FF:11728-123D9: Difference between revisions

Latest revision as of 18:16, 4 June 2020

Name:	Schwann, donor1
Species:	Mouse (Mus musculus)
Library ID:	CNhs12507
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	peripheral nervous system
dev stage	NA
sex	NA
age	NA
cell type	schwann 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	3481
catalog number	M4100
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00004908

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12507		CAGE		DRX008852		DRR009724

Accession ID Mm9

Library id		BAM		CTSS
CNhs12507		DRZ001149		DRZ002534

Accession ID Mm10

Library id		BAM		CTSS
CNhs12507		DRZ012499		DRZ013884

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

CNhs12507

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.0166
1003	-0.139
1004	0
1005	0
1006	-0.0354
1007	-0.0379
1008	0
1009	-0.0751
101	0.242
1010	0
1011	-0.152
1012	0
1013	-0.0322
1014	0
1015	0.0721
1016	-0.0508
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0317
1022	-0.315
1023	0.0317
1024	-0.216
1025	-0.0294
1026	0
1027	0.0436
1028	0
1029	-0.151
103	-0.057
1030	0
1031	-0.283
1032	0.0523
1033	0
1034	0
1035	0
1036	0.1
1037	0
1038	0.0314
1039	-0.208
104	0
1040	-0.0865
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: CNhs12507

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.422
MA0003.1	MA0003.1	0.421
MA0004.1	MA0004.1	0.0101
MA0006.1	MA0006.1	0.276
MA0007.1	MA0007.1	0.0181
MA0009.1	MA0009.1	0.134
MA0014.1	MA0014.1	0.222
MA0017.1	MA0017.1	0.0152
MA0018.2	MA0018.2	1.5743e-5
MA0019.1	MA0019.1	0.304
MA0024.1	MA0024.1	0.074
MA0025.1	MA0025.1	0.349
MA0027.1	MA0027.1	0.313
MA0028.1	MA0028.1	5.72349e-9
MA0029.1	MA0029.1	0.384
MA0030.1	MA0030.1	0.261
MA0031.1	MA0031.1	0.571
MA0035.2	MA0035.2	0.147
MA0038.1	MA0038.1	0.615
MA0039.2	MA0039.2	0.277
MA0040.1	MA0040.1	0.987
MA0041.1	MA0041.1	0.564
MA0042.1	MA0042.1	0.625
MA0043.1	MA0043.1	0.134
MA0046.1	MA0046.1	5.12592e-14
MA0047.2	MA0047.2	0.0139
MA0048.1	MA0048.1	0.0615
MA0050.1	MA0050.1	0.167
MA0051.1	MA0051.1	0.551
MA0052.1	MA0052.1	0.535
MA0055.1	MA0055.1	3.52517e-4
MA0057.1	MA0057.1	0.122
MA0058.1	MA0058.1	3.27512e-5
MA0059.1	MA0059.1	0.0373
MA0060.1	MA0060.1	1.43335e-7
MA0061.1	MA0061.1	0.812
MA0062.2	MA0062.2	9.11733e-14
MA0065.2	MA0065.2	0.19
MA0066.1	MA0066.1	0.981
MA0067.1	MA0067.1	8.88067e-4
MA0068.1	MA0068.1	0.384
MA0069.1	MA0069.1	0.172
MA0070.1	MA0070.1	0.412
MA0071.1	MA0071.1	0.925
MA0072.1	MA0072.1	0.793
MA0073.1	MA0073.1	0.42
MA0074.1	MA0074.1	0.659
MA0076.1	MA0076.1	1.51099e-9
MA0077.1	MA0077.1	0.34
MA0078.1	MA0078.1	2.94448e-4
MA0079.2	MA0079.2	0.126
MA0080.2	MA0080.2	0.509
MA0081.1	MA0081.1	0.231
MA0083.1	MA0083.1	0.201
MA0084.1	MA0084.1	0.492
MA0087.1	MA0087.1	0.336
MA0088.1	MA0088.1	0.103
MA0090.1	MA0090.1	0.26
MA0091.1	MA0091.1	0.791
MA0092.1	MA0092.1	0.732
MA0093.1	MA0093.1	0.00981
MA0099.2	MA0099.2	5.86959e-25
MA0100.1	MA0100.1	0.513
MA0101.1	MA0101.1	0.0644
MA0102.2	MA0102.2	0.939
MA0103.1	MA0103.1	2.59116e-4
MA0104.2	MA0104.2	0.00366
MA0105.1	MA0105.1	0.0196
MA0106.1	MA0106.1	0.183
MA0107.1	MA0107.1	0.0978
MA0108.2	MA0108.2	0.00812
MA0111.1	MA0111.1	0.185
MA0112.2	MA0112.2	0.213
MA0113.1	MA0113.1	0.203
MA0114.1	MA0114.1	0.00197
MA0115.1	MA0115.1	0.746
MA0116.1	MA0116.1	0.00979
MA0117.1	MA0117.1	0.0857
MA0119.1	MA0119.1	0.251
MA0122.1	MA0122.1	0.243
MA0124.1	MA0124.1	0.821
MA0125.1	MA0125.1	0.21
MA0131.1	MA0131.1	0.0676
MA0135.1	MA0135.1	0.4
MA0136.1	MA0136.1	0.00211
MA0137.2	MA0137.2	0.00966
MA0138.2	MA0138.2	0.023
MA0139.1	MA0139.1	0.0145
MA0140.1	MA0140.1	0.111
MA0141.1	MA0141.1	0.721
MA0142.1	MA0142.1	0.733
MA0143.1	MA0143.1	0.686
MA0144.1	MA0144.1	0.195
MA0145.1	MA0145.1	0.754
MA0146.1	MA0146.1	0.666
MA0147.1	MA0147.1	0.00759
MA0148.1	MA0148.1	0.0022
MA0149.1	MA0149.1	0.0038
MA0150.1	MA0150.1	2.9413e-6
MA0152.1	MA0152.1	0.33
MA0153.1	MA0153.1	1.01511e-7
MA0154.1	MA0154.1	0.2
MA0155.1	MA0155.1	0.0944
MA0156.1	MA0156.1	3.0797e-4
MA0157.1	MA0157.1	0.674
MA0159.1	MA0159.1	0.792
MA0160.1	MA0160.1	0.432
MA0162.1	MA0162.1	0.831
MA0163.1	MA0163.1	0.0495
MA0164.1	MA0164.1	0.545
MA0258.1	MA0258.1	0.699
MA0259.1	MA0259.1	0.0526

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: CNhs12507

Novel motif	Logo	P-value
1	1	0.968
10	10	0.947
100	100	0.895
101	101	0.0323
102	102	0.534
103	103	0.114
104	104	0.61
105	105	0.531
106	106	0.405
107	107	0.095
108	108	0.81
109	109	0.952
11	11	0.839
110	110	0.733
111	111	0.353
112	112	0.633
113	113	0.725
114	114	0.307
115	115	0.674
116	116	0.939
117	117	0.205
118	118	0.595
119	119	0.381
12	12	0.906
120	120	0.544
121	121	0.432
122	122	0.168
123	123	0.7
124	124	0.301
125	125	0.53
126	126	0.45
127	127	0.0508
128	128	0.246
129	129	0.335
13	13	0.672
130	130	0.0597
131	131	0.712
132	132	0.0853
133	133	0.766
134	134	0.158
135	135	0.0216
136	136	0.226
137	137	0.974
138	138	0.878
139	139	0.112
14	14	0.353
140	140	0.377
141	141	0.228
142	142	0.866
143	143	0.199
144	144	0.862
145	145	0.654
146	146	0.558
147	147	0.248
148	148	0.595
149	149	0.649
15	15	0.126
150	150	0.529
151	151	0.771
152	152	0.775
153	153	0.731
154	154	0.954
155	155	0.584
156	156	2.06401e-8
157	157	0.786
158	158	0.218
159	159	0.0176
160	160	0.00299
161	161	0.835
162	162	0.274
163	163	0.454
164	164	0.95
165	165	0.728
166	166	0.0498
167	167	0.362
168	168	0.0853
169	169	0.54
17	17	0.902
18	18	0.133
19	19	0.134
2	2	0.0538
20	20	0.0181
21	21	0.699
22	22	0.54
23	23	0.0818
24	24	0.942
25	25	0.774
26	26	0.946
27	27	0.0198
28	28	0.755
29	29	0.216
3	3	0.844
30	30	0.223
31	31	0.768
32	32	0.155
33	33	0.844
34	34	0.192
35	35	0.365
36	36	0.152
37	37	0.156
38	38	0.53
39	39	0.979
4	4	0.958
40	40	0.398
41	41	0.0629
42	42	0.562
43	43	0.74
44	44	0.949
45	45	0.641
46	46	0.611
47	47	0.886
48	48	0.885
49	49	0.722
5	5	0.529
50	50	0.793
51	51	0.689
52	52	0.211
53	53	0.203
54	54	0.804
55	55	0.797
56	56	0.751
57	57	0.637
58	58	0.454
59	59	0.186
6	6	0.396
60	60	0.495
61	61	0.713
62	62	0.673
63	63	0.998
64	64	0.355
65	65	0.436
66	66	0.499
67	67	0.397
68	68	0.926
69	69	0.884
7	7	0.754
70	70	0.0607
71	71	0.964
72	72	0.903
73	73	0.133
74	74	0.52
75	75	0.933
76	76	0.0233
77	77	0.82
78	78	0.616
79	79	0.638
8	8	0.468
80	80	0.952
81	81	0.582
82	82	0.134
83	83	0.03
84	84	0.928
85	85	0.742
86	86	0.752
87	87	0.0249
88	88	0.753
89	89	0.67
9	9	0.263
90	90	0.36
91	91	0.31
92	92	0.522
93	93	0.97
94	94	0.755
95	95	0.0164
96	96	0.245
97	97	0.545
98	98	0.162
99	99	0.0836

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: CNhs12507

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000116 mouse Schwann cell sample

Ancestor terms (non development)Summary:Connected ontology terms with is_a, part_of or located_in relationship Analyst: Hideya Kawaji link to source data data

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0002371 (somatic cell)
0002319 (neural cell)
0000095 (neuron associated cell)
0000243 (glial cell (sensu Vertebrata))
0000325 (stuff accumulating cell)
0000215 (barrier cell)
0000630 (supportive cell)
0000217 (insulating cell)
0000328 (myelin accumulating cell)
0002573 (Schwann cell)
0000125 (glial cell)
0000255 (eukaryotic cell)
0002376 (non-myelinating Schwann cell)
0000218 (myelinating Schwann cell;;Schwann cell)
0000692 (terminal Schwann cell)
0002377 (immature Schwann cell)

UBERON: Anatomy
0000468 (multi-cellular organism)
0004121 (ectoderm-derived structure)
0011216 (organ system subdivision)
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)
0000116 (mouse Schwann 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:0000133 (neurectodermal cell)
CL:0000339 (glioblast (sensu Vertebrata))
CL:0000221 (ectodermal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00004908
+|accession_numbers=CAGE;DRX008852;DRR009724;DRZ001149;DRZ002534;DRZ012499;DRZ013884
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0004121,UBERON:0011216,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:0000003,CL:0000548,CL:0002371,CL:0002319,CL:0000095,CL:0000243,CL:0000325,CL:0000215,CL:0000630,CL:0000217,CL:0000328,CL:0002573,CL:0000125,CL:0000255,CL:0002376,CL:0000218,CL:0000692,CL:0002377
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr19:5447886..5447905,+!p1@Fosl1!2.34!217.56!Fosl1;;chr10:119913278..119913298,-!p2@Hmga2!2.20!336.68!Hmga2;;chr5:138199361..138199441,+!p2@Tsc22d4!1.95!159.40!Tsc22d4;;chr3:34548909..34548927,+!p1@Sox2!1.84!112.00!Sox2;;chr17:27693706..27693724,+!p4@Hmga1,p5@Hmga1-rs1!1.83!160.84!Hmga1;;chr10:119913310..119913366,-!p1@Hmga2!1.75!408.16!Hmga2;;chr15:78994907..78994926,-!p1@Sox10!1.74!133.13!Sox10;;chr4:99322820..99322845,+!p1@Foxd3!1.73!66.18!Foxd3;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.71!63.31!Zbtb11;;chr10:119913546..119913583,-!p3@Hmga2!1.65!89.43!Hmga2;;chr13:40829137..40829205,-!p1@Tfap2a!1.64!47.71!Tfap2a;;chr19:5447692..5447711,+!p2@Fosl1!1.60!38.92!Fosl1;;chr10:119913266..119913277,-!p6@Hmga2!1.58!36.88!Hmga2;;chr3:34548946..34548972,+!p2@Sox2!1.45!29.84!Sox2;;chr1:193007123..193007139,-!p1@Atf3!1.36!119.27!Atf3;;chr6:128250471..128250519,-!p1@Tead4!1.36!43.39!Tead4;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!1.34!40.29!Hmga1;;chr10:119913792..119913820,-!p5@Hmga2!1.32!34.00!Hmga2;;chr9:96653072..96653154,-!p1@Zbtb38!1.27!46.27!Zbtb38;;chr12:86814833..86814846,+!p1@Fos!1.26!389.99!Fos;;chr17:27693788..27693803,+!p3@Hmga1,p4@Hmga1-rs1!1.19!64.14!Hmga1;;chr7:19895354..19895369,-!p1@Fosb!1.17!19.16!Fosb;;chr18:3281725..3281740,-!p3@Crem!1.16!17.11!Crem;;chr9:106356278..106356292,+!p3@Pcbp4!1.15!22.34!Pcbp4;;chr4:124334894..124334899,+!p1@Pou3f1!1.12!16.05!Pou3f1;;chr7:19895384..19895399,-!p2@Fosb!1.10!16.58!Fosb;;chr10:119914001..119914078,-!p4@Hmga2!1.08!15.15!Hmga2;;chr10:119913954..119913972,-!p8@Hmga2!1.07!10.75!Hmga2;;chr9:119893782..119893802,-!p1@Csrnp1!1.06!10.37!Csrnp1;;chr13:40825465..40825469,-!p2@Tfap2a!1.05!10.15!Tfap2a;;chr9:106356265..106356276,+!p4@Pcbp4!1.04!16.36!Pcbp4;;chr6:128250521..128250543,-!p3@Tead4!1.03!15.60!Tead4;;chr17:27693818..27693830,+!p7@Hmga1-rs1,p8@Hmga1!1.01!21.05!Hmga1;;chr9:106356243..106356264,+!p2@Pcbp4!1.00!39.91!Pcbp4;;chr13:5860872..5860883,+!p3@Klf6!0.99!17.95!Klf6;;chr13:5860776..5860796,+!p1@Klf6!0.97!206.20!Klf6;;chr11:72990738..72990763,+!p2@LOC100047518,p2@Tax1bp3!0.97!47.40!Tax1bp3;;chr17:44872561..44872615,-!p1@Runx2!0.97!19.16!Runx2;;chr19:5447859..5447866,+!p3@Fosl1!0.97!8.25!Fosl1;;chr9:106356211..106356242,+!p1@Pcbp4!0.95!160.16!Pcbp4;;chr16:55966407..55966447,+!p6@Rpl24,p6@Zbtb11!0.92!18.33!Zbtb11;;chr6:128250380..128250442,-!p2@Tead4!0.92!9.47!Tead4;;chr1:92895299..92895373,+!p2@Lrrfip1!0.91!154.56!Lrrfip1;;chr10:67000609..67000625,+!p1@Egr2!0.91!16.89!Egr2;;chr11:5761979..5761992,+!p2@Aebp1!0.90!14.54!Aebp1;;chr2:173044380..173044432,-!p1@Zbp1!0.89!16.81!Zbp1;;chr7:38558544..38558566,-!p4@Zfp536!0.88!7.72!Zfp536;;chr10:119913301..119913302,-!p11@Hmga2!0.88!6.59!Hmga2;;chr8:125778192..125778217,+!p2@Zfp276!0.87!19.01!Zfp276;;chr16:55966451..55966484,+!p3@Rpl24,p3@Zbtb11!0.86!38.85!Zbtb11;;chr10:119913974..119913992,-!p9@Hmga2!0.86!6.21!Hmga2;;chr2:9800207..9800234,-!p1@Gata3!0.84!19.01!Gata3;;chr8:87502608..87502623,-!p1@Junb!0.83!101.70!Junb;;chr10:114821393..114821431,-!p5@Thap2!0.83!16.89!Thap2;;chr13:40826150..40826167,-!p3@Tfap2a!0.83!6.44!Tfap2a;;chr4:94718861..94718872,-!p2@Jun!0.81!44.07!Jun;;chr17:44873599..44873623,-!p7@Runx2!0.79!5.15!Runx2;;chr11:5761889..5761969,+!p1@Aebp1!0.77!226.35!Aebp1;;chr7:38558574..38558611,-!p2@Zfp536!0.77!6.21!Zfp536;;chr11:120624106..120624107,+!p13@Hmga1-rs1,p14@Hmga1!0.77!4.85!Hmga1;;chr19:23215673..23215753,+!p1@Klf9!0.76!76.63!Klf9;;chr16:92697354..92697362,-!p3@Runx1!0.76!7.57!Runx1;;chrX:137077716..137077734,-!p1@Tsc22d3!0.74!35.44!Tsc22d3;;chr4:48058047..48058062,+!p1@Nr4a3!0.73!6.97!Nr4a3;;chr13:40825785..40825798,-!p9@Tfap2a!0.73!4.32!Tfap2a;;chr3:95032091..95032183,-!p1@Mllt11!0.72!40.36!Mllt11;;chr17:27693622..27693635,+!p11@Hmga1-rs1,p12@Hmga1!0.71!5.30!Hmga1;;chr7:38557752..38557793,-!p3@Zfp536!0.71!5.00!Zfp536;;chr4:94718879..94718898,-!p1@Jun!0.70!327.06!Jun;;chr15:79178060..79178074,+!p2@Maff!0.68!5.23!Maff;;chr16:15887371..15887385,+!p1@Cebpd!0.67!143.58!Cebpd;;chr8:107694742..107694823,+!p3@Cbfb!0.67!24.84!Cbfb;;chr4:99323046..99323073,+!p3@Foxd3!0.67!3.63!Foxd3;;chr16:92697560..92697592,-!p2@Runx1!0.66!25.67!Runx1;;chr7:26067619..26067702,+!p2@Cic!0.66!23.40!Cic;;chr11:120624132..120624143,+!p10@Hmga1,p9@Hmga1-rs1!0.66!4.77!Hmga1;;chr7:120351014..120351109,+!p1@Arntl!0.65!55.43!Arntl;;chr2:44965856..44965896,-!p5@Zeb2!0.65!15.22!Zeb2;;chr1:193041811..193041838,-!p2@Atf3!0.65!3.48!Atf3;;chr13:40826236..40826248,-!p8@Tfap2a!0.65!3.48!Tfap2a;;chr8:107694661..107694713,+!p2@Cbfb!0.64!26.50!Cbfb;;chr17:27693887..27693908,+!p2@Hmga1-rs1,p2@Hmga1!0.62!27.11!Hmga1;;chr19:19185671..19185693,-!p1@Rorb!0.62!8.63!Rorb;;chr18:3281750..3281776,-!p2@Crem!0.62!7.12!Crem;;chr4:99322855..99322867,+!p2@Foxd3!0.62!3.18!Foxd3;;chr11:98636531..98636559,-!p1@Nr1d1!0.61!20.60!Nr1d1;;chr2:44965788..44965815,-!p11@Zeb2!0.61!6.36!Zeb2;;chr7:38557887..38557910,-!p5@Zfp536!0.61!3.10!Zfp536;;chr13:40829337..40829360,-!p5@Tfap2a!0.61!3.03!Tfap2a;;chr7:133839456..1338395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ap6!0.06!0.15!Thap6;;chr5:77524043..77524064,-!p9@Hopx!0.06!0.15!Hopx;;chr5:35731493..35731531,+!p1@Hmx1!0.06!0.15!Hmx1;;chr5:108155037..108155060,-!p2@Gfi1!0.06!0.15!Gfi1;;chr5:138199481..138199491,+!p16@Tsc22d4!0.06!0.15!Tsc22d4;;chr7:122989594..122989626,-!p1@Sox6!0.06!0.15!Sox6;;chr2:83484681..83484704,+!p1@Zc3h15!0.05!45.51!Zc3h15;;chr11:53164236..53164284,+!p1@Aff4!0.05!29.08!Aff4;;chr6:28211907..28211943,-!p1@Zfp800!0.05!28.85!Zfp800;;chr19:47125313..47125405,-!p1@Pcgf6!0.05!21.51!Pcgf6;;chr16:98183746..98183801,-!p1@Zfp295!0.05!10.75!Zfp295;;chr14:31832311..31832343,+!p1@Pbrm1!0.05!9.16!Pbrm1;;chr15:36937113..36937127,-!p3@Gm10193,p3@Zfp706!0.05!9.16!Zfp706;;chr18:82862265..82862325,-!p1@Zfp236!0.05!8.86!Zfp236;;chr1:135557964..135557976,-!p2@Zc3h11a!0.05!8.10!Zc3h11a;;chr17:21587325..21587361,+!p1@Zfp51!0.05!5.38!Zfp51;;chr7:6124098..6124133,+!p1@Zfp444!0.05!3.71!Zfp444;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.05!3.18!Ppp1r13l;;chr4:54960870..54960926,+!p1@Zfp462!0.05!2.80!Zfp462;;chr16:4214034..4214070,-!p@chr16:4214034..4214070,-!0.05!2.27!Crebbp;;chr11:102179074..102179099,-!p4@Ubtf!0.05!2.20!Ubtf;;chr9:21875812..21875860,-!p1@Zfp653!0.05!2.04!Zfp653;;chr18:84255649..84255661,-!p4@Tshz1!0.05!1.82!Tshz1;;chr5:65194789..65194800,+!p7@Klf3!0.05!1.74!Klf3;;chr16:92826249..92826325,-!p1@Runx1!0.05!1.67!Runx1;;chr6:140572352..140572382,+!p3@Aebp2!0.05!1.36!Aebp2;;chr1:193961837..193961849,-!p3@Rcor3!0.05!1.14!Rcor3;;chrX:137135036..137135064,-!p4@Tsc22d3!0.05!1.14!Tsc22d3;;chr13:59924354..59924366,-!p3@Zcchc6!0.05!1.06!Zcchc6;;chr11:3189171..3189197,+!p4@Patz1!0.05!1.06!Patz1;;chr10:67375368..67375433,-!p1@Zfp365!0.05!0.91!Zfp365;;chr7:134169999..134170010,-!p13@Maz!0.05!0.83!Maz;;chr13:53076382..53076393,-!p2@Nfil3!0.05!0.76!Nfil3;;chr7:17199962..17199972,-!p7@Grlf1!0.05!0.68!Grlf1;;chr2:156666727..156666753,+!p2@Tgif2!0.05!0.61!Tgif2;;chr2:126501184..126501196,-!p6@Gabpb1!0.05!0.53!Gabpb1;;chr11:98636400..98636418,-!p4@Nr1d1!0.05!0.45!Nr1d1;;chr6:72850124..72850210,-!p7@Kcmf1!0.05!0.45!Kcmf1;;chr5:24107903..24107917,-!p6@Smarcd3!0.05!0.38!Smarcd3;;chr8:124806111..124806122,+!p3@Zfpm1!0.05!0.38!Zfpm1;;chr9:20385789..20385803,+!p5@Zfp846!0.05!0.38!Zfp846;;chr4:87678639..87678653,-!p11@Mllt3!0.05!0.38!Mllt3;;chr18:61336630..61336641,-!p3@Hmgxb3!0.05!0.38!Hmgxb3;;chr8:26950937..26950991,-!p3@Ash2l!0.05!0.30!Ash2l;;chr5:104182754..104182777,+!p11@Aff1!0.05!0.23!Aff1;;chr11:44431191..44431205,+!p11@Ebf1!0.05!0.23!Ebf1;;chr6:124662297..124662371,+!p1@Phb2!0.04!194.92!Phb2;;chr3:151873433..151873498,+!p1@Fubp1!0.04!131.84!Fubp1;;chr6:64992569..64992656,+!p1@Smarcad1!0.04!28.78!Smarcad1;;chr5:67698180..67698216,+!p1@Slc30a9!0.04!25.22!Slc30a9;;chr1:64167972..64168026,-!p1@Klf7!0.04!23.10!Klf7;;chr8:28087609..28087634,+!p1@Zfp703!0.04!22.19!Zfp703;;chr17:48549054..48549091,-!p1@Nfya!0.04!16.89!Nfya;;chr4:116480137..116480178,-!p1@Toe1!0.04!10.07!Toe1;;chr9:121669118..121669179,+!p1@Zfp651!0.04!9.84!Zfp651;;chr5:31504603..31504702,-!p1@Zfp513!0.04!9.31!Zfp513;;chr2:154395581..154395610,-!p1@E2f1!0.04!9.31!E2f1;;chr18:39649430..39649522,-!p2@Nr3c1!0.04!9.01!Nr3c1;;chr7:28516392..28516416,+!p2@Zfp60!0.04!6.59!Zfp60;;chr7:11080671..11080750,-!p1@Zik1!0.04!6.06!Zik1;;chrX:7339778..7339815,+!p2@Tfe3!0.04!5.98!Tfe3;;chr8:125897750..125897758,+!p2@Tcf25!0.04!5.83!Tcf25;;chr11:62545367..62545412,-!p1@Zfp287!0.04!3.26!Zfp287;;chr2:128769721..128769770,-!p1@Zc3h8!0.04!3.03!Zc3h8;;chr17:27693546..27693557,+!p6@Hmga1!0.04!2.73!Hmga1;;chr10:114821532..114821565,-!p4@Thap2!0.04!2.73!Thap2;;chr7:20214704..20214800,-!p1@Relb!0.04!2.42!Relb;;chr1:181733737..181733755,-!p2@Ahctf1!0.04!2.27!Ahctf1;;chr7:134519542..134519569,-!p1@Zfp747!0.04!2.20!Zfp747;;chr5:130175949..130175975,-!p1@Zfp11!0.04!1.89!Zfp11;;chr3:14578741..14578759,+!p3@E2f5!0.04!1.82!E2f5;;chr4:135842030..135842065,+!p3@Zfp46!0.04!1.82!Zfp46;;chr18:5334765..5334833,-!p2@Zfp438!0.04!1.82!Zfp438;;chr18:75528166..75528170,+!p3@Smad7!0.04!1.67!Smad7;;chrX:7339915..7339935,+!p4@Tfe3!0.04!1.36!Tfe3;;
@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000116
 |is_obsolete=
+|library_id=CNhs12507
+|library_id_phase_based=2:CNhs12507
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11728
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11728
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Schwann%252c%2520donor1.CNhs12507.11728-123D9.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Schwann%252c%2520donor1.CNhs12507.11728-123D9.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Schwann%252c%2520donor1.CNhs12507.11728-123D9.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Schwann%252c%2520donor1.CNhs12507.11728-123D9.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Schwann%252c%2520donor1.CNhs12507.11728-123D9.mm9.nobarcode.rdna.fa.gz
 |name=Schwann, donor1
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12507,LSID918,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0,0,0.0612459843014792,0,-0.0706632025331295,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.160191607300127,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.418974762978652,0,0,0,0,0,-0.123747839031913,0,0.0684628031303463,-0.610734507774411,-0.269868638010351,0.114912675169673,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0.0306229921507396,0.0889077662030289,0.139448029345379,0,-0.0288182583726279,-0.278948913756939,-0.158091042771083,-0.105200012957833,0,-0.0463068571695043,-0.032069442160474,0,0,0,-0.0409420495882487,-0.0985974723473686,-0.0335724302214668,-0.0788315948399074,0,0,0,0,0,0,-0.0857765460992942,-0.35537481559141,0.277815488145845,0,0,0,0,0
 |rna_box=123
 |rna_catalog_number=M4100
@@ Line 61: / Line 76: @@
 |rna_weight_ug=5.85711
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=N/A
 |sample_cell_line=
@@ Line 81: / Line 97: @@
 |top_motifs=BACH2:2.96462688485;NFE2:2.53100345435;FOS_FOS{B,L1}_JUN{B,D}:2.32728994689;PAX8:2.28803449657;PAX2:2.19617546625;SREBF1,2:1.97273177416;ATF4:1.62179591455;ELK1,4_GABP{A,B1}:1.61323172409;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.52841589977;NFE2L1:1.51553846433;YY1:1.43683106256;HES1:1.24849478362;NKX3-1:1.14307366714;JUN:1.02530550555;FOSL2:1.02242032888;SOX2:0.979828889462;LHX3,4:0.973265410902;ATF6:0.924826228305;IRF7:0.907839780519;FOXL1:0.820628794361;HIF1A:0.815701605591;STAT1,3:0.797172643868;NFE2L2:0.75990692363;AIRE:0.757219805107;TFDP1:0.707754584906;GLI1..3:0.698950467098;FOXP3:0.684548599526;ATF5_CREB3:0.677297907348;SOX17:0.660167088766;NKX2-2,8:0.655406481883;HSF1,2:0.643280867889;CRX:0.630260434002;EP300:0.628826838557;SOX5:0.622757989091;AR:0.619543792774;ELF1,2,4:0.602440194844;NRF1:0.598143549853;PPARG:0.58327210864;ZNF148:0.574336430839;bHLH_family:0.556333979367;NR3C1:0.543233524887;SMAD1..7,9:0.519594811453;CEBPA,B_DDIT3:0.510689295835;EN1,2:0.50779409336;ZIC1..3:0.505707015414;TP53:0.496463902141;NANOG:0.483211716669;CREB1:0.471057351237;RUNX1..3:0.46783006202;ONECUT1,2:0.465986542814;TBP:0.452850650676;SPI1:0.428768828157;HAND1,2:0.42438555667;CDX1,2,4:0.409029476457;ALX1:0.390588853205;AHR_ARNT_ARNT2:0.351038288791;ZNF143:0.342916229326;HOX{A4,D4}:0.327104802742;GATA4:0.327078217314;NFATC1..3:0.312612892424;HLF:0.290384247438;GTF2A1,2:0.284109340299;STAT5{A,B}:0.282610845732;MTE{core}:0.221383258629;GZF1:0.214640379555;TEAD1:0.209444100557;POU2F1..3:0.199530304539;EVI1:0.193005503418;HMX1:0.189041133186;NFKB1_REL_RELA:0.187168201485;TFCP2:0.183706599477;CDC5L:0.170460733689;SOX{8,9,10}:0.167854917129;ZBTB16:0.15349757749;FOXO1,3,4:0.139829938507;RORA:0.133227044309;TFAP2B:0.10733648499;NKX3-2:0.098199394135;BREu{core}:0.0925432587532;ESRRA:0.0849997945116;MAFB:0.081579296167;FOXQ1:0.079954973397;ALX4:0.0798158708523;SPIB:0.0433623920406;T:0.0266350735541;ZFP161:0.0240128113775;RXR{A,B,G}:0.0182335087859;MYB:-0.0142822909781;MTF1:-0.0194069449718;TFAP4:-0.0337580894938;NKX6-1,2:-0.0510017227892;GFI1B:-0.0515947230954;GCM1,2:-0.0532564645778;FOXM1:-0.055846540306;POU3F1..4:-0.0670874353065;RBPJ:-0.0995894163565;PDX1:-0.103053046018;IRF1,2:-0.114114317223;ETS1,2:-0.122718631746;RFX1:-0.131319206687;ADNP_IRX_SIX_ZHX:-0.142089326373;GFI1:-0.146297229357;UFEwm:-0.156563432506;ZBTB6:-0.159055699825;EGR1..3:-0.174124617362;REST:-0.184058848276;MED-1{core}:-0.187997001696;LEF1_TCF7_TCF7L1,2:-0.198313841972;STAT2,4,6:-0.203709874785;FOX{F1,F2,J1}:-0.206394288469;KLF4:-0.216186159815;XCPE1{core}:-0.216266842382;FOX{I1,J2}:-0.225258679083;ZNF384:-0.229045607318;FOXD3:-0.232919944204;EBF1:-0.234051678234;RFX2..5_RFXANK_RFXAP:-0.239236140595;TFAP2{A,C}:-0.246201482317;IKZF2:-0.252311072843;MAZ:-0.253753606038;PRRX1,2:-0.255859021243;PAX4:-0.270759088254;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.285990029913;SP1:-0.286165595489;TEF:-0.29499945985;OCT4_SOX2{dimer}:-0.301580950029;HOXA9_MEIS1:-0.30343597047;NFIL3:-0.323878921749;E2F1..5:-0.35393758412;SRF:-0.369613024198;ATF2:-0.372670153077;SPZ1:-0.377619879811;IKZF1:-0.390783826196;NKX2-1,4:-0.395357718635;HIC1:-0.400685250111;DMAP1_NCOR{1,2}_SMARC:-0.402562945659;NR1H4:-0.411210200555;ZNF423:-0.413461036197;POU1F1:-0.423476442557;NR5A1,2:-0.437681280958;FOX{D1,D2}:-0.448116602425;HNF4A_NR2F1,2:-0.448490825236;MEF2{A,B,C,D}:-0.46505122637;NHLH1,2:-0.492868460034;ARID5B:-0.553666346227;TGIF1:-0.557326976041;POU5F1:-0.565125173638;PRDM1:-0.571381893017;TLX1..3_NFIC{dimer}:-0.579822206283;HNF1A:-0.583340946428;HBP1_HMGB_SSRP1_UBTF:-0.588901903505;FOXP1:-0.589829302342;TBX4,5:-0.600846692065;FOXN1:-0.600886972784;PAX6:-0.603008462938;TAL1_TCF{3,4,12}:-0.608191046604;VSX1,2:-0.609460929637;GTF2I:-0.629645078543;RXRA_VDR{dimer}:-0.646210554696;MZF1:-0.655591862598;RREB1:-0.660080441406;MYOD1:-0.668863976578;ZNF238:-0.693061175688;ESR1:-0.698113540984;CUX2:-0.736574957343;PAX1,9:-0.740576402609;GATA6:-0.749147034907;PATZ1:-0.76407603688;FOXA2:-0.770111078318;MYFfamily:-0.778484171323;LMO2:-0.801733674629;DBP:-0.808258761264;PBX1:-0.820430650933;TOPORS:-0.847378954934;ZEB1:-0.849879931442;HOX{A5,B5}:-0.872644442369;NANOG{mouse}:-0.883970449502;BPTF:-0.889842084446;NR6A1:-0.89054498784;MYBL2:-0.899768573757;POU6F1:-0.923108214971;TLX2:-0.931079523595;PAX5:-0.946532353588;NKX2-3_NKX2-5:-1.01484247923;HMGA1,2:-1.10264060895;PITX1..3:-1.12654093298;NFIX:-1.13892625557;SNAI1..3:-1.37940914775;NFY{A,B,C}:-1.60640953568
 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11728-123D9;search_select_hide=table117:11728-123D9
 }}

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FF:11728-123D9: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:16, 4 June 2020

CNhs12507

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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