022	-0.124
1023	0
1024	-0.0899
1025	-0.0161
1026	0.0198
1027	0.487
1028	0
1029	-0.0989
103	-0.0659
1030	0
1031	0.538
1032	0.018
1033	0.145
1034	0
1035	0
1036	-0.0624
1037	0
1038	0.0617
1039	-0.191
104	0
1040	0.244
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: CNhs13083

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	3.66323e-5
MA0003.1	MA0003.1	0.0319
MA0004.1	MA0004.1	0.991
MA0006.1	MA0006.1	0.432
MA0007.1	MA0007.1	0.462
MA0009.1	MA0009.1	0.0363
MA0014.1	MA0014.1	0.816
MA0017.1	MA0017.1	4.03421e-5
MA0018.2	MA0018.2	8.96482e-4
MA0019.1	MA0019.1	0.591
MA0024.1	MA0024.1	0.0567
MA0025.1	MA0025.1	0.839
MA0027.1	MA0027.1	0.424
MA0028.1	MA0028.1	0.832
MA0029.1	MA0029.1	0.258
MA0030.1	MA0030.1	0.817
MA0031.1	MA0031.1	0.453
MA0035.2	MA0035.2	0.00164
MA0038.1	MA0038.1	0.0617
MA0039.2	MA0039.2	0.447
MA0040.1	MA0040.1	0.608
MA0041.1	MA0041.1	0.157
MA0042.1	MA0042.1	0.498
MA0043.1	MA0043.1	0.0136
MA0046.1	MA0046.1	2.96645e-12
MA0047.2	MA0047.2	0.00786
MA0048.1	MA0048.1	0.481
MA0050.1	MA0050.1	0.00524
MA0051.1	MA0051.1	0.0376
MA0052.1	MA0052.1	0.00506
MA0055.1	MA0055.1	0.405
MA0057.1	MA0057.1	0.273
MA0058.1	MA0058.1	0.689
MA0059.1	MA0059.1	0.205
MA0060.1	MA0060.1	1.05038e-4
MA0061.1	MA0061.1	0.0452
MA0062.2	MA0062.2	0.775
MA0065.2	MA0065.2	1.75186e-5
MA0066.1	MA0066.1	0.146
MA0067.1	MA0067.1	0.362
MA0068.1	MA0068.1	0.424
MA0069.1	MA0069.1	0.376
MA0070.1	MA0070.1	0.00314
MA0071.1	MA0071.1	0.271
MA0072.1	MA0072.1	0.272
MA0073.1	MA0073.1	0.865
MA0074.1	MA0074.1	0.442
MA0076.1	MA0076.1	0.529
MA0077.1	MA0077.1	0.042
MA0078.1	MA0078.1	0.353
MA0079.2	MA0079.2	0.306
MA0080.2	MA0080.2	5.16925e-9
MA0081.1	MA0081.1	0.613
MA0083.1	MA0083.1	0.919
MA0084.1	MA0084.1	0.845
MA0087.1	MA0087.1	0.663
MA0088.1	MA0088.1	0.667
MA0090.1	MA0090.1	0.668
MA0091.1	MA0091.1	0.757
MA0092.1	MA0092.1	0.903
MA0093.1	MA0093.1	0.928
MA0099.2	MA0099.2	0.915
MA0100.1	MA0100.1	0.742
MA0101.1	MA0101.1	0.249
MA0102.2	MA0102.2	0.85
MA0103.1	MA0103.1	8.83727e-4
MA0104.2	MA0104.2	0.744
MA0105.1	MA0105.1	1.8065e-4
MA0106.1	MA0106.1	0.198
MA0107.1	MA0107.1	0.116
MA0108.2	MA0108.2	0.00315
MA0111.1	MA0111.1	0.567
MA0112.2	MA0112.2	4.29685e-6
MA0113.1	MA0113.1	0.195
MA0114.1	MA0114.1	8.29929e-5
MA0115.1	MA0115.1	0.0311
MA0116.1	MA0116.1	8.38088e-4
MA0117.1	MA0117.1	0.783
MA0119.1	MA0119.1	0.178
MA0122.1	MA0122.1	0.911
MA0124.1	MA0124.1	1
MA0125.1	MA0125.1	0.0466
MA0131.1	MA0131.1	0.589
MA0135.1	MA0135.1	0.249
MA0136.1	MA0136.1	7.36297e-6
MA0137.2	MA0137.2	0.689
MA0138.2	MA0138.2	0.519
MA0139.1	MA0139.1	0.079
MA0140.1	MA0140.1	5.29e-5
MA0141.1	MA0141.1	0.00327
MA0142.1	MA0142.1	0.132
MA0143.1	MA0143.1	0.127
MA0144.1	MA0144.1	0.371
MA0145.1	MA0145.1	0.0998
MA0146.1	MA0146.1	0.434
MA0147.1	MA0147.1	0.488
MA0148.1	MA0148.1	0.00601
MA0149.1	MA0149.1	0.932
MA0150.1	MA0150.1	0.14
MA0152.1	MA0152.1	0.632
MA0153.1	MA0153.1	3.53354e-11
MA0154.1	MA0154.1	0.00294
MA0155.1	MA0155.1	0.383
MA0156.1	MA0156.1	0.00355
MA0157.1	MA0157.1	0.167
MA0159.1	MA0159.1	0.0839
MA0160.1	MA0160.1	0.0531
MA0162.1	MA0162.1	0.207
MA0163.1	MA0163.1	6.25396e-4
MA0164.1	MA0164.1	0.878
MA0258.1	MA0258.1	0.00384
MA0259.1	MA0259.1	0.968

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: CNhs13083

Novel motif	Logo	P-value
1	1	0.0674
10	10	0.0405
100	100	0.857
101	101	0.959
102	102	0.9
103	103	0.114
104	104	0.944
105	105	0.158
106	106	0.03
107	107	0.14
108	108	0.95
109	109	0.028
11	11	0.102
110	110	0.117
111	111	0.003
112	112	0.0176
113	113	0.537
114	114	0.0675
115	115	0.432
116	116	0.377
117	117	0.273
118	118	0.427
119	119	0.0363
12	12	0.483
120	120	0.462
121	121	0.249
122	122	0.404
123	123	0.357
124	124	0.425
125	125	0.865
126	126	0.494
127	127	0.28
128	128	0.0523
129	129	0.219
13	13	0.0152
130	130	0.918
131	131	0.846
132	132	0.515
133	133	0.952
134	134	0.529
135	135	0.767
136	136	0.844
137	137	0.431
138	138	0.908
139	139	0.182
14	14	0.54
140	140	0.0209
141	141	0.212
142	142	0.568
143	143	0.906
144	144	0.939
145	145	0.202
146	146	0.521
147	147	0.853
148	148	0.694
149	149	0.14
15	15	0.0866
150	150	0.414
151	151	0.426
152	152	0.158
153	153	0.898
154	154	0.811
155	155	0.941
156	156	4.64134e-9
157	157	0.081
158	158	0.537
159	159	0.112
160	160	0.097
161	161	0.338
162	162	0.938
163	163	0.619
164	164	0.0856
165	165	0.359
166	166	0.72
167	167	0.545
168	168	0.751
169	169	0.01
17	17	0.0536
18	18	0.677
19	19	0.172
2	2	0.645
20	20	0.516
21	21	0.341
22	22	0.276
23	23	0.304
24	24	0.135
25	25	0.357
26	26	0.0142
27	27	0.27
28	28	0.431
29	29	0.232
3	3	0.0747
30	30	0.758
31	31	0.682
32	32	0.0637
33	33	0.257
34	34	0.368
35	35	0.636
36	36	0.3
37	37	0.044
38	38	0.239
39	39	0.321
4	4	0.511
40	40	0.407
41	41	0.727
42	42	0.23
43	43	0.167
44	44	0.131
45	45	0.448
46	46	0.183
47	47	0.15
48	48	0.104
49	49	0.116
5	5	0.165
50	50	0.503
51	51	0.587
52	52	0.381
53	53	0.542
54	54	0.66
55	55	0.618
56	56	0.599
57	57	0.45
58	58	0.138
59	59	0.0389
6	6	0.552
60	60	0.0861
61	61	0.188
62	62	0.0432
63	63	0.0859
64	64	0.431
65	65	0.129
66	66	0.726
67	67	0.778
68	68	0.428
69	69	0.764
7	7	0.0474
70	70	0.007
71	71	0.0892
72	72	0.288
73	73	0.189
74	74	0.992
75	75	0.136
76	76	0.567
77	77	0.207
78	78	0.0878
79	79	0.123
8	8	0.0651
80	80	0.947
81	81	0.627
82	82	0.0215
83	83	0.149
84	84	0.669
85	85	0.0842
86	86	0.373
87	87	0.592
88	88	0.605
89	89	0.0804
9	9	0.444
90	90	0.346
91	91	0.255
92	92	0.139
93	93	0.581
94	94	0.383
95	95	0.113
96	96	0.403
97	97	0.71
98	98	0.144
99	99	0.211

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: CNhs13083

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@SAMD00005204
+|accession_numbers=CAGE;DRX008870;DRR009742;DRZ001167;DRZ002552;DRZ012517;DRZ013902
 |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!2.35!609.14!Hand2;;chr10:86956396..86956411,-!p1@Ascl1!2.22!249.03!Ascl1;;chr5:67490284..67490302,-!p1@Phox2b!2.13!132.42!Phox2b;;chr2:74583776..74583815,+!p3@Hoxd3!2.02!103.17!Hoxd3;;chr7:108966820..108966835,+!p1@Phox2a!1.91!80.24!Phox2a;;chr15:78994907..78994926,-!p1@Sox10!1.87!182.23!Sox10;;chr11:96164821..96164865,+!p1@Hoxb5!1.87!72.73!Hoxb5;;chr12:39510206..39510249,+!p3@Etv1!1.85!70.36!Etv1;;chr4:99322820..99322845,+!p1@Foxd3!1.81!80.24!Foxd3;;chr2:71384802..71384815,-!p1@Dlx2!1.67!56.13!Dlx2;;chr2:146047829..146047847,+!p1@Insm1!1.64!75.10!Insm1;;chr2:71367871..71367898,+!p1@Dlx1!1.50!30.44!Dlx1;;chr12:39510090..39510114,+!p6@Etv1!1.50!30.44!Etv1;;chr5:120120667..120120685,+!p3@Tbx3!1.46!52.97!Tbx3;;chr5:67490474..67490494,-!p2@Phox2b!1.46!27.67!Phox2b;;chr6:52154414..52154462,-!p1@Hoxa5!1.42!34.39!Hoxa5;;chr7:38557887..38557910,-!p5@Zfp536!1.42!25.30!Zfp536;;chr12:39510290..39510309,+!p5@Etv1!1.39!23.72!Etv1;;chr5:120121169..120121171,+!p4@Tbx3!1.36!39.13!Tbx3;;chr5:67490391..67490404,-!p3@Phox2b!1.35!21.35!Phox2b;;chr15:102865131..102865151,+!p2@Hoxc4!1.34!23.72!Hoxc4;;chr15:102865088..102865107,+!p1@Hoxc4!1.33!26.88!Hoxc4;;chr14:17407878..17407926,-!p1@Rarb!1.32!43.88!Rarb;;chr14:17407549..17407575,-!p3@Rarb!1.32!29.65!Rarb;;chr5:67490346..67490357,-!p4@Phox2b!1.32!19.76!Phox2b;;chr5:138199361..138199441,+!p2@Tsc22d4!1.29!34.79!Tsc22d4;;chr17:25707623..25707639,-!p1@Sox8!1.22!66.41!Sox8;;chr2:71367142..71367167,+!p2@Dlx1!1.22!15.42!Dlx1;;chr6:52154386..52154407,-!p2@Hoxa5!1.21!19.37!Hoxa5;;chr2:71384458..71384526,-!p2@Dlx2!1.20!15.02!Dlx2;;chr3:34548909..34548927,+!p1@Sox2!1.18!23.72!Sox2;;chr12:39507680..39507715,+!p2@Etv1!1.17!27.27!Etv1;;chr18:69752912..69752928,+!p9@Tcf4!1.17!20.55!Tcf4;;chr12:30213247..30213333,+!p1@Myt1l!1.17!13.84!Myt1l;;chr2:74565306..74565327,+!p2@Hoxd4!1.16!13.44!Hoxd4;;chr11:85646303..85646329,+!p1@Tbx2!1.14!85.38!Tbx2;;chr12:28027561..28027591,-!p1@Sox11!1.13!81.43!Sox11;;chr2:71384401..71384424,-!p3@Dlx2!1.12!12.25!Dlx2;;chr11:85646263..85646278,+!p2@Tbx2!1.09!29.25!Tbx2;;chr10:119913278..119913298,-!p2@Hmga2!1.09!25.69!Hmga2;;chr13:44936126..44936164,+!p6@Jarid2!1.09!13.04!Jarid2;;chr3:95032091..95032183,-!p1@Mllt11!1.08!95.66!Mllt11;;chr1:179374784..179374800,+!p2@Zfp238!1.08!13.04!Zfp238;;chr3:34548946..34548972,+!p2@Sox2!1.08!12.25!Sox2;;chr12:12948633..12948651,-!p1@Mycn!1.07!102.77!Mycn;;chr9:71743854..71743909,-!p1@Tcf12!1.07!85.38!Tcf12;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!1.07!18.58!Hoxb2;;chrX:58146612..58146615,-!p1@Sox3!1.07!10.67!Sox3;;chr18:69752638..69752665,+!p19@Tcf4!1.06!11.46!Tcf4;;chr1:6724908..6724955,+!p2@St18!1.04!9.88!St18;;chr5:67490333..67490342,-!p5@Phox2b!1.04!9.88!Phox2b;;chr15:102865048..102865073,+!p3@Hoxc4!1.03!12.25!Hoxc4;;chr12:39510042..39510069,+!p8@Etv1!1.02!9.49!Etv1;;chr18:84255841..84255883,-!p1@Tshz1!1.01!66.41!Tshz1;;chr11:85646341..85646352,+!p3@Tbx2!1.01!18.58!Tbx2;;chr11:96160426..96160443,+!p2@Hoxb6!1.00!9.09!Hoxb6;;chr2:74583741..74583750,+!p10@Hoxd3!1.00!9.09!Hoxd3;;chr8:111227641..111227672,+!p@chr8:111227641..111227672,+!0.99!23.72!Zfhx3;;chr4:150503457..150503498,-!p3@Camta1!0.99!9.88!Camta1;;chr11:96164905..96164919,+!p2@Hoxb5!0.97!8.30!Hoxb5;;chr11:96180069..96180089,+!p3@Hoxb4!0.95!7.91!Hoxb4;;chr11:96180045..96180059,+!p1@Hoxb4!0.94!11.07!Hoxb4;;chr13:40826150..40826167,-!p3@Tfap2a!0.94!8.70!Tfap2a;;chr19:7342725..7342784,+!p1@Rcor2!0.93!32.02!Rcor2;;chr12:39507404..39507441,+!p4@Etv1!0.93!10.67!Etv1;;chr11:96143666..96143725,+!p1@Hoxb8!0.93!8.70!Hoxb8;;chr2:71384425..71384456,-!p4@Dlx2!0.93!7.51!Dlx2;;chr7:38554763..38554780,-!p1@Zfp536!0.92!13.44!Zfp536;;chr13:40829137..40829205,-!p1@Tfap2a!0.92!8.30!Tfap2a;;chr10:76424613..76424689,-!p1@Pcbp3!0.91!157.32!Pcbp3;;chr3:5218629..5218684,+!p1@Zfhx4!0.90!23.32!Zfhx4;;chr7:38557752..38557793,-!p3@Zfp536!0.90!8.30!Zfp536;;chr18:69752608..69752625,+!p17@Tcf4!0.89!7.91!Tcf4;;chr2:81893535..81893548,+!p1@Zfp804a!0.89!6.72!Zfp804a;;chr14:17407857..17407875,-!p4@Rarb!0.89!6.72!Rarb;;chr12:39510260..39510271,+!p10@Etv1!0.89!6.72!Etv1;;chr5:67490447..67490458,-!p7@Phox2b!0.89!6.72!Phox2b;;chr9:106356211..106356242,+!p1@Pcbp4!0.88!135.19!Pcbp4;;chr2:127347067..127347093,-!p1@Kcnip3!0.87!11.07!Kcnip3;;chr11:96213434..96213452,+!p@chr11:96213434..96213452,+!0.87!8.70!Hoxb2;;chr7:38558544..38558566,-!p4@Zfp536!0.87!7.51!Zfp536;;chr11:85646469..85646488,+!p5@Tbx2!0.86!9.49!Tbx2;;chr7:122968213..122968266,-!p4@Sox6!0.86!7.51!Sox6;;chr6:53523358..53523388,+!p1@Creb5!0.85!77.48!Creb5;;chr1:193007123..193007139,-!p1@Atf3!0.85!36.37!Atf3;;chr14:34791937..34791977,-!p1@Zfp488!0.84!5.93!Zfp488;;chr14:17407970..17408015,-!p2@Rarb!0.83!16.21!Rarb;;chr2:127347094..127347111,-!p2@Kcnip3!0.83!9.88!Kcnip3;;chr3:51144477..51144506,-!p6@Elf2!0.83!9.09!Elf2;;chr1:38684260..38684312,-!p2@Aff3!0.82!42.30!Aff3;;chr9:106356278..106356292,+!p3@Pcbp4!0.82!9.88!Pcbp4;;chr6:83020355..83020371,-!p1@Tlx2!0.82!5.53!Tlx2;;chr5:67490412..67490421,-!p6@Phox2b!0.82!5.53!Phox2b;;chr4:22415443..22415506,-!p1@Pou3f2!0.82!5.53!Pou3f2;;chr5:120121020..120121049,+!p1@Tbx3!0.81!35.58!Tbx3;;chr10:119913546..119913583,-!p3@Hmga2!0.81!11.86!Hmga2;;chr1:57029281..57029326,-!p1@Satb2!0.81!8.70!Satb2;;chr12:86814833..86814846,+!p1@Fos!0.80!135.19!Fos;;chr2:163028808..163028869,+!p1@Tox2!0.80!20.16!Tox2;;chr7:38558574..38558611,-!p2@Zfp536!0.80!6.72!Zfp536;;chr9:72380594..72380635,+!p3@Rfx7!0.79!9.49!Rfx7;;chr2:181501745..181501778,+!p1@Myt1!0.79!5.14!Myt1;;chr14:17407671..17407684,-!p7@Rarb!0.79!5.14!Rarb;;chr11:96213183..96213188,+!p@chr11:96213183..96213188,+!0.79!5.14!Hoxb2;;chr10:129717274..129717298,-!p1@Neurod4!0.79!5.14!Neurod4;;chr9:96653072..96653154,-!p1@Zbtb38!0.78!14.23!Zbtb38;;chr4:122911086..122911112,+!p1@Heyl!0.77!63.25!Heyl;;chr13:78339476..78339515,-!p1@Nr2f1!0.77!7.91!Nr2f1;;chr18:69752864..69752875,+!p25@Tcf4!0.76!4.74!Tcf4;;chr6:52134126..52134150,-!p3@Hoxa3!0.76!4.74!Hoxa3;;chr1:6720216..6720232,+!p1@St18!0.76!4.74!St18;;chr11:85646427..85646451,+!p4@Tbx2!0.74!8.30!Tbx2;;chr16:43503493..43503570,+!p9@Zbtb20!0.73!7.91!Zbtb20;;chr13:44936077..44936096,+!p9@Jarid2!0.73!4.35!Jarid2;;chr7:138697803..138697813,+!p1@Hmx2!0.73!4.35!Hmx2;;chr2:74550015..74550057,+!p2@Hoxd3!0.73!4.35!Hoxd3;;chr3:32264530..32264544,-!p2@Zmat3!0.72!7.12!Zmat3;;chr18:3281034..3281104,-!p1@Crem!0.71!32.81!Crem;;chr11:96153767..96153822,+!p1@Hoxb6!0.71!6.72!Hoxb6;;chr7:123177120..123177138,-!p10@Sox6!0.71!5.14!Sox6;;chr3:32264565..32264613,-!p1@Zmat3!0.70!50.20!Zmat3;;chr2:44968737..44968758,-!p2@Zeb2!0.70!26.09!Zeb2;;chr2:44968775..44968795,-!p4@Zeb2!0.70!21.35!Zeb2;;chr17:44951553..44951586,-!p2@Runx2!0.69!4.35!Runx2;;chr19:5447886..5447905,+!p1@Fosl1!0.69!3.95!Fosl1;;chr2:181501710..181501742,+!p2@Myt1!0.69!3.95!Myt1;;chr2:44968721..44968734,-!p6@Zeb2!0.68!16.21!Zeb2;;chr5:120121262..120121282,+!p6@Tbx3!0.68!4.35!Tbx3;;chr4:150482563..150482655,-!p2@Camta1!0.67!14.63!Camta1;;chr2:74549968..74549996,+!p1@Hoxd3!0.67!4.74!Hoxd3;;chr2:17976799..17976829,+!p5@Mllt10!0.67!4.74!Mllt10;;chr16:91270004..91270023,+!p1@Olig1!0.67!4.35!Olig1;;chr18:84255771..84255795,-!p3@Tshz1!0.66!12.25!Tshz1;;chr10:62327990..62328025,-!p2@Tet1!0.66!5.93!Tet1;;chr13:78339428..78339466,-!p2@Nr2f1!0.66!5.14!Nr2f1;;chr2:181498020..181498040,+!p5@Myt1!0.66!3.56!Myt1;;chr1:179374820..179374831,+!p3@Zfp238!0.66!3.56!Zfp238;;chr4:99322855..99322867,+!p2@Foxd3!0.66!3.56!Foxd3;;chr5:120120834..120120845,+!p8@Tbx3!0.66!3.56!Tbx3;;chr11:33103563..33103583,-!p1@Tlx3!0.66!3.56!Tlx3;;chr10:119913266..119913277,-!p6@Hmga2!0.66!3.56!Hmga2;;chr7:25292331..25292421,+!p1@Zfp428!0.65!28.86!Zfp428;;chr9:106356243..106356264,+!p2@Pcbp4!0.65!17.39!Pcbp4;;chr18:84255649..84255661,-!p4@Tshz1!0.65!10.28!Tshz1;;chrX:34442872..34442899,-!p1@Nkrf!0.65!4.74!Nkrf;;chr12:39506873..39506913,+!p1@Etv1!0.64!40.71!Etv1;;chr14:65568469..65568511,-!p2@Hmbox1!0.64!12.65!Hmbox1;;chr4:54957910..54957954,+!p2@Zfp462!0.64!11.46!Zfp462;;chr3:90097275..90097302,+!p2@Gatad2b!0.64!8.70!Gatad2b;;chr7:116154364..116154444,+!p1@Tub!0.64!6.32!Tub;;chr11:87881569..87881633,+!p2@Vezf1!0.63!30.04!Vezf1;;chr16:43363190..43363242,+!p2@Zbtb20!0.63!11.46!Zbtb20;;chr13:78339382..78339420,-!p3@Nr2f1!0.63!3.95!Nr2f1;;chr5:120121091..120121100,+!p7@Tbx3!0.63!3.95!Tbx3;;chr10:119913310..119913366,-!p1@Hmga2!0.62!29.65!Hmga2;;chr14:98568761..98568814,-!p2@Dach1!0.62!25.69!Dach1;;chr16:43503594..43503634,+!p15@Zbtb20!0.62!3.95!Zbtb20;;chr15:102839948..102839975,+!p3@Hoxc6!0.62!3.16!Hoxc6;;chr13:40826119..40826131,-!p7@Tfap2a!0.62!3.16!Tfap2a;;chr11:96160360..96160397,+!p3@Hoxb6!0.62!3.16!Hoxb6;;chr7:38554684..38554696,-!p10@Zfp536!0.62!3.16!Zfp536;;chr2:74583733..74583738,+!p13@Hoxd3!0.62!3.16!Hoxd3;;chr2:74565247..74565258,+!p3@Hoxd4!0.62!3.16!Hoxd4;;chr1:92949999..92950097,+!p1@Lrrfip1!0.61!98.82!Lrrfip1;;chr18:83079981..83080037,+!p6@Zfp516!0.61!5.93!Zfp516;;chr16:15887371..15887385,+!p1@Cebpd!0.60!124.52!Cebpd;;chr10:114821393..114821431,-!p5@Thap2!0.60!9.49!Thap2;;chr6:144157924..144157955,-!p2@Sox5!0.60!3.95!Sox5;;chr16:4594740..4594759,+!p1@Glis2!0.59!40.32!Glis2;;chr15:75447162..75447217,+!p2@Zfp41!0.59!9.88!Zfp41;;chr10:119913792..119913820,-!p5@Hmga2!0.59!5.53!Hmga2;;chr18:65741358..65741415,+!p1@Zfp532!0.58!14.63!Zfp532;;chr10:67375368..67375433,-!p1@Zfp365!0.58!5.53!Zfp365;;chr1:9690398..9690410,-!p2@Mybl1!0.58!3.56!Mybl1;;chr2:181501822..181501834,+!p8@Myt1!0.58!2.77!Myt1;;chr2:181501988..181502026,+!p3@Myt1!0.58!2.77!Myt1;;chr11:96164868..96164875,+!p5@Hoxb5!0.58!2.77!Hoxb5;;chr13:44936106..44936121,+!p13@Jarid2!0.58!2.77!Jarid2;;chr2:71367605..71367621,+!p9@Dlx1!0.58!2.77!Dlx1;;chrX:110837933..110837958,+!p2@Dach2!0.58!2.77!Dach2;;chr4:54960870..54960926,+!p1@Zfp462!0.57!11.86!Zfp462;;chr16:43363152..43363186,+!p3@Zbtb20!0.57!7.12!Zbtb20;;chr9:122812356..122812381,+!p@chr9:122812356..122812381,+!0.57!5.93!Gm8008;;chr14:98568683..98568698,-!p6@Dach1!0.57!3.56!Dach1;;chr15:97738692..97738747,-!p1@Vdr!0.56!17.79!Vdr;;chrX:1097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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011144
 |is_obsolete=
+|library_id=CNhs13083
+|library_id_phase_based=2:CNhs13083
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11806
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11806
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520sympathetic%2520neuron%2520derived%252c%2520biol_rep3.CNhs13083.11806-124D6.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_rep3.CNhs13083.11806-124D6.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_rep3.CNhs13083.11806-124D6.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520sympathetic%2520neuron%2520derived%252c%2520biol_rep3.CNhs13083.11806-124D6.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_rep3.CNhs13083.11806-124D6.mm9.nobarcode.rdna.fa.gz
 |name=neurospheres - sympathetic neuron derived, biol_rep3
 |namespace=
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13083,LSID1000,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.146130584095924,0,0,0,0,0,0.118978214046109,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,0.219920079889023,0,0,0,0,0,0,0,0,0,0,0,0,0.411813430771597,-0.413759002288101,0,0,0,0,0,-0.13699083047786,0.105846527510721,0.159208774116547,-0.572397935706229,-0.0168759865998161,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0.039114937140418,0.144663790035931,0.527852360872609,0,0.0530820501022021,-0.310650657339386,0.417906242853869,-0.140687683267293,0,0,0.0343321647030315,-0.0355972074602148,0.144663790035931,0,0.0221313252912246,0.162839766198232,0.408045960402211,-0.0788315948399074,0,0,0,0,0,0,0.16172838040778,0.0277939780230736,0.120619503910173,0,0,0,0.339623005182409,0
@@ Line 62: / Line 76: @@
 |rna_weight_ug=12
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 82: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11806-124D6;search_select_hide=table117:11806-124D6
 }}

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FF:11806-124D6: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:21, 4 June 2020

CNhs13083

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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