FF:18-22I9: Difference between revisions

Latest revision as of 19:09, 4 June 2020

Name:	olfactory brain, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10489
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	olfactory brain
dev stage	adult
sex	male
age	NA
cell type	CELL MIXTURE - tissue sample
cell line	NA
company	NA
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	NA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005249

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10489		CAGE		DRX009049		DRR009923

Accession ID Mm9

Library id		BAM		CTSS
CNhs10489		DRZ001348		DRZ002731

Accession ID Mm10

Library id		BAM		CTSS
CNhs10489		DRZ012698		DRZ014081

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

CNhs10489

0	0
1	0.707
10	0
100	0
1000	0
1001	0.0664
1002	-0.0841
1003	0.128
1004	0
1005	0.0504
1006	0.665
1007	0.135
1008	0
1009	-0.0442
101	-0.0689
1010	0
1011	0.591
1012	0.467
1013	0.173
1014	0.0337
1015	0.0388
1016	-0.00757
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	0.169
1023	0
1024	0
1025	0
1026	0
1027	0.679
1028	0
1029	0.11
103	-0.0812
1030	0
1031	-0.321
1032	0.154
1033	0.0458
1034	0
1035	0
1036	-0.0428
1037	0
1038	-0.0421
1039	0.085
104	0
1040	-0.209
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: CNhs10489

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00676
MA0003.1	MA0003.1	0.313
MA0004.1	MA0004.1	0.544
MA0006.1	MA0006.1	0.146
MA0007.1	MA0007.1	0.332
MA0009.1	MA0009.1	0.268
MA0014.1	MA0014.1	0.367
MA0017.1	MA0017.1	1.52118e-6
MA0018.2	MA0018.2	0.00452
MA0019.1	MA0019.1	0.269
MA0024.1	MA0024.1	0.0992
MA0025.1	MA0025.1	0.0456
MA0027.1	MA0027.1	0.0222
MA0028.1	MA0028.1	0.0534
MA0029.1	MA0029.1	0.466
MA0030.1	MA0030.1	0.934
MA0031.1	MA0031.1	0.258
MA0035.2	MA0035.2	0.00309
MA0038.1	MA0038.1	0.209
MA0039.2	MA0039.2	0.00498
MA0040.1	MA0040.1	0.067
MA0041.1	MA0041.1	0.902
MA0042.1	MA0042.1	0.489
MA0043.1	MA0043.1	0.0839
MA0046.1	MA0046.1	2.48476e-12
MA0047.2	MA0047.2	4.7433e-5
MA0048.1	MA0048.1	0.0624
MA0050.1	MA0050.1	0.00729
MA0051.1	MA0051.1	0.0053
MA0052.1	MA0052.1	0.125
MA0055.1	MA0055.1	0.0155
MA0057.1	MA0057.1	0.327
MA0058.1	MA0058.1	0.45
MA0059.1	MA0059.1	0.127
MA0060.1	MA0060.1	0.857
MA0061.1	MA0061.1	0.0462
MA0062.2	MA0062.2	8.30216e-4
MA0065.2	MA0065.2	3.14377e-6
MA0066.1	MA0066.1	0.0439
MA0067.1	MA0067.1	0.71
MA0068.1	MA0068.1	0.934
MA0069.1	MA0069.1	0.0778
MA0070.1	MA0070.1	0.444
MA0071.1	MA0071.1	0.0801
MA0072.1	MA0072.1	0.383
MA0073.1	MA0073.1	0.869
MA0074.1	MA0074.1	0.192
MA0076.1	MA0076.1	0.142
MA0077.1	MA0077.1	0.713
MA0078.1	MA0078.1	0.789
MA0079.2	MA0079.2	0.59
MA0080.2	MA0080.2	2.62196e-9
MA0081.1	MA0081.1	0.345
MA0083.1	MA0083.1	0.087
MA0084.1	MA0084.1	0.994
MA0087.1	MA0087.1	0.53
MA0088.1	MA0088.1	0.422
MA0090.1	MA0090.1	0.112
MA0091.1	MA0091.1	0.139
MA0092.1	MA0092.1	0.147
MA0093.1	MA0093.1	0.596
MA0099.2	MA0099.2	0.00198
MA0100.1	MA0100.1	0.287
MA0101.1	MA0101.1	0.0216
MA0102.2	MA0102.2	0.574
MA0103.1	MA0103.1	0.0939
MA0104.2	MA0104.2	0.878
MA0105.1	MA0105.1	0.0253
MA0106.1	MA0106.1	0.0691
MA0107.1	MA0107.1	0.0605
MA0108.2	MA0108.2	0.00695
MA0111.1	MA0111.1	0.776
MA0112.2	MA0112.2	9.0836e-4
MA0113.1	MA0113.1	0.546
MA0114.1	MA0114.1	7.26552e-6
MA0115.1	MA0115.1	4.12751e-5
MA0116.1	MA0116.1	0.107
MA0117.1	MA0117.1	0.933
MA0119.1	MA0119.1	0.106
MA0122.1	MA0122.1	0.591
MA0124.1	MA0124.1	0.324
MA0125.1	MA0125.1	0.0123
MA0131.1	MA0131.1	0.687
MA0135.1	MA0135.1	0.832
MA0136.1	MA0136.1	1.59926e-13
MA0137.2	MA0137.2	0.322
MA0138.2	MA0138.2	0.00104
MA0139.1	MA0139.1	0.532
MA0140.1	MA0140.1	2.08256e-4
MA0141.1	MA0141.1	0.00112
MA0142.1	MA0142.1	0.188
MA0143.1	MA0143.1	0.69
MA0144.1	MA0144.1	0.0979
MA0145.1	MA0145.1	0.088
MA0146.1	MA0146.1	0.0136
MA0147.1	MA0147.1	0.693
MA0148.1	MA0148.1	1.84511e-4
MA0149.1	MA0149.1	0.127
MA0150.1	MA0150.1	0.155
MA0152.1	MA0152.1	0.96
MA0153.1	MA0153.1	1.93551e-14
MA0154.1	MA0154.1	0.0781
MA0155.1	MA0155.1	0.437
MA0156.1	MA0156.1	2.29021e-8
MA0157.1	MA0157.1	0.259
MA0159.1	MA0159.1	0.0111
MA0160.1	MA0160.1	0.00582
MA0162.1	MA0162.1	0.148
MA0163.1	MA0163.1	0.00244
MA0164.1	MA0164.1	0.88
MA0258.1	MA0258.1	0.018
MA0259.1	MA0259.1	0.863

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: CNhs10489

Novel motif	Logo	P-value
1	1	0.191
10	10	0.0573
100	100	0.398
101	101	0.435
102	102	0.861
103	103	0.028
104	104	0.859
105	105	0.507
106	106	0.0705
107	107	0.244
108	108	0.693
109	109	0.00134
11	11	0.0504
110	110	0.0628
111	111	0.0685
112	112	0.00545
113	113	0.413
114	114	0.381
115	115	0.778
116	116	0.197
117	117	0.00331
118	118	0.329
119	119	0.236
12	12	0.959
120	120	0.969
121	121	0.645
122	122	0.772
123	123	0.0179
124	124	0.0776
125	125	0.388
126	126	0.015
127	127	0.14
128	128	0.0429
129	129	0.59
13	13	1.15965e-7
130	130	0.243
131	131	0.623
132	132	0.673
133	133	0.643
134	134	0.0898
135	135	0.657
136	136	0.0459
137	137	0.618
138	138	0.863
139	139	0.302
14	14	0.96
140	140	0.0927
141	141	0.759
142	142	0.669
143	143	0.517
144	144	0.457
145	145	0.00223
146	146	0.32
147	147	0.431
148	148	0.77
149	149	0.404
15	15	0.171
150	150	0.0951
151	151	0.797
152	152	0.0676
153	153	0.776
154	154	0.908
155	155	0.135
156	156	0.178
157	157	0.323
158	158	0.26
159	159	0.599
160	160	0.247
161	161	0.173
162	162	0.442
163	163	0.842
164	164	0.0349
165	165	0.0206
166	166	0.894
167	167	0.704
168	168	0.631
169	169	0.00443
17	17	0.0359
18	18	0.723
19	19	0.081
2	2	0.778
20	20	0.0663
21	21	0.191
22	22	0.136
23	23	0.628
24	24	0.0385
25	25	0.674
26	26	1.1672e-6
27	27	0.631
28	28	0.833
29	29	0.0164
3	3	0.0722
30	30	0.756
31	31	0.988
32	32	0.377
33	33	0.208
34	34	0.665
35	35	0.711
36	36	0.255
37	37	0.0236
38	38	0.334
39	39	0.262
4	4	0.22
40	40	0.0913
41	41	0.468
42	42	0.224
43	43	0.185
44	44	0.159
45	45	0.741
46	46	0.145
47	47	0.304
48	48	0.203
49	49	0.263
5	5	0.228
50	50	0.271
51	51	0.712
52	52	0.307
53	53	0.528
54	54	0.835
55	55	0.854
56	56	0.572
57	57	0.605
58	58	0.317
59	59	0.123
6	6	0.751
60	60	0.049
61	61	0.039
62	62	0.205
63	63	0.152
64	64	0.535
65	65	0.333
66	66	0.734
67	67	0.591
68	68	0.487
69	69	0.429
7	7	0.0158
70	70	0.0741
71	71	0.00522
72	72	0.544
73	73	0.0185
74	74	0.81
75	75	0.0361
76	76	0.496
77	77	0.291
78	78	0.00347
79	79	0.886
8	8	0.0435
80	80	0.889
81	81	0.841
82	82	0.247
83	83	0.0213
84	84	0.646
85	85	0.154
86	86	0.215
87	87	0.0539
88	88	0.488
89	89	0.524
9	9	0.555
90	90	0.095
91	91	0.0972
92	92	0.239
93	93	0.175
94	94	0.788
95	95	0.0106
96	96	0.305
97	97	0.857
98	98	0.661
99	99	0.385

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: CNhs10489

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011286 mouse olfactory brain- adult 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

UBERON: Anatomy
0000468 (multi-cellular organism)
0007023 (adult organism)
0000955 (brain)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0011216 (organ system subdivision)
0000062 (organ)
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)
0001017 (central nervous system)
0001016 (nervous system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011286 (mouse olfactory brain- adult 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
UBERON:0002532 (epiblast (generic))
UBERON:0006601 (presumptive ectoderm)
UBERON:0006238 (future brain)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000033,UBERON:0000061,UBERON:0000073,UBERON:0000153,UBERON:0000465,UBERON:0000467,UBERON:0000468,UBERON:0000475,UBERON:0000479,UBERON:0000480,UBERON:0000481,UBERON:0000922,UBERON:0000923,UBERON:0000924,UBERON:0000955,UBERON:0001016,UBERON:0001017,UBERON:0001062,UBERON:0002050,UBERON:0002532,UBERON:0004121,UBERON:0005423,UBERON:0005743,UBERON:0007023
+|DRA_sample_Accession=CAGE@SAMD00005249
+|accession_numbers=CAGE;DRX009049;DRR009923;DRZ001348;DRZ002731;DRZ012698;DRZ014081
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000955,UBERON:0000479,UBERON:0004121,UBERON:0011216,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0010317,UBERON:0001017,UBERON:0001016
 |ancestors_in_cell_lineage_facet=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000998,FF:0000004,FF:0011286
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr16:91270004..91270023,+!p1@Olig1!2.07!131.42!Olig1;;chr2:71367142..71367167,+!p2@Dlx1!1.97!91.58!Dlx1;;chr19:4989964..4989972,-!p1@Npas4!1.89!75.83!Npas4;;chr6:85463580..85463585,-!p1@Egr4!1.87!73.58!Egr4;;chrX:90531838..90531861,+!p1@Arx!1.81!78.40!Arx;;chr12:30219426..30219506,+!p2@Myt1l!1.77!57.52!Myt1l;;chr5:138199361..138199441,+!p2@Tsc22d4!1.71!92.54!Tsc22d4;;chr8:24780125..24780143,+!p1@Zmat4!1.71!71.33!Zmat4;;chr2:71384802..71384815,-!p1@Dlx2!1.67!55.59!Dlx2;;chr2:65683890..65683907,+!p1@Csrnp3!1.66!82.90!Csrnp3;;chr4:150513630..150513686,-!p4@Camta1!1.65!49.80!Camta1;;chr9:91260616..91260653,-!p2@Zic1!1.64!43.06!Zic1;;chr9:118387300..118387317,+!p1@Eomes!1.62!40.81!Eomes;;chr2:77541432..77541474,-!p5@Zfp385b!1.59!37.59!Zfp385b;;chr6:6832076..6832092,-!p1@Dlx5!1.58!43.38!Dlx5;;chr6:6831950..6831985,-!p2@Dlx5!1.55!37.59!Dlx5;;chr15:101097270..101097290,+!p1@Nr4a1!1.54!332.57!Nr4a1;;chr9:91260594..91260612,-!p1@Zic1!1.52!32.13!Zic1;;chr2:71367871..71367898,+!p1@Dlx1!1.50!30.53!Dlx1;;chr2:73109983..73109996,+!p1@Sp9!1.47!28.28!Sp9;;chr10:76424613..76424689,-!p1@Pcbp3!1.44!532.11!Pcbp3;;chr2:115891534..115891589,-!p1@Meis2!1.44!356.02!Meis2;;chr12:39510090..39510114,+!p6@Etv1!1.44!26.67!Etv1;;chr2:73110004..73110016,+!p2@Sp9!1.44!26.35!Sp9;;chr2:71366660..71366702,+!p3@Dlx1!1.43!25.71!Dlx1;;chr6:6831928..6831949,-!p3@Dlx5!1.42!25.06!Dlx5;;chr4:48058129..48058179,+!p2@Nr4a3!1.41!45.63!Nr4a3;;chr2:77541362..77541382,-!p8@Zfp385b!1.40!24.10!Zfp385b;;chr9:118387969..118387984,+!p2@Eomes!1.39!23.78!Eomes;;chr15:76353005..76353021,-!p2@Scrt1!1.38!22.81!Scrt1;;chr1:170361695..170361722,-!p12@Pbx1!1.37!28.60!Pbx1;;chr12:120085778..120085784,+!p2@Sp8!1.37!22.49!Sp8;;chr11:96976641..96976646,-!p1@Tbx21!1.37!22.49!Tbx21;;chr7:116154364..116154444,+!p1@Tub!1.36!37.59!Tub;;chr17:48015839..48015915,-!p3@Foxp4!1.36!25.71!Foxp4;;chr2:127347067..127347093,-!p1@Kcnip3!1.35!35.67!Kcnip3;;chrX:108009761..108009788,+!p1@Pou3f4!1.35!21.53!Pou3f4;;chr15:102197405..102197454,-!p1@Sp7!1.34!20.89!Sp7;;chr14:122874619..122874634,+!p1@Zic2!1.33!20.24!Zic2;;chr16:91225808..91225824,+!p1@Olig2!1.33!20.24!Olig2;;chr2:38206744..38206766,+!p1@Lhx2!1.32!24.10!Lhx2;;chr4:150482563..150482655,-!p2@Camta1!1.31!68.44!Camta1;;chr2:71384458..71384526,-!p2@Dlx2!1.31!19.60!Dlx2;;chr18:35020854..35020869,+!p1@Egr1!1.30!705.30!Egr1;;chr10:67375368..67375433,-!p1@Zfp365!1.29!32.13!Zfp365;;chrX:34442872..34442899,-!p1@Nkrf!1.29!24.10!Nkrf;;chr18:84256138..84256150,-!p7@Tshz1!1.29!18.32!Tshz1;;chr8:12395603..12395621,+!p1@Sox1!1.28!17.99!Sox1;;chr2:77541309..77541322,-!p14@Zfp385b!1.26!17.35!Zfp385b;;chr3:95032091..95032183,-!p1@Mllt11!1.24!135.60!Mllt11;;chr4:154335024..154335039,+!p1@Hes5!1.24!19.60!Hes5;;chr11:23977742..23977794,+!p6@Bcl11a!1.23!19.92!Bcl11a;;chr17:25707623..25707639,-!p1@Sox8!1.22!65.23!Sox8;;chr10:13685585..13685645,+!p2@Hivep2!1.22!53.98!Hivep2;;chr7:19895384..19895399,-!p2@Fosb!1.22!22.17!Fosb;;chr12:39510042..39510069,+!p8@Etv1!1.22!15.74!Etv1;;chr19:19185671..19185693,-!p1@Rorb!1.21!36.31!Rorb;;chr12:30220074..30220102,+!p3@Myt1l!1.20!14.78!Myt1l;;chr12:39510206..39510249,+!p3@Etv1!1.20!14.78!Etv1;;chr2:115884524..115884535,-!p27@Meis2!1.20!14.78!Meis2;;chr2:115891409..115891425,-!p2@Meis2!1.19!42.09!Meis2;;chr12:30213247..30213333,+!p1@Myt1l!1.19!14.46!Myt1l;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!1.18!17.67!Pou3f3;;chr3:34548909..34548927,+!p1@Sox2!1.17!23.46!Sox2;;chr2:115890294..115890334,-!p9@Meis2!1.17!18.96!Meis2;;chr12:120085700..120085711,+!p1@Sp8!1.17!13.82!Sp8;;chr15:102196702..102196713,-!p6@Sp7!1.17!13.82!Sp7;;chr15:102196745..102196769,-!p2@Sp7!1.17!13.82!Sp7;;chr12:109242266..109242295,-!p1@Bcl11b!1.15!109.25!Bcl11b;;chr11:23978111..23978134,+!p3@Bcl11a!1.15!27.31!Bcl11a;;chr4:48058047..48058062,+!p1@Nr4a3!1.15!19.92!Nr4a3;;chr1:170361730..170361769,-!p7@Pbx1!1.14!28.92!Pbx1;;chr2:115891427..115891441,-!p4@Meis2!1.14!27.31!Meis2;;chr2:56967334..56967366,-!p1@Nr4a2!1.14!26.03!Nr4a2;;chr2:115891521..115891532,-!p8@Meis2!1.14!18.64!Meis2;;chr14:70477113..70477173,+!p1@Egr3!1.14!12.85!Egr3;;chr2:81893535..81893548,+!p1@Zfp804a!1.14!12.85!Zfp804a;;chr10:67375146..67375208,-!p2@Zfp365!1.13!19.28!Zfp365;;chr12:72149325..72149343,+!p2@Arid4a!1.13!17.67!Arid4a;;chr6:6813269..6813272,+!p2@Dlx6!1.13!12.53!Dlx6;;chr11:98636531..98636559,-!p1@Nr1d1!1.12!69.08!Nr1d1;;chr4:58956447..58956510,+!p1@Zkscan16!1.11!25.71!Zkscan16;;chr1:170361678..170361689,-!p13@Pbx1!1.11!14.46!Pbx1;;chr13:83663902..83663927,+!p1@Mef2c!1.10!277.30!Mef2c;;chr15:76352677..76352737,-!p3@Scrt1!1.10!11.57!Scrt1;;chr2:79296783..79296801,-!p1@Neurod1!1.10!11.57!Neurod1;;chr2:115891454..115891471,-!p3@Meis2!1.09!34.38!Meis2;;chr2:71368815..71368836,+!p4@Dlx1!1.08!10.92!Dlx1;;chr4:48058016..48058032,+!p3@Nr4a3!1.06!17.99!Nr4a3;;chr2:71384401..71384424,-!p3@Dlx2!1.06!10.60!Dlx2;;chr2:71384425..71384456,-!p4@Dlx2!1.06!10.60!Dlx2;;chr13:83663868..83663894,+!p2@Mef2c!1.05!147.49!Mef2c;;chr2:115891381..115891392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chr10:82226613..82226641,-!p4@Nfyb!0.47!6.75!Nfyb;;chr2:34227524..34227547,-!p2@Pbx3!0.47!4.50!Pbx3;;chr6:108610766..108610781,+!p2@Bhlhe40!0.47!4.18!Bhlhe40;;chr15:81633139..81633152,+!p4@Tef!0.47!3.86!Tef;;chr10:62327990..62328025,-!p2@Tet1!0.47!3.53!Tet1;;chr11:16952347..16952366,-!p2@Plek!0.47!3.21!Plek;;chr14:52935860..52935874,-!p3@Sall2!0.47!3.21!Sall2;;chr17:44873258..44873281,-!p5@Runx2!0.47!2.89!Runx2;;chr14:52936008..52936019,-!p5@Sall2!0.47!2.57!Sall2;;chr10:128083021..128083044,-!p2@Ikzf4!0.47!2.25!Ikzf4;;chr2:115890495..115890507,-!p16@Meis2!0.47!2.25!Meis2;;chr2:105515826..105515837,+!p7@Pax6!0.47!1.93!Pax6;;chr1:189432881..189432903,+!p2@Esrrg!0.47!1.93!Esrrg;;chr2:61642743..61642758,+!p2@Tbr1!0.47!1.93!Tbr1;;chr11:96685487..96685512,-!p7@Nfe2l1!0.47!1.93!Nfe2l1;;chr11:90250999..90251013,-!p8@Hlf!0.47!1.93!Hlf;;chr11:21901608..21901634,-!p1@Otx1!0.47!1.93!Otx1;;chrX:95345005..95345053,+!p1@Ar!0.47!1.93!Ar;;chr14:118636238..118636257,-!p2@Sox21!0.47!1.93!Sox21;;chr4:82145232..82145259,-!p9@Nfib!0.47!1.93!Nfib;;chr5:106887496..106887515,-!p2@Barhl2!0.47!1.93!Barhl2;;chr4:97248607..97248649,+!p15@Nfia!0.47!1.93!Nfia;;chr2:71366574..71366587,+!p8@Dlx1!0.47!1.93!Dlx1;;chr9:96632593..96632620,-!p12@Zbtb38!0.47!1.93!Zbtb38;;chr3:32264565..32264613,-!p1@Zmat3!0.46!28.28!Zmat3;;chr11:50641183..50641244,-!p1@Zfp354c!0.46!19.92!Zfp354c;;chr4:119406389..119406411,+!p1@Hivep3!0.46!12.21!Hivep3;;chr12:77470372..77470456,-!p1@Zbtb25!0.46!10.92!Zbtb25;;chrX:109714331..109714347,+!p1@Zfp711!0.46!10.28!Zfp711;;chr9:48644306..48644364,-!p1@Zbtb16!0.46!9.96!Zbtb16;;chr4:108131994..108132056,+!p2@Zcchc11!0.46!8.03!Zcchc11;;chr2:160698288..160698358,-!p3@Zhx3!0.46!7.39!Zhx3;;chr7:25372631..25372684,-!p1@Zfp575!0.46!7.39!Zfp575;;chr14:100683912..100683947,-!p2@Klf12!0.46!7.39!Klf12;;chr1:170361826..170361844,-!p9@Pbx1!0.46!5.14!Pbx1;;chr11:18918982..18918993,-!p5@Meis1!0.46!4.82!Meis1;;chr12:85534720..85534751,-!p4@C130039O16Rik!0.46!4.18!C130039O16Rik;;chr19:23215554..23215567,+!p5@Klf9!0.46!2.89!Klf9;;chr6:108610428..108610440,+!p4@Bhlhe40!0.46!2.89!Bhlhe40;;chr7:13404186..13404214,-!p1@Zfp329!0.45!50.45!Zfp329;;chr6:83391606..83391658,-!p1@Tet3!0.45!42.74!Tet3;;chr11:101087728..101087769,-!p1@Ezh1!0.45!37.27!Ezh1;;chr1:38684260..38684312,-!p2@Aff3!0.45!17.67!Aff3;;chr14:22319053..22319105,+!p2@Myst4!0.45!8.03!Myst4;;chr18:79306158..79306249,-!p1@Setbp1!0.45!8.03!Setbp1;;chr3:94641455..94641486,+!p4@Pogz!0.45!6.11!Pogz;;chr5:3648045..3648074,-!p2@Gatad1!0.45!3.53!Gatad1;;chr10:86956396..86956411,-!p1@Ascl1!0.45!3.21!Ascl1;;chr7:52963269..52963305,+!p4@Dbp!0.45!2.89!Dbp;;chr3:87966965..87966975,+!p5@Mef2d!0.45!2.57!Mef2d;;chr4:48057987..48057996,+!p7@Nr4a3!0.45!2.25!Nr4a3;;chr3:87946250..87946405,+!p1@Mef2d!0.44!102.82!Mef2d;;chr13:48356475..48356492,+!p1@Id4!0.44!54.30!Id4;;chr16:3847206..3847307,+!p1@Zfp174!0.44!11.57!Zfp174;;chr11:62545367..62545412,-!p1@Zfp287!0.44!9.64!Zfp287;;chrX:20527723..20527739,-!p2@Elk1!0.44!6.75!Elk1;;chr3:30500978..30501018,+!p1@Mynn!0.44!6.11!Mynn;;chr2:128793085..128793116,+!p2@Zc3h6!0.44!5.46!Zc3h6;;chr11:62602947..62602980,-!p2@Zfp286!0.44!4.18!Zfp286;;chr5:125659510..125659517,-!p3@Ncor2!0.44!2.89!Ncor2;;chr15:103170561..103170572,-!p4@Zfp385a!0.44!2.89!Zfp385a;;chr17:46520492..46520515,+!p4@Zfp318!0.44!2.89!Zfp318;;chr5:125538703..125538715,-!p5@Ncor2!0.44!2.25!Ncor2;;chr11:23978353..23978379,+!p10@Bcl11a!0.44!2.25!Bcl11a;;chr10:30522881..30522960,-!p1@Ncoa7!0.43!28.60!Ncoa7;;chr9:113840108..113840184,+!p2@Ubp1!0.43!22.17!Ubp1;;chr17:33229391..33229442,+!p1@Zfp563!0.43!15.42!Zfp563;;chr14:76814601..76814630,+!p5@Tsc22d1!0.43!14.46!Tsc22d1;;chr7:5003165..5003203,+!p2@Zfp580!0.43!12.85!Zfp580;;chr1:39250584..39250643,+!p1@Npas2!0.43!11.89!Npas2;;chr12:119539902..119539931,-!p2@Sp4!0.43!8.35!Sp4;;chr11:98789099..98789124,+!p3@Rara!0.43!7.07!Rara;;chr19:53384965..53384984,+!p4@Mxi1!0.43!6.43!Mxi1;;chr9:68501568..68501592,+!p3@Rora!0.43!4.82!Rora;;chrX:45947746..45947762,-!p2@Zfp280c!0.43!4.50!Zfp280c;;chr6:47780508..47780583,-!p1@Zfp786!0.43!3.86!Zfp786;;chr12:39506841..39506848,+!p7@Etv1!0.43!2.25!Etv1;;chr16:43503594..43503634,+!p15@Zbtb20!0.43!2.25!Zbtb20;;chr7:74517658..74517731,-!p1@Mef2a!0.42!108.29!Mef2a;;chr5:134790507..134790546,-!p1@Gtf2i!0.42!58.16!Gtf2i;;chr10:126725907..126725974,-!p1@Mbd6!0.42!31.81!Mbd6;;chr7:30691106..30691156,-!p1@Zfp27!0.42!21.21!Zfp27;;chr7:134170496..134170539,-!p4@Maz!0.42!20.56!Maz;;chr16:3884472..3884572,-!p1@Zfp597!0.42!18.64!Zfp597;;chrY:234225..234243,+!p1@Kdm5d,p1@LOC100040412!0.42!17.99!Kdm5d;;chr18:69504157..69504184,+!p3@Tcf4!0.42!14.46!Tcf4;;chr13:21545538..21545569,-!p2@Zfp187!0.42!10.28!Zfp187;;chr18:69504123..69504155,+!p5@Tcf4!0.42!8.03!Tcf4;;chr18:55152179..55152194,-!p5@Zfp608!0.42!6.11!Zfp608;;chr7:5003205..5003234,+!p3@Zfp580!0.42!6.11!Zfp580;;chr9:87626083..87626108,-!p1@Tbx18!0.42!4.50!Tbx18;;chr11:100712053..100712077,-!p3@Stat5b!0.42!3.86!Stat5b;;chr4:133310137..133310152,-!p12@Arid1a!0.42!3.21!Arid1a;;chr13:78339476..783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+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006601,UBERON:0006238,UBERON:0010316
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 36: / Line 42: @@
 |has_quality=
 |id=FF:18-22I9
-|is_a=EFO:0002091;;FF:0000004;;FF:0000103;;FF:0011286
+|is_a=EFO:0002091;;FF:0011286
+|is_obsolete=
+|library_id=CNhs10489
+|library_id_phase_based=2:CNhs10489
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;18
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;18
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/olfactory%2520brain%252c%2520adult.CNhs10489.18-22I9.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/olfactory%2520brain%252c%2520adult.CNhs10489.18-22I9.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/olfactory%2520brain%252c%2520adult.CNhs10489.18-22I9.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/olfactory%2520brain%252c%2520adult.CNhs10489.18-22I9.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/olfactory%2520brain%252c%2520adult.CNhs10489.18-22I9.mm9.nobarcode.rdna.fa.gz
 |name=olfactory brain, adult
 |namespace=FANTOM5
@@ Line 42: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10489,LSID647,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.194511119895451,0,0,0,0,0,0.075066697448595,0,0.121008441369486,0,0,-0.0843392403965415,0,0,0,0,0,0,0.0236497393537938,0,0.060504220684743,0,0,0,0,0,0,0,0,0,0,0.0198697979199617,-0.342879702087663,0,0,0,0,0.0509373619362539,-0.101551180377642,0.121008441369486,0.00696355754792322,0.65662506380704,0.196691739821446,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0,0.0918453342961248,0.215543090236368,0.0575317451680089,-0.0032513477396033,0.048289762200462,0.929911939083334,0.0847158128795758,0,0.0841474329348547,0.159224579011845,0.129011858134399,0.121008441369486,0,0.131658471376718,0.187406073582817,-0.236974461200721,0.0421768465295781,0.0200553864628796,0,0,0,0,0,-0.124052030742824,-0.60868127095121,-0.162031457113215,0.0412183344404631,0,0.293133511567635,0,0
 |rna_box=22
 |rna_catalog_number=
@@ Line 57: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 76: / Line 96: @@
 |sample_tissue=olfactory brain
 |top_motifs=PRRX1,2:3.37412843567;EGR1..3:2.79515101759;REST:2.74978714368;PBX1:2.72496652415;STAT1,3:2.70669185324;CUX2:2.65435198639;ZFP161:2.60444725156;MTE{core}:2.55374743782;MED-1{core}:2.51601351297;POU6F1:2.40320595529;POU3F1..4:2.39758926058;NKX3-2:2.3403812135;AHR_ARNT_ARNT2:2.32592457825;NANOG:2.32454078836;MYFfamily:2.31398246481;OCT4_SOX2{dimer}:2.20299856926;HMGA1,2:2.19236546124;NHLH1,2:2.18092490772;ZBTB6:2.16418018235;FOXD3:2.14320268171;MTF1:2.09212837234;MZF1:2.08477634143;BREu{core}:2.02746876069;ATF2:1.97532007514;RBPJ:1.95783717284;TFAP2B:1.92941980439;VSX1,2:1.91230526028;RREB1:1.89772271103;CREB1:1.81748120576;GTF2I:1.75837957637;ATF5_CREB3:1.75588090142;NANOG{mouse}:1.73271980886;TEF:1.71587515378;PAX6:1.70001525549;HAND1,2:1.68956941861;JUN:1.67371037445;HIC1:1.66702946853;HOX{A4,D4}:1.63394370243;TGIF1:1.62534118894;SMAD1..7,9:1.54657403094;LMO2:1.50723076565;PRDM1:1.49534515136;MAFB:1.48356269459;DBP:1.43980199227;RFX1:1.43333626412;GFI1B:1.4172286927;NFIL3:1.39301303174;FOXM1:1.38616521839;ADNP_IRX_SIX_ZHX:1.37362898462;PAX4:1.31762027818;KLF4:1.26921259992;LHX3,4:1.24550877825;SOX2:1.22900097921;TFAP2{A,C}:1.21898528456;SPZ1:1.18702811909;PATZ1:1.17479473444;RFX2..5_RFXANK_RFXAP:1.17446516166;POU1F1:1.14125677016;PAX5:1.13470828637;TFDP1:1.12412921993;MAZ:1.10842961423;NRF1:1.08597603962;GZF1:1.07487300018;GTF2A1,2:1.05733065715;SREBF1,2:1.05318683844;PAX2:1.0310739305;FOXP1:1.02043322812;MYOD1:1.01946749116;NKX2-3_NKX2-5:0.997265753278;PAX8:0.986488536777;RORA:0.923921366056;NFE2L2:0.911504811099;NKX6-1,2:0.877019478228;EVI1:0.830654950516;HES1:0.827243326794;ZNF423:0.808709702568;HBP1_HMGB_SSRP1_UBTF:0.792728742551;ZNF143:0.77354480554;ZIC1..3:0.735021885679;BPTF:0.682313540281;CDC5L:0.66889274217;bHLH_family:0.657324947483;NR3C1:0.649486137606;LEF1_TCF7_TCF7L1,2:0.643132056517;FOXN1:0.622179767769;SOX{8,9,10}:0.616833142765;POU5F1:0.609316766442;FOX{F1,F2,J1}:0.602004096675;ALX1:0.595824017284;FOXA2:0.500008139881;HSF1,2:0.483609714898;TOPORS:0.444370336918;FOXQ1:0.389314688535;SOX5:0.350867175927;ZEB1:0.348565504126;TBX4,5:0.325201714463;YY1:0.289022054751;ZNF384:0.281911579893;FOSL2:0.267136946853;TFAP4:0.212942002748;TAL1_TCF{3,4,12}:0.15919768901;PPARG:0.146265136548;EP300:0.12866887931;SOX17:0.117965353005;ATF4:0.110420892368;MYBL2:0.094239814603;UFEwm:0.0813849824339;IKZF1:0.0647069548308;PDX1:0.0336415859968;IRF7:0.00975693704629;AIRE:0.00670036012021;TLX1..3_NFIC{dimer}:0.00273946266429;MEF2{A,B,C,D}:-0.000563091002124;CRX:-0.0149269644163;HOXA9_MEIS1:-0.0339221583884;HOX{A5,B5}:-0.0491777797081;FOXL1:-0.0752098779399;FOXP3:-0.0816003580047;GATA4:-0.0880552547533;CDX1,2,4:-0.10587822968;ZBTB16:-0.12604267053;EN1,2:-0.129891028312;ZNF148:-0.135749994668;GCM1,2:-0.162112801347;FOS_FOS{B,L1}_JUN{B,D}:-0.166617362191;HIF1A:-0.170723675152;TLX2:-0.183782191892;NFATC1..3:-0.197002312778;NFE2:-0.207133845758;ESRRA:-0.21768856473;STAT2,4,6:-0.226797822827;AR:-0.245243367571;GLI1..3:-0.265328617057;SNAI1..3:-0.312755912321;ONECUT1,2:-0.33631780675;SP1:-0.38953615787;ZNF238:-0.448487356264;NR5A1,2:-0.456527101885;ARID5B:-0.46516447085;NFY{A,B,C}:-0.474444350608;FOX{I1,J2}:-0.485212421027;ATF6:-0.498426528542;PAX1,9:-0.499292448607;HMX1:-0.523300059888;ESR1:-0.53041019669;STAT5{A,B}:-0.554170053972;EBF1:-0.619210806743;GFI1:-0.648915797357;ELK1,4_GABP{A,B1}:-0.662347836194;NKX2-1,4:-0.671105396402;XCPE1{core}:-0.681952192386;MYB:-0.780300821855;IRF1,2:-0.800583624783;NR6A1:-0.802631342892;POU2F1..3:-0.817161129726;SPI1:-0.817621073661;CEBPA,B_DDIT3:-0.82081345934;HNF1A:-0.87801786305;FOX{D1,D2}:-0.884770485679;HNF4A_NR2F1,2:-0.885877673087;RXR{A,B,G}:-0.886212608999;NFKB1_REL_RELA:-0.900626866452;RUNX1..3:-0.90519706849;BACH2:-0.911702638188;HLF:-0.923573179629;NFE2L1:-0.967382358489;TEAD1:-0.979531036221;NR1H4:-0.979745468994;GATA6:-0.987242159445;TFCP2:-1.01848617101;PITX1..3:-1.03049449263;NKX3-1:-1.05758189995;SPIB:-1.05810269244;TBP:-1.16964442494;IKZF2:-1.18615640229;RXRA_VDR{dimer}:-1.23792197095;ETS1,2:-1.24882551802;DMAP1_NCOR{1,2}_SMARC:-1.26494905331;FOXO1,3,4:-1.333898186;ELF1,2,4:-1.39816125033;NKX2-2,8:-1.39913966478;TP53:-1.51300331264;T:-1.52327359265;SRF:-1.5370202454;ALX4:-1.544699436;RXR{A,B,G}_{NR1H2,PPAR}dimers:-1.60209995587;E2F1..5:-1.62460918407;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-1.67856007995;NFIX:-2.65064672459
+|xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:18-22I9;search_select_hide=table117:18-22I9
 }}

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FF:18-22I9: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:09, 4 June 2020

CNhs10489

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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