FF:505-44H7: Difference between revisions

Latest revision as of 19:18, 4 June 2020

Name:	ovary, embryo E18
Species:	Mouse (Mus musculus)
Library ID:	CNhs11040
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	ovary
dev stage	18 days embryo
sex	female
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		SAMD00005985

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11040		CAGE		DRX009051		DRR009925

Accession ID Mm9

Library id		BAM		CTSS
CNhs11040		DRZ001350		DRZ002733

Accession ID Mm10

Library id		BAM		CTSS
CNhs11040		DRZ012700		DRZ014083

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

CNhs11040

0	0
1	0
10	0
100	0
1000	0.0569
1001	0
1002	0.675
1003	0.211
1004	0.68
1005	0
1006	0.106
1007	0.0241
1008	0
1009	0.225
101	-0.0356
1010	0
1011	0.0179
1012	0
1013	-0.146
1014	0.316
1015	0.24
1016	0.382
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0225
1022	0.0028
1023	0
1024	0.0798
1025	0.132
1026	0.103
1027	0
1028	0
1029	-0.106
103	0.501
1030	0
1031	0.733
1032	0.0286
1033	0
1034	0
1035	0
1036	0.119
1037	0
1038	0.0715
1039	-0.0594
104	0
1040	0.241
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: CNhs11040

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0619
MA0003.1	MA0003.1	0.296
MA0004.1	MA0004.1	0.997
MA0006.1	MA0006.1	0.99
MA0007.1	MA0007.1	0.771
MA0009.1	MA0009.1	0.487
MA0014.1	MA0014.1	0.748
MA0017.1	MA0017.1	0.0674
MA0018.2	MA0018.2	0.00434
MA0019.1	MA0019.1	0.355
MA0024.1	MA0024.1	1.99906e-5
MA0025.1	MA0025.1	0.182
MA0027.1	MA0027.1	0.129
MA0028.1	MA0028.1	0.115
MA0029.1	MA0029.1	0.406
MA0030.1	MA0030.1	0.0917
MA0031.1	MA0031.1	0.131
MA0035.2	MA0035.2	0.284
MA0038.1	MA0038.1	0.391
MA0039.2	MA0039.2	0.34
MA0040.1	MA0040.1	0.124
MA0041.1	MA0041.1	0.373
MA0042.1	MA0042.1	0.313
MA0043.1	MA0043.1	0.195
MA0046.1	MA0046.1	0.646
MA0047.2	MA0047.2	0.00862
MA0048.1	MA0048.1	0.318
MA0050.1	MA0050.1	0.211
MA0051.1	MA0051.1	0.0627
MA0052.1	MA0052.1	0.0746
MA0055.1	MA0055.1	0.0147
MA0057.1	MA0057.1	0.937
MA0058.1	MA0058.1	0.888
MA0059.1	MA0059.1	0.856
MA0060.1	MA0060.1	0.0011
MA0061.1	MA0061.1	0.879
MA0062.2	MA0062.2	1.47984e-4
MA0065.2	MA0065.2	0.196
MA0066.1	MA0066.1	0.299
MA0067.1	MA0067.1	0.0126
MA0068.1	MA0068.1	0.232
MA0069.1	MA0069.1	0.93
MA0070.1	MA0070.1	0.174
MA0071.1	MA0071.1	0.224
MA0072.1	MA0072.1	0.0397
MA0073.1	MA0073.1	0.95
MA0074.1	MA0074.1	0.214
MA0076.1	MA0076.1	0.273
MA0077.1	MA0077.1	0.635
MA0078.1	MA0078.1	0.0698
MA0079.2	MA0079.2	0.0383
MA0080.2	MA0080.2	4.02079e-6
MA0081.1	MA0081.1	0.116
MA0083.1	MA0083.1	0.00785
MA0084.1	MA0084.1	0.746
MA0087.1	MA0087.1	0.107
MA0088.1	MA0088.1	0.482
MA0090.1	MA0090.1	0.446
MA0091.1	MA0091.1	0.598
MA0092.1	MA0092.1	0.743
MA0093.1	MA0093.1	0.99
MA0099.2	MA0099.2	0.00456
MA0100.1	MA0100.1	0.131
MA0101.1	MA0101.1	0.283
MA0102.2	MA0102.2	0.441
MA0103.1	MA0103.1	0.00322
MA0104.2	MA0104.2	0.851
MA0105.1	MA0105.1	0.638
MA0106.1	MA0106.1	0.285
MA0107.1	MA0107.1	0.213
MA0108.2	MA0108.2	0.00621
MA0111.1	MA0111.1	0.598
MA0112.2	MA0112.2	0.369
MA0113.1	MA0113.1	0.925
MA0114.1	MA0114.1	0.0618
MA0115.1	MA0115.1	0.0116
MA0116.1	MA0116.1	0.508
MA0117.1	MA0117.1	0.00822
MA0119.1	MA0119.1	0.68
MA0122.1	MA0122.1	0.916
MA0124.1	MA0124.1	0.374
MA0125.1	MA0125.1	0.473
MA0131.1	MA0131.1	0.882
MA0135.1	MA0135.1	0.107
MA0136.1	MA0136.1	1.88809e-6
MA0137.2	MA0137.2	0.109
MA0138.2	MA0138.2	0.147
MA0139.1	MA0139.1	0.984
MA0140.1	MA0140.1	0.487
MA0141.1	MA0141.1	0.101
MA0142.1	MA0142.1	0.0182
MA0143.1	MA0143.1	0.556
MA0144.1	MA0144.1	0.23
MA0145.1	MA0145.1	0.869
MA0146.1	MA0146.1	0.223
MA0147.1	MA0147.1	0.723
MA0148.1	MA0148.1	0.0121
MA0149.1	MA0149.1	0.0177
MA0150.1	MA0150.1	4.29206e-5
MA0152.1	MA0152.1	0.0824
MA0153.1	MA0153.1	0.701
MA0154.1	MA0154.1	0.654
MA0155.1	MA0155.1	0.05
MA0156.1	MA0156.1	0.00421
MA0157.1	MA0157.1	0.353
MA0159.1	MA0159.1	0.0178
MA0160.1	MA0160.1	0.0466
MA0162.1	MA0162.1	0.376
MA0163.1	MA0163.1	0.0626
MA0164.1	MA0164.1	0.998
MA0258.1	MA0258.1	0.0166
MA0259.1	MA0259.1	0.559

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: CNhs11040

Novel motif	Logo	P-value
1	1	0.118
10	10	0.175
100	100	0.85
101	101	0.668
102	102	0.692
103	103	0.117
104	104	0.535
105	105	0.887
106	106	0.0808
107	107	0.747
108	108	0.752
109	109	0.664
11	11	0.488
110	110	0.611
111	111	0.133
112	112	0.91
113	113	0.533
114	114	0.0775
115	115	0.735
116	116	0.397
117	117	0.125
118	118	0.739
119	119	0.103
12	12	0.709
120	120	0.366
121	121	0.795
122	122	0.778
123	123	0.0988
124	124	0.312
125	125	0.0359
126	126	0.851
127	127	0.0225
128	128	0.045
129	129	0.271
13	13	0.825
130	130	0.438
131	131	0.321
132	132	0.72
133	133	0.86
134	134	0.828
135	135	0.233
136	136	0.0986
137	137	0.659
138	138	0.32
139	139	0.0248
14	14	0.307
140	140	0.425
141	141	0.536
142	142	0.122
143	143	0.429
144	144	0.15
145	145	0.829
146	146	0.865
147	147	0.821
148	148	0.574
149	149	0.514
15	15	0.0406
150	150	0.491
151	151	0.213
152	152	0.44
153	153	0.357
154	154	0.434
155	155	0.598
156	156	0.175
157	157	0.24
158	158	0.0356
159	159	0.0283
160	160	0.143
161	161	0.718
162	162	0.418
163	163	0.0401
164	164	0.188
165	165	0.201
166	166	0.0509
167	167	0.134
168	168	0.435
169	169	0.238
17	17	0.503
18	18	0.102
19	19	0.157
2	2	0.324
20	20	0.597
21	21	0.521
22	22	0.375
23	23	0.404
24	24	0.72
25	25	0.103
26	26	0.739
27	27	0.839
28	28	0.124
29	29	0.47
3	3	0.533
30	30	0.523
31	31	0.473
32	32	0.283
33	33	0.794
34	34	0.485
35	35	0.0206
36	36	0.23
37	37	0.554
38	38	0.923
39	39	0.436
4	4	0.528
40	40	0.932
41	41	0.109
42	42	0.765
43	43	0.266
44	44	0.261
45	45	0.577
46	46	0.293
47	47	0.337
48	48	0.367
49	49	0.0445
5	5	0.238
50	50	0.104
51	51	0.854
52	52	0.989
53	53	0.684
54	54	0.465
55	55	0.569
56	56	0.465
57	57	0.294
58	58	0.273
59	59	0.308
6	6	0.589
60	60	0.499
61	61	0.694
62	62	0.0652
63	63	0.787
64	64	0.959
65	65	0.533
66	66	0.717
67	67	0.983
68	68	0.273
69	69	0.706
7	7	0.54
70	70	0.0284
71	71	0.379
72	72	0.672
73	73	0.829
74	74	0.821
75	75	0.44
76	76	0.363
77	77	0.804
78	78	0.175
79	79	0.539
8	8	0.256
80	80	0.128
81	81	0.312
82	82	0.787
83	83	0.432
84	84	0.232
85	85	0.0514
86	86	0.814
87	87	0.59
88	88	0.664
89	89	0.502
9	9	0.866
90	90	0.0047
91	91	0.47
92	92	0.291
93	93	0.799
94	94	0.0598
95	95	0.968
96	96	0.137
97	97	0.904
98	98	0.759
99	99	0.111

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: CNhs11040

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011378 mouse ovary- embryo E18 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)
0000922 (embryo)
0000992 (female gonad)
0000991 (gonad)
0003134 (female reproductive organ)
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)
0003133 (reproductive organ)
0002323 (body cavity)
0000464 (anatomical space)
0004458 (body cavity or lining)
0010317 (germ layer / neural crest derived structure)
0003100 (female organism)
0000474 (female reproductive system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000302 (mouse embryonic day 18 sample)
0011378 (mouse ovary- embryo E18 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)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
 |DRA_sample_Accession=CAGE@SAMD00005985
-|accession_numbers=CAGE;DRX009051;DRR009925;DRZ001350;DRZ002733
+|accession_numbers=CAGE;DRX009051;DRR009925;DRZ001350;DRZ002733;DRZ012700;DRZ014083
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0000992,UBERON:0000991,UBERON:0003134,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:0003133,UBERON:0002323,UBERON:0000464,UBERON:0004458,UBERON:0010317,UBERON:0003100,UBERON:0000474
 |ancestors_in_cell_lineage_facet=
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr10:22539932..22539956,-!p1@Tcf21!1.82!165.42!Tcf21;;chr2:104966766..104966786,+!p1@Wt1!1.60!60.01!Wt1;;chr19:59533221..59533271,+!p1@Emx2!1.58!45.58!Emx2;;chr15:35225845..35225867,+!p1@Osr2!1.53!81.02!Osr2;;chr8:59799772..59799789,+!p1@Hand2!1.52!88.68!Hand2;;chr6:52190467..52190500,-!p1@Hoxa10!1.49!29.92!Hoxa10;;chr15:102828658..102828678,+!p1@Hoxc6!1.49!29.74!Hoxc6;;chr6:52184901..52184959,-!p2@Hoxa10!1.46!27.96!Hoxa10;;chr6:52195795..52195825,-!p1@Hoxa11!1.42!25.11!Hoxa11;;chr2:104966874..104966907,+!p2@Wt1!1.32!19.94!Wt1;;chr9:98855868..98855895,+!p1@Foxl2!1.30!19.05!Foxl2;;chr1:140739014..140739032,-!p1@Lhx9!1.27!22.26!Lhx9;;chr2:74549968..74549996,+!p1@Hoxd3!1.24!20.48!Hoxd3;;chr19:59533139..59533152,+!p2@Emx2!1.24!16.20!Emx2;;chr6:52176164..52176195,-!p1@Hoxa9!1.23!19.94!Hoxa9;;chr6:52190668..52190682,-!p3@Hoxa10!1.21!15.14!Hoxa10;;chr10:5636374..5636421,-!p1@Esr1!1.20!18.70!Esr1;;chr6:52195763..52195792,-!p2@Hoxa11!1.20!14.78!Hoxa11;;chr2:104966933..104966966,+!p3@Wt1!1.20!14.78!Wt1;;chr6:88148650..88148669,+!p1@Gata2!1.19!120.02!Gata2;;chr13:53568104..53568156,-!p1@Msx2!1.16!19.94!Msx2;;chr10:5734525..5734569,-!p3@Esr1!1.12!20.30!Esr1;;chr6:6832076..6832092,-!p1@Dlx5!1.12!14.25!Dlx5;;chrX:90531838..90531861,+!p1@Arx!1.11!15.14!Arx;;chr5:38215819..38215823,-!p1@Msx1!1.10!30.63!Msx1;;chr2:74529970..74529997,+!p1@Hoxd10!1.10!11.57!Hoxd10;;chr14:63864056..63864102,-!p1@Gata4!1.09!19.59!Gata4;;chr10:5636354..5636373,-!p2@Esr1!1.09!11.22!Esr1;;chr7:17647736..17647772,-!p1@Hif3a!1.08!39.53!Hif3a;;chr1:4483679..4483695,-!p1@Sox17!1.07!51.10!Sox17;;chr19:59533163..59533185,+!p3@Emx2!1.07!10.86!Emx2;;chr6:52163319..52163342,-!p1@Hoxa3!1.06!15.31!Hoxa3;;chr10:12810631..12810649,+!p1@Plagl1!1.05!269.95!Plagl1;;chr1:168168856..168168893,-!p1@Mael!1.05!10.33!Mael;;chr2:74520048..74520064,+!p1@Hoxd11!1.04!9.97!Hoxd11;;chr2:74520343..74520383,+!p4@Hoxd11!1.02!9.44!Hoxd11;;chr1:168168817..168168850,-!p2@Mael!1.01!9.26!Mael;;chr2:24331085..24331100,-!p1@Pax8!1.01!9.26!Pax8;;chr12:34642510..34642530,+!p1@Twist1!0.98!27.78!Twist1;;chr2:104966662..104966673,+!p4@Wt1!0.98!8.55!Wt1;;chr2:74536026..74536039,+!p1@Hoxd9!0.96!8.19!Hoxd9;;chr19:59533429..59533470,+!p4@Emx2!0.94!7.66!Emx2;;chr2:38570011..38570034,-!p1@Nr5a1!0.94!7.66!Nr5a1;;chr9:98855847..98855866,+!p3@Foxl2!0.94!7.66!Foxl2;;chr6:52167459..52167492,-!p1@Hoxa7!0.93!9.08!Hoxa7;;chr2:74550015..74550057,+!p2@Hoxd3!0.93!7.48!Hoxd3;;chr2:104966465..104966479,+!p6@Wt1!0.93!7.48!Wt1;;chr19:10315179..10315241,-!p1@Gm98!0.92!79.06!Gm98;;chr7:6649134..6649167,-!p1@Zim1!0.92!41.49!Zim1;;chr11:18918434..18918489,-!p3@Meis1!0.91!11.57!Meis1;;chr6:85967211..85967223,+!p1@Figla!0.91!7.12!Figla;;chr15:102865131..102865151,+!p2@Hoxc4!0.89!7.66!Hoxc4;;chr9:98855944..98855971,+!p4@Foxl2!0.89!6.77!Foxl2;;chr14:56443806..56443848,+!p1@Nfatc4!0.88!13.71!Nfatc4;;chr19:59532915..59532940,+!p5@Emx2!0.88!6.59!Emx2;;chr2:91864300..91864379,-!p2@Creb3l1!0.86!18.87!Creb3l1;;chr10:5734582..5734595,-!p10@Esr1!0.86!6.23!Esr1;;chr2:74517742..74517758,+!p2@Hoxd11!0.84!5.88!Hoxd11;;chr18:11052456..11052477,+!p3@Gata6!0.83!19.05!Gata6;;chr18:11052485..11052508,+!p2@Gata6!0.82!16.56!Gata6;;chr15:102865088..102865107,+!p1@Hoxc4!0.82!7.66!Hoxc4;;chr2:74542918..74542971,+!p1@Hoxd8!0.81!8.55!Hoxd8;;chr9:71743854..71743909,-!p1@Tcf12!0.80!45.94!Tcf12;;chr19:25746898..25746910,+!p1@Dmrt2!0.80!8.19!Dmrt2;;chr15:102828642..102828653,+!p2@Hoxc6!0.80!5.34!Hoxc6;;chr15:102797288..102797302,+!p1@Hoxc10!0.80!5.34!Hoxc10;;chr2:104966436..104966455,+!p7@Wt1!0.80!5.34!Wt1;;chr5:120121020..120121049,+!p1@Tbx3!0.79!34.19!Tbx3;;chr14:22807107..22807119,-!p2@Zfp503!0.79!24.57!Zfp503;;chr2:104966909..104966920,+!p8@Wt1!0.79!5.16!Wt1;;chr5:120121446..120121461,+!p2@Tbx3!0.78!17.81!Tbx3;;chr7:77511403..77511450,-!p3@Nr2f2!0.78!11.40!Nr2f2;;chr5:120121169..120121171,+!p4@Tbx3!0.78!9.44!Tbx3;;chr11:18918406..18918431,-!p6@Meis1!0.78!6.94!Meis1;;chr10:5734473..5734489,-!p5@Esr1!0.78!4.99!Esr1;;chr18:11052642..11052659,+!p1@Gata6!0.77!27.07!Gata6;;chr17:28487603..28487626,-!p2@Tead3!0.77!10.86!Tead3;;chr14:22807216..22807231,-!p3@Zfp503!0.77!8.73!Zfp503;;chr11:96147952..96147967,+!p1@Hoxb7!0.77!6.23!Hoxb7;;chr11:18918917..18918944,-!p1@Meis1!0.76!68.02!Meis1;;chr1:93698030..93698064,+!p1@Twist2!0.76!10.15!Twist2;;chr6:52190858..52190873,-!p4@Hoxa10!0.76!4.81!Hoxa10;;chr2:130120884..130120972,+!p1@Ebf4!0.75!29.92!Ebf4;;chr12:34642682..34642753,+!p2@Twist1!0.75!13.35!Twist1;;chr11:85646263..85646278,+!p2@Tbx2!0.75!12.82!Tbx2;;chr11:96153767..96153822,+!p1@Hoxb6!0.75!7.48!Hoxb6;;chr2:30700788..30700824,+!p2@Prrx2!0.75!7.30!Prrx2;;chr14:22807083..22807104,-!p1@Zfp503!0.74!88.68!Zfp503;;chr1:170362040..170362113,-!p2@Pbx1!0.74!38.82!Pbx1;;chr10:119914001..119914078,-!p4@Hmga2!0.74!6.41!Hmga2;;chr9:98855692..98855710,+!p2@Foxl2!0.74!4.45!Foxl2;;chr2:167363692..167363710,+!p1@Snai1!0.73!59.30!Snai1;;chr11:85646303..85646329,+!p1@Tbx2!0.73!32.05!Tbx2;;chr7:89137163..89137200,-!p1@Bnc1!0.73!5.34!Bnc1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all2!0.32!14.96!Sall2;;chr17:4994697..4994730,+!p4@Arid1b!0.32!8.01!Arid1b;;chr3:130813200..130813252,+!p1@Lef1!0.32!7.83!Lef1;;chr19:7342725..7342784,+!p1@Rcor2!0.32!7.12!Rcor2;;chr12:37835141..37835194,+!p1@Meox2!0.32!5.16!Meox2;;chr15:76755836..76755867,-!p1@Zfp647!0.32!4.81!Zfp647;;chr8:118230894..118230918,-!p5@Maf!0.32!4.63!Maf;;chr2:165818108..165818119,+!p2@Ncoa3!0.32!4.10!Ncoa3;;chr18:83080255..83080277,+!p4@Zfp516!0.32!3.92!Zfp516;;chr16:8672256..8672279,-!p1@Carhsp1,p1@Gm9791!0.32!3.56!Carhsp1;;chr8:112229540..112229566,+!p2@Zfp821!0.32!3.38!Zfp821;;chr14:52935788..52935817,-!p2@Sall2!0.32!3.38!Sall2;;chr10:44178375..44178390,-!p2@Prdm1!0.32!1.78!Prdm1;;chr2:77654815..77654872,-!p2@Zfp385b!0.32!1.60!Zfp385b;;chr2:77654650..77654685,-!p3@Zfp385b!0.32!1.60!Zfp385b;;chr10:12844757..12844771,+!p2@Plagl1!0.32!1.07!Plagl1;;chr11:96880072..96880079,+!p1@Sp6!0.32!1.07!Sp6;;chr11:96160360..96160397,+!p3@Hoxb6!0.32!1.07!Hoxb6;;chr13:53568169..53568179,-!p4@Msx2!0.32!1.07!Msx2;;chr15:102197405..102197454,-!p1@Sp7!0.32!1.07!Sp7;;chr14:63890691..63890718,-!p8@Gata4!0.32!1.07!Gata4;;chr12:30525072..30525115,+!p14@Myt1l!0.32!1.07!Myt1l;;chr1:136186574..136186592,+!p1@Myog!0.32!1.07!Myog;;chr8:81551868..81551877,+!p13@Zfp827!0.32!1.07!Zfp827;;chr6:52158644..52158677,-!p2@Hoxa6!0.32!1.07!Hoxa6;;chr6:6812962..6812979,+!p1@Dlx6!0.32!1.07!Dlx6;;chr5:31271028..31271040,+!p1@Tcf23!0.32!1.07!Tcf23;;chr2:181406327..181406350,-!p1@Sox18!0.31!57.52!Sox18;;chr4:122911086..122911112,+!p1@Heyl!0.31!21.19!Heyl;;chr6:65728988..65729056,+!p1@Prdm5!0.31!8.37!Prdm5;;chr9:32443818..32443854,+!p2@Ets1!0.31!7.48!Ets1;;chr9:63869751..63869767,-!p1@Smad6!0.31!4.10!Smad6;;chr18:11052606..11052633,+!p4@Gata6!0.31!3.92!Gata6;;chr15:102087880..102087927,-!p2@Rarg!0.31!3.56!Rarg;;chr11:3189683..3189744,+!p2@Patz1!0.31!3.03!Patz1;;chr11:102179350..102179375,-!p7@Ubtf!0.31!2.85!Ubtf;;chr7:87171256..87171280,+!p4@Zfp710!0.31!2.85!Zfp710;;chr1:4486481..4486501,-!p2@Sox17!0.31!1.96!Sox17;;chr2:92886587..92886622,-!p3@Prdm11!0.31!1.96!Prdm11;;chr12:9581243..9581254,+!p4@Osr1!0.31!1.78!Osr1;;chr6:52154414..52154462,-!p1@Hoxa5!0.31!1.78!Hoxa5;;chr1:4486453..4486470,-!p3@Sox17!0.31!1.60!Sox17;;chr4:13670441..13670463,+!p8@Runx1t1!0.31!1.42!Runx1t1;;chr1:170362027..170362036,-!p15@Pbx1!0.31!1.25!Pbx1;;chr2:115890495..115890507,-!p16@Meis2!0.31!1.25!Meis2;;chr14:99697871..99697934,+!p1@Klf5!0.30!35.44!Klf5;;chr2:181327438..181327495,-!p1@Znf512b!0.30!23.68!Znf512b;;chr7:52960555..52960662,+!p1@Dbp!0.30!14.78!Dbp;;chr1:170362242..170362256,-!p3@Pbx1!0.30!12.29!Pbx1;;chr4:129055091..129055168,-!p1@Zbtb8a!0.30!9.79!Zbtb8a;;chr11:72990738..72990763,+!p2@LOC100047518,p2@Tax1bp3!0.30!9.44!Tax1bp3;;chr7:91558392..91558434,-!p1@Arnt2!0.30!4.27!Arnt2;;chr14:56443698..56443726,+!p2@Nfatc4!0.30!2.67!Nfatc4;;chr12:3807076..3807086,+!p8@Dnmt3a!0.30!2.31!Dnmt3a;;chr10:119913792..119913820,-!p5@Hmga2!0.30!2.31!Hmga2;;chr12:37835120..37835133,+!p2@Meox2!0.30!1.78!Meox2;;chr7:91558472..91558512,-!p2@Arnt2!0.30!1.78!Arnt2;;chr19:7342786..7342803,+!p2@Rcor2!0.30!1.60!Rcor2;;chr8:94325273..94325288,-!p5@Irx3!0.30!1.42!Irx3;;chr11:90251852..90251855,-!p4@Hlf!0.30!1.42!Hlf;;chr4:84321300..84321315,-!p2@Bnc2!0.30!1.42!Bnc2;;chr7:144505957..144505972,-!p2@Ebf3!0.30!1.42!Ebf3;;chr1:136456791..136456810,+!p1@Kdm5b!0.29!63.75!Kdm5b;;chr7:26035739..26035757,-!p1@Erf!0.29!43.27!Erf;;chr15:75799717..75799742,+!p1@Zfp707!0.29!6.23!Zfp707;;chr7:134489096..134489123,-!p2@Zfp768!0.29!4.81!Zfp768;;chr18:83080305..83080335,+!p2@Zfp516!0.29!4.81!Zfp516;;chr1:186556323..186556370,-!p2@Hlx!0.29!4.10!Hlx;;chr15:102034510..102034549,+!p4@Zfp740!0.29!3.56!Zfp740;;chr7:134550289..134550313,-!p1@Zfp764!0.29!3.38!Zfp764;;chr13:96095124..96095144,+!p3@Zbed3!0.29!2.67!Zbed3;;chr2:115891381..115891392,-!p5@Meis2!0.29!2.67!Meis2;;chr11:62602947..62602980,-!p2@Zfp286!0.29!2.67!Zfp286;;chr2:92886419..92886455,-!p2@Prdm11!0.29!2.67!Prdm11;;chr7:4946990..4947016,-!p4@Zfp579!0.29!2.31!Zfp579;;chr2:151969288..151969294,+!p1@Tcf15!0.29!1.96!Tcf15;;chr11:99092280..99092302,-!p3@Smarce1!0.29!1.96!Smarce1;;chr15:40486540..40486550,+!p6@Zfpm2!0.29!1.60!Zfpm2;;chr14:22808697..22808715,-!p4@Zfp503!0.29!1.25!Zfp503;;chr15:40486458..40486467,+!p9@Zfpm2!0.29!1.25!Zfpm2;;chr6:37392095..37392154,-!p1@Creb3l2!0.28!54.49!Creb3l2;;chr7:134388025..134388092,+!p1@Zfp771!0.28!35.79!Zfp771;;chr1:136456767..136456790,+!p2@Kdm5b!0.28!35.61!Kdm5b;;chr7:134376741..134376831,+!p1@Zfp553!0.28!22.08!Zfp553;;chr7:24993112..24993158,-!p1@Zfp111!0.28!17.27!Zfp111;;chr2:154395581..154395610,-!p1@E2f1!0.28!16.92!E2f1;;chr7:5003117..5003159,+!p1@Zfp580!0.28!12.29!Zfp580;;chrX:45807329..45807370,-!p1@Elf4!0.28!11.40!Elf4;;chr19:26681672..26681716,+!p5@Smarca2!0.28!6.59!Smarca2;;chr15:75447105..75447159,+!p1@Zfp41!0.28!6.23!Zfp41;;chr11:50700965..50701027,-!p1@Zfp454!0.28!5.34!Zfp454;;chr10:127984472..127984504,-!p2@Zc3h10!0.28!4.81!Zc3h10;;chr11:98789099..98789124,+!p3@Rara!0.28!4.63!Rara;;chr6:145814003..145814056,-!p1@Bhlhe41!0.28!4.27!Bhlhe41;;chr3:94641455..94641486,+!p4@Pogz!0.28!3.74!Pogz;;chr3:9610074..9610086,-!p2@Zfp704!0.28!3.38!Zfp704;;chr3:30408603..30408668,-!p1@Mecom!0.28!3.21!Mecom;;chr18:76401074..76401118,+!p3@Smad2!0.28!3.21!Smad2;;chr12:74147689..74147711,-!p1@Six1!0.28!3.03!Six1;;chr15:75672367..75672384,-!p2@Zc3h3!0.28!2.85!Zc3h3;;chr8:94325814..94325839,-!p2@Irx3!0.28!2.85!Irx3;;chr6:145813905..145813932,-!p2@Bhlhe41!0.28!2.49!Bhlhe41;;chr7:134376558..134376587,+!p2@Zfp553!0.28!2.14!Zfp553;;chr19:28754600..28754612,-!p2@Glis3!0.28!1.96!Glis3;;chr8:87237732..87237745,-!p7@Nfix!0.28!1.96!Nfix;;chr6:53523346..53523353,+!p3@Creb5!0.28!1.60!Creb5;;chr10:44178493..44178520,-!p3@Prdm1!0.28!1.60!Prdm1;;chr2:127308277..127308313,-!p4@Kcnip3!0.28!1.25!Kcnip3;;chr2:169968173..169968178,-!p2@Zfp217!0.28!0.89!Zfp217;;chr1:4486594..4486612,-!p6@Sox17!0.28!0.89!Sox17;;chr2:30700830..30700843,+!p4@Prrx2!0.28!0.89!Prrx2;;chr2:104966983..104966990,+!p11@Wt1!0.28!0.89!Wt1;;chr6:52133827..52133854,-!p2@Hoxa3!0.28!0.89!Hoxa3;;chr6:6813269..6813272,+!p2@Dlx6!0.28!0.89!Dlx6;;chr6:6812988..6813002,+!p3@Dlx6!0.28!0.89!Dlx6;;chr7:53631837..53631850,+!p1@Myod1!0.28!0.89!Myod1;;chr7:89137554..89137565,-!p2@Bnc1!0.28!0.89!Bnc1;;chr7:77511928..77511937,-!p12@Nr2f2!0.28!0.89!Nr2f2;;chr8:77540128..77540145,+!p2@Hmgxb4!0.28!0.89!Hmgxb4;;chr7:25655066..25655080,+!p2@Dmrtc2!0.28!0.89!Dmrtc2;;chr2:74583776..74583815,+!p3@Hoxd3!0.28!0.89!Hoxd3;;chr2:81893535..81893548,+!p1@Zfp804a!0.28!0.89!Zfp804a;;chr4:97444557..97444558,+!p23@Nfia!0.28!0.89!Nfia;;chr11:96160426..96160443,+!p2@Hoxb6!0.28!0.89!Hoxb6;;chr11:96132637..96132652,+!p1@Hoxb9!0.28!0.89!Hoxb9;;chr11:97524329..97524348,+!p6@Mllt6!0.28!0.89!Mllt6;;chr11:69749197..69749205,+!p9@Ybx2!0.28!0.89!Ybx2;;chr12:37835248..37835260,+!p4@Meox2!0.28!0.89!Meox2;;chr14:56443742..56443756,+!p6@Nfatc4!0.28!0.89!Nfatc4;;chr15:102849395..102849404,+!p4@Hoxc4!0.28!0.89!Hoxc4;;chr4:82151178..82151262,-!p1@Nfib!0.27!68.38!Nfib;;chr15:81575487..81575561,+!p1@Zc3h7b!0.27!35.97!Zc3h7b;;chr6:118429255..118429336,-!p1@Zfp9!0.27!27.07!Zfp9;;chr15:76701830..76701883,-!p1@Zfp251!0.27!22.26!Zfp251;;chr6:53523358..53523388,+!p1@Creb5!0.27!19.77!Creb5;;chr6:131338400..131338415,-!p3@Csda!0.27!16.74!Csda;;chr9:122832168..122832210,+!p1@Zfp105!0.27!12.29!Zfp105;;chr3:54611674..54611690,-!p2@Rfxap!0.27!11.93!Rfxap;;chr1:38684260..38684312,-!p2@Aff3!0.27!11.22!Aff3;;chr14:98568761..98568814,-!p2@Dach1!0.27!10.86!Dach1;;chr2:162880327..162880385,+!p2@Mybl2!0.27!10.51!Mybl2;;chr2:84877605..84877687,+!p3@Ssrp1!0.27!9.44!Ssrp1;;chr14:76814736..76814781,+!p4@Tsc22d1!0.27!9.26!Tsc22d1;;chr10:80893711..80893784,-!p3@Nfic!0.27!8.19!Nfic;;chr17:23701084..23701128,-!p1@Zfp213!0.27!7.48!Zfp213;;chr13:15555079..15555136,+!p3@Gli3!0.27!4.63!Gli3;;chr4:151401710..151401733,-!p2@Zbtb48!0.27!4.45!Zbtb48;;chr2:153475210..153475252,+!p2@Dnmt3b!0.27!3.92!Dnmt3b;;chr5:122500142..122500167,-!p2@Cux2!0.27!2.85!Cux2;;chr15:40486754..40486771,+!p2@Zfpm2!0.27!2.14!Zfpm2;;chr11:98821858..98821907,+!p6@Rara!0.27!1.96!Rara;;chr11:116196664..116196679,-!p1@Foxj1!0.27!1.78!Foxj1;;chr4:135700687..135700719,+!p2@Id3!0.27!1.78!Id3;;chr9:106355684..106355744,+!p5@Pcbp4!0.27!1.78!Pcbp4;;chr17:32525943..32525992,-!p4@Wiz!0.27!1.78!Wiz;;chr15:50720589..50720600,-!p12@Trps1!0.27!1.42!Trps1;;chr1:120950269..120950287,-!p6@Gli2!0.27!1.42!Gli2;;chr8:107033774..107033794,-!p1@Ccdc79!0.27!1.25!Ccdc79;;chr4:94718879..94718898,-!p1@Jun!0.26!118.24!Jun;;chr7:4947646..4947696,-!p1@Zfp579!0.26!45.23!Zfp579;;chr17:28487692..28487765,-!p1@Tead3!0.26!32.41!Tead3;;chr7:134169762..134169795,-!p3@Maz!0.26!14.07!Maz;;chr7:24919167..24919203,+!p1@Zfp235!0.26!11.22!Zfp235;;chr16:92697560..92697592,-!p2@Runx1!0.26!9.79!Runx1;;chr5:31754800..31754825,+!p2@Zfp512!0.26!7.66!Zfp512;;chr11:69579472..69579529,+!p1@Zbtb4!0.26!7.66!Zbtb4;;chr6:29476690..29476724,+!p1@Irf5!0.26!6.94!Irf5;;chr2:25562263..25562314,+!p2@Bmyc!0.26!5.70!Bmyc;;chr2:168032763..168032802,-!p3@Adnp!0.26!4.99!Adnp;;chrX:48558950..48559016,-!p1@Mbnl3!0.26!4.45!Mbnl3;;chr9:32349240..32349276,-!p2@Fli1!0.26!3.21!Fli1;;chr18:75979866..75979890,+!p3@Zbtb7c!0.26!2.67!Zbtb7c;;chr17:37140628..37140631,+!p2@Zfp57!0.26!2.49!Zfp57;;chr11:3190303..3190351,+!p3@Patz1!0.26!2.49!Patz1;;chr13:112476433..112476448,+!p2@Mier3!0.26!2.31!Mier3;;chr4:122673187..122673201,+!p2@Mycl1!0.26!2.14!Mycl1;;chr17:37139455..37139469,+!p3@Zfp57!0.26!1.78!Zfp57;;chr17:37139432..37139444,+!p4@Zfp57!0.26!1.42!Zfp57;;chr7:25292033..25292043,+!p9@Zfp428!0.26!1.25!Zfp428;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!0.26!1.25!Pou3f3;;chr2:168427252..168427273,-!p2@Nfatc2!0.26!1.25!Nfatc2;;chr14:98568683..98568698,-!p6@Dach1!0.26!1.25!Dach1;;chr5:65213459..65213485,+!p12@Klf3!0.26!1.25!Klf3;;chr3:130813557..130813582,+!p5@Lef1!0.26!1.07!Lef1;;chr17:34729193..34729274,+!p1@Pbx2!0.25!77.10!Pbx2;;chr13:56804344..56804473,+!p1@Smad5!0.25!48.43!Smad5;;chr17:33766023..33766059,+!p1@Zfp414!0.25!24.04!Zfp414;;chr9:113840108..113840184,+!p2@Ubp1!0.25!14.42!Ubp1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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11040
-|library_id_phase_based=1:CNhs11040
+|library_id_phase_based=2:CNhs11040
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;505
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;505
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/ovary%252c%2520embryo%2520E18.CNhs11040.505-44H7.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/ovary%252c%2520embryo%2520E18.CNhs11040.505-44H7.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/ovary%252c%2520embryo%2520E18.CNhs11040.505-44H7.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/ovary%252c%2520embryo%2520E18.CNhs11040.505-44H7.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/ovary%252c%2520embryo%2520E18.CNhs11040.505-44H7.mm9.nobarcode.rdna.fa.gz
 |name=ovary, embryo E18
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11040,LSID732,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.051644741300261,0,0,0,0,0,-0.162093223137925,0,0,0,0,0.637765844301929,0,0,0,0,0,0,0.159605189461612,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.143016963316161,0,0,0,0,0.0221277008356758,0.0218863980805287,0.0806599418213616,0.053397933909652,0.518288804905039,0.114757998034215,0.0711694759496908,0,0,0,0,0,0,0,0,0,0.233570323722761,0.0711694759496908,0.119875528118227,0,0,0,0,-0.0428469550828748,0,-0.013911403589406,0,0.132301710080237,0,-0.0641738349616591,-0.0341134858683446,0.0754792809516789,0.0126901875909413,0,0,0.0336690174396258,0.0853814755169179,0,0,0.0098369951340308,-0.0682701922141122,-0.0311323825990776,0.154738728882854,0,0,0,0,0,0,-0.0012768768179714,0.0787480461755519,0.0067341692396425,0,0,0,0,0
@@ Line 88: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:505-44H7;search_select_hide=table117:505-44H7
 }}

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FF:505-44H7: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:18, 4 June 2020

CNhs11040

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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