FF:11550-120C2: Difference between revisions

Latest revision as of 18:08, 4 June 2020

Name:	Mouse Astrocytes - cerebellar, donor2
Species:	Mouse (Mus musculus)
Library ID:	CNhs12076
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	cerebellum
dev stage	NA
sex	NA
age	NA
cell type	astrocyte
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	lot:3221
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		SAMD00005740

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12076		CAGE		DRX008807		DRR009679

Accession ID Mm9

Library id		BAM		CTSS
CNhs12076		DRZ001104		DRZ002489

Accession ID Mm10

Library id		BAM		CTSS
CNhs12076		DRZ012454		DRZ013839

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

CNhs12076

0	0
1	0
10	0
100	0.0445
1000	0.612
1001	-0.0749
1002	0.141
1003	0.387
1004	0
1005	-0.0389
1006	0.0759
1007	-0.304
1008	0
1009	0.0822
101	-0.443
1010	0
1011	-0.0219
1012	0
1013	0.103
1014	0.131
1015	0.281
1016	0.179
1017	0
1018	0
1019	0
102	0
1020	0.558
1021	0.17
1022	0.0857
1023	0
1024	0
1025	0
1026	0
1027	0.363
1028	0
1029	-0.176
103	0.119
1030	0
1031	0.113
1032	0.677
1033	0
1034	0
1035	0
1036	-0.045
1037	0
1038	-0.00209
1039	0.048
104	0
1040	0.381
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: CNhs12076

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.803
MA0003.1	MA0003.1	0.398
MA0004.1	MA0004.1	0.709
MA0006.1	MA0006.1	0.406
MA0007.1	MA0007.1	0.16
MA0009.1	MA0009.1	0.371
MA0014.1	MA0014.1	0.888
MA0017.1	MA0017.1	0.0114
MA0018.2	MA0018.2	0.636
MA0019.1	MA0019.1	0.527
MA0024.1	MA0024.1	0.55
MA0025.1	MA0025.1	0.954
MA0027.1	MA0027.1	0.729
MA0028.1	MA0028.1	0.0756
MA0029.1	MA0029.1	0.564
MA0030.1	MA0030.1	0.81
MA0031.1	MA0031.1	0.451
MA0035.2	MA0035.2	0.057
MA0038.1	MA0038.1	1
MA0039.2	MA0039.2	0.767
MA0040.1	MA0040.1	0.456
MA0041.1	MA0041.1	0.189
MA0042.1	MA0042.1	0.616
MA0043.1	MA0043.1	0.255
MA0046.1	MA0046.1	3.69195e-6
MA0047.2	MA0047.2	0.437
MA0048.1	MA0048.1	0.321
MA0050.1	MA0050.1	0.00356
MA0051.1	MA0051.1	0.0404
MA0052.1	MA0052.1	0.384
MA0055.1	MA0055.1	0.0378
MA0057.1	MA0057.1	0.779
MA0058.1	MA0058.1	0.933
MA0059.1	MA0059.1	0.246
MA0060.1	MA0060.1	0.00163
MA0061.1	MA0061.1	0.549
MA0062.2	MA0062.2	6.97039e-6
MA0065.2	MA0065.2	0.997
MA0066.1	MA0066.1	0.699
MA0067.1	MA0067.1	0.537
MA0068.1	MA0068.1	0.33
MA0069.1	MA0069.1	0.0565
MA0070.1	MA0070.1	0.524
MA0071.1	MA0071.1	0.731
MA0072.1	MA0072.1	0.838
MA0073.1	MA0073.1	0.752
MA0074.1	MA0074.1	0.61
MA0076.1	MA0076.1	0.0244
MA0077.1	MA0077.1	0.0331
MA0078.1	MA0078.1	0.079
MA0079.2	MA0079.2	0.12
MA0080.2	MA0080.2	1.94472e-7
MA0081.1	MA0081.1	0.0985
MA0083.1	MA0083.1	0.139
MA0084.1	MA0084.1	0.247
MA0087.1	MA0087.1	0.298
MA0088.1	MA0088.1	0.7
MA0090.1	MA0090.1	0.00155
MA0091.1	MA0091.1	0.277
MA0092.1	MA0092.1	0.634
MA0093.1	MA0093.1	0.844
MA0099.2	MA0099.2	0.13
MA0100.1	MA0100.1	0.379
MA0101.1	MA0101.1	0.0661
MA0102.2	MA0102.2	0.0608
MA0103.1	MA0103.1	0.081
MA0104.2	MA0104.2	0.67
MA0105.1	MA0105.1	0.341
MA0106.1	MA0106.1	0.64
MA0107.1	MA0107.1	0.0162
MA0108.2	MA0108.2	0.848
MA0111.1	MA0111.1	0.687
MA0112.2	MA0112.2	0.734
MA0113.1	MA0113.1	0.272
MA0114.1	MA0114.1	0.0152
MA0115.1	MA0115.1	0.232
MA0116.1	MA0116.1	0.788
MA0117.1	MA0117.1	0.614
MA0119.1	MA0119.1	0.153
MA0122.1	MA0122.1	0.668
MA0124.1	MA0124.1	0.443
MA0125.1	MA0125.1	0.985
MA0131.1	MA0131.1	0.114
MA0135.1	MA0135.1	0.639
MA0136.1	MA0136.1	3.22364e-8
MA0137.2	MA0137.2	0.298
MA0138.2	MA0138.2	0.77
MA0139.1	MA0139.1	0.934
MA0140.1	MA0140.1	1.70136e-4
MA0141.1	MA0141.1	0.278
MA0142.1	MA0142.1	0.322
MA0143.1	MA0143.1	0.153
MA0144.1	MA0144.1	0.2
MA0145.1	MA0145.1	0.282
MA0146.1	MA0146.1	0.0166
MA0147.1	MA0147.1	0.568
MA0148.1	MA0148.1	0.19
MA0149.1	MA0149.1	0.388
MA0150.1	MA0150.1	0.974
MA0152.1	MA0152.1	0.215
MA0153.1	MA0153.1	2.97743e-4
MA0154.1	MA0154.1	0.906
MA0155.1	MA0155.1	0.241
MA0156.1	MA0156.1	1.01268e-10
MA0157.1	MA0157.1	0.428
MA0159.1	MA0159.1	0.872
MA0160.1	MA0160.1	0.76
MA0162.1	MA0162.1	0.0444
MA0163.1	MA0163.1	0.441
MA0164.1	MA0164.1	0.743
MA0258.1	MA0258.1	0.712
MA0259.1	MA0259.1	0.476

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: CNhs12076

Novel motif	Logo	P-value
1	1	0.487
10	10	0.452
100	100	0.598
101	101	0.707
102	102	0.636
103	103	0.0956
104	104	0.569
105	105	0.893
106	106	0.145
107	107	0.878
108	108	0.383
109	109	0.0158
11	11	0.323
110	110	0.626
111	111	0.104
112	112	0.097
113	113	0.351
114	114	0.515
115	115	0.982
116	116	0.174
117	117	0.249
118	118	0.293
119	119	0.258
12	12	0.677
120	120	0.713
121	121	0.545
122	122	0.231
123	123	0.762
124	124	0.722
125	125	0.196
126	126	0.509
127	127	0.951
128	128	0.85
129	129	0.487
13	13	0.29
130	130	0.793
131	131	0.268
132	132	0.0469
133	133	0.182
134	134	0.684
135	135	0.251
136	136	0.099
137	137	0.169
138	138	0.907
139	139	0.15
14	14	0.38
140	140	0.0343
141	141	0.155
142	142	0.0901
143	143	0.186
144	144	0.396
145	145	0.474
146	146	0.96
147	147	0.727
148	148	0.25
149	149	0.64
15	15	0.61
150	150	0.312
151	151	0.912
152	152	0.0186
153	153	0.0546
154	154	0.342
155	155	0.502
156	156	0.0175
157	157	0.187
158	158	0.0491
159	159	0.0512
160	160	0.346
161	161	0.851
162	162	0.693
163	163	0.302
164	164	7.58218e-5
165	165	0.509
166	166	0.623
167	167	0.193
168	168	0.544
169	169	0.255
17	17	0.851
18	18	0.468
19	19	0.586
2	2	0.143
20	20	0.681
21	21	0.536
22	22	0.137
23	23	0.0499
24	24	0.636
25	25	0.517
26	26	0.257
27	27	0.533
28	28	0.241
29	29	0.883
3	3	0.787
30	30	0.482
31	31	0.402
32	32	0.293
33	33	0.783
34	34	0.0673
35	35	0.815
36	36	0.983
37	37	0.527
38	38	0.633
39	39	0.318
4	4	0.88
40	40	0.273
41	41	0.822
42	42	0.897
43	43	0.703
44	44	0.259
45	45	0.453
46	46	0.109
47	47	0.961
48	48	0.676
49	49	0.0901
5	5	0.119
50	50	0.21
51	51	0.252
52	52	0.225
53	53	0.719
54	54	0.342
55	55	0.409
56	56	0.468
57	57	0.27
58	58	0.0686
59	59	0.0831
6	6	0.968
60	60	0.245
61	61	0.619
62	62	0.304
63	63	0.0618
64	64	0.093
65	65	0.021
66	66	0.188
67	67	0.693
68	68	0.727
69	69	0.592
7	7	0.0611
70	70	0.568
71	71	0.487
72	72	0.451
73	73	0.0253
74	74	0.112
75	75	0.407
76	76	0.0645
77	77	0.0561
78	78	5.3338e-4
79	79	0.826
8	8	0.307
80	80	0.562
81	81	0.898
82	82	0.39
83	83	0.888
84	84	0.227
85	85	0.0499
86	86	0.732
87	87	3.6079e-4
88	88	0.28
89	89	0.671
9	9	0.623
90	90	0.903
91	91	0.828
92	92	0.399
93	93	0.0322
94	94	0.177
95	95	0.00139
96	96	0.338
97	97	0.824
98	98	0.0752
99	99	0.158

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: CNhs12076

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000196 mouse astrocyte of cerebellum 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)
0002319 (neural cell)
0000095 (neuron associated cell)
0000243 (glial cell (sensu Vertebrata))
0000128 (oligodendrocyte)
0000126 (macroglial cell)
0000125 (glial cell)
0000255 (eukaryotic cell)
0000127 (astrocyte)
0002603 (astrocyte of the cerebellum)

UBERON: Anatomy
0000468 (multi-cellular organism)
0000955 (brain)
0002037 (cerebellum)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0010314 (structure with developmental contribution from neural crest)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000063 (organ segment)
0000481 (multi-tissue structure)
0000073 (regional part of nervous system)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002680 (regional part of metencephalon)
0002616 (regional part of brain)
0004733 (segmental subdivision of hindbrain)
0004732 (segmental subdivision of nervous system)
0010317 (germ layer / neural crest derived structure)
0001017 (central nervous system)
0001016 (nervous system)
0001895 (metencephalon)
0002028 (hindbrain)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000105 (mouse astrocyte sample)
0000196 (mouse astrocyte of cerebellum 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:0000339 (glioblast (sensu Vertebrata))
CL:0000221 (ectodermal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008697
+|DRA_sample_Accession=CAGE@SAMD00005740
-|accession_numbers=CAGE;DRX008807;DRR009679;DRZ001104;DRZ002489
+|accession_numbers=CAGE;DRX008807;DRR009679;DRZ001104;DRZ002489;DRZ012454;DRZ013839
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000955,UBERON:0002037,UBERON:0004121,UBERON:0000064,UBERON:0010314,UBERON:0011216,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000063,UBERON:0000481,UBERON:0000073,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0002680,UBERON:0002616,UBERON:0004733,UBERON:0004732,UBERON:0010317,UBERON:0001017,UBERON:0001016,UBERON:0001895,UBERON:0002028
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0002371,CL:0002319,CL:0000095,CL:0000243,CL:0000128,CL:0000126,CL:0000125,CL:0000255,CL:0000127,CL:0002603
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr16:91270004..91270023,+!p1@Olig1!2.53!386.56!Olig1;;chr11:116196664..116196679,-!p1@Foxj1!2.19!229.58!Foxj1;;chrX:90531838..90531861,+!p1@Arx!2.12!163.74!Arx;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!2.08!150.22!Pou3f3;;chr5:138199361..138199441,+!p2@Tsc22d4!2.01!186.85!Tsc22d4;;chr2:38206744..38206766,+!p1@Lhx2!1.99!115.34!Lhx2;;chr10:86956396..86956411,-!p1@Ascl1!1.95!132.56!Ascl1;;chr3:34548909..34548927,+!p1@Sox2!1.80!103.34!Sox2;;chr16:91225808..91225824,+!p1@Olig2!1.75!55.38!Olig2;;chr2:146047829..146047847,+!p1@Insm1!1.70!87.21!Insm1;;chr8:12395603..12395621,+!p1@Sox1!1.69!47.75!Sox1;;chr7:25292141..25292158,+!p2@Zfp428!1.60!132.12!Zfp428;;chr16:91270091..91270143,+!p2@Olig1!1.56!35.10!Olig1;;chr2:71384802..71384815,-!p1@Dlx2!1.55!41.86!Dlx2;;chr4:154010409..154010466,-!p2@Prdm16!1.48!66.06!Prdm16;;chr12:54349410..54349461,+!p1@Npas3!1.48!35.32!Npas3;;chr2:38206580..38206600,+!p2@Lhx2!1.46!34.23!Lhx2;;chr14:118636214..118636235,-!p1@Sox21!1.45!32.27!Sox21;;chr3:34548946..34548972,+!p2@Sox2!1.41!27.47!Sox2;;chr11:21901608..21901634,-!p1@Otx1!1.39!23.55!Otx1;;chr16:15887371..15887385,+!p1@Cebpd!1.37!735.18!Cebpd;;chr17:25707623..25707639,-!p1@Sox8!1.36!92.01!Sox8;;chr2:71384458..71384526,-!p2@Dlx2!1.36!22.02!Dlx2;;chr10:84218800..84218829,+!p2@Rfx4!1.33!20.28!Rfx4;;chr7:25292160..25292213,+!p3@Zfp428!1.26!42.08!Zfp428;;chr3:34549096..34549111,+!p3@Sox2!1.25!16.79!Sox2;;chrX:55284180..55284195,+!p2@Zic3!1.22!15.70!Zic3;;chrX:108009761..108009788,+!p1@Pou3f4!1.22!15.48!Pou3f4;;chr8:87297280..87297326,-!p2@Nfix!1.21!35.32!Nfix;;chr10:42303385..42303401,-!p1@Nr2e1!1.20!14.83!Nr2e1;;chr14:118636238..118636257,-!p2@Sox21!1.19!14.61!Sox21;;chr9:106356278..106356292,+!p3@Pcbp4!1.16!23.11!Pcbp4;;chr19:59533221..59533271,+!p1@Emx2!1.15!16.35!Emx2;;chr4:135699731..135699747,+!p1@Id3!1.11!1329.08!Id3;;chr4:109650609..109650653,+!p1@Dmrta2!1.11!11.99!Dmrta2;;chr9:106356243..106356264,+!p2@Pcbp4!1.09!49.27!Pcbp4;;chr7:91558392..91558434,-!p1@Arnt2!1.09!31.40!Arnt2;;chr17:86020115..86020128,+!p2@Six3!1.05!10.25!Six3;;chr4:154335024..154335039,+!p1@Hes5!1.04!11.99!Hes5;;chr8:87238155..87238187,-!p13@Nfix!1.03!9.81!Nfix;;chr1:42752654..42752665,+!p@chr1:42752654..42752665,+!1.03!9.59!Pou3f3;;chr9:106356265..106356276,+!p4@Pcbp4!1.01!15.48!Pcbp4;;chr5:75471615..75471622,+!p1@Gsx2!1.01!9.16!Gsx2;;chr7:17647736..17647772,-!p1@Hif3a!1.00!32.49!Hif3a;;chr4:154010228..154010244,-!p4@Prdm16!1.00!12.43!Prdm16;;chr8:87297330..87297365,-!p5@Nfix!1.00!8.94!Nfix;;chr13:48356475..48356492,+!p1@Id4!0.99!195.13!Id4;;chr19:19185671..19185693,-!p1@Rorb!0.98!20.93!Rorb;;chr17:86020510..86020589,+!p3@Six3!0.98!8.50!Six3;;chr14:118635860..118635885,-!p3@Sox21!0.97!8.28!Sox21;;chr4:22415443..22415506,-!p1@Pou3f2!0.97!8.28!Pou3f2;;chr3:34549144..34549155,+!p5@Sox2!0.96!8.07!Sox2;;chr12:50483639..50483654,+!p1@Foxg1!0.96!8.07!Foxg1;;chr11:60023912..60023930,-!p1@Srebf1!0.95!198.18!Srebf1;;chr6:72185210..72185228,-!p3@Atoh8!0.95!13.74!Atoh8;;chr15:103164702..103164778,-!p3@Zfp385a!0.95!9.38!Zfp385a;;chr10:84218895..84218909,+!p1@Rfx4!0.95!7.85!Rfx4;;chrX:58146612..58146615,-!p1@Sox3!0.95!7.85!Sox3;;chr8:12395892..12395919,+!p4@Sox1!0.94!7.63!Sox1;;chr14:122874619..122874634,+!p1@Zic2!0.92!7.41!Zic2;;chr16:91225654..91225671,+!p2@Olig2!0.92!7.41!Olig2;;chr2:71384401..71384424,-!p3@Dlx2!0.92!7.41!Dlx2;;chr8:12395500..12395511,+!p5@Sox1!0.91!7.19!Sox1;;chr17:86020468..86020504,+!p6@Six3!0.91!7.19!Six3;;chr7:119822957..119822980,+!p2@Tead1!0.90!35.10!Tead1;;chr5:148000254..148000260,+!p1@Gsx1!0.90!6.98!Gsx1;;chr9:106356211..106356242,+!p1@Pcbp4!0.89!137.79!Pcbp4;;chr2:71367142..71367167,+!p2@Dlx1!0.88!6.54!Dlx1;;chr6:72185232..72185272,-!p1@Atoh8!0.86!18.97!Atoh8;;chr14:52634234..52634281,-!p3@Zfp219!0.86!17.88!Zfp219;;chr2:71367871..71367898,+!p1@Dlx1!0.86!6.32!Dlx1;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.85!18.31!Tfcp2l1;;chr7:25292118..25292129,+!p8@Zfp428!0.84!7.19!Zfp428;;chr8:12395670..12395682,+!p3@Sox1!0.84!5.89!Sox1;;chrX:137077716..137077734,-!p1@Tsc22d3!0.83!44.26!Tsc22d3;;chr15:76287876..76287894,+!p1@Scx!0.83!33.36!Scx;;chr5:24108047..24108106,-!p3@Smarcd3!0.82!10.25!Smarcd3;;chr13:78339382..78339420,-!p3@Nr2f1!0.82!6.76!Nr2f1;;chr12:50485973..50486015,+!p2@Foxg1!0.82!5.67!Foxg1;;chr8:87297878..87297935,-!p3@Nfix!0.81!12.65!Nfix;;chr15:79178060..79178074,+!p2@Maff!0.81!7.41!Maff;;chr4:154010334..154010347,-!p8@Prdm16!0.81!6.54!Prdm16;;chr8:12395874..12395885,+!p2@Sox1!0.81!5.45!Sox1;;chr17:56970339..56970428,-!p1@Rfx2!0.80!17.88!Rfx2;;chr13:78339428..78339466,-!p2@Nr2f1!0.80!7.41!Nr2f1;;chr7:30092993..30093076,+!p1@Dpf1!0.79!9.38!Dpf1;;chr15:81633203..81633215,+!p3@Tef!0.79!8.50!Tef;;chr13:78339476..78339515,-!p1@Nr2f1!0.79!8.28!Nr2f1;;chr6:47998855..47998863,-!p5@Zfp777!0.79!5.89!Zfp777;;chr17:86020156..86020183,+!p1@Six3!0.79!5.23!Six3;;chr11:112643496..112643562,+!p1@Sox9!0.78!205.82!Sox9;;chr1:93309740..93309811,-!p1@Hes6!0.78!111.85!Hes6;;chr7:25292331..25292421,+!p1@Zfp428!0.78!38.81!Zfp428;;chr6:90412608..90412630,+!p2@Klf15!0.78!11.12!Klf15;;chr17:28487603..28487626,-!p2@Tead3!0.78!11.12!Tead3;;chr10:42303452..42303470,-!p2@Nr2e1!0.78!5.01!Nr2e1;;chr4:154010313..154010324,-!p9@Prdm16!0.78!5.01!Prdm16;;chr6:90412556..90412581,+!p3@Klf15!0.77!11.34!Klf15;;chr19:55816546..55816556,+!p3@Tcf7l2!0.76!19.84!Tcf7l2;;chr11:80196900..80196917,+!p3@Zfp207!0.76!17.01!Zfp207;;chr7:25292223..25292234,+!p7@Zfp428!0.76!6.10!Zfp428;;chr8:72356532..72356611,+!p1@Pbx4!0.75!20.71!Pbx4;;chr8:12395843..12395852,+!p7@Sox1!0.75!4.58!Sox1;;chr11:21901587..21901604,-!p2@Otx1!0.75!4.58!Otx1;;chr10:107769168..107769215,+!p1@Pawr!0.74!51.24!Pawr;;chr12:28027561..28027591,-!p1@Sox11!0.73!32.27!Sox11;;chr8:91568074..91568094,-!p1@Sall1!0.73!4.36!Sall1;;chr16:91269972..91269978,+!p3@Olig1!0.73!4.36!Olig1;;chr10:42303410..42303422,-!p3@Nr2e1!0.73!4.36!Nr2e1;;chr2:73110004..73110016,+!p2@Sp9!0.73!4.36!Sp9;;chr19:28754692..28754757,-!p1@Glis3!0.72!19.62!Glis3;;chr14:76814784..76814803,+!p7@Tsc22d1!0.72!8.50!Tsc22d1;;chr13:78338076..78338104,-!p4@Nr2f1!0.72!5.45!Nr2f1;;chr1:9690398..9690410,-!p2@Mybl1!0.72!5.23!Mybl1;;chr1:120949949..120950000,-!p1@Gli2!0.71!19.84!Gli2;;chr8:87298020..87298041,-!p9@Nfix!0.71!4.14!Nfix;;chr5:138199339..138199346,+!p18@Tsc22d4!0.71!4.14!Tsc22d4;;chr7:146768691..146768707,-!p1@Nkx6-2!0.71!4.14!Nkx6-2;;chr6:72185553..72185612,-!p2@Atoh8!0.70!8.28!Atoh8;;chr7:91558631..91558652,-!p3@Arnt2!0.69!6.10!Arnt2;;chr9:63869510..63869530,-!p10@Smad6!0.69!3.92!Smad6;;chr8:12395629..12395644,+!p6@Sox1!0.69!3.92!Sox1;;chr2:105515793..105515808,+!p3@Pax6!0.69!3.92!Pax6;;chr16:43508231..43508271,+!p21@Zbtb20!0.69!3.92!Zbtb20;;chrX:55283799..55283813,+!p1@Zic3!0.69!3.92!Zic3;;chr12:50483778..50483789,+!p6@Foxg1!0.69!3.92!Foxg1;;chr2:152561980..152561997,+!p1@Id1!0.67!123.62!Id1;;chr2:127347067..127347093,-!p1@Kcnip3!0.67!6.54!Kcnip3;;chr18:69753168..69753186,+!p12@Tcf4!0.67!5.23!Tcf4;;chr7:17062114..17062141,-!p1@Npas1!0.67!3.71!Npas1;;chr12:57636034..57636087,-!p1@Nkx2-1!0.67!3.71!Nkx2-1;;chr8:72356384..72356434,+!p2@Pbx4!0.65!5.67!Pbx4;;chr4:22415290..22415307,-!p2@Pou3f2!0.65!3.49!Pou3f2;;chr2:71366660..71366702,+!p3@Dlx1!0.65!3.49!Dlx1;;chr7:52071956..52071978,-!p1@Atf5!0.64!128.42!Atf5;;chr19:5424822..5424845,-!p3@Drap1!0.63!14.83!Drap1;;chr7:25292076..25292114,+!p4@Zfp428!0.63!10.25!Zfp428;;chr4:149611832..149611846,+!p3@LOC100045967,p3@LOC100503183,p4@Eno1,p4@Gm5506!0.63!3.27!Eno1;;chr2:71384193..71384205,-!p5@Dlx2!0.63!3.27!Dlx2;;chr6:90412582..90412601,+!p1@Klf15!0.62!17.66!Klf15;;chr16:43363190..43363242,+!p2@Zbtb20!0.61!10.90!Zbtb20;;chr18:69681228..69681237,+!p44@Tcf4!0.61!3.05!Tcf4;;chr2:71384425..71384456,-!p4@Dlx2!0.61!3.05!Dlx2;;chr8:87324243..87324277,-!p1@Nfix!0.60!87.65!Nfix;;chr11:96690797..96690813,-!p1@Nfe2l1!0.60!69.99!Nfe2l1;;chr7:52960555..52960662,+!p1@Dbp!0.60!30.31!Dbp;;chr3:8666963..8666978,-!p1@Hey1!0.60!22.89!Hey1;;chr19:5423800..5423821,-!p5@Drap1!0.60!4.80!Drap1;;chr3:8667033..8667046,-!p3@Hey1!0.60!4.36!Hey1;;chr8:28087609..28087634,+!p1@Zfp703!0.59!79.58!Zfp703;;chr15:81977766..81977789,+!p3@Srebf2!0.59!21.58!Srebf2;;chr6:145814003..145814056,-!p1@Bhlhe41!0.59!9.59!Bhlhe41;;chr14:49287186..49287225,-!p1@Otx2!0.58!2.83!Otx2;;chr2:73109983..73109996,+!p1@Sp9!0.58!2.83!Sp9;;chr2:115891534..115891589,-!p1@Meis2!0.57!47.75!Meis2;;chr5:125538737..125538781,-!p2@Ncor2!0.57!11.56!Ncor2;;chr7:52960700..52960719,+!p2@Dbp!0.57!3.49!Dbp;;chr16:22439681..22439698,-!p1@Etv5!0.56!57.56!Etv5;;chr17:34784132..34784161,+!p1@Atf6b!0.56!18.53!Atf6b;;chr18:69681575..69681579,+!p41@Tcf4!0.56!2.62!Tcf4;;chr18:81183755..81183761,-!p1@Sall3!0.56!2.62!Sall3;;chr9:91260616..91260653,-!p2@Zic1!0.56!2.62!Zic1;;chr7:52960663..52960677,+!p6@Dbp!0.56!2.62!Dbp;;chr2:105515635..105515661,+!p5@Pax6!0.56!2.62!Pax6;;chr4:97248473..97248496,+!p16@Nfia!0.56!2.62!Nfia;;chr4:154010918..154010931,-!p1@Prdm16!0.55!8.94!Prdm16;;chr8:87324171..87324182,-!p6@Nfix!0.55!5.01!Nfix;;chr7:52963269..52963305,+!p4@Dbp!0.55!3.92!Dbp;;chr11:95528303..95528319,+!p1@1700071K01Rik,p1@Phb!0.54!42.08!Phb;;chr15:75447162..75447217,+!p2@Zfp41!0.54!8.72!Zfp41;;chr7:119822915..119822936,+!p5@Tead1!0.54!4.58!Tead1;;chr7:123174606..123174636,-!p5@Sox6!0.53!3.27!Sox6;;chr6:128250380..128250442,-!p2@Tead4!0.53!3.27!Tead4;;chr19:19185697..19185711,-!p2@Rorb!0.53!3.27!Rorb;;chr14:118636183..118636192,-!p4@Sox21!0.53!2.40!Sox21;;chr2:38194778..38194798,+!p3@Lhx2!0.53!2.40!Lhx2;;chr2:172375081..172375105,+!p1@Tfap2c!0.53!2.40!Tfap2c;;chr3:34548845..34548856,+!p4@Sox2!0.53!2.40!Sox2;;chrX:108009734..108009752,+!p2@Pou3f4!0.53!2.40!Pou3f4;;chr14:76814883..76814898,+!p9@Tsc22d1!0.52!5.45!Tsc22d1;;chr15:79178013..79178028,+!p3@Maff!0.52!3.27!Maff;;chr15:81575487..81575561,+!p1@Zc3h7b!0.51!63.88!Zc3h7b;;chr3:94819136..94819168,-!p2@Zfp687!0.51!13.95!Zfp687;;chr10:107769750..107769799,+!p2@Pawr!0.51!5.67!Pawr;;chr6:72185179..72185196,-!p4@Atoh8!0.51!3.27!Atoh8;;chr7:133839456..133839523,+!p1@Bola2!0.50!143.46!Bola2;;chr7:71083876..71083932,-!p2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4;;chr17:26978409..26978442,-!p1@Nkx2-5!0.09!0.22!Nkx2-5;;chr19:25684746..25684751,+!p2@Dmrt3!0.09!0.22!Dmrt3;;chr19:25685023..25685043,+!p1@Dmrt3!0.09!0.22!Dmrt3;;chr17:86020357..86020366,+!p11@Six3!0.09!0.22!Six3;;chr11:120494983..120494990,-!p13@Mafg!0.09!0.22!Mafg;;chr10:67599527..67599530,-!p9@Arid5b!0.09!0.22!Arid5b;;chr10:75384163..75384185,-!p3@Smarcb1!0.09!0.22!Smarcb1;;chr10:119913266..119913277,-!p6@Hmga2!0.09!0.22!Hmga2;;chr11:23978270..23978290,+!p9@Bcl11a!0.09!0.22!Bcl11a;;chr11:83664334..83664353,+!p2@Hnf1b!0.09!0.22!Hnf1b;;chr11:100721640..100721658,+!p2@Stat5a!0.09!0.22!Stat5a;;chr11:100721584..100721587,+!p8@Stat5a!0.09!0.22!Stat5a;;chr10:126778639..126778670,-!p3@Gli1!0.09!0.22!Gli1;;chr10:12844757..12844771,+!p2@Plagl1!0.09!0.22!Plagl1;;chr11:100720806..100720820,+!p6@Stat5a!0.09!0.22!Stat5a;;chr10:13686012..13686028,+!p8@Hivep2!0.09!0.22!Hivep2;;chr11:52074095..52074127,-!p8@Tcf7!0.09!0.22!Tcf7;;chr11:98614697..98614707,+!p15@Thra!0.09!0.22!Thra;;chr11:98631631..98631667,-!p12@Nr1d1!0.09!0.22!Nr1d1;;chr11:52096732..52096741,-!p6@Tcf7!0.09!0.22!Tcf7;;chr11:52095821..52095836,-!p3@Tcf7!0.09!0.22!Tcf7;;chr4:135728473..135728494,+!p5@E2f2!0.09!0.22!E2f2;;chr4:122676078..122676090,+!p5@Mycl1!0.09!0.22!Mycl1;;chr4:119486980..119486993,+!p6@Hivep3!0.09!0.22!Hivep3;;chr4:148178459..148178482,+!p4@Casz1!0.09!0.22!Casz1;;chr4:89354729..89354776,+!p1@Dmrta1!0.09!0.22!Dmrta1;;chr5:104182999..104183006,+!p18@Aff1!0.09!0.22!Aff1;;chr4:135728311..135728342,+!p3@E2f2!0.09!0.22!E2f2;;chr4:61869757..61869771,-!p6@Zfp37!0.09!0.22!Zfp37;;chr4:119960275..119960288,-!p2@Foxo6!0.09!0.22!Foxo6;;chr2:75543161..75543173,-!p5@Nfe2l2!0.09!0.22!Nfe2l2;;chr3:58219238..58219246,+!p3@Tsc22d2!0.09!0.22!Tsc22d2;;chr4:97248389..97248402,+!p21@Nfia!0.09!0.22!Nfia;;chr3:66785201..66785226,-!p3@Shox2!0.09!0.22!Shox2;;chr4:82145196..82145229,-!p7@Nfib!0.09!0.22!Nfib;;chr2:75543089..75543122,-!p3@Nfe2l2!0.09!0.22!Nfe2l2;;chr2:71367605..71367621,+!p9@Dlx1!0.09!0.22!Dlx1;;chr4:48061898..48061935,+!p8@Nr4a3!0.09!0.22!Nr4a3;;chr1:191993385..191993405,-!p3@Prox1!0.09!0.22!Prox1;;chr2:166888364..166888373,-!p10@Znfx1!0.09!0.22!Znfx1;;chr2:151907110..151907126,+!p6@Scrt2!0.09!0.22!Scrt2;;chr1:168168856..168168893,-!p1@Mael!0.09!0.22!Mael;;chr2:115890864..115890869,-!p14@Meis2!0.09!0.22!Meis2;;chr2:163028876..163028885,+!p7@Tox2!0.09!0.22!Tox2;;chr1:179374764..179374776,+!p5@Zfp238!0.09!0.22!Zfp238;;chr2:156665551..156665562,+!p6@Tgif2!0.09!0.22!Tgif2;;chr1:179374862..179374873,+!p6@Zfp238!0.09!0.22!Zfp238;;chr2:156665889..156665900,+!p8@Tgif2!0.09!0.22!Tgif2;;chr1:169619239..169619257,+!p4@Lmx1a!0.09!0.22!Lmx1a;;chr2:156665757..156665768,+!p7@Tgif2!0.09!0.22!Tgif2;;chr1:165243978..165243992,-!p9@Prrx1!0.09!0.22!Prrx1;;chr2:105515863..105515873,+!p8@Pax6!0.09!0.22!Pax6;;chr2:168032254..168032259,-!p6@Adnp!0.09!0.22!Adnp;;chr19:55970072..55970081,+!p38@Tcf7l2!0.09!0.22!Tcf7l2;;chr1:69732797..69732812,-!p5@Ikzf2!0.09!0.22!Ikzf2;;chr2:172376261..172376267,+!p4@Tfap2c!0.09!0.22!Tfap2c;;chr2:172375136..172375149,+!p2@Tfap2c!0.09!0.22!Tfap2c;;chr2:35959541..35959548,-!p2@Lhx6!0.09!0.22!Lhx6;;chr2:32229906..32229942,+!p3@Ciz1!0.09!0.22!Ciz1;;chr1:39777805..39777820,-!p2@Rfx8!0.09!0.22!Rfx8;;chr19:55969980..55969987,+!p37@Tcf7l2!0.09!0.22!Tcf7l2;;chr2:103123925..103123959,-!p3@Ehf!0.09!0.22!Ehf;;chr1:122498955..122498968,+!p1@En1!0.09!0.22!En1;;chr2:105003138..105003155,+!p13@Wt1!0.09!0.22!Wt1;;chr2:181501822..181501834,+!p8@Myt1!0.09!0.22!Myt1;;chr2:181501745..181501778,+!p1@Myt1!0.09!0.22!Myt1;;chr19:55972767..55972779,+!p20@Tcf7l2!0.09!0.22!Tcf7l2;;chr19:55969998..55970001,+!p40@Tcf7l2!0.09!0.22!Tcf7l2;;chr19:55970060..55970071,+!p25@Tcf7l2!0.09!0.22!Tcf7l2;;chr7:123177325..123177336,-!p13@Sox6!0.09!0.22!Sox6;;
@@ Line 44: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs12076
+|library_id_phase_based=2:CNhs12076
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11550
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11550
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Astrocytes%2520-%2520cerebellar%252c%2520donor2.CNhs12076.11550-120C2.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Astrocytes%2520-%2520cerebellar%252c%2520donor2.CNhs12076.11550-120C2.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Astrocytes%2520-%2520cerebellar%252c%2520donor2.CNhs12076.11550-120C2.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Astrocytes%2520-%2520cerebellar%252c%2520donor2.CNhs12076.11550-120C2.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Astrocytes%2520-%2520cerebellar%252c%2520donor2.CNhs12076.11550-120C2.mm9.nobarcode.rdna.fa.gz
 |name=Mouse Astrocytes - cerebellar, donor2
 |namespace=FANTOM5
@@ Line 49: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12076,LSID838,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.665379545832205,0,0,0,0,-0.0843392403965415,0,0,0,0,0.0428281290270777,0,-0.106237092828419,0,0,0,0,0,0,0,0,0,0,0,0,0.296761981962685,-0.558422792324031,0,0,0,0,0,-0.209322725495826,0.0172977384389175,-0.106637877491558,-0.664038944126416,0.0933955674784984,0.0856562580541553,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0.088511413542649,0,0,-0.0380188235580625,-0.159614291670102,-0.224994399285231,-0.158091042771083,-0.140687683267293,0,-0.0780086007519514,-0.0612855901738583,0,0,0,-0.00077471297622622,-0.162468869338246,0.471648144681463,-0.0788315948399074,0,0,0,0,0,0,0.0258858571018475,-0.149226237505453,-0.0512476813655917,0,0,0.0856562580541553,0.2404418208578,0
@@ Line 86: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11550-120C2;search_select_hide=table117:11550-120C2
 }}

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FF:11550-120C2: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:08, 4 June 2020

CNhs12076

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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