FF:57-7G5: Difference between revisions

Latest revision as of 19:18, 4 June 2020

Name:	testis, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10504
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	testis
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		SAMD00005243

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10504		CAGE		DRX009101		DRR009975

Accession ID Mm9

Library id		BAM		CTSS
CNhs10504		DRZ001400		DRZ002783

Accession ID Mm10

Library id		BAM		CTSS
CNhs10504		DRZ012750		DRZ014133

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

CNhs10504

0	1.43
1	0
10	0
100	0
1000	0.343
1001	0.605
1002	-0.0941
1003	-0.102
1004	0
1005	-0.0389
1006	-0.143
1007	0.465
1008	0
1009	0.137
101	0.122
1010	0
1011	1.457
1012	0
1013	-0.217
1014	-0.0874
1015	0.795
1016	-0.351
1017	0
1018	0
1019	0
102	0
1020	0
1021	-0.0487
1022	-0.06
1023	0
1024	-0.113
1025	0
1026	1.392
1027	-0.048
1028	0
1029	-0.148
103	-0.0848
1030	0
1031	-0.953
1032	-0.655
1033	0.0305
1034	0
1035	0.328
1036	-0.493
1037	0
1038	-0.398
1039	0.0338
104	0
1040	-0.866
1041	0.194

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: CNhs10504

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.463
MA0003.1	MA0003.1	0.937
MA0004.1	MA0004.1	0.425
MA0006.1	MA0006.1	0.164
MA0007.1	MA0007.1	0.83
MA0009.1	MA0009.1	0.395
MA0014.1	MA0014.1	0.556
MA0017.1	MA0017.1	0.426
MA0018.2	MA0018.2	1.5801e-12
MA0019.1	MA0019.1	0.09
MA0024.1	MA0024.1	0.328
MA0025.1	MA0025.1	0.456
MA0027.1	MA0027.1	0.459
MA0028.1	MA0028.1	5.69831e-4
MA0029.1	MA0029.1	0.662
MA0030.1	MA0030.1	0.93
MA0031.1	MA0031.1	0.518
MA0035.2	MA0035.2	0.0311
MA0038.1	MA0038.1	0.646
MA0039.2	MA0039.2	0.259
MA0040.1	MA0040.1	0.346
MA0041.1	MA0041.1	0.193
MA0042.1	MA0042.1	0.625
MA0043.1	MA0043.1	7.66892e-5
MA0046.1	MA0046.1	2.25439e-7
MA0047.2	MA0047.2	0.0352
MA0048.1	MA0048.1	0.0627
MA0050.1	MA0050.1	1.91099e-4
MA0051.1	MA0051.1	0.417
MA0052.1	MA0052.1	0.00238
MA0055.1	MA0055.1	8.76501e-5
MA0057.1	MA0057.1	0.505
MA0058.1	MA0058.1	0.34
MA0059.1	MA0059.1	0.0162
MA0060.1	MA0060.1	1.72528e-5
MA0061.1	MA0061.1	0.0223
MA0062.2	MA0062.2	1.82512e-5
MA0065.2	MA0065.2	0.11
MA0066.1	MA0066.1	0.879
MA0067.1	MA0067.1	0.271
MA0068.1	MA0068.1	0.634
MA0069.1	MA0069.1	0.431
MA0070.1	MA0070.1	0.968
MA0071.1	MA0071.1	0.548
MA0072.1	MA0072.1	0.742
MA0073.1	MA0073.1	0.984
MA0074.1	MA0074.1	0.798
MA0076.1	MA0076.1	1.07128e-4
MA0077.1	MA0077.1	5.57037e-5
MA0078.1	MA0078.1	4.3804e-11
MA0079.2	MA0079.2	0.0799
MA0080.2	MA0080.2	3.97467e-5
MA0081.1	MA0081.1	0.175
MA0083.1	MA0083.1	0.0699
MA0084.1	MA0084.1	0.367
MA0087.1	MA0087.1	0.0437
MA0088.1	MA0088.1	0.028
MA0090.1	MA0090.1	0.438
MA0091.1	MA0091.1	0.615
MA0092.1	MA0092.1	0.0905
MA0093.1	MA0093.1	0.509
MA0099.2	MA0099.2	0.254
MA0100.1	MA0100.1	1.11681e-16
MA0101.1	MA0101.1	0.325
MA0102.2	MA0102.2	0.213
MA0103.1	MA0103.1	0.696
MA0104.2	MA0104.2	0.00218
MA0105.1	MA0105.1	0.0142
MA0106.1	MA0106.1	0.0622
MA0107.1	MA0107.1	0.029
MA0108.2	MA0108.2	0.00152
MA0111.1	MA0111.1	0.505
MA0112.2	MA0112.2	0.455
MA0113.1	MA0113.1	0.337
MA0114.1	MA0114.1	0.447
MA0115.1	MA0115.1	0.147
MA0116.1	MA0116.1	0.168
MA0117.1	MA0117.1	0.65
MA0119.1	MA0119.1	0.0866
MA0122.1	MA0122.1	0.714
MA0124.1	MA0124.1	0.946
MA0125.1	MA0125.1	0.217
MA0131.1	MA0131.1	0.0673
MA0135.1	MA0135.1	0.498
MA0136.1	MA0136.1	0.174
MA0137.2	MA0137.2	0.365
MA0138.2	MA0138.2	0.0464
MA0139.1	MA0139.1	0.2
MA0140.1	MA0140.1	9.21469e-4
MA0141.1	MA0141.1	0.593
MA0142.1	MA0142.1	0.68
MA0143.1	MA0143.1	1.17957e-4
MA0144.1	MA0144.1	0.363
MA0145.1	MA0145.1	0.0128
MA0146.1	MA0146.1	0.00353
MA0147.1	MA0147.1	0.00213
MA0148.1	MA0148.1	0.0217
MA0149.1	MA0149.1	0.255
MA0150.1	MA0150.1	0.666
MA0152.1	MA0152.1	0.116
MA0153.1	MA0153.1	0.00136
MA0154.1	MA0154.1	0.0436
MA0155.1	MA0155.1	0.0971
MA0156.1	MA0156.1	0.648
MA0157.1	MA0157.1	0.437
MA0159.1	MA0159.1	0.215
MA0160.1	MA0160.1	0.00104
MA0162.1	MA0162.1	0.974
MA0163.1	MA0163.1	0.0289
MA0164.1	MA0164.1	0.397
MA0258.1	MA0258.1	0.773
MA0259.1	MA0259.1	0.0212

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: CNhs10504

Novel motif	Logo	P-value
1	1	0.581
10	10	0.137
100	100	0.0907
101	101	1
102	102	0.194
103	103	0.702
104	104	0.735
105	105	0.196
106	106	7.53319e-4
107	107	6.34182e-4
108	108	0.466
109	109	0.233
11	11	0.382
110	110	0.38
111	111	0.0188
112	112	0.256
113	113	0.388
114	114	0.221
115	115	0.947
116	116	0.925
117	117	0.00224
118	118	0.177
119	119	0.644
12	12	0.905
120	120	0.834
121	121	0.0265
122	122	0.747
123	123	0.357
124	124	0.463
125	125	0.839
126	126	0.143
127	127	0.996
128	128	0.00307
129	129	0.327
13	13	0.267
130	130	0.589
131	131	0.249
132	132	0.536
133	133	0.847
134	134	0.806
135	135	0.033
136	136	0.00204
137	137	0.603
138	138	0.413
139	139	0.459
14	14	0.219
140	140	0.742
141	141	0.169
142	142	0.759
143	143	0.993
144	144	0.276
145	145	0.384
146	146	0.86
147	147	0.254
148	148	0.0582
149	149	0.0637
15	15	0.672
150	150	0.258
151	151	0.18
152	152	0.464
153	153	0.323
154	154	0.466
155	155	0.106
156	156	0.283
157	157	0.911
158	158	1.38217e-5
159	159	0.166
160	160	0.115
161	161	0.127
162	162	0.784
163	163	0.515
164	164	0.145
165	165	0.349
166	166	0.922
167	167	0.286
168	168	0.217
169	169	0.954
17	17	0.603
18	18	0.892
19	19	0.394
2	2	9.7532e-4
20	20	0.00393
21	21	0.423
22	22	0.899
23	23	0.359
24	24	0.158
25	25	0.325
26	26	0.995
27	27	0.0182
28	28	0.949
29	29	0.0546
3	3	0.864
30	30	0.234
31	31	0.33
32	32	0.677
33	33	0.256
34	34	0.806
35	35	0.51
36	36	0.0863
37	37	0.91
38	38	0.794
39	39	0.373
4	4	0.813
40	40	0.108
41	41	3.08112e-4
42	42	0.875
43	43	0.569
44	44	0.933
45	45	0.341
46	46	0.933
47	47	0.312
48	48	0.335
49	49	0.896
5	5	0.742
50	50	0.707
51	51	0.56
52	52	0.146
53	53	0.226
54	54	0.428
55	55	0.97
56	56	0.243
57	57	0.968
58	58	0.571
59	59	0.237
6	6	0.596
60	60	0.403
61	61	0.659
62	62	0.66
63	63	0.569
64	64	0.613
65	65	0.289
66	66	0.0556
67	67	0.653
68	68	0.495
69	69	0.317
7	7	0.72
70	70	0.465
71	71	0.917
72	72	0.302
73	73	0.523
74	74	0.697
75	75	0.248
76	76	0.0148
77	77	0.525
78	78	0.0154
79	79	0.818
8	8	0.0459
80	80	0.252
81	81	0.201
82	82	0.935
83	83	0.669
84	84	0.678
85	85	0.809
86	86	0.704
87	87	0.0231
88	88	0.745
89	89	0.486
9	9	0.611
90	90	0.59
91	91	0.266
92	92	0.559
93	93	0.175
94	94	0.755
95	95	0.0877
96	96	0.443
97	97	0.241
98	98	0.92
99	99	0.232

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: CNhs10504

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011383 mouse testis- 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)
0000473 (testis)
0000991 (gonad)
0000479 (tissue)
0005156 (reproductive structure)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003135 (male reproductive organ)
0003133 (reproductive organ)
0002323 (body cavity)
0000464 (anatomical space)
0004458 (body cavity or lining)
0010317 (germ layer / neural crest derived structure)
0003101 (male organism)
0000079 (male reproductive system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011383 (mouse testis- 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:0009117 (indifferent gonad)
UBERON:0002532 (epiblast (generic))
UBERON:0006603 (presumptive mesoderm)
UBERON:0005564 (gonad primordium)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000922,UBERON:0000473,UBERON:0000991,UBERON:0000926,UBERON:0000479,UBERON:0005156,UBERON:0000466,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0000990,UBERON:0002050,UBERON:0005423,UBERON:0002553,UBERON:0000467,UBERON:0001062,UBERON:0003135,UBERON:0005291,UBERON:0003133,UBERON:0002323,UBERON:0000464,UBERON:0004458,UBERON:0001048,UBERON:0006598,UBERON:0003886,UBERON:0004176,UBERON:0002532,UBERON:0003101,UBERON:0000079,UBERON:0009196,UBERON:0009117,UBERON:0006603,UBERON:0005564
+|DRA_sample_Accession=CAGE@SAMD00005243
+|accession_numbers=CAGE;DRX009101;DRR009975;DRZ001400;DRZ002783;DRZ012750;DRZ014133
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000473,UBERON:0000991,UBERON:0000479,UBERON:0005156,UBERON:0000466,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000990,UBERON:0002553,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003135,UBERON:0003133,UBERON:0002323,UBERON:0000464,UBERON:0004458,UBERON:0010317,UBERON:0003101,UBERON:0000079
 |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:0011383
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr4:107356135..107356179,-!p1@Dmrtb1!3.67!4641.45!Dmrtb1;;chr13:93346120..93346155,-!p1@Spz1!3.47!2959.95!Spz1;;chr1:168168856..168168893,-!p1@Mael!3.36!2312.27!Mael;;chr5:38611867..38611888,+!p2@Lyar!3.23!1700.66!Lyar;;chr6:131338278..131338362,-!p2@Csda!3.22!4665.69!Csda;;chr11:69749396..69749433,+!p1@Ybx2!3.04!1102.02!Ybx2;;chr3:90046414..90046476,-!p1@Creb3l4!3.00!997.74!Creb3l4;;chr4:107356181..107356197,-!p2@Dmrtb1!2.88!751.97!Dmrtb1;;chr10:70701022..70701036,-!p3@Tfam!2.74!552.98!Tfam;;chr18:52775562..52775650,+!p1@Zfp474!2.72!525.93!Zfp474;;chr1:52043967..52043976,+!p5@Stat4!2.70!497.74!Stat4;;chr10:22451680..22451722,-!p3@Tbpl1!2.69!487.03!Tbpl1;;chr6:143895612..143895631,-!p3@Sox5!2.64!436.86!Sox5;;chr1:52065054..52065098,+!p4@Stat4!2.56!364.15!Stat4;;chr16:50331100..50331130,-!p3@Bbx!2.52!332.02!Bbx;;chr2:180377386..180377462,-!p1@Tcfl5!2.51!381.62!Tcfl5;;chr12:100009228..100009251,+!p2@Zc3h14!2.50!316.80!Zc3h14;;chr18:3309876..3309914,-!p9@Crem!2.49!310.03!Crem;;chr18:50438025..50438057,+!p1@Fam170a!2.49!304.96!Fam170a;;chr10:22451724..22451752,-!p4@Tbpl1!2.49!304.96!Tbpl1;;chr18:3299535..3299565,-!p10@Crem!2.45!281.28!Crem;;chr15:36937522..36937543,-!p4@Gm10193,p4@Zfp706!2.44!277.34!Zfp706;;chr1:168168817..168168850,-!p2@Mael!2.44!276.77!Mael;;chr5:138202908..138202942,+!p10@Tsc22d4!2.44!272.83!Tsc22d4;;chr4:149610794..149610876,+!p2@LOC100045967,p2@LOC100503183,p3@Eno1,p3@Gm5506!2.38!321.30!Eno1;;chr10:70698065..70698087,-!p4@Tfam!2.37!235.06!Tfam;;chr6:143895581..143895604,-!p6@Sox5!2.37!232.81!Sox5;;chr1:52043983..52043995,+!p6@Stat4!2.34!219.28!Stat4;;chr5:38611831..38611842,+!p3@Lyar!2.33!211.95!Lyar;;chr1:56694305..56694324,-!p1@Hsfy2!2.32!210.26!Hsfy2;;chr16:50331135..50331178,-!p5@Bbx!2.30!199.55!Bbx;;chr6:131338363..131338383,-!p4@Csda!2.29!816.23!Csda;;chr2:17985983..17986035,+!p4@Mllt10!2.29!195.60!Mllt10;;chr7:29552143..29552173,-!p4@Nfkbib!2.29!192.78!Nfkbib;;chr7:19953851..19953902,+!p4@Ppp1r13l!2.26!181.51!Ppp1r13l;;chr11:69749367..69749385,+!p4@Ybx2!2.26!180.95!Ybx2;;chr10:84224957..84224991,+!p3@Rfx4!2.25!177.00!Rfx4;;chr7:135020660..135020688,+!p3@Zfp646!2.23!230.55!Zfp646;;chr6:52663997..52664043,+!p2@Tax1bp1!2.22!166.85!Tax1bp1;;chr11:69749437..69749467,+!p3@Ybx2!2.20!157.83!Ybx2;;chr7:86937900..86937933,-!p@chr7:86937900..86937933,-!2.20!157.27!Mesp1;;chr18:3299485..3299513,-!p12@Crem!2.19!152.20!Crem;;chr7:25655099..25655143,+!p1@Dmrtc2!2.16!144.31!Dmrtc2;;chr3:95032515..95032553,-!p5@Mllt11!2.15!166.85!Mllt11;;chr12:100009260..100009274,+!p3@Zc3h14!2.13!135.29!Zc3h14;;chr14:32979060..32979091,+!p4@Gm6768,p4@Ncoa4!2.13!134.72!Ncoa4;;chr9:18282807..18282821,+!p1@Mbd3l1!2.12!131.34!Mbd3l1;;chr6:52859625..52859638,-!p3@Jazf1!2.11!127.96!Jazf1;;chr14:55489750..55489784,-!p2@Homez!2.10!126.27!Homez;;chr5:38611816..38611827,+!p4@Lyar!2.09!135.85!Lyar;;chr4:118967319..118967330,-!p6@Ybx1!2.09!121.19!Ybx1;;chr2:180377307..180377330,-!p2@Tcfl5!2.07!115.56!Tcfl5;;chr6:52859575..52859603,-!p4@Jazf1!2.06!113.30!Jazf1;;chr11:116196698..116196713,-!p3@Foxj1!2.05!111.05!Foxj1;;chr17:15637108..15637147,+!p3@Tbp!2.03!105.97!Tbp;;chr11:87430678..87430702,+!p1@Hsf5!2.01!100.90!Hsf5;;chr11:116196714..116196729,-!p2@Foxj1!1.99!97.52!Foxj1;;chr11:95170996..95171026,-!p3@Myst2!1.99!96.39!Myst2;;chr17:56970481..56970551,-!p2@Rfx2!1.98!279.03!Rfx2;;chr1:39777834..39777860,-!p1@Rfx8!1.98!94.70!Rfx8;;chr1:56694274..56694293,-!p2@Hsfy2!1.98!94.14!Hsfy2;;chr9:18282826..18282845,+!p2@Mbd3l1!1.97!93.01!Mbd3l1;;chr11:87430653..87430666,+!p2@Hsf5!1.97!91.88!Hsf5;;chr14:32979026..32979042,+!p5@Gm6768,p5@Ncoa4!1.95!87.37!Ncoa4;;chr8:26950937..26950991,-!p3@Ash2l!1.94!100.34!Ash2l;;chr11:69749491..69749502,+!p6@Ybx2!1.92!82.86!Ybx2;;chr10:22451660..22451678,-!p7@Tbpl1!1.90!78.35!Tbpl1;;chr6:72850124..72850210,-!p7@Kcmf1!1.89!98.65!Kcmf1;;chr3:90046478..90046489,-!p5@Creb3l4!1.89!76.66!Creb3l4;;chr11:45793811..45793839,+!p1@Sox30!1.88!74.97!Sox30;;chr6:52664044..52664072,+!p5@Tax1bp1!1.88!74.97!Tax1bp1;;chr11:87430728..87430749,+!p3@Hsf5!1.87!73.28!Hsf5;;chr15:100058744..100058772,+!p4@Gm1862,p6@Atf1!1.87!72.72!Atf1;;chr12:81214217..81214219,-!p2@Zfp36l1!1.86!72.15!Zfp36l1;;chr7:31383850..31383874,-!p1@Zbtb32!1.86!71.03!Zbtb32;;chr11:59319921..59319944,-!p5@Zkscan17!1.85!69.33!Zkscan17;;chr7:86938093..86938119,-!p@chr7:86938093..86938119,-!1.84!67.64!Mesp1;;chr10:22451765..22451795,-!p6@Tbpl1!1.83!96.39!Tbpl1;;chr14:32979005..32979017,+!p7@Gm6768,p7@Ncoa4!1.82!64.82!Ncoa4;;chr5:134782473..134782486,-!p12@Gtf2i!1.82!64.82!Gtf2i;;chr14:69789996..69790021,+!p1@Nkx2-6!1.81!64.26!Nkx2-6;;chr8:86590801..86590818,+!p2@Rfx1!1.81!64.26!Rfx1;;chrX:113562567..113562578,+!p1@Cpxcr1!1.81!63.70!Cpxcr1;;chr8:72356532..72356611,+!p1@Pbx4!1.80!245.77!Pbx4;;chr4:61869708..61869732,-!p5@Zfp37!1.80!61.44!Zfp37;;chr18:3337503..3337536,-!p7@Crem!1.79!103.16!Crem;;chr8:72356384..72356434,+!p2@Pbx4!1.79!91.32!Pbx4;;chrX:83437105..83437121,+!p1@Nr0b1!1.79!60.88!Nr0b1;;chr5:136778385..136778407,-!p7@Cux1!1.79!60.32!Cux1;;chr13:96094769..96094829,+!p4@Zbed3!1.78!83.99!Zbed3;;chr8:26958093..26958148,-!p2@Ash2l!1.78!59.75!Ash2l;;chr3:95032802..95032830,-!p7@Mllt11!1.77!58.06!Mllt11;;chr18:3309750..3309787,-!p21@Crem!1.76!56.93!Crem;;chr2:27565816..27565828,+!p10@Rxra!1.76!56.93!Rxra;;chr9:111020746..111020768,+!p5@Lrrfip2!1.76!56.37!Lrrfip2;;chr12:113917774..113917792,+!p5@Zbtb42!1.76!56.37!Zbtb42;;chr11:69749320..69749345,+!p2@Ybx2!1.75!89.06!Ybx2;;chr1:56694252..56694259,-!p3@Hsfy2!1.75!54.68!Hsfy2;;chr7:88007115..88007129,+!p2@Zscan2!1.75!54.68!Zscan2;;chr7:13420092..13420160,+!p2@Zfp110!1.74!99.77!Zfp110;;chr2:180377331..180377344,-!p3@Tcfl5!1.74!53.55!Tcfl5;;chr2:144157107..144157128,-!p3@Ovol2!1.74!53.55!Ovol2;;chr4:102815657..102815676,+!p16@Mier1!1.73!52.99!Mier1;;chr7:135020644..135020659,+!p6@Zfp646!1.73!52.99!Zfp646;;chr16:55966407..55966447,+!p6@Rpl24,p6@Zbtb11!1.72!121.19!Zbtb11;;chr10:84300848..84300879,+!p6@Rfx4!1.72!51.86!Rfx4;;chr7:31383882..31383903,-!p2@Zbtb32!1.72!51.86!Zbtb32;;chr12:86438030..86438041,-!p@chr12:86438030..86438041,-!1.72!51.30!Prox2;;chr4:61869681..61869704,-!p3@Zfp37!1.71!50.73!Zfp37;;chr6:83303212..83303243,+!p5@Bola3!1.71!50.17!Bola3;;chr18:48204983..48205002,+!p5@LOC100045967,p5@LOC100503183,p6@Eno1,p7@Gm5506!1.71!50.17!Eno1;;chr14:69790035..69790050,+!p2@Nkx2-6!1.71!50.17!Nkx2-6;;chr6:52859553..52859568,-!p6@Jazf1!1.70!49.60!Jazf1;;chr2:160685337..160685366,-!p5@Zhx3!1.70!49.60!Zhx3;;chr4:61869757..61869771,-!p6@Zfp37!1.69!48.48!Zfp37;;chr2:74543397..74543435,+!p2@Hoxd8!1.69!48.48!Hoxd8;;chr11:87430713..87430724,+!p4@Hsf5!1.69!47.91!Hsf5;;chr11:58717647..58717659,-!p3@Zfp39!1.68!46.79!Zfp39;;chr9:111020795..111020816,+!p3@Lrrfip2!1.67!49.60!Lrrfip2;;chr3:130815433..130815454,+!p15@Lef1!1.66!45.10!Lef1;;chr4:63042249..63042287,-!p10@Akna!1.66!44.53!Akna;;chr12:113917748..113917759,+!p8@Zbtb42!1.66!44.53!Zbtb42;;chr10:85379907..85379936,-!p7@Prdm4!1.65!43.40!Prdm4;;chr13:78164153..78164174,+!p1@Pou5f2!1.64!42.84!Pou5f2;;chr4:117438155..117438175,-!p1@Klf17,p1@LOC100504967!1.64!42.28!Klf17;;chr8:107033774..107033794,-!p1@Ccdc79!1.63!50.73!Ccdc79;;chr9:63864838..63864856,-!p14@Smad6!1.63!41.71!Smad6;;chr10:76424613..76424689,-!p1@Pcbp3!1.62!815.10!Pcbp3;;chr7:86937946..86937959,-!p@chr7:86937946..86937959,-!1.62!41.15!Mesp1;;chr3:130815455..130815467,+!p10@Lef1!1.62!41.15!Lef1;;chr4:61869733..61869751,-!p8@Zfp37!1.62!40.59!Zfp37;;chr1:52065106..52065124,+!p7@Stat4!1.60!38.89!Stat4;;chr7:29551995..29552005,-!p6@Nfkbib!1.60!38.89!Nfkbib;;chr9:18282704..18282748,-!p3@Zfp558!1.59!37.77!Zfp558;;chr13:21454766..21454791,+!p3@Zscan12!1.58!42.28!Zscan12;;chr2:144157091..144157103,-!p4@Ovol2!1.58!37.20!Ovol2;;chr8:86590283..86590297,+!p5@Rfx1!1.58!36.64!Rfx1;;chr11:58717675..58717719,-!p1@Zfp39!1.57!242.39!Zfp39;;chr8:72356661..72356680,+!p3@Pbx4!1.57!36.08!Pbx4;;chr8:86590318..86590330,+!p3@Rfx1!1.57!36.08!Rfx1;;chrX:133656674..133656710,-!p4@Esx1!1.57!36.08!Esx1;;chr1:39777805..39777820,-!p2@Rfx8!1.57!36.08!Rfx8;;chr18:3337465..3337498,-!p6@Crem!1.56!66.52!Crem;;chr10:102491694..102491714,-!p3@Alx1!1.56!34.95!Alx1;;chr5:38611720..38611799,+!p1@Lyar!1.55!879.92!Lyar;;chr11:69749299..69749319,+!p5@Ybx2!1.54!40.59!Ybx2;;chr3:130815472..130815497,+!p6@Lef1!1.54!33.82!Lef1;;chr10:75384163..75384185,-!p3@Smarcb1!1.53!33.26!Smarcb1;;chr7:25655066..25655080,+!p2@Dmrtc2!1.52!32.13!Dmrtc2;;chr3:51144477..51144506,-!p6@Elf2!1.51!47.91!Elf2;;chr8:26950912..26950933,-!p4@Ash2l!1.51!31.00!Ash2l;;chrX:113562548..113562557,+!p2@Cpxcr1!1.51!31.00!Cpxcr1;;chr1:9690424..9690467,-!p1@Mybl1!1.50!62.01!Mybl1;;chr17:3557785..3557797,-!p3@Tfb1m!1.49!56.93!Tfb1m;;chr1:56694299..56694304,-!p4@Hsfy2!1.49!29.88!Hsfy2;;chr9:18282781..18282788,+!p3@Mbd3l1!1.49!29.88!Mbd3l1;;chr10:84300905..84300919,+!p7@Rfx4!1.47!28.75!Rfx4;;chr11:69749347..69749356,+!p8@Ybx2!1.47!28.18!Ybx2;;chr16:3872255..3872283,-!p4@Zfp597!1.46!40.59!Zfp597;;chr5:3648013..3648038,-!p5@Gatad1!1.46!32.13!Gatad1;;chr15:100058660..100058711,+!p1@Gm1862,p2@Atf1!1.45!88.50!Atf1;;chr2:38781916..38781974,-!p1@Nr6a1!1.45!80.04!Nr6a1;;chrX:133654667..133654672,-!p1@Esx1!1.45!27.06!Esx1;;chr14:76815156..76815181,+!p16@Tsc22d1!1.45!27.06!Tsc22d1;;chr7:13420597..13420610,+!p5@Zfp110!1.45!27.06!Zfp110;;chr11:69753404..69753415,+!p13@Ybx2!1.44!26.49!Ybx2;;chr10:77518072..77518110,+!p2@Dnmt3l!1.43!25.93!Dnmt3l;;chr15:100410635..100410667,-!p4@Pou6f1!1.43!25.93!Pou6f1;;chr16:3872378..3872411,-!p6@Zfp597!1.42!28.75!Zfp597;;chr3:51144446..51144456,-!p11@Elf2!1.42!25.37!Elf2;;chr17:46520747..46520771,+!p3@Zfp318!1.41!42.28!Zfp318;;chr11:58717660..58717670,-!p4@Zfp39!1.41!24.80!Zfp39;;chr8:72356644..72356653,+!p4@Pbx4!1.41!24.80!Pbx4;;chr18:5334765..5334833,-!p2@Zfp438!1.40!63.13!Zfp438;;chr3:51144465..51144476,-!p12@Elf2!1.40!24.24!Elf2;;chr11:59319947..59319958,-!p9@Zkscan17!1.40!24.24!Zkscan17;;chr18:3337339..3337397,-!p5@Crem!1.39!45.66!Crem;;chr7:86956107..86956152,+!p@chr7:86956107..86956152,+!1.39!36.08!Mesp2;;chr6:98978189..98978198,-!p10@Foxp1!1.39!29.31!Foxp1;;chr5:136778371..136778381,-!p11@Cux1!1.39!23.68!Cux1;;chr6:83303284..83303299,+!p6@Bola3!1.39!23.68!Bola3;;chr11:121121426..121121435,+!p3@Foxk2!1.39!23.68!Foxk2;;chr13:21454798..21454806,+!p4@Zscan12!1.39!23.68!Zscan12;;chr19:5425367..5425388,-!p15@Drap1!1.38!23.11!Drap1;;chr17:56970339..56970428,-!p1@Rfx2!1.37!68.77!Rfx2;;chr6:72849280..72849297,-!p6@Kcmf1!1.37!42.84!Kcmf1;;chr2:17986043..17986056,+!p17@Mllt10!1.37!22.55!Mllt10;;chr2:38570011..38570034,-!p1@Nr5a1!1.37!22.55!Nr5a1;;chr11:59319894..59319910,-!p12@Zkscan17!1.37!22.55!Zkscan17;;chr11:69754221..69754237,+!p12@Ybx2!1.37!22.55!Ybx2;;chr11:45793757..45793775,+!p2@Sox30!1.36!21.98!Sox30;;chr17:23736505..23736514,-!p4@Zfp13!1.36!21.98!Zfp13;;chr7:25655150..25655160,+!p3@Dmrtc2!1.36!21.98!Dmrtc2;;chr8:74842792..74842814,+!p2@Klf2!1.36!21.98!Klf2;;chr17:15636925..15636940,+!p2@Tbp!1.35!32.69!Tbp;;chr9:30838314..30838336,+!p4@Zbtb44!1.35!25.37!Zbtb44;;chr11:62271076..62271096,-!p19@Ncor1!1.35!21.42!Ncor1;;chr11:69754088..69754101,+!p11@Ybx2!1.35!21.42!Ybx2;;chr11:95171032..95171046,-!p4@Myst2!1.35!21.42!Myst2;;chr12:77470158..77470168,-!p13@Zbtb25!1.35!21.42!Zbtb25;;chr4:107353376..107353452,-!p3@Dmrtb1!1.35!21.42!Dmrtb1;;chr4:61868947..61868960,-!p10@Zfp37!1.34!20.86!Zfp37;;chr8:72356697..72356708,+!p5@Pbx4!1.34!20.86!Pbx4;;chr15:36937554..36937559,-!p6@Gm10193,p6@Zfp706!1.34!20.86!Zfp706;;chr6:128312937..128313076,+!p1@Foxm1!1.33!272.83!Foxm1;;chrY:1426341..1426344,-!p1@Zfy2!1.32!19.73!Zfy2;;chr18:74375772..74375799,+!p2@Cxxc1!1.30!54.68!Cxxc1;;chr3:103772552..103772584,+!p2@Phtf1!1.30!28.75!Phtf1;;chr3:54985946..54985981,+!p1@Sohlh2!1.30!19.17!Sohlh2;;chr17:3557813..3557824,-!p4@Tfb1m!1.30!19.17!Tfb1m;;chr2:180377022..180377040,-!p4@Tcfl5!1.30!19.17!Tcfl5;;chr13:78164139..78164148,+!p2@Pou5f2!1.29!18.60!Pou5f2;;chr15:75672367..75672384,-!p2@Zc3h3!1.28!38.33!Zc3h3;;chr18:35721821..35721828,+!p4@Matr3!1.28!32.69!Matr3;;chr4:149610911..149610918,+!p10@Gm5506,p8@LOC100045967,p8@LOC100503183,p9@Eno1!1.28!18.04!Eno1;;chr12:113917801..113917810,+!p10@Zbtb42!1.28!18.04!Zbtb42;;chr4:118967105..118967123,-!p1@Ybx1!1.27!510.71!Ybx1;;chr1:95651346..95651383,-!p3@Thap4!1.27!41.15!Thap4;;chr4:89354729..89354776,+!p1@Dmrta1!1.27!17.47!Dmrta1;;chr4:149610879..149610889,+!p7@LOC100045967,p7@LOC100503183,p8@Eno1,p9@Gm5506!1.27!17.47!Eno1;;chr15:96117679..96117696,+!p6@Arid2!1.27!17.47!Arid2;;chr10:84300888..84300898,+!p8@Rfx4!1.27!17.47!Rfx4;;chr9:122832168..122832210,+!p1@Zfp105!1.26!129.65!Zfp105;;chr15:10400245..10400282,-!p2@Dnajc21!1.26!56.37!Dnajc21;;chr17:71202822..71202877,-!p3@Tgif1!1.25!48.48!Tgif1;;chr7:31421533..31421548,-!p1@Etv2!1.25!16.91!Etv2;;chr3:58219238..58219246,+!p3@Tsc22d2!1.25!16.91!Tsc22d2;;chr11:62271059..62271073,-!p21@Ncor1!1.25!16.91!Ncor1;;chr10:79393139..79393154,+!p8@Arid3a!1.25!16.91!Arid3a;;chr7:135056024..135056042,+!p1@Myst1!1.24!456.59!Myst1;;chr7:52252978..52252989,+!p5@Irf3!1.24!16.35!Irf3;;chr11:116196664..116196679,-!p1@Foxj1!1.23!24.80!Foxj1;;chr7:88138313..88138368,+!p4@Zfp592!1.22!27.06!Zfp592;;chr8:74842780..74842791,+!p4@Klf2!1.22!15.78!Klf2;;chr5:134782452..134782461,-!p19@Gtf2i!1.22!15.78!Gtf2i;;chr5:21290911..21290916,-!p3@Dnajc2!1.22!15.78!Dnajc2;;chr13:112476407..112476418,+!p6@Mier3!1.22!15.78!Mier3;;chr13:42147117..42147142,+!p3@Hivep1!1.22!15.78!Hivep1;;chr12:30525072..30525115,+!p14@Myt1l!1.21!15.22!Myt1l;;chr15:76352740..76352781,-!p5@Scrt1!1.21!15.22!Scrt1;;chr12:77470141..77470154,-!p12@Zbtb25!1.21!15.22!Zbtb25;;chr2:180376984..180376993,-!p6@Tcfl5!1.21!15.22!Tcfl5;;chr1:194982857..194982872,+!p9@Irf6!1.21!15.22!Irf6;;chr11:96202117..96202127,+!p6@Hoxb3!1.21!15.22!Hoxb3;;chr4:149610898..149610905,+!p10@Eno1,p11@Gm5506,p9@LOC100045967,p9@LOC100503183!1.21!15.22!Eno1;;chr6:131338400..131338415,-!p3@Csda!1.20!149.94!Csda;;chr4:45024965..45025031,-!p3@Zbtb5!1.20!36.08!Zbtb5;;chr5:125342568..125342602,+!p2@Zfp664!1.20!24.24!Zfp664;;chr1:95651388..95651434,-!p2@Thap4!1.19!33.82!Thap4;;chrX:131559846..131559883,-!p3@Zmat1!1.19!14.66!Zmat1;;chr5:138202904..138202907,+!p24@Tsc22d4!1.19!14.66!Tsc22d4;;chr11:45793728..45793735,+!p4@Sox30!1.19!14.66!Sox30;;chr1:95651138..95651255,-!p1@Thap4!1.18!202.37!Thap4;;chr2:181327403..181327432,-!p3@Znf512b!1.18!27.06!Znf512b;;chr2:180377011..180377020,-!p7@Tcfl5!1.18!14.09!Tcfl5;;chr5:108698309..108698321,+!p8@Dr1!1.18!14.09!Dr1;;chr8:112229401..112229419,+!p3@Zfp821!1.16!18.60!Zfp821;;chr8:72663246..72663263,+!p5@2310045N01Rik,p5@Mef2b!1.16!13.53!Mef2b;;chr11:69753609..69753618,+!p16@Ybx2!1.16!13.53!Ybx2;;chr19:28085572..28085579,-!p9@Rfx3!1.16!13.53!Rfx3;;chr17:15636872..15636923,+!p1@Tbp!1.15!493.23!Tbp;;chr4:118967125..118967143,-!p2@Ybx1!1.15!83.43!Ybx1;;chr18:35721834..35721851,+!p2@Matr3!1.15!68.77!Matr3;;chr16:3872286..3872315,-!p3@Zfp597!1.15!25.37!Zfp597;;chr9:111020710..111020721,+!p2@Lrrfip2!1.15!14.66!Lrrfip2;;chr10:79393164..79393173,+!p12@Arid3a!1.15!12.96!Arid3a;;chr2:126501799..126501832,-!p4@Gabpb1!1.15!12.96!Gabpb1;;chr16:17530781..17530882,-!p2@Th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+|ffid_belonging_in_development=UBERON:0009117,UBERON:0002532,UBERON:0006603,UBERON:0005564,UBERON:0010316
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 38: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011383
 |is_obsolete=
+|library_id=CNhs10504
+|library_id_phase_based=2:CNhs10504
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;57
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;57
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/testis%252c%2520adult.CNhs10504.57-7G5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/testis%252c%2520adult.CNhs10504.57-7G5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/testis%252c%2520adult.CNhs10504.57-7G5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/testis%252c%2520adult.CNhs10504.57-7G5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/testis%252c%2520adult.CNhs10504.57-7G5.mm9.nobarcode.rdna.fa.gz
 |name=testis, adult
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10504,LSID648,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.422942598845943,0,0.0639688946387045,0,0,-0.0843392403965415,0,0,0,0,1.01578090774342,0,-0.191893350882575,1.16222467954372,0.347120495432172,0,0,0,0,0,0,1.48161506237381,0,0.694240990864345,0,0,-0.128496374799794,0,1.84367207506646,1.30461028509558,0,0,0.11852354635902,-0.134377521446495,-0.487989750119983,-0.984211366477826,-0.269868638010351,0,0,0,0,0,0,0,2.2100941713031,0,0,0.194151474984939,0,-0.0660055475634404,0,0,0,0,-0.0428469550828748,0,0,0,0.194151474984939,0,-0.0516604287164368,0.0171956145154594,-0.158091042771083,-0.140687683267293,0,0,-0.121842982692863,-0.235454027483391,0,0,0,0.0535047718971439,0.754727152201035,-0.0788315948399074,0,1.70419324557443,0,0.550767338935197,0,0,0.327846271854846,-0.103316514795465,0.368612562309564,0,0,0.327846271854846,0,0
 |rna_box=7
 |rna_catalog_number=
@@ Line 58: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 78: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:57-7G5;search_select_hide=table117:57-7G5
 }}

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FF:57-7G5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:18, 4 June 2020

CNhs10504

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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