FF:10001-101A3: Difference between revisions

Latest revision as of 13:43, 24 September 2021

Name:	Clontech Mouse Universal Reference Total RNA, pool1
Species:	Mouse (Mus musculus)
Library ID:	CNhs10609
Sample type:	tissues
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	whole body
dev stage	UNDEFINED
sex	mixed
age	NA
cell type	CELL MIXTURE - tissue sample
cell line	NA
company	Clontech
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	8092682
catalog number	Cat:636657
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005443

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10609		CAGE		DRX008920		DRR009794

Accession ID Mm9

Library id		BAM		CTSS
CNhs10609		DRZ001219		DRZ002602

Accession ID Mm10

Library id		BAM		CTSS
CNhs10609		DRZ012569		DRZ013952

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

CNhs10609

0	0.715
1	0.323
10	0
100	0
1000	0.0652
1001	0.0244
1002	-0.0343
1003	-0.00177
1004	0.236
1005	0.0354
1006	0.259
1007	0.0894
1008	0
1009	0.168
101	-0.0613
1010	0.0354
1011	0.692
1012	0.0682
1013	0.0807
1014	-0.0851
1015	0.122
1016	-0.0769
1017	0
1018	0.0682
1019	0.0354
102	0
1020	0
1021	0
1022	0.217
1023	0
1024	0.233
1025	0.373
1026	0.581
1027	0.131
1028	0.0354
1029	-0.0307
103	0.00251
1030	0
1031	-0.0963
1032	0.053
1033	0.0322
1034	0.125
1035	0.247
1036	-0.238
1037	0
1038	0.0329
1039	0.179
104	0
1040	0.082
1041	0.225

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: CNhs10609

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.26
MA0003.1	MA0003.1	0.159
MA0004.1	MA0004.1	0.81
MA0006.1	MA0006.1	0.0516
MA0007.1	MA0007.1	0.746
MA0009.1	MA0009.1	0.309
MA0014.1	MA0014.1	0.913
MA0017.1	MA0017.1	0.592
MA0018.2	MA0018.2	2.88425e-14
MA0019.1	MA0019.1	0.0969
MA0024.1	MA0024.1	0.346
MA0025.1	MA0025.1	0.00866
MA0027.1	MA0027.1	0.0693
MA0028.1	MA0028.1	0.0117
MA0029.1	MA0029.1	0.672
MA0030.1	MA0030.1	0.374
MA0031.1	MA0031.1	0.913
MA0035.2	MA0035.2	0.00266
MA0038.1	MA0038.1	0.375
MA0039.2	MA0039.2	0.468
MA0040.1	MA0040.1	0.279
MA0041.1	MA0041.1	0.0618
MA0042.1	MA0042.1	0.353
MA0043.1	MA0043.1	0.00211
MA0046.1	MA0046.1	0.00346
MA0047.2	MA0047.2	0.265
MA0048.1	MA0048.1	0.835
MA0050.1	MA0050.1	0.0197
MA0051.1	MA0051.1	0.967
MA0052.1	MA0052.1	0.0616
MA0055.1	MA0055.1	0.0454
MA0057.1	MA0057.1	0.364
MA0058.1	MA0058.1	0.897
MA0059.1	MA0059.1	0.478
MA0060.1	MA0060.1	6.26947e-5
MA0061.1	MA0061.1	2.34811e-4
MA0062.2	MA0062.2	1.0206e-5
MA0065.2	MA0065.2	0.523
MA0066.1	MA0066.1	0.411
MA0067.1	MA0067.1	0.411
MA0068.1	MA0068.1	0.222
MA0069.1	MA0069.1	0.197
MA0070.1	MA0070.1	0.97
MA0071.1	MA0071.1	0.755
MA0072.1	MA0072.1	0.27
MA0073.1	MA0073.1	0.942
MA0074.1	MA0074.1	0.547
MA0076.1	MA0076.1	0.0668
MA0077.1	MA0077.1	5.72116e-5
MA0078.1	MA0078.1	8.26167e-10
MA0079.2	MA0079.2	0.686
MA0080.2	MA0080.2	1.44718e-5
MA0081.1	MA0081.1	0.00323
MA0083.1	MA0083.1	0.387
MA0084.1	MA0084.1	0.554
MA0087.1	MA0087.1	0.0301
MA0088.1	MA0088.1	0.402
MA0090.1	MA0090.1	0.143
MA0091.1	MA0091.1	0.994
MA0092.1	MA0092.1	0.0993
MA0093.1	MA0093.1	0.941
MA0099.2	MA0099.2	0.134
MA0100.1	MA0100.1	2.94888e-22
MA0101.1	MA0101.1	0.00555
MA0102.2	MA0102.2	0.495
MA0103.1	MA0103.1	0.166
MA0104.2	MA0104.2	4.70328e-4
MA0105.1	MA0105.1	2.07987e-7
MA0106.1	MA0106.1	1.70295e-4
MA0107.1	MA0107.1	0.00145
MA0108.2	MA0108.2	0.821
MA0111.1	MA0111.1	0.0386
MA0112.2	MA0112.2	0.0726
MA0113.1	MA0113.1	0.611
MA0114.1	MA0114.1	0.301
MA0115.1	MA0115.1	0.917
MA0116.1	MA0116.1	0.0201
MA0117.1	MA0117.1	0.95
MA0119.1	MA0119.1	0.341
MA0122.1	MA0122.1	0.666
MA0124.1	MA0124.1	0.619
MA0125.1	MA0125.1	0.453
MA0131.1	MA0131.1	0.492
MA0135.1	MA0135.1	0.793
MA0136.1	MA0136.1	2.5896e-5
MA0137.2	MA0137.2	0.101
MA0138.2	MA0138.2	0.37
MA0139.1	MA0139.1	0.432
MA0140.1	MA0140.1	3.39424e-7
MA0141.1	MA0141.1	0.335
MA0142.1	MA0142.1	0.498
MA0143.1	MA0143.1	3.38138e-4
MA0144.1	MA0144.1	0.227
MA0145.1	MA0145.1	0.18
MA0146.1	MA0146.1	0.0203
MA0147.1	MA0147.1	0.00513
MA0148.1	MA0148.1	0.133
MA0149.1	MA0149.1	0.491
MA0150.1	MA0150.1	0.659
MA0152.1	MA0152.1	0.0808
MA0153.1	MA0153.1	0.151
MA0154.1	MA0154.1	0.0539
MA0155.1	MA0155.1	0.244
MA0156.1	MA0156.1	1.22068e-6
MA0157.1	MA0157.1	0.381
MA0159.1	MA0159.1	0.543
MA0160.1	MA0160.1	0.0011
MA0162.1	MA0162.1	0.582
MA0163.1	MA0163.1	0.363
MA0164.1	MA0164.1	0.726
MA0258.1	MA0258.1	0.499
MA0259.1	MA0259.1	0.16

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: CNhs10609

Novel motif	Logo	P-value
1	1	0.915
10	10	0.389
100	100	0.308
101	101	0.3
102	102	0.353
103	103	0.547
104	104	0.899
105	105	0.929
106	106	0.00252
107	107	0.0468
108	108	0.449
109	109	0.947
11	11	0.656
110	110	0.689
111	111	0.862
112	112	0.497
113	113	0.856
114	114	0.395
115	115	0.904
116	116	0.917
117	117	0.514
118	118	0.551
119	119	0.667
12	12	0.867
120	120	0.657
121	121	0.0271
122	122	0.615
123	123	0.371
124	124	0.855
125	125	0.735
126	126	0.924
127	127	0.202
128	128	0.0167
129	129	0.444
13	13	0.00371
130	130	0.934
131	131	0.824
132	132	0.683
133	133	0.423
134	134	0.969
135	135	0.1
136	136	0.00394
137	137	0.385
138	138	0.989
139	139	0.333
14	14	0.649
140	140	0.064
141	141	0.142
142	142	0.727
143	143	0.529
144	144	0.27
145	145	0.834
146	146	0.199
147	147	0.368
148	148	0.298
149	149	0.389
15	15	0.671
150	150	0.803
151	151	0.372
152	152	0.521
153	153	0.806
154	154	0.315
155	155	0.462
156	156	1.84924e-5
157	157	0.987
158	158	1.38689e-5
159	159	0.0548
160	160	0.0135
161	161	0.23
162	162	0.48
163	163	0.733
164	164	0.49
165	165	0.477
166	166	0.471
167	167	0.639
168	168	0.791
169	169	0.543
17	17	0.49
18	18	0.473
19	19	0.426
2	2	0.074
20	20	0.275
21	21	0.531
22	22	0.949
23	23	0.499
24	24	0.0694
25	25	0.438
26	26	0.0485
27	27	0.0435
28	28	0.459
29	29	0.848
3	3	0.322
30	30	0.825
31	31	0.414
32	32	0.737
33	33	0.618
34	34	0.225
35	35	0.665
36	36	0.335
37	37	0.0688
38	38	0.73
39	39	0.497
4	4	0.992
40	40	0.0822
41	41	5.29361e-4
42	42	0.497
43	43	0.29
44	44	0.767
45	45	0.734
46	46	0.312
47	47	0.0627
48	48	0.245
49	49	0.815
5	5	0.347
50	50	0.578
51	51	0.656
52	52	0.662
53	53	0.983
54	54	0.489
55	55	0.807
56	56	0.157
57	57	0.48
58	58	0.402
59	59	0.5
6	6	0.756
60	60	0.347
61	61	0.345
62	62	0.6
63	63	0.578
64	64	0.691
65	65	0.527
66	66	0.152
67	67	0.257
68	68	0.785
69	69	0.425
7	7	0.442
70	70	0.814
71	71	0.00348
72	72	0.329
73	73	0.243
74	74	0.786
75	75	0.17
76	76	0.4
77	77	0.748
78	78	2.14088e-6
79	79	0.963
8	8	0.016
80	80	0.533
81	81	0.301
82	82	0.916
83	83	0.658
84	84	0.682
85	85	0.891
86	86	0.287
87	87	0.00114
88	88	0.282
89	89	0.874
9	9	0.971
90	90	0.629
91	91	0.52
92	92	0.518
93	93	0.683
94	94	0.418
95	95	0.9
96	96	0.774
97	97	0.154
98	98	0.956
99	99	0.912

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: CNhs10609

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000004 tissue sample
FF:0000103 mouse 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
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000004 (tissue 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
NA

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005443
+|accession_numbers=CAGE;DRX008920;DRR009794;DRZ001219;DRZ002602;DRZ012569;DRZ013952
 |ancestors_in_anatomy_facet=UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062
 |ancestors_in_cell_lineage_facet=
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr13:93346120..93346155,-!p1@Spz1!2.65!445.46!Spz1;;chr1:168168856..168168893,-!p1@Mael!2.62!413.57!Mael;;chr4:107356135..107356179,-!p1@Dmrtb1!2.58!379.89!Dmrtb1;;chr5:38611867..38611888,+!p2@Lyar!2.43!269.93!Lyar;;chr6:131338278..131338362,-!p2@Csda!2.35!631.28!Csda;;chr11:69749396..69749433,+!p1@Ybx2!2.35!222.64!Ybx2;;chr3:90046414..90046476,-!p1@Creb3l4!2.20!159.12!Creb3l4;;chr10:22451680..22451722,-!p3@Tbpl1!1.90!77.81!Tbpl1;;chr10:70701022..70701036,-!p3@Tfam!1.88!75.52!Tfam;;chr18:52775562..52775650,+!p1@Zfp474!1.82!65.23!Zfp474;;chr4:107356181..107356197,-!p2@Dmrtb1!1.80!62.59!Dmrtb1;;chr1:52043967..52043976,+!p5@Stat4!1.76!56.89!Stat4;;chr6:143895612..143895631,-!p3@Sox5!1.76!56.38!Sox5;;chr1:52065054..52065098,+!p4@Stat4!1.74!53.92!Stat4;;chr16:50331100..50331130,-!p3@Bbx!1.72!51.11!Bbx;;chr4:149610794..149610876,+!p2@LOC100045967,p2@LOC100503183,p3@Eno1,p3@Gm5506!1.69!64.80!Eno1;;chr12:100009228..100009251,+!p2@Zc3h14!1.69!48.05!Zc3h14;;chr18:3309876..3309914,-!p9@Crem!1.64!42.35!Crem;;chr18:50438025..50438057,+!p1@Fam170a!1.62!40.48!Fam170a;;chr2:180377386..180377462,-!p1@Tcfl5!1.61!47.37!Tcfl5;;chr10:22451724..22451752,-!p4@Tbpl1!1.61!39.55!Tbpl1;;chr5:138202908..138202942,+!p10@Tsc22d4!1.60!38.78!Tsc22d4;;chr16:50331135..50331178,-!p5@Bbx!1.57!36.14!Bbx;;chr1:168168817..168168850,-!p2@Mael!1.57!36.06!Mael;;chr18:3299535..3299565,-!p10@Crem!1.57!35.89!Crem;;chr10:84224957..84224991,+!p3@Rfx4!1.56!35.46!Rfx4;;chr2:17985983..17986035,+!p4@Mllt10!1.54!33.68!Mllt10;;chr5:38611831..38611842,+!p3@Lyar!1.54!33.42!Lyar;;chr6:143895581..143895604,-!p6@Sox5!1.53!33.17!Sox5;;chr6:52663997..52664043,+!p2@Tax1bp1!1.53!33.00!Tax1bp1;;chr1:52043983..52043995,+!p6@Stat4!1.51!31.64!Stat4;;chr15:36937522..36937543,-!p4@Gm10193,p4@Zfp706!1.50!30.96!Zfp706;;chr11:69749437..69749467,+!p3@Ybx2!1.50!30.87!Ybx2;;chr11:69749367..69749385,+!p4@Ybx2!1.50!30.79!Ybx2;;chr1:56694305..56694324,-!p1@Hsfy2!1.48!29.51!Hsfy2;;chr6:131338363..131338383,-!p4@Csda!1.45!117.53!Csda;;chrX:113562567..113562578,+!p1@Cpxcr1!1.44!26.70!Cpxcr1;;chr10:70698065..70698087,-!p4@Tfam!1.44!26.53!Tfam;;chr16:91270004..91270023,+!p1@Olig1!1.42!28.74!Olig1;;chr5:77543897..77543911,-!p2@Hopx!1.40!45.16!Hopx;;chr1:137155026..137155042,-!p1@Elf3!1.35!120.68!Elf3;;chr2:79296783..79296801,-!p1@Neurod1!1.35!21.43!Neurod1;;chr18:3299485..3299513,-!p12@Crem!1.35!21.35!Crem;;chr7:29552143..29552173,-!p4@Nfkbib!1.33!20.24!Nfkbib;;chr7:25655099..25655143,+!p1@Dmrtc2!1.32!19.99!Dmrtc2;;chr12:100009260..100009274,+!p3@Zc3h14!1.32!19.82!Zc3h14;;chr7:135020660..135020688,+!p3@Zfp646!1.31!26.70!Zfp646;;chr7:31383850..31383874,-!p1@Zbtb32!1.31!19.56!Zbtb32;;chr1:56694274..56694293,-!p2@Hsfy2!1.31!19.56!Hsfy2;;chr7:19953851..19953902,+!p4@Ppp1r13l!1.31!19.30!Ppp1r13l;;chr14:55489750..55489784,-!p2@Homez!1.30!19.13!Homez;;chr2:180377307..180377330,-!p2@Tcfl5!1.30!18.79!Tcfl5;;chr9:18282807..18282821,+!p1@Mbd3l1!1.28!18.11!Mbd3l1;;chr14:32979060..32979091,+!p4@Gm6768,p4@Ncoa4!1.28!17.94!Ncoa4;;chr10:88969376..88969395,-!p1@Nr1h4!1.27!17.60!Nr1h4;;chr4:118967319..118967330,-!p6@Ybx1!1.25!16.67!Ybx1;;chr10:5636354..5636373,-!p2@Esr1!1.24!16.33!Esr1;;chr6:52664044..52664072,+!p5@Tax1bp1!1.23!16.07!Tax1bp1;;chr11:87430678..87430702,+!p1@Hsf5!1.22!15.65!Hsf5;;chr14:32979026..32979042,+!p5@Gm6768,p5@Ncoa4!1.22!15.56!Ncoa4;;chr10:5636374..5636421,-!p1@Esr1!1.21!19.05!Esr1;;chr8:26950937..26950991,-!p3@Ash2l!1.21!17.94!Ash2l;;chr5:38611816..38611827,+!p4@Lyar!1.21!16.92!Lyar;;chr10:22539932..22539956,-!p1@Tcf21!1.20!39.55!Tcf21;;chr11:83664365..83664383,+!p1@Hnf1b!1.20!14.88!Hnf1b;;chr6:52859625..52859638,-!p3@Jazf1!1.20!14.71!Jazf1;;chr6:6832076..6832092,-!p1@Dlx5!1.19!16.75!Dlx5;;chr7:86937900..86937933,-!p@chr7:86937900..86937933,-!1.19!14.37!Mesp1;;chr5:138199361..138199441,+!p2@Tsc22d4!1.18!26.79!Tsc22d4;;chr2:24331085..24331100,-!p1@Pax8!1.18!14.29!Pax8;;chr11:116196698..116196713,-!p3@Foxj1!1.18!14.03!Foxj1;;chr3:90046478..90046489,-!p5@Creb3l4!1.17!13.69!Creb3l4;;chr10:67375368..67375433,-!p1@Zfp365!1.16!23.98!Zfp365;;chr11:52096066..52096081,-!p2@Tcf7!1.16!16.33!Tcf7;;chr6:52859575..52859603,-!p4@Jazf1!1.15!13.10!Jazf1;;chr17:56970481..56970551,-!p2@Rfx2!1.14!39.46!Rfx2;;chr3:95032515..95032553,-!p5@Mllt11!1.14!15.39!Mllt11;;chr9:18282826..18282845,+!p2@Mbd3l1!1.14!12.84!Mbd3l1;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!1.13!15.73!Pou3f3;;chr11:116196714..116196729,-!p2@Foxj1!1.13!12.59!Foxj1;;chr11:87430653..87430666,+!p2@Hsf5!1.13!12.50!Hsf5;;chr8:123608252..123608268,+!p1@Foxf1a!1.12!18.20!Foxf1a;;chr4:61869708..61869732,-!p5@Zfp37!1.12!12.33!Zfp37;;chr8:26958093..26958148,-!p2@Ash2l!1.12!12.25!Ash2l;;chr11:69749491..69749502,+!p6@Ybx2!1.12!12.25!Ybx2;;chr17:15637108..15637147,+!p3@Tbp!1.12!12.08!Tbp;;chr17:87153240..87153254,+!p1@Epas1!1.11!231.66!Epas1;;chr6:55631042..55631102,-!p1@Neurod6!1.11!11.74!Neurod6;;chr5:134782473..134782486,-!p12@Gtf2i!1.11!11.74!Gtf2i;;chr10:22451660..22451678,-!p7@Tbpl1!1.10!11.65!Tbpl1;;chr1:39777834..39777860,-!p1@Rfx8!1.10!11.57!Rfx8;;chr4:117438155..117438175,-!p1@Klf17,p1@LOC100504967!1.10!11.48!Klf17;;chr7:31383882..31383903,-!p2@Zbtb32!1.09!11.40!Zbtb32;;chrX:83437105..83437121,+!p1@Nr0b1!1.09!11.31!Nr0b1;;chr11:87430728..87430749,+!p3@Hsf5!1.09!11.31!Hsf5;;chr15:100058744..100058772,+!p4@Gm1862,p6@Atf1!1.09!11.23!Atf1;;chr11:95170996..95171026,-!p3@Myst2!1.08!11.14!Myst2;;chr2:160685337..160685366,-!p5@Zhx3!1.07!10.72!Zhx3;;chr11:116196664..116196679,-!p1@Foxj1!1.06!16.24!Foxj1;;chr11:59319921..59319944,-!p5@Zkscan17!1.06!10.55!Zkscan17;;chr9:91260594..91260612,-!p1@Zic1!1.06!10.55!Zic1;;chr4:102815657..102815676,+!p16@Mier1!1.06!10.55!Mier1;;chr11:45793811..45793839,+!p1@Sox30!1.06!10.38!Sox30;;chr10:102491694..102491714,-!p3@Alx1!1.05!10.21!Alx1;;chr4:61869757..61869771,-!p6@Zfp37!1.05!10.21!Zfp37;;chr10:22451765..22451795,-!p6@Tbpl1!1.04!15.05!Tbpl1;;chr19:59533221..59533271,+!p1@Emx2!1.04!12.33!Emx2;;chr6:85463580..85463585,-!p1@Egr4!1.04!9.95!Egr4;;chr17:51971960..51971979,-!p1@Satb1!1.03!13.01!Satb1;;chrX:113562548..113562557,+!p2@Cpxcr1!1.03!9.78!Cpxcr1;;chr9:91260616..91260653,-!p2@Zic1!1.03!9.69!Zic1;;chr2:163372884..163372904,+!p1@Hnf4a!1.03!9.69!Hnf4a;;chr4:63042249..63042287,-!p10@Akna!1.03!9.61!Akna;;chr9:111020746..111020768,+!p5@Lrrfip2!1.03!9.61!Lrrfip2;;chr11:69749320..69749345,+!p2@Ybx2!1.02!15.73!Ybx2;;chr15:100410635..100410667,-!p4@Pou6f1!1.02!9.44!Pou6f1;;chr14:32979005..32979017,+!p7@Gm6768,p7@Ncoa4!1.02!9.35!Ncoa4;;chr7:88007115..88007129,+!p2@Zscan2!1.01!9.18!Zscan2;;chr1:52065106..52065124,+!p7@Stat4!1.01!9.18!Stat4;;chr2:27565816..27565828,+!p10@Rxra!1.00!9.10!Rxra;;chr6:52859553..52859568,-!p6@Jazf1!1.00!9.01!Jazf1;;chr8:72356384..72356434,+!p2@Pbx4!0.99!13.61!Pbx4;;chr13:96094769..96094829,+!p4@Zbed3!0.99!12.59!Zbed3;;chr11:96143666..96143725,+!p1@Hoxb8!0.99!10.04!Hoxb8;;chr4:61869681..61869704,-!p3@Zfp37!0.99!8.84!Zfp37;;chr11:34108085..34108092,-!p1@Foxi1!0.99!8.76!Foxi1;;chr11:85699862..85699920,+!p1@Tbx4!0.99!8.67!Tbx4;;chr1:56694252..56694259,-!p3@Hsfy2!0.98!8.59!Hsfy2;;chr2:180377331..180377344,-!p3@Tcfl5!0.98!8.59!Tcfl5;;chr8:72356532..72356611,+!p1@Pbx4!0.97!35.38!Pbx4;;chr14:69789996..69790021,+!p1@Nkx2-6!0.97!8.33!Nkx2-6;;chr9:8900459..8900489,+!p1@Pgr!0.97!8.25!Pgr;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.96!24.24!Tfcp2l1;;chr5:136778385..136778407,-!p7@Cux1!0.96!8.08!Cux1;;chr11:98636531..98636559,-!p1@Nr1d1!0.95!46.26!Nr1d1;;chr10:84300848..84300879,+!p6@Rfx4!0.95!7.99!Rfx4;;chr12:86438030..86438041,-!p@chr12:86438030..86438041,-!0.95!7.91!Prox2;;chr19:19185671..19185693,-!p1@Rorb!0.94!18.96!Rorb;;chr16:3872378..3872411,-!p6@Zfp597!0.94!8.93!Zfp597;;chr12:81214217..81214219,-!p2@Zfp36l1!0.94!7.74!Zfp36l1;;chr10:84300905..84300919,+!p7@Rfx4!0.94!7.65!Rfx4;;chr4:61869733..61869751,-!p8@Zfp37!0.94!7.65!Zfp37;;chr2:74543397..74543435,+!p2@Hoxd8!0.94!7.65!Hoxd8;;chr2:38781916..38781974,-!p1@Nr6a1!0.93!23.56!Nr6a1;;chr16:55966407..55966447,+!p6@Rpl24,p6@Zbtb11!0.93!18.88!Zbtb11;;chr2:144157107..144157128,-!p3@Ovol2!0.93!7.57!Ovol2;;chr11:87430713..87430724,+!p4@Hsf5!0.93!7.57!Hsf5;;chr18:3309750..3309787,-!p21@Crem!0.93!7.48!Crem;;chr1:179374784..179374800,+!p2@Zfp238!0.92!8.59!Zfp238;;chr11:98190918..98190951,-!p1@Neurod2!0.92!7.40!Neurod2;;chr11:69749347..69749356,+!p8@Ybx2!0.92!7.23!Ybx2;;chr6:52190467..52190500,-!p1@Hoxa10!0.92!7.23!Hoxa10;;chr17:87153028..87153049,+!p2@Epas1!0.90!149.59!Epas1;;chr5:135582751..135582788,+!p1@Mlxipl!0.90!28.83!Mlxipl;;chr17:87153462..87153473,+!p3@Epas1!0.90!27.13!Epas1;;chr7:116154364..116154444,+!p1@Tub!0.90!12.16!Tub;;chr6:72850124..72850210,-!p7@Kcmf1!0.90!9.35!Kcmf1;;chr16:3872255..3872283,-!p4@Zfp597!0.89!10.04!Zfp597;;chr12:57636034..57636087,-!p1@Nkx2-1!0.89!6.80!Nkx2-1;;chr13:78164153..78164174,+!p1@Pou5f2!0.89!6.72!Pou5f2;;chr8:86590318..86590330,+!p3@Rfx1!0.89!6.72!Rfx1;;chr8:107033774..107033794,-!p1@Ccdc79!0.88!8.25!Ccdc79;;chr7:25655066..25655080,+!p2@Dmrtc2!0.88!6.63!Dmrtc2;;chr3:95032802..95032830,-!p7@Mllt11!0.88!6.63!Mllt11;;chr19:4989964..4989972,-!p1@Npas4!0.88!6.55!Npas4;;chr18:3337503..3337536,-!p7@Crem!0.87!11.48!Crem;;chr5:125342568..125342602,+!p2@Zfp664!0.87!10.72!Zfp664;;chr1:38721792..38721845,-!p1@Aff3!0.87!8.16!Aff3;;chr15:76353005..76353021,-!p2@Scrt1!0.87!6.38!Scrt1;;chr3:95032091..95032183,-!p1@Mllt11!0.86!57.23!Mllt11;;chr7:52960555..52960662,+!p1@Dbp!0.86!56.13!Dbp;;chr15:35225845..35225867,+!p1@Osr2!0.86!16.41!Osr2;;chr17:51971932..51971958,-!p2@Satb1!0.86!8.76!Satb1;;chr6:52195795..52195825,-!p1@Hoxa11!0.86!6.29!Hoxa11;;chr14:69790035..69790050,+!p2@Nkx2-6!0.86!6.21!Nkx2-6;;chr17:48015839..48015915,-!p3@Foxp4!0.85!7.31!Foxp4;;chr9:18282704..18282748,-!p3@Zfp558!0.85!6.04!Zfp558;;chr7:13420092..13420160,+!p2@Zfp110!0.84!11.65!Zfp110;;chr10:67375146..67375208,-!p2@Zfp365!0.84!9.44!Zfp365;;chr11:96143843..96143868,+!p3@Hoxb8!0.84!5.95!Hoxb8;;chr1:39777805..39777820,-!p2@Rfx8!0.84!5.95!Rfx8;;chr15:102828658..102828678,+!p1@Hoxc6!0.84!5.95!Hoxc6;;chr12:30219426..30219506,+!p2@Myt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chr16:43363968..43364001,+!p7@Zbtb20!0.43!3.74!Zbtb20;;chr12:39507404..39507441,+!p4@Etv1!0.43!2.72!Etv1;;chr12:72149359..72149406,+!p4@Arid4a!0.43!2.47!Arid4a;;chr12:86939997..86940040,+!p4@Jdp2!0.43!1.70!Jdp2;;chrX:95345005..95345053,+!p1@Ar!0.43!1.70!Ar;;chr11:100553754..100553787,-!p1@Zfp385c!0.43!1.70!Zfp385c;;chr11:98190955..98190968,-!p2@Neurod2!0.43!1.70!Neurod2;;chr11:90252108..90252134,-!p6@Hlf!0.43!1.70!Hlf;;chr5:77544170..77544181,-!p6@Hopx!0.43!1.70!Hopx;;chr19:25580110..25580163,+!p1@Dmrt1!0.43!1.70!Dmrt1;;chr4:89354785..89354801,+!p2@Dmrta1!0.43!1.70!Dmrta1;;chr4:44696781..44696790,-!p11@Pax5!0.43!1.70!Pax5;;chr1:52176315..52176343,+!p1@Stat1!0.42!33.93!Stat1;;chr16:4594740..4594759,+!p1@Glis2!0.42!26.79!Glis2;;chr6:117813087..117813121,+!p1@Zfp239!0.42!8.33!Zfp239;;chr9:55785981..55786009,-!p2@Scaper!0.42!5.78!Scaper;;chr11:85646263..85646278,+!p2@Tbx2!0.42!5.44!Tbx2;;chr5:77524231..77524245,-!p3@Hopx!0.42!5.27!Hopx;;chr2:91035197..91035237,-!p1@Nr1h3!0.42!4.25!Nr1h3;;chr10:80809447..80809515,-!p5@Hmg20b!0.42!2.21!Hmg20b;;chr3:51144436..51144443,-!p15@Elf2!0.42!1.62!Elf2;;chr3:3508024..3508069,+!p2@Hnf4g!0.42!1.62!Hnf4g;;chr2:74543103..74543135,+!p4@Hoxd8!0.42!1.62!Hoxd8;;chr2:74517742..74517758,+!p2@Hoxd11!0.42!1.62!Hoxd11;;chr9:98855868..98855895,+!p1@Foxl2!0.42!1.62!Foxl2;;chr7:52960888..52960902,+!p7@Dbp!0.42!1.62!Dbp;;chr12:77470141..77470154,-!p12@Zbtb25!0.42!1.62!Zbtb25;;chr14:70477113..70477173,+!p1@Egr3!0.42!1.62!Egr3;;chr14:13178147..13178185,-!p1@Fezf2!0.42!1.62!Fezf2;;chr12:77470158..77470168,-!p13@Zbtb25!0.42!1.62!Zbtb25;;chr2:103143315..103143328,-!p2@Ehf!0.42!1.62!Ehf;;chr2:180377011..180377020,-!p7@Tcfl5!0.42!1.62!Tcfl5;;chr2:65768174..65768247,+!p2@Csrnp3!0.42!1.62!Csrnp3;;chr1:33871436..33871445,-!p6@Zfp451!0.42!1.62!Zfp451;;chr19:5425367..5425388,-!p15@Drap1!0.42!1.62!Drap1;;chr18:35020854..35020869,+!p1@Egr1!0.41!89.55!Egr1;;chr12:99985145..99985256,+!p1@Zc3h14!0.41!78.58!Zc3h14;;chr16:42907676..42907797,+!p1@Zbtb20!0.41!29.94!Zbtb20;;chr18:3337399..3337422,-!p11@Crem!0.41!3.15!Crem;;chr16:42875918..42875940,+!p13@Zbtb20!0.41!3.15!Zbtb20;;chr19:23216132..23216157,+!p3@Klf9!0.41!2.89!Klf9;;chr9:51021788..51021802,+!p1@Pou2af1!0.41!2.04!Pou2af1;;chr11:70501419..70501483,-!p1@Camta2,p1@LOC100048818!0.40!23.22!Camta2;;chr7:30906934..30907020,+!p1@Zfp382!0.40!14.54!Zfp382;;chr4:126698529..126698536,+!p2@Sfpq!0.40!9.95!Sfpq;;chr2:37278526..37278575,-!p2@Rc3h2!0.40!8.93!Rc3h2;;chr9:63869751..63869767,-!p1@Smad6!0.40!5.36!Smad6;;chr15:78994907..78994926,-!p1@Sox10!0.40!5.10!Sox10;;chr1:9690474..9690493,-!p3@Mybl1!0.40!2.81!Mybl1;;chr12:109241852..109241873,-!p4@Bcl11b!0.40!1.96!Bcl11b;;chr13:44936126..44936164,+!p6@Jarid2!0.40!1.87!Jarid2;;chr14:76815156..76815181,+!p16@Tsc22d1!0.40!1.53!Tsc22d1;;chr2:61642558..61642595,+!p3@Tbr1!0.40!1.53!Tbr1;;chr17:51971991..51972003,-!p4@Satb1!0.40!1.53!Satb1;;chr16:50331086..50331091,-!p13@Bbx!0.40!1.53!Bbx;;chr7:52252978..52252989,+!p5@Irf3!0.40!1.53!Irf3;;chr9:24578720..24578735,-!p1@Tbx20!0.40!1.53!Tbx20;;chr10:5734677..5734702,-!p4@Esr1!0.40!1.53!Esr1;;chr11:11590117..11590138,+!p4@Ikzf1!0.40!1.53!Ikzf1;;chr6:52190840..52190853,-!p5@Hoxa10!0.40!1.53!Hoxa10;;chr5:107053373..107053380,-!p19@Zfp644!0.40!1.53!Zfp644;;chr7:134565301..134565311,-!p5@Zfp688!0.40!1.53!Zfp688;;chr4:142802594..142802631,-!p1@Prdm2!0.39!21.43!Prdm2;;chr16:43363190..43363242,+!p2@Zbtb20!0.39!6.12!Zbtb20;;chr6:90412556..90412581,+!p3@Klf15!0.39!4.17!Klf15;;chr15:37162796..37162828,+!p1@Grhl2!0.39!2.98!Grhl2;;chr11:98636400..98636418,-!p4@Nr1d1!0.39!2.21!Nr1d1;;chr3:95032197..95032208,-!p3@Mllt11!0.39!2.04!Mllt11;;chr2:77541432..77541474,-!p5@Zfp385b!0.39!1.45!Zfp385b;;chr2:81893535..81893548,+!p1@Zfp804a!0.39!1.45!Zfp804a;;chr3:98186461..98186476,+!p2@Zfp697!0.39!1.45!Zfp697;;chr10:84218895..84218909,+!p1@Rfx4!0.39!1.45!Rfx4;;chr11:69753885..69753892,+!p19@Ybx2!0.39!1.45!Ybx2;;chr10:50614546..50614568,+!p@chr10:50614546..50614568,+!0.39!1.45!Sim1;;chr5:35731667..35731680,+!p6@Hmx1!0.39!1.45!Hmx1;;chr19:59533429..59533470,+!p4@Emx2!0.39!1.45!Emx2;;chrX:55283799..55283813,+!p1@Zic3!0.39!1.45!Zic3;;chr14:63890459..63890484,-!p4@Gata4!0.39!1.45!Gata4;;chr12:57636220..57636236,-!p3@Nkx2-1!0.39!1.45!Nkx2-1;;chr12:32635417..32635425,-!p4@Hbp1!0.39!1.45!Hbp1;;chr8:12395603..12395621,+!p1@Sox1!0.39!1.45!Sox1;;chr17:3557813..3557824,-!p4@Tfb1m!0.39!1.45!Tfb1m;;chr19:28085572..28085579,-!p9@Rfx3!0.39!1.45!Rfx3;;chr2:181022663..181022712,-!p1@Gmeb2!0.38!21.77!Gmeb2;;chr16:95680889..95680991,-!p1@Erg!0.38!17.35!Erg;;chr14:55482892..55482988,-!p1@Homez!0.38!14.29!Homez;;chr9:69137672..69137702,+!p2@Rora!0.38!8.67!Rora;;chr2:77357622..77357704,-!p1@Zfp385b!0.38!5.19!Zfp385b;;chr11:100683839..100683890,-!p2@Stat5b!0.38!4.42!Stat5b;;chr15:76709662..76709676,+!p2@Zfp7!0.38!3.83!Zfp7;;chr13:31717548..31717596,+!p1@Foxf2!0.38!3.57!Foxf2;;chr7:130644017..130644092,-!p1@Zkscan2!0.38!3.49!Zkscan2;;chr11:85646427..85646451,+!p4@Tbx2!0.38!3.06!Tbx2;;chr7:91558472..91558512,-!p2@Arnt2!0.38!2.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@@ Line 40: / Line 43: @@
 |is_a=EFO:0002091;;FF:0000004;;FF:0000103
 |is_obsolete=
+|library_id=CNhs10609
+|library_id_phase_based=2:CNhs10609
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/Clontech%2520Mouse%2520Universal%2520Reference%2520Total%2520RNA%252c%2520pool1.CNhs10609.10001-101A3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/Clontech%2520Mouse%2520Universal%2520Reference%2520Total%2520RNA%252c%2520pool1.CNhs10609.10001-101A3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/Clontech%2520Mouse%2520Universal%2520Reference%2520Total%2520RNA%252c%2520pool1.CNhs10609.10001-101A3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/Clontech%2520Mouse%2520Universal%2520Reference%2520Total%2520RNA%252c%2520pool1.CNhs10609.10001-101A3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/Clontech%2520Mouse%2520Universal%2520Reference%2520Total%2520RNA%252c%2520pool1.CNhs10609.10001-101A3.mm9.nobarcode.rdna.fa.gz
 |name=Clontech Mouse Universal Reference Total RNA, pool1
 |namespace=FANTOM5
@@ Line 45: / Line 55: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10609,LSID656,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.069205145037417,0.0354470656487682,0.0354470656487682,0,0,0,0.0504626559930959,0,0.016237489816948,0,0,-0.0488921747477733,0.0354470656487682,0,0,0.00287740603387638,0.702808184796584,0,-0.191893350882575,0.63515069179384,0.271052175481388,0,0,0.0354470656487682,0.0682179984609265,0,0.0354470656487682,0.225398799517185,0.0354470656487682,0.560664721474883,0.0643254229730425,0,0.101666158568684,0,1.16202293741674,0.857824429048094,0.225398799517185,0.0976929398174453,0.114582340120523,0.0816303225171042,-0.0126440854624756,0.154296381533113,0.103170808453595,0,0.0193162580719021,0,0,0,0,0,1.40350453859856,0.0354470656487682,0,0,0,-0.0660055475634404,0,0.0447967875023084,0.0986886653414259,0,0,0.225398799517185,0.116039962118659,0,0,0.0682179984609265,-0.0153287736277385,-0.24243265887846,0.0209606027615347,0.0566897580132885,0.0682179984609265,0.00136383404063634,0.118237743236505,0.344087628424147,0.0986886653414259,0.0177235328243841,0.0711649501513594,0.0592071260626978,-0.0153971957720909,0.0750492317713172,0.112665567774263,0.958043400587127,0.0392314187828934,0.268244893206496,0,0,0.0442660955387016,-0.10041981211551,-0.0534910230255868,0.0354470656487682,0,0.0986886653414259,0,0.0168712480857752
 |rna_box=101
 |rna_catalog_number=Cat:636657
@@ Line 60: / Line 71: @@
 |rna_weight_ug=200
 |sample_age=
+|sample_category=tissues
 |sample_cell_catalog=NA
 |sample_cell_line=
@@ Line 80: / Line 92: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:10001-101A3;search_select_hide=table117:10001-101A3
 }}

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FF:10001-101A3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 13:43, 24 September 2021

CNhs10609

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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