FF:11639-122D1: Difference between revisions

Latest revision as of 18:13, 4 June 2020

Name:	Mouse Meningeal cells, donor3
Species:	Mouse (Mus musculus)
Library ID:	CNhs12109
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

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

RNA information

lot number	RNAM5771
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		SAMD00004728

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12109		CAGE		DRX008824		DRR009696

Accession ID Mm9

Library id		BAM		CTSS
CNhs12109		DRZ001121		DRZ002506

Accession ID Mm10

Library id		BAM		CTSS
CNhs12109		DRZ012471		DRZ013856

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

CNhs12109

0	0
1	0
10	0
100	0
1000	0
1001	-0.0749
1002	0.157
1003	0.101
1004	0
1005	0
1006	-0.143
1007	-0.228
1008	0
1009	-0.0572
101	-0.475
1010	0
1011	-0.3
1012	0
1013	0.0596
1014	-0.0851
1015	0.114
1016	0.265
1017	0
1018	0
1019	0
102	0
1020	0.444
1021	0.444
1022	-0.124
1023	0
1024	-0.307
1025	-0.0233
1026	0
1027	-0.048
1028	0
1029	-0.176
103	0.444
1030	0
1031	1.094
1032	-0.177
1033	-0.0665
1034	0
1035	0
1036	-0.183
1037	0
1038	-0.0779
1039	-0.072
104	0
1040	0.513
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: CNhs12109

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0221
MA0003.1	MA0003.1	0.277
MA0004.1	MA0004.1	0.289
MA0006.1	MA0006.1	0.45
MA0007.1	MA0007.1	0.113
MA0009.1	MA0009.1	0.586
MA0014.1	MA0014.1	0.453
MA0017.1	MA0017.1	0.781
MA0018.2	MA0018.2	0.00341
MA0019.1	MA0019.1	0.643
MA0024.1	MA0024.1	0.00334
MA0025.1	MA0025.1	0.188
MA0027.1	MA0027.1	0.742
MA0028.1	MA0028.1	0.0689
MA0029.1	MA0029.1	0.673
MA0030.1	MA0030.1	0.253
MA0031.1	MA0031.1	0.667
MA0035.2	MA0035.2	0.301
MA0038.1	MA0038.1	0.0102
MA0039.2	MA0039.2	0.342
MA0040.1	MA0040.1	0.385
MA0041.1	MA0041.1	0.296
MA0042.1	MA0042.1	0.681
MA0043.1	MA0043.1	0.0144
MA0046.1	MA0046.1	6.44568e-5
MA0047.2	MA0047.2	0.193
MA0048.1	MA0048.1	0.261
MA0050.1	MA0050.1	0.365
MA0051.1	MA0051.1	0.873
MA0052.1	MA0052.1	0.0308
MA0055.1	MA0055.1	0.0927
MA0057.1	MA0057.1	0.142
MA0058.1	MA0058.1	0.216
MA0059.1	MA0059.1	0.164
MA0060.1	MA0060.1	0.0124
MA0061.1	MA0061.1	0.141
MA0062.2	MA0062.2	7.4938e-4
MA0065.2	MA0065.2	0.312
MA0066.1	MA0066.1	0.0676
MA0067.1	MA0067.1	0.284
MA0068.1	MA0068.1	0.816
MA0069.1	MA0069.1	0.7
MA0070.1	MA0070.1	0.824
MA0071.1	MA0071.1	0.552
MA0072.1	MA0072.1	0.147
MA0073.1	MA0073.1	0.689
MA0074.1	MA0074.1	0.0875
MA0076.1	MA0076.1	0.00456
MA0077.1	MA0077.1	0.0337
MA0078.1	MA0078.1	0.165
MA0079.2	MA0079.2	0.474
MA0080.2	MA0080.2	0.00453
MA0081.1	MA0081.1	0.112
MA0083.1	MA0083.1	0.00561
MA0084.1	MA0084.1	0.747
MA0087.1	MA0087.1	0.617
MA0088.1	MA0088.1	0.464
MA0090.1	MA0090.1	0.00146
MA0091.1	MA0091.1	0.744
MA0092.1	MA0092.1	0.0168
MA0093.1	MA0093.1	0.353
MA0099.2	MA0099.2	3.22535e-6
MA0100.1	MA0100.1	0.561
MA0101.1	MA0101.1	0.44
MA0102.2	MA0102.2	0.0378
MA0103.1	MA0103.1	0.0947
MA0104.2	MA0104.2	0.808
MA0105.1	MA0105.1	0.0619
MA0106.1	MA0106.1	0.00236
MA0107.1	MA0107.1	0.88
MA0108.2	MA0108.2	0.587
MA0111.1	MA0111.1	0.567
MA0112.2	MA0112.2	0.00439
MA0113.1	MA0113.1	0.324
MA0114.1	MA0114.1	0.798
MA0115.1	MA0115.1	0.619
MA0116.1	MA0116.1	0.0147
MA0117.1	MA0117.1	0.345
MA0119.1	MA0119.1	0.0861
MA0122.1	MA0122.1	0.809
MA0124.1	MA0124.1	0.285
MA0125.1	MA0125.1	0.257
MA0131.1	MA0131.1	0.225
MA0135.1	MA0135.1	0.92
MA0136.1	MA0136.1	0.00709
MA0137.2	MA0137.2	0.524
MA0138.2	MA0138.2	0.0389
MA0139.1	MA0139.1	0.228
MA0140.1	MA0140.1	0.0271
MA0141.1	MA0141.1	0.105
MA0142.1	MA0142.1	0.811
MA0143.1	MA0143.1	0.603
MA0144.1	MA0144.1	0.777
MA0145.1	MA0145.1	0.0516
MA0146.1	MA0146.1	0.0103
MA0147.1	MA0147.1	0.742
MA0148.1	MA0148.1	0.144
MA0149.1	MA0149.1	0.181
MA0150.1	MA0150.1	0.498
MA0152.1	MA0152.1	0.235
MA0153.1	MA0153.1	0.00644
MA0154.1	MA0154.1	0.0886
MA0155.1	MA0155.1	0.273
MA0156.1	MA0156.1	3.23238e-5
MA0157.1	MA0157.1	0.757
MA0159.1	MA0159.1	0.221
MA0160.1	MA0160.1	0.303
MA0162.1	MA0162.1	0.126
MA0163.1	MA0163.1	0.00397
MA0164.1	MA0164.1	0.918
MA0258.1	MA0258.1	0.0136
MA0259.1	MA0259.1	0.817

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: CNhs12109

Novel motif	Logo	P-value
1	1	0.284
10	10	0.309
100	100	0.927
101	101	0.982
102	102	0.417
103	103	0.259
104	104	0.982
105	105	0.59
106	106	0.00924
107	107	0.426
108	108	0.497
109	109	0.00376
11	11	0.0187
110	110	0.303
111	111	0.535
112	112	0.201
113	113	0.774
114	114	0.234
115	115	0.834
116	116	0.0164
117	117	0.373
118	118	0.629
119	119	0.0127
12	12	0.77
120	120	0.871
121	121	0.664
122	122	0.201
123	123	0.634
124	124	0.195
125	125	0.169
126	126	0.78
127	127	0.0858
128	128	0.0798
129	129	0.53
13	13	0.337
130	130	0.288
131	131	0.266
132	132	0.244
133	133	0.905
134	134	0.429
135	135	0.474
136	136	0.492
137	137	0.454
138	138	0.323
139	139	0.535
14	14	0.872
140	140	0.963
141	141	0.392
142	142	0.399
143	143	0.0169
144	144	0.473
145	145	0.0248
146	146	0.93
147	147	0.404
148	148	0.627
149	149	0.029
15	15	0.631
150	150	0.193
151	151	0.704
152	152	0.0431
153	153	0.333
154	154	0.423
155	155	0.177
156	156	0.0534
157	157	0.258
158	158	0.356
159	159	0.262
160	160	0.382
161	161	0.168
162	162	0.291
163	163	0.432
164	164	0.836
165	165	0.907
166	166	0.324
167	167	0.103
168	168	0.545
169	169	0.0403
17	17	0.188
18	18	0.103
19	19	0.0965
2	2	0.19
20	20	0.853
21	21	0.132
22	22	0.0339
23	23	0.0619
24	24	0.0564
25	25	0.357
26	26	0.0709
27	27	0.581
28	28	0.945
29	29	0.261
3	3	0.19
30	30	0.338
31	31	0.479
32	32	0.0613
33	33	0.734
34	34	0.156
35	35	0.903
36	36	0.546
37	37	0.0531
38	38	0.178
39	39	0.272
4	4	0.174
40	40	0.18
41	41	0.52
42	42	0.189
43	43	0.073
44	44	0.04
45	45	0.388
46	46	0.0822
47	47	0.0489
48	48	0.398
49	49	0.263
5	5	0.909
50	50	0.158
51	51	0.997
52	52	0.103
53	53	0.989
54	54	0.647
55	55	0.201
56	56	0.302
57	57	0.162
58	58	0.76
59	59	0.014
6	6	0.771
60	60	0.072
61	61	0.973
62	62	0.453
63	63	0.0835
64	64	0.162
65	65	0.0154
66	66	0.307
67	67	0.766
68	68	0.942
69	69	0.14
7	7	0.927
70	70	0.0388
71	71	0.151
72	72	0.636
73	73	0.016
74	74	0.883
75	75	0.176
76	76	0.929
77	77	0.00931
78	78	0.329
79	79	0.698
8	8	0.109
80	80	0.574
81	81	0.111
82	82	0.398
83	83	0.537
84	84	0.708
85	85	0.0111
86	86	0.642
87	87	0.025
88	88	0.512
89	89	0.866
9	9	0.694
90	90	0.671
91	91	0.051
92	92	0.18
93	93	0.806
94	94	0.95
95	95	0.0159
96	96	0.672
97	97	0.388
98	98	0.143
99	99	0.439

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: CNhs12109

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000111 mouse leptomeningeal 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)
0000151 (secretory cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000499 (stromal cell)
0000327 (extracellular matrix secreting cell)
0000255 (eukaryotic cell)
0000708 (leptomeningeal cell)

UBERON: Anatomy
0002384 (connective tissue)
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)
0000119 (cell layer)
0003210 (blood-cerebrospinal fluid barrier)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000111 (mouse leptomeningeal 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:0000134 (mesenchymal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00004728
+|accession_numbers=CAGE;DRX008824;DRR009696;DRZ001121;DRZ002506;DRZ012471;DRZ013856
 |ancestors_in_anatomy_facet=UBERON:0002384,UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062,UBERON:0000119,UBERON:0003210
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000151,CL:0002320,CL:0002371,CL:0000499,CL:0000327,CL:0000255,CL:0000708
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr13:99124189..99124205,+!p1@Foxd1!2.37!346.82!Foxd1;;chr14:122874619..122874634,+!p1@Zic2!2.15!139.62!Zic2;;chr8:123640063..123640077,+!p1@Foxc2!1.71!88.04!Foxc2;;chr12:74147689..74147711,-!p1@Six1!1.70!104.94!Six1;;chr12:34642510..34642530,+!p1@Twist1!1.69!146.73!Twist1;;chr2:173044380..173044432,-!p1@Zbp1!1.62!95.15!Zbp1;;chr2:30700881..30700916,+!p1@Prrx2!1.57!66.70!Prrx2;;chr9:91260594..91260612,-!p1@Zic1!1.55!34.68!Zic1;;chr13:31898637..31898653,+!p2@Foxc1!1.48!51.58!Foxc1;;chr5:38215819..38215823,-!p1@Msx1!1.47!72.03!Msx1;;chr12:9581262..9581282,+!p1@Osr1!1.46!321.04!Osr1;;chr17:86087592..86087615,-!p1@Six2!1.46!27.57!Six2;;chr13:31898767..31898785,+!p4@Foxc1!1.44!32.01!Foxc1;;chr9:91260616..91260653,-!p2@Zic1!1.38!23.12!Zic1;;chr3:99057269..99057306,+!p1@Tbx15!1.33!24.90!Tbx15;;chr13:31898729..31898761,+!p1@Foxc1!1.32!48.02!Foxc1;;chr11:5761889..5761969,+!p1@Aebp1!1.30!765.68!Aebp1;;chr13:53568104..53568156,-!p1@Msx2!1.28!26.68!Msx2;;chr16:91270004..91270023,+!p1@Olig1!1.28!20.45!Olig1;;chr2:30700857..30700873,+!p3@Prrx2!1.25!23.12!Prrx2;;chr2:167363692..167363710,+!p1@Snai1!1.24!196.53!Snai1;;chr13:99124236..99124243,+!p2@Foxd1!1.21!15.12!Foxd1;;chr16:15887371..15887385,+!p1@Cebpd!1.18!476.66!Cebpd;;chr2:173044357..173044377,-!p2@Zbp1!1.18!20.45!Zbp1;;chr8:123640090..123640101,+!p2@Foxc2!1.18!16.01!Foxc2;;chr4:135699731..135699747,+!p1@Id3!1.15!1450.44!Id3;;chr11:5761979..5761992,+!p2@Aebp1!1.15!26.68!Aebp1;;chr1:165243379..165243402,-!p3@Prrx1!1.15!19.56!Prrx1;;chr12:34642682..34642753,+!p2@Twist1!1.14!33.79!Twist1;;chr10:119913278..119913298,-!p2@Hmga2!1.12!27.57!Hmga2;;chr14:122874718..122874729,+!p3@Zic2!1.10!11.56!Zic2;;chr12:86814833..86814846,+!p1@Fos!1.07!252.56!Fos;;chr14:122874593..122874610,+!p2@Zic2!1.07!10.67!Zic2;;chr7:148452314..148452329,-!p1@Irf7!1.06!73.81!Irf7;;chr9:87626083..87626108,-!p1@Tbx18!1.06!23.12!Tbx18;;chr12:9581284..9581303,+!p2@Osr1!1.06!20.45!Osr1;;chr13:31898496..31898519,+!p3@Foxc1!1.06!16.90!Foxc1;;chr7:134169741..134169760,-!p10@Maz!1.05!31.13!Maz;;chr2:91864300..91864379,-!p2@Creb3l1!1.04!29.35!Creb3l1;;chr1:165243591..165243625,-!p2@Prrx1!1.03!15.12!Prrx1;;chr12:74147842..74147856,-!p3@Six1!1.03!9.78!Six1;;chr11:74981654..74981658,-!p1@Hic1!0.97!33.79!Hic1;;chr7:119822957..119822980,+!p2@Tead1!0.96!40.91!Tead1;;chr9:48644037..48644067,-!p2@Zbtb16!0.95!20.45!Zbtb16;;chr2:30700788..30700824,+!p2@Prrx2!0.95!12.45!Prrx2;;chr3:99057677..99057730,+!p2@Tbx15!0.95!8.00!Tbx15;;chr14:99697871..99697934,+!p1@Klf5!0.94!156.52!Klf5;;chr18:35020854..35020869,+!p1@Egr1!0.93!300.58!Egr1;;chrX:55284180..55284195,+!p2@Zic3!0.91!7.11!Zic3;;chr12:74147860..74147888,-!p2@Six1!0.91!7.11!Six1;;chr6:72185232..72185272,-!p1@Atoh8!0.90!20.45!Atoh8;;chr10:119913546..119913583,-!p3@Hmga2!0.90!15.12!Hmga2;;chr14:99698164..99698208,+!p2@Klf5!0.90!8.00!Klf5;;chr11:116196664..116196679,-!p1@Foxj1!0.89!10.67!Foxj1;;chr13:31898529..31898542,+!p5@Foxc1!0.88!8.00!Foxc1;;chr7:17647736..17647772,-!p1@Hif3a!0.87!24.01!Hif3a;;chr18:11052606..11052633,+!p4@Gata6!0.87!16.90!Gata6;;chr4:114581524..114581551,-!p1@Foxd2!0.87!9.78!Foxd2;;chr4:114581497..114581519,-!p2@Foxd2!0.86!6.23!Foxd2;;chr2:30701003..30701028,+!p6@Prrx2!0.86!6.23!Prrx2;;chr7:52071956..52071978,-!p1@Atf5!0.85!208.98!Atf5;;chr3:32264565..32264613,-!p1@Zmat3!0.85!71.14!Zmat3;;chr5:138199361..138199441,+!p2@Tsc22d4!0.84!11.56!Tsc22d4;;chr10:119913310..119913366,-!p1@Hmga2!0.83!48.02!Hmga2;;chr6:72185210..72185228,-!p3@Atoh8!0.82!9.78!Atoh8;;chr12:9581317..9581333,+!p3@Osr1!0.82!8.89!Osr1;;chr10:119913792..119913820,-!p5@Hmga2!0.81!9.78!Hmga2;;chr10:67375342..67375365,-!p3@Zfp365!0.80!5.34!Zfp365;;chr6:72185396..72185413,-!p6@Atoh8!0.80!5.34!Atoh8;;chr1:19199236..19199258,+!p1@Tfap2b!0.80!5.34!Tfap2b;;chr1:93698068..93698085,+!p2@Twist2!0.79!6.23!Twist2;;chr9:106356211..106356242,+!p1@Pcbp4!0.78!107.60!Pcbp4;;chr8:87502608..87502623,-!p1@Junb!0.78!88.93!Junb;;chr15:97738692..97738747,-!p1@Vdr!0.78!30.24!Vdr;;chr1:165243792..165243808,-!p1@Prrx1!0.77!18.68!Prrx1;;chr12:87027598..87027652,+!p1@Batf!0.76!11.56!Batf;;chr10:67375368..67375433,-!p1@Zfp365!0.76!8.89!Zfp365;;chr6:128250380..128250442,-!p2@Tead4!0.76!6.23!Tead4;;chr13:40829137..40829205,-!p1@Tfap2a!0.75!5.34!Tfap2a;;chr11:90250944..90250982,-!p2@Hlf!0.74!8.00!Hlf;;chr3:34548909..34548927,+!p1@Sox2!0.74!8.00!Sox2;;chr18:53623836..53623839,+!p1@Prdm6!0.74!5.34!Prdm6;;chr19:5447692..5447711,+!p2@Fosl1!0.74!4.45!Fosl1;;chr19:5447886..5447905,+!p1@Fosl1!0.74!4.45!Fosl1;;chr9:91263649..91263666,+!p3@Zic4!0.74!4.45!Zic4;;chr3:107398056..107398082,+!p1@Alx3!0.74!4.45!Alx3;;chr1:19199151..19199170,+!p3@Tfap2b!0.74!4.45!Tfap2b;;chr15:102076652..102076679,-!p4@Rarg!0.72!8.00!Rarg;;chr15:103170533..103170556,-!p1@Zfp385a!0.71!16.90!Zfp385a;;chr15:103170516..103170531,-!p2@Zfp385a!0.71!10.67!Zfp385a;;chr2:91864449..91864492,-!p3@Creb3l1!0.71!7.11!Creb3l1;;chrX:90531838..90531861,+!p1@Arx!0.71!5.34!Arx;;chr13:53076396..53076452,-!p1@Nfil3!0.70!81.82!Nfil3;;chr10:127707602..127707633,+!p1@Stat2!0.70!40.02!Stat2;;chr4:84320893..84320910,-!p1@Bnc2!0.70!9.78!Bnc2;;chr14:17407549..17407575,-!p3@Rarb!0.69!6.23!Rarb;;chr2:152561980..152561997,+!p1@Id1!0.68!126.28!Id1;;chr17:34784132..34784161,+!p1@Atf6b!0.68!24.90!Atf6b;;chr12:9581243..9581254,+!p4@Osr1!0.67!5.34!Osr1;;chr7:30088977..30089002,+!p2@Dpf1!0.67!5.34!Dpf1;;chr6:39068210..39068251,-!p1@Parp12!0.66!18.68!Parp12;;chr1:165243653..165243664,-!p4@Prrx1!0.66!5.34!Prrx1;;chr2:30700830..30700843,+!p4@Prrx2!0.66!3.56!Prrx2;;chr3:99044284..99044308,+!p4@Tbx15!0.66!3.56!Tbx15;;chr3:99057256..99057268,+!p3@Tbx15!0.66!3.56!Tbx15;;chr2:93482426..93482434,+!p3@Alx4!0.66!3.56!Alx4;;chr9:87625971..87625992,-!p2@Tbx18!0.66!3.56!Tbx18;;chr12:87027663..87027678,+!p2@Batf!0.66!3.56!Batf;;chr11:120624106..120624107,+!p13@Hmga1-rs1,p14@Hmga1!0.66!3.56!Hmga1;;chr10:119913266..119913277,-!p6@Hmga2!0.66!3.56!Hmga2;;chr5:138187341..138187406,+!p3@Tsc22d4!0.65!43.58!Tsc22d4;;chr14:56443698..56443726,+!p2@Nfatc4!0.65!7.11!Nfatc4;;chr7:77511234..77511302,-!p2@Nr2f2!0.64!25.79!Nr2f2;;chr11:5761871..5761882,+!p3@Aebp1!0.64!9.78!Aebp1;;chr9:106356243..106356264,+!p2@Pcbp4!0.62!16.01!Pcbp4;;chr15:81633203..81633215,+!p3@Tef!0.62!5.34!Tef;;chr7:91558392..91558434,-!p1@Arnt2!0.61!9.78!Arnt2;;chr6:39068181..39068206,-!p3@Parp12!0.61!7.11!Parp12;;chr6:39068163..39068176,-!p2@Parp12!0.60!6.23!Parp12;;chr15:102087737..102087801,-!p3@Rarg!0.60!5.34!Rarg;;chr19:46379199..46379301,+!p1@Nfkb2!0.59!19.56!Nfkb2;;chr14:17407970..17408015,-!p2@Rarb!0.59!8.89!Rarb;;chr6:72185553..72185612,-!p2@Atoh8!0.59!6.23!Atoh8;;chr14:56223387..56223401,+!p3@Irf9!0.59!3.56!Irf9;;chr13:78339382..78339420,-!p3@Nr2f1!0.59!3.56!Nr2f1;;chr2:91864661..91864686,-!p1@Creb3l1!0.58!74.70!Creb3l1;;chr19:5424822..5424845,-!p3@Drap1!0.58!13.34!Drap1;;chr11:120491440..120491474,-!p3@Mafg!0.58!4.45!Mafg;;chr4:84321300..84321315,-!p2@Bnc2!0.58!3.56!Bnc2;;chr11:96690797..96690813,-!p1@Nfe2l1!0.57!64.92!Nfe2l1;;chr11:53583544..53583559,+!p1@Irf1!0.57!56.03!Irf1;;chr1:120949949..120950000,-!p1@Gli2!0.57!14.23!Gli2;;chr16:8672256..8672279,-!p1@Carhsp1,p1@Gm9791!0.57!7.11!Carhsp1;;chr15:102087880..102087927,-!p2@Rarg!0.57!7.11!Rarg;;chr7:77511311..77511352,-!p4@Nr2f2!0.57!6.23!Nr2f2;;chr18:83079981..83080037,+!p6@Zfp516!0.57!5.34!Zfp516;;chrX:137077653..137077669,-!p3@Tsc22d3!0.56!14.23!Tsc22d3;;chr4:135700687..135700719,+!p2@Id3!0.56!4.45!Id3;;chr13:78339476..78339515,-!p1@Nr2f1!0.56!4.45!Nr2f1;;chr5:138187411..138187422,+!p8@Tsc22d4!0.56!4.45!Tsc22d4;;chr19:23215509..23215523,+!p4@Klf9!0.56!3.56!Klf9;;chr16:91225808..91225824,+!p1@Olig2!0.56!2.67!Olig2;;chr16:91270091..91270143,+!p2@Olig1!0.56!2.67!Olig1;;chr2:150514750..150514756,-!p1@Vsx1!0.56!2.67!Vsx1;;chr2:154395524..154395535,-!p5@E2f1!0.56!2.67!E2f1;;chr11:100553754..100553787,-!p1@Zfp385c!0.56!2.67!Zfp385c;;chr10:102491405..102491416,-!p1@Alx1!0.56!2.67!Alx1;;chr10:102491237..102491291,-!p2@Alx1!0.56!2.67!Alx1;;chr9:87625998..87626007,-!p4@Tbx18!0.56!2.67!Tbx18;;chr9:119893782..119893802,-!p1@Csrnp1!0.56!2.67!Csrnp1;;chr13:53568081..53568094,-!p3@Msx2!0.56!2.67!Msx2;;chr13:53568191..53568219,-!p2@Msx2!0.56!2.67!Msx2;;chr13:78339096..78339116,-!p12@Nr2f1!0.56!2.67!Nr2f1;;chr14:49287186..49287225,-!p1@Otx2!0.56!2.67!Otx2;;chr2:93482464..93482491,+!p1@Alx4!0.56!2.67!Alx4;;chr2:167514456..167514473,+!p1@Cebpb!0.55!142.29!Cebpb;;chr14:56223010..56223067,+!p1@Irf9!0.55!24.90!Irf9;;chr16:55966451..55966484,+!p3@Rpl24,p3@Zbtb11!0.55!18.68!Zbtb11;;chr3:32264530..32264544,-!p2@Zmat3!0.55!4.45!Zmat3;;chr6:128250521..128250543,-!p3@Tead4!0.55!4.45!Tead4;;chr15:79178013..79178028,+!p3@Maff!0.55!3.56!Maff;;chr8:108375881..108375936,-!p1@Cenpt!0.54!26.68!Cenpt;;chr11:72990738..72990763,+!p2@LOC100047518,p2@Tax1bp3!0.54!16.90!Tax1bp3;;chr16:55966407..55966447,+!p6@Rpl24,p6@Zbtb11!0.54!7.11!Zbtb11;;chr11:102178005..102178022,-!p8@Ubtf!0.54!4.45!Ubtf;;chrX:7339938..7339963,+!p1@Tfe3!0.53!15.12!Tfe3;;chr11:80196900..80196917,+!p3@Zfp207!0.53!9.78!Zfp207;;chrX:98449805..98449834,+!p3@Foxo4!0.53!8.00!Foxo4;;chr13:15555670..15555771,+!p2@Gli3!0.53!7.11!Gli3;;chrX:137135036..137135064,-!p4@Tsc22d3!0.53!5.34!Tsc22d3;;chr13:78339428..78339466,-!p2@Nr2f1!0.53!3.56!Nr2f1;;chr12:74214394..74214422,-!p1@Six4!0.53!3.56!Six4;;chr7:133839456..133839523,+!p1@Bola2!0.52!148.51!Bola2;;chr6:128250471..128250519,-!p1@Tead4!0.52!5.34!Tead4;;chr13:31717548..31717596,+!p1@Foxf2!0.52!5.34!Foxf2;;chrX:7341077..7341091,+!p5@Tfe3!0.52!4.45!Tfe3;;chr7:26067803..26067814,+!p11@Cic!0.52!2.67!Cic;;chr15:102076870..102076941,-!p1@Rarg!0.51!32.01!Rarg;;chr19:55816546..55816556,+!p3@Tcf7l2!0.51!10.67!Tcf7l2;;chr9:63869751..63869767,-!p1@Smad6!0.51!7.11!Smad6;;chr15:102300965..102300977,+!p1@Pcbp2!0.50!908.86!Pcbp2;;chr10:79862089..79862129,-!p2@Mbd3!0.50!31.13!Mbd3;;chr12:86940300..86940312,+!p2@Jdp2!0.50!6.23!Jdp2;;chr2:27532479..27532509,+!p3@Rxra!0.50!5.34!Rxra;;chr5:24108047..24108106,-!p3@Smarcd3!0.50!4.45!Smarcd3;;chr7:52472041..52472065,+!p2@Tead2!0.50!2.67!Tead2;;chr11:955283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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000111
 |is_obsolete=
+|library_id=CNhs12109
+|library_id_phase_based=2:CNhs12109
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11639
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11639
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Meningeal%2520cells%252c%2520donor3.CNhs12109.11639-122D1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Meningeal%2520cells%252c%2520donor3.CNhs12109.11639-122D1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Meningeal%2520cells%252c%2520donor3.CNhs12109.11639-122D1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Meningeal%2520cells%252c%2520donor3.CNhs12109.11639-122D1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Meningeal%2520cells%252c%2520donor3.CNhs12109.11639-122D1.mm9.nobarcode.rdna.fa.gz
 |name=Mouse Meningeal cells, donor3
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12109,LSID839,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.819074257388015,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0,0,0,0,0,0,0,0.360062066494819,-0.558422792324031,0,0,0,0,0,-0.209322725495826,0,0.111688209831707,-0.707911638129638,-0.269868638010351,0.276299728348189,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0,0,0,-0.0596387295197733,-0.20244242069718,-0.310650657339386,-0.158091042771083,-0.140687683267293,0,-0.0780086007519514,-0.098514232005992,0.137939758493106,0,0,-0.0826260762495906,-0.0613991135435105,0.47121319098118,-0.0788315948399074,0,0,0,0,0,0,0.220656073750975,0.205616924454934,0.380462533506431,0,0,0,0.276299728348189,0
@@ 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=table111:11639-122D1;search_select_hide=table117:11639-122D1
 }}

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FF:11639-122D1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:13, 4 June 2020

CNhs12109

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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