FF:859-1F8: Difference between revisions

Latest revision as of 19:21, 4 June 2020

Name:	prostate, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10470
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	prostate
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		SAMD00004867

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10470		CAGE		DRX009076		DRR009950

Accession ID Mm9

Library id		BAM		CTSS
CNhs10470		DRZ001375		DRZ002758

Accession ID Mm10

Library id		BAM		CTSS
CNhs10470		DRZ012725		DRZ014108

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

CNhs10470

0	0
1	0
10	0
100	0
1000	0.236
1001	-0.0275
1002	-0.102
1003	0.0617
1004	0
1005	0
1006	0
1007	-0.122
1008	0
1009	0.0293
101	-0.0488
1010	0
1011	0
1012	0
1013	0.767
1014	-0.0874
1015	-0.242
1016	-0.204
1017	0
1018	0.0865
1019	0
102	0
1020	0
1021	0
1022	0.444
1023	0
1024	-0.0325
1025	0
1026	0.0571
1027	0
1028	0
1029	-0.0282
103	-0.0735
1030	0
1031	-0.222
1032	0.0369
1033	0
1034	0.221
1035	0
1036	-0.134
1037	0.159
1038	-0.066
1039	0.0111
104	0
1040	0.0169
1041	0.221

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: CNhs10470

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.145
MA0003.1	MA0003.1	0.463
MA0004.1	MA0004.1	0.517
MA0006.1	MA0006.1	0.279
MA0007.1	MA0007.1	0.0682
MA0009.1	MA0009.1	0.798
MA0014.1	MA0014.1	0.0381
MA0017.1	MA0017.1	0.0725
MA0018.2	MA0018.2	0.183
MA0019.1	MA0019.1	0.788
MA0024.1	MA0024.1	5.8711e-11
MA0025.1	MA0025.1	0.566
MA0027.1	MA0027.1	0.593
MA0028.1	MA0028.1	0.82
MA0029.1	MA0029.1	0.265
MA0030.1	MA0030.1	0.449
MA0031.1	MA0031.1	8.60478e-5
MA0035.2	MA0035.2	0.0881
MA0038.1	MA0038.1	0.671
MA0039.2	MA0039.2	0.0718
MA0040.1	MA0040.1	0.473
MA0041.1	MA0041.1	0.583
MA0042.1	MA0042.1	0.812
MA0043.1	MA0043.1	0.174
MA0046.1	MA0046.1	7.47149e-4
MA0047.2	MA0047.2	5.97569e-8
MA0048.1	MA0048.1	0.324
MA0050.1	MA0050.1	0.119
MA0051.1	MA0051.1	0.0206
MA0052.1	MA0052.1	0.931
MA0055.1	MA0055.1	0.301
MA0057.1	MA0057.1	0.171
MA0058.1	MA0058.1	0.531
MA0059.1	MA0059.1	0.611
MA0060.1	MA0060.1	0.317
MA0061.1	MA0061.1	0.0745
MA0062.2	MA0062.2	0.863
MA0065.2	MA0065.2	0.402
MA0066.1	MA0066.1	0.589
MA0067.1	MA0067.1	0.422
MA0068.1	MA0068.1	0.184
MA0069.1	MA0069.1	0.71
MA0070.1	MA0070.1	0.294
MA0071.1	MA0071.1	0.776
MA0072.1	MA0072.1	0.724
MA0073.1	MA0073.1	0.992
MA0074.1	MA0074.1	0.772
MA0076.1	MA0076.1	0.495
MA0077.1	MA0077.1	0.419
MA0078.1	MA0078.1	0.695
MA0079.2	MA0079.2	0.277
MA0080.2	MA0080.2	0.658
MA0081.1	MA0081.1	0.151
MA0083.1	MA0083.1	0.0238
MA0084.1	MA0084.1	0.977
MA0087.1	MA0087.1	0.348
MA0088.1	MA0088.1	0.0559
MA0090.1	MA0090.1	0.947
MA0091.1	MA0091.1	0.194
MA0092.1	MA0092.1	0.716
MA0093.1	MA0093.1	0.62
MA0099.2	MA0099.2	0.00811
MA0100.1	MA0100.1	0.742
MA0101.1	MA0101.1	0.0999
MA0102.2	MA0102.2	0.497
MA0103.1	MA0103.1	5.20546e-7
MA0104.2	MA0104.2	0.681
MA0105.1	MA0105.1	0.0103
MA0106.1	MA0106.1	0.358
MA0107.1	MA0107.1	0.102
MA0108.2	MA0108.2	0.937
MA0111.1	MA0111.1	0.202
MA0112.2	MA0112.2	0.0139
MA0113.1	MA0113.1	0.0982
MA0114.1	MA0114.1	0.0407
MA0115.1	MA0115.1	0.136
MA0116.1	MA0116.1	0.78
MA0117.1	MA0117.1	0.0711
MA0119.1	MA0119.1	0.382
MA0122.1	MA0122.1	0.777
MA0124.1	MA0124.1	0.0325
MA0125.1	MA0125.1	0.857
MA0131.1	MA0131.1	0.476
MA0135.1	MA0135.1	0.852
MA0136.1	MA0136.1	0.129
MA0137.2	MA0137.2	0.00428
MA0138.2	MA0138.2	0.0357
MA0139.1	MA0139.1	0.138
MA0140.1	MA0140.1	0.693
MA0141.1	MA0141.1	0.221
MA0142.1	MA0142.1	0.432
MA0143.1	MA0143.1	0.18
MA0144.1	MA0144.1	9.48971e-7
MA0145.1	MA0145.1	0.0942
MA0146.1	MA0146.1	0.333
MA0147.1	MA0147.1	0.73
MA0148.1	MA0148.1	6.52316e-5
MA0149.1	MA0149.1	0.0774
MA0150.1	MA0150.1	0.00249
MA0152.1	MA0152.1	0.645
MA0153.1	MA0153.1	0.00103
MA0154.1	MA0154.1	0.96
MA0155.1	MA0155.1	0.566
MA0156.1	MA0156.1	0.221
MA0157.1	MA0157.1	4.00612e-4
MA0159.1	MA0159.1	0.329
MA0160.1	MA0160.1	0.626
MA0162.1	MA0162.1	0.714
MA0163.1	MA0163.1	0.402
MA0164.1	MA0164.1	0.727
MA0258.1	MA0258.1	0.135
MA0259.1	MA0259.1	0.868

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: CNhs10470

Novel motif	Logo	P-value
1	1	0.316
10	10	0.661
100	100	0.765
101	101	0.646
102	102	0.222
103	103	0.109
104	104	0.574
105	105	0.905
106	106	0.0213
107	107	0.747
108	108	0.72
109	109	0.123
11	11	0.41
110	110	0.448
111	111	0.0195
112	112	0.148
113	113	0.498
114	114	0.338
115	115	0.507
116	116	0.654
117	117	0.887
118	118	0.0813
119	119	0.00402
12	12	0.377
120	120	0.596
121	121	0.321
122	122	0.858
123	123	0.727
124	124	0.0124
125	125	0.805
126	126	0.453
127	127	0.773
128	128	0.228
129	129	0.23
13	13	0.0835
130	130	0.395
131	131	0.473
132	132	0.15
133	133	0.958
134	134	0.834
135	135	0.272
136	136	0.311
137	137	0.768
138	138	0.145
139	139	0.387
14	14	0.882
140	140	0.184
141	141	0.608
142	142	0.758
143	143	0.603
144	144	0.335
145	145	0.173
146	146	0.0781
147	147	0.175
148	148	0.207
149	149	0.362
15	15	0.422
150	150	0.158
151	151	0.0757
152	152	0.0225
153	153	0.467
154	154	0.407
155	155	0.0988
156	156	0.0085
157	157	0.707
158	158	0.559
159	159	0.274
160	160	0.961
161	161	0.105
162	162	0.912
163	163	0.764
164	164	0.275
165	165	0.11
166	166	0.781
167	167	0.5
168	168	0.761
169	169	0.0768
17	17	0.0163
18	18	0.426
19	19	0.0595
2	2	0.267
20	20	0.327
21	21	0.112
22	22	0.153
23	23	0.37
24	24	0.015
25	25	0.6
26	26	0.132
27	27	0.254
28	28	0.73
29	29	0.138
3	3	0.812
30	30	0.55
31	31	0.461
32	32	0.223
33	33	0.945
34	34	0.167
35	35	0.494
36	36	0.358
37	37	0.0454
38	38	0.529
39	39	0.309
4	4	0.849
40	40	0.398
41	41	0.827
42	42	0.992
43	43	0.41
44	44	0.457
45	45	0.604
46	46	0.201
47	47	0.381
48	48	0.253
49	49	0.409
5	5	0.137
50	50	0.606
51	51	0.959
52	52	0.137
53	53	0.805
54	54	0.953
55	55	0.568
56	56	0.635
57	57	0.241
58	58	0.228
59	59	0.454
6	6	0.358
60	60	0.0911
61	61	0.869
62	62	0.418
63	63	0.157
64	64	0.854
65	65	0.307
66	66	0.962
67	67	0.177
68	68	0.0923
69	69	0.0635
7	7	0.568
70	70	0.00341
71	71	0.373
72	72	0.381
73	73	0.00929
74	74	0.337
75	75	0.447
76	76	0.131
77	77	0.273
78	78	0.64
79	79	0.722
8	8	0.919
80	80	0.96
81	81	0.736
82	82	0.0665
83	83	0.229
84	84	0.0647
85	85	0.0122
86	86	0.171
87	87	0.177
88	88	0.502
89	89	0.104
9	9	0.92
90	90	0.741
91	91	0.189
92	92	0.863
93	93	0.0326
94	94	0.955
95	95	0.648
96	96	0.0285
97	97	0.0146
98	98	0.513
99	99	0.839

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: CNhs10470

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011435 mouse prostate- 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)
0002367 (prostate gland)
0000479 (tissue)
0005156 (reproductive structure)
0004119 (endoderm-derived structure)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000077 (mixed endoderm/mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002530 (gland)
0010147 (male accessory sex gland)
0010317 (germ layer / neural crest derived structure)
0003937 (sex gland)
0005399 (male reproductive gland)
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)
0011435 (mouse prostate- 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:0006595 (presumptive endoderm)
UBERON:0006603 (presumptive mesoderm)
UBERON:0009847 (prostate field)
UBERON:0003353 (epithelium of hindgut)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000922,UBERON:0002367,UBERON:0002100,UBERON:0000483,UBERON:0002530,UBERON:0000926,UBERON:0000479,UBERON:0001007,UBERON:0005156,UBERON:0000077,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0004120,UBERON:0006554,UBERON:0004119,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0000990,UBERON:0002050,UBERON:0005153,UBERON:0005911,UBERON:0004921,UBERON:0000161,UBERON:0000162,UBERON:0005423,UBERON:0000477,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0000490,UBERON:0005291,UBERON:0003102,UBERON:0003929,UBERON:0003104,UBERON:0010147,UBERON:0005256,UBERON:0000925,UBERON:0006598,UBERON:0009846,UBERON:0004185,UBERON:0005157,UBERON:0003937,UBERON:0005399,UBERON:0002532,UBERON:0003353,UBERON:0004902,UBERON:0001555,UBERON:0001008,UBERON:0003101,UBERON:0004122,UBERON:0001353,UBERON:0000163,UBERON:0000079,UBERON:0007026,UBERON:0006866,UBERON:0009142,UBERON:0001046,UBERON:0000164,UBERON:0003064,UBERON:0006595,UBERON:0006603,UBERON:0000931,UBERON:0003820,UBERON:0009847
+|DRA_sample_Accession=CAGE@SAMD00004867
+|accession_numbers=CAGE;DRX009076;DRR009950;DRZ001375;DRZ002758;DRZ012725;DRZ014108
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0002367,UBERON:0000479,UBERON:0005156,UBERON:0004119,UBERON:0000062,UBERON:0004120,UBERON:0000077,UBERON:0000061,UBERON:0000465,UBERON:0000990,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0002530,UBERON:0010147,UBERON:0010317,UBERON:0003937,UBERON:0005399,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:0011435
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr14:69808725..69808748,+!p1@Nkx3-1!2.72!523.31!Nkx3-1;;chr2:103143336..103143367,-!p1@Ehf!2.54!549.78!Ehf;;chr2:103143315..103143328,-!p2@Ehf!2.20!158.34!Ehf;;chr6:88143711..88143717,+!p2@Gata2!2.12!206.86!Gata2;;chr2:9800207..9800234,-!p1@Gata3!2.04!314.47!Gata3;;chr11:96055613..96055628,+!p1@Hoxb13!2.04!108.50!Hoxb13;;chr14:69808759..69808769,+!p2@Nkx3-1!2.04!108.50!Nkx3-1;;chr5:144951153..144951203,+!p1@Bhlha15!2.03!150.18!Bhlha15;;chr12:58646974..58647003,-!p1@Foxa1!1.94!114.90!Foxa1;;chr17:27865882..27865901,-!p1@Spdef!1.89!75.86!Spdef;;chr11:96055650..96055665,+!p3@Hoxb13!1.64!42.78!Hoxb13;;chr11:96055681..96055693,+!p2@Hoxb13!1.63!42.12!Hoxb13;;chr5:120120667..120120685,+!p3@Tbx3!1.61!74.32!Tbx3;;chr6:88148650..88148669,+!p1@Gata2!1.48!234.86!Gata2;;chr6:52190467..52190500,-!p1@Hoxa10!1.45!27.12!Hoxa10;;chr3:98186461..98186476,+!p2@Zfp697!1.42!25.36!Zfp697;;chr10:5734677..5734702,-!p4@Esr1!1.40!24.04!Esr1;;chr12:25257265..25257294,+!p2@Grhl1!1.35!21.17!Grhl1;;chr13:40826961..40827001,-!p4@Tfap2a!1.25!16.98!Tfap2a;;chr13:40829137..40829205,-!p1@Tfap2a!1.24!18.52!Tfap2a;;chr13:72766250..72766273,+!p1@Irx2!1.23!24.48!Irx2;;chr11:96055633..96055640,+!p4@Hoxb13!1.23!15.88!Hoxb13;;chr6:88148324..88148328,+!p3@Gata2!1.15!13.23!Gata2;;chr5:120120834..120120845,+!p8@Tbx3!1.15!13.01!Tbx3;;chr6:52176164..52176195,-!p1@Hoxa9!1.14!16.10!Hoxa9;;chr5:77543897..77543911,-!p2@Hopx!1.13!24.04!Hopx;;chr14:22808697..22808715,-!p4@Zfp503!1.13!14.55!Zfp503;;chr12:120085700..120085711,+!p1@Sp8!1.12!12.13!Sp8;;chr9:48644037..48644067,-!p2@Zbtb16!1.11!29.55!Zbtb16;;chr12:120085778..120085784,+!p2@Sp8!1.09!11.25!Sp8;;chr5:120121446..120121461,+!p2@Tbx3!1.07!35.51!Tbx3;;chr13:72766279..72766296,+!p2@Irx2!1.07!16.10!Irx2;;chr16:25801993..25802014,+!p1@Trp63!1.07!10.81!Trp63;;chr10:5734660..5734670,-!p7@Esr1!1.06!10.36!Esr1;;chr12:25257298..25257323,+!p5@Grhl1!1.03!9.70!Grhl1;;chr6:88143570..88143590,+!p4@Gata2!1.01!9.26!Gata2;;chr6:38204087..38204108,-!p2@D630045J12Rik!0.98!25.58!D630045J12Rik;;chr10:5734525..5734569,-!p3@Esr1!0.98!14.33!Esr1;;chr5:77543935..77543947,-!p4@Hopx!0.98!8.60!Hopx;;chr11:121380594..121380609,-!p2@Zfp750!0.97!14.78!Zfp750;;chr10:80809447..80809515,-!p5@Hmg20b!0.97!10.14!Hmg20b;;chr5:120130377..120130432,+!p10@Tbx3!0.97!8.38!Tbx3;;chr2:9800094..9800108,-!p3@Gata3!0.97!8.38!Gata3;;chr2:103264213..103264233,+!p1@Elf5!0.97!8.38!Elf5;;chr1:194979361..194979373,+!p2@Irf6!0.96!11.03!Irf6;;chr3:54559550..54559570,+!p4@Smad9!0.95!11.69!Smad9;;chr3:98186361..98186443,+!p1@Zfp697!0.94!79.83!Zfp697;;chr12:25257141..25257173,+!p1@Grhl1!0.94!16.10!Grhl1;;chr11:100721640..100721658,+!p2@Stat5a!0.94!7.72!Stat5a;;chr11:100721761..100721851,+!p1@Stat5a!0.93!56.90!Stat5a;;chr1:194979315..194979359,+!p1@Irf6!0.93!47.85!Irf6;;chr8:79426176..79426275,+!p1@Nr3c2!0.93!39.03!Nr3c2;;chr1:172797892..172797915,-!p1@Atf6!0.90!202.89!Atf6;;chr5:104121453..104121479,+!p4@Aff1!0.90!33.30!Aff1;;chr18:36441119..36441158,+!p2@Pura!0.90!17.64!Pura;;chr4:148275237..148275311,+!p2@Casz1!0.89!28.89!Casz1;;chr1:137155026..137155042,-!p1@Elf3!0.88!40.36!Elf3;;chr5:120130275..120130296,+!p11@Tbx3!0.87!6.40!Tbx3;;chr12:74147689..74147711,-!p1@Six1!0.86!14.33!Six1;;chr11:121380640..121380655,-!p1@Zfp750!0.86!10.59!Zfp750;;chr14:98568971..98569025,-!p1@Dach1!0.84!48.52!Dach1;;chr15:37162796..37162828,+!p1@Grhl2!0.84!10.14!Grhl2;;chr15:37163124..37163153,+!p3@Grhl2!0.84!5.95!Grhl2;;chr5:120121020..120121049,+!p1@Tbx3!0.83!37.71!Tbx3;;chr13:31650185..31650201,+!p1@Foxq1!0.83!21.39!Foxq1;;chr4:119486912..119486954,+!p3@Hivep3!0.83!10.36!Hivep3;;chr11:96690797..96690813,-!p1@Nfe2l1!0.82!116.22!Nfe2l1;;chr19:19185671..19185693,-!p1@Rorb!0.82!14.11!Rorb;;chr18:35020854..35020869,+!p1@Egr1!0.81!226.92!Egr1;;chr2:70313168..70313184,+!p1@Sp5!0.81!8.38!Sp5;;chr6:90412582..90412601,+!p1@Klf15!0.80!27.35!Klf15;;chr6:52195795..52195825,-!p1@Hoxa11!0.80!5.29!Hoxa11;;chr7:108966820..108966835,+!p1@Phox2a!0.80!5.29!Phox2a;;chr11:100720767..100720797,+!p4@Stat5a!0.80!5.29!Stat5a;;chr12:25257176..25257190,+!p3@Grhl1!0.79!5.95!Grhl1;;chr10:22539932..22539956,-!p1@Tcf21!0.78!14.33!Tcf21;;chr8:92872177..92872201,-!p2@Tox3!0.78!9.26!Tox3;;chr18:81183755..81183761,-!p1@Sall3!0.78!5.07!Sall3;;chr1:193007123..193007139,-!p1@Atf3!0.77!29.99!Atf3;;chr6:38204109..38204155,-!p1@D630045J12Rik!0.77!28.89!D630045J12Rik;;chr1:172797864..172797873,-!p2@Atf6!0.77!14.33!Atf6;;chr15:37162834..37162849,+!p2@Grhl2!0.77!5.95!Grhl2;;chr2:172375081..172375105,+!p1@Tfap2c!0.77!4.85!Tfap2c;;chr11:96143666..96143725,+!p1@Hoxb8!0.76!5.51!Hoxb8;;chr8:87643578..87643593,-!p1@Zfp791!0.75!10.14!Zfp791;;chr12:113916993..113917009,+!p2@Zbtb42!0.75!8.38!Zbtb42;;chr2:103264245..103264268,+!p2@Elf5!0.75!4.63!Elf5;;chr13:40825465..40825469,-!p2@Tfap2a!0.75!4.63!Tfap2a;;chr4:148178529..148178548,+!p3@Casz1!0.74!11.47!Casz1;;chr5:120120981..120120992,+!p5@Tbx3!0.74!6.17!Tbx3;;chr6:134780234..134780288,+!p1@Crebl2!0.73!15.22!Crebl2;;chr4:122673187..122673201,+!p2@Mycl1!0.73!8.16!Mycl1;;chr11:100721732..100721742,+!p3@Stat5a!0.73!4.41!Stat5a;;chr3:94176733..94176794,+!p1@Rorc!0.72!36.61!Rorc;;chr4:148178559..148178603,+!p1@Casz1!0.72!13.45!Casz1;;chr6:83020355..83020371,-!p1@Tlx2!0.72!4.19!Tlx2;;chr13:117099847..117099907,-!p1@Isl1!0.70!7.94!Isl1;;chr11:121380611..121380625,-!p3@Zfp750!0.70!5.07!Zfp750;;chr5:120121262..120121282,+!p6@Tbx3!0.70!4.63!Tbx3;;chr5:144951136..144951139,+!p2@Bhlha15!0.70!3.97!Bhlha15;;chr3:54559496..54559511,+!p1@Smad9!0.68!9.26!Smad9;;chr8:59799772..59799789,+!p1@Hand2!0.67!11.69!Hand2;;chr6:90412608..90412630,+!p2@Klf15!0.67!8.38!Klf15;;chr1:172797876..172797887,-!p5@Atf6!0.66!8.82!Atf6;;chr17:51971932..51971958,-!p2@Satb1!0.66!5.07!Satb1;;chr12:77278238..77278252,-!p1@Esr2!0.66!3.53!Esr2;;chr15:37163065..37163092,+!p4@Grhl2!0.66!3.53!Grhl2;;chr18:7004715..7004731,-!p1@Mkx!0.65!9.26!Mkx;;chr4:135700687..135700719,+!p2@Id3!0.65!5.73!Id3;;chr14:98568761..98568814,-!p2@Dach1!0.64!27.12!Dach1;;chr5:104121391..104121450,+!p3@Aff1!0.64!20.29!Aff1;;chr6:72185232..72185272,-!p1@Atoh8!0.64!11.03!Atoh8;;chr4:82151653..82151706,-!p2@Nfib!0.63!108.50!Nfib;;chr6:37392159..37392172,-!p2@Creb3l2!0.63!17.42!Creb3l2;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.63!5.51!Ncoa4;;chr6:52195763..52195792,-!p2@Hoxa11!0.63!3.31!Hoxa11;;chr15:101097270..101097290,+!p1@Nr4a1!0.62!38.81!Nr4a1;;chr14:98569030..98569059,-!p3@Dach1!0.62!17.86!Dach1;;chr12:113917014..113917034,+!p1@Zbtb42!0.62!6.17!Zbtb42;;chr11:96153767..96153822,+!p1@Hoxb6!0.62!5.29!Hoxb6;;chr8:94881733..94881790,+!p1@Irx5!0.61!6.62!Irx5;;chr11:83664334..83664353,+!p2@Hnf1b!0.61!3.09!Hnf1b;;chr13:72766234..72766243,+!p3@Irx2!0.61!3.09!Irx2;;chr9:48644429..48644462,-!p3@Zbtb16!0.60!6.40!Zbtb16;;chr16:43363968..43364001,+!p7@Zbtb20!0.60!5.95!Zbtb20;;chr8:87297280..87297326,-!p2@Nfix!0.59!7.72!Nfix;;chr12:58647114..58647128,-!p2@Foxa1!0.59!2.87!Foxa1;;chr6:52190668..52190682,-!p3@Hoxa10!0.59!2.87!Hoxa10;;chr11:112643496..112643562,+!p1@Sox9!0.58!128.13!Sox9;;chr9:48644013..48644027,-!p5@Zbtb16!0.58!3.53!Zbtb16;;chr10:114821444..114821491,-!p1@Thap2!0.57!26.68!Thap2;;chr9:48644306..48644364,-!p1@Zbtb16!0.57!13.23!Zbtb16;;chr8:73905344..73905381,-!p2@Nr2f6!0.57!7.50!Nr2f6;;chr6:90412556..90412581,+!p3@Klf15!0.57!6.84!Klf15;;chr6:38204214..38204267,-!p4@D630045J12Rik!0.57!5.73!D630045J12Rik;;chr5:120121169..120121171,+!p4@Tbx3!0.56!5.29!Tbx3;;chr5:67490284..67490302,-!p1@Phox2b!0.56!2.65!Phox2b;;chr9:21992581..21992593,+!p1@Zfp872!0.56!2.65!Zfp872;;chr11:100721425..100721430,+!p15@Stat5a!0.56!2.65!Stat5a;;chr10:126727842..126727859,+!p1@Ddit3!0.55!92.84!Ddit3;;chr2:18314363..18314465,-!p1@Dnajc1!0.54!78.07!Dnajc1;;chr9:69137672..69137702,+!p2@Rora!0.54!12.79!Rora;;chr16:95923651..95923701,+!p3@Ets2!0.54!4.41!Ets2;;chr6:134780337..134780355,+!p3@Crebl2!0.54!3.53!Crebl2;;chr1:69732511..69732540,-!p2@Ikzf2!0.53!3.31!Ikzf2;;chr16:25802129..25802142,+!p3@Trp63!0.53!2.43!Trp63;;chrX:95345005..95345053,+!p1@Ar!0.53!2.43!Ar;;chr2:9809357..9809371,-!p2@Gata3!0.53!2.43!Gata3;;chr12:57796615..57796687,+!p1@Pax9!0.53!2.43!Pax9;;chr14:22807083..22807104,-!p1@Zfp503!0.52!52.04!Zfp503;;chr7:77511311..77511352,-!p4@Nr2f2!0.52!5.51!Nr2f2;;chr6:72185210..72185228,-!p3@Atoh8!0.52!4.41!Atoh8;;chr3:90046995..90047031,-!p2@Creb3l4!0.52!3.09!Creb3l4;;chr2:74549968..74549996,+!p1@Hoxd3!0.52!3.09!Hoxd3;;chr2:9809451..9809469,-!p6@Gata3!0.51!2.21!Gata3;;chr11:83664365..83664383,+!p1@Hnf1b!0.51!2.21!Hnf1b;;chr6:52176144..52176161,-!p2@Hoxa9!0.51!2.21!Hoxa9;;chr5:34530293..34530318,-!p2@Mxd4!0.50!15.66!Mxd4;;chr15:35225845..35225867,+!p1@Osr2!0.50!6.62!Osr2;;chr6:14851440..14851497,+!p2@Foxp2!0.50!6.40!Foxp2;;chr10:127707602..127707633,+!p1@Stat2!0.49!24.70!Stat2;;chr17:51952617..51952680,-!p3@Satb1!0.49!13.67!Satb1;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.49!7.50!Tfcp2l1;;chr15:61818593..61818614,+!p4@Myc!0.49!4.19!Myc;;chr10:67000609..67000625,+!p1@Egr2!0.48!5.73!Egr2;;chr5:3647720..3647733,-!p3@Gatad1!0.48!4.41!Gatad1;;chr6:133985839..133985915,+!p1@Etv6!0.47!44.77!Etv6;;chr11:53164378..53164392,+!p2@Aff4!0.47!22.93!Aff4;;chr7:77511234..77511302,-!p2@Nr2f2!0.47!17.42!Nr2f2;;chr4:97444537..97444555,+!p8@Nfia!0.47!5.95!Nfia;;chr5:120121091..120121100,+!p7@Tbx3!0.47!2.43!Tbx3;;chr5:120120708..120120713,+!p12@Tbx3!0.47!1.98!Tbx3;;chr6:52184901..52184959,-!p2@Hoxa10!0.47!1.98!Hoxa10;;chr11:57645506..57645523,-!p1@Hand1!0.47!1.98!Hand1;;chr10:5734582..5734595,-!p10@Esr1!0.47!1.98!Esr1;;chr15:37163041..37163061,+!p5@Grhl2!0.47!1.98!Grhl2;;chr13:83643159..83643226,+!p3@Mef2c!0.47!1.98!Mef2c;;chr2:9809374..9809396,-!p4@Gata3!0.47!1.98!Gata3;;chr4:119487109..119487131,+!p4@Hivep3!0.47!1.98!Hivep3;;chr16:30065419..30065437,+!p1@Hes1!0.46!137.61!Hes1;;chr4:97444012..97444045,+!p4@Nfia!0.46!19.41!Nfia;;chr11:100683839..100683890,-!p2@Stat5b!0.46!5.51!Stat5b;;chr6:52163319..52163342,-!p1@Hoxa3!0.46!3.09!Hoxa3;;chr5:31262609..31262693,-!p1@Preb!0.45!130.55!Preb;;chr2:91864661..91864686,-!p1@Creb3l1!0.45!54.91!Creb3l1;;chr3:89197057..89197114,-!p1@Zb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+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006595,UBERON:0006603,UBERON:0009847,UBERON:0003353,UBERON:0010316
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 38: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011435
 |is_obsolete=
+|library_id=CNhs10470
+|library_id_phase_based=2:CNhs10470
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;859
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;859
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/prostate%252c%2520adult.CNhs10470.859-1F8.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/prostate%252c%2520adult.CNhs10470.859-1F8.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/prostate%252c%2520adult.CNhs10470.859-1F8.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/prostate%252c%2520adult.CNhs10470.859-1F8.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/prostate%252c%2520adult.CNhs10470.859-1F8.mm9.nobarcode.rdna.fa.gz
 |name=prostate, adult
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10470,LSID646,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.00753428949535195,0,0,0,0,0,-0.182707584598508,0,0,0,0,-0.0843392403965415,0,0,0,0,0.079340548960445,0,-0.105345462274727,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.152957109544185,0,0,0,0,0,0.0382614968952305,-0.116312190027184,-0.170990574778,-0.897663477869979,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0.0865478886078475,0,0.0205423410444071,0,0,0,0,0,0,0,0,0,0,-0.042713957818083,0.0948150254404598,0.0624315709189729,-0.00441104586239033,0,0,-0.0536703824547964,0,0,0,-0.0351025996748165,0.0398947844113717,0.217880197011835,-0.0788315948399074,0,0,0,0,0,0,0.0667003809851296,-0.0542885751289655,-0.147188508967031,0,0,0,0,0
 |rna_box=1
 |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=table111:859-1F8;search_select_hide=table117:859-1F8
 }}

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FF:859-1F8: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:21, 4 June 2020

CNhs10470

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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