FF:1299-22I4: Difference between revisions

Latest revision as of 18:48, 4 June 2020

Name:	ovary, neonate N00
Species:	Mouse (Mus musculus)
Library ID:	CNhs11217
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	ovary
dev stage	0 day neonate
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		SAMD00005795

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11217		CAGE		DRX009052		DRR009926

Accession ID Mm9

Library id		BAM		CTSS
CNhs11217		DRZ001351		DRZ002734

Accession ID Mm10

Library id		BAM		CTSS
CNhs11217		DRZ012701		DRZ014084

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

CNhs11217

0	0
1	0
10	0
100	0
1000	0.0499
1001	0.0547
1002	0.537
1003	0.179
1004	0.527
1005	0
1006	0.0655
1007	0.136
1008	0
1009	0.347
101	0.0293
1010	0
1011	-0.042
1012	0.015
1013	-0.141
1014	0.362
1015	0.172
1016	0.391
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	0
1023	0
1024	0.0829
1025	0.173
1026	0.122
1027	0
1028	0
1029	0.0828
103	0.536
1030	0
1031	0.686
1032	-0.0263
1033	0
1034	0.0655
1035	0
1036	0.046
1037	0
1038	0.127
1039	-0.126
104	0
1040	0.345
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: CNhs11217

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	3.0144e-4
MA0003.1	MA0003.1	0.66
MA0004.1	MA0004.1	0.814
MA0006.1	MA0006.1	0.859
MA0007.1	MA0007.1	0.507
MA0009.1	MA0009.1	0.209
MA0014.1	MA0014.1	0.402
MA0017.1	MA0017.1	2.86546e-5
MA0018.2	MA0018.2	0.203
MA0019.1	MA0019.1	0.691
MA0024.1	MA0024.1	0.00167
MA0025.1	MA0025.1	0.0877
MA0027.1	MA0027.1	0.197
MA0028.1	MA0028.1	0.344
MA0029.1	MA0029.1	0.704
MA0030.1	MA0030.1	0.686
MA0031.1	MA0031.1	0.914
MA0035.2	MA0035.2	0.0603
MA0038.1	MA0038.1	0.48
MA0039.2	MA0039.2	0.803
MA0040.1	MA0040.1	0.388
MA0041.1	MA0041.1	0.414
MA0042.1	MA0042.1	0.562
MA0043.1	MA0043.1	0.707
MA0046.1	MA0046.1	5.84093e-10
MA0047.2	MA0047.2	0.072
MA0048.1	MA0048.1	0.585
MA0050.1	MA0050.1	0.855
MA0051.1	MA0051.1	0.665
MA0052.1	MA0052.1	0.707
MA0055.1	MA0055.1	0.207
MA0057.1	MA0057.1	0.394
MA0058.1	MA0058.1	0.729
MA0059.1	MA0059.1	0.201
MA0060.1	MA0060.1	0.0247
MA0061.1	MA0061.1	0.165
MA0062.2	MA0062.2	0.0475
MA0065.2	MA0065.2	0.00103
MA0066.1	MA0066.1	0.0176
MA0067.1	MA0067.1	0.473
MA0068.1	MA0068.1	0.354
MA0069.1	MA0069.1	0.479
MA0070.1	MA0070.1	0.64
MA0071.1	MA0071.1	0.034
MA0072.1	MA0072.1	0.016
MA0073.1	MA0073.1	0.928
MA0074.1	MA0074.1	0.849
MA0076.1	MA0076.1	0.664
MA0077.1	MA0077.1	0.577
MA0078.1	MA0078.1	0.0776
MA0079.2	MA0079.2	0.0716
MA0080.2	MA0080.2	1.25073e-5
MA0081.1	MA0081.1	0.164
MA0083.1	MA0083.1	0.0648
MA0084.1	MA0084.1	0.424
MA0087.1	MA0087.1	0.378
MA0088.1	MA0088.1	0.074
MA0090.1	MA0090.1	0.379
MA0091.1	MA0091.1	0.306
MA0092.1	MA0092.1	0.689
MA0093.1	MA0093.1	0.819
MA0099.2	MA0099.2	0.0326
MA0100.1	MA0100.1	0.576
MA0101.1	MA0101.1	0.595
MA0102.2	MA0102.2	0.681
MA0103.1	MA0103.1	0.00526
MA0104.2	MA0104.2	0.348
MA0105.1	MA0105.1	1.91924e-5
MA0106.1	MA0106.1	0.437
MA0107.1	MA0107.1	0.577
MA0108.2	MA0108.2	0.862
MA0111.1	MA0111.1	0.56
MA0112.2	MA0112.2	7.61412e-5
MA0113.1	MA0113.1	0.74
MA0114.1	MA0114.1	2.17801e-4
MA0115.1	MA0115.1	3.79332e-4
MA0116.1	MA0116.1	0.00108
MA0117.1	MA0117.1	0.164
MA0119.1	MA0119.1	0.259
MA0122.1	MA0122.1	0.657
MA0124.1	MA0124.1	0.14
MA0125.1	MA0125.1	0.945
MA0131.1	MA0131.1	0.441
MA0135.1	MA0135.1	0.781
MA0136.1	MA0136.1	2.31749e-6
MA0137.2	MA0137.2	0.187
MA0138.2	MA0138.2	0.00978
MA0139.1	MA0139.1	0.0188
MA0140.1	MA0140.1	0.178
MA0141.1	MA0141.1	0.00191
MA0142.1	MA0142.1	0.00672
MA0143.1	MA0143.1	0.895
MA0144.1	MA0144.1	0.378
MA0145.1	MA0145.1	0.141
MA0146.1	MA0146.1	0.965
MA0147.1	MA0147.1	0.286
MA0148.1	MA0148.1	0.0131
MA0149.1	MA0149.1	0.011
MA0150.1	MA0150.1	0.00155
MA0152.1	MA0152.1	0.182
MA0153.1	MA0153.1	6.86507e-9
MA0154.1	MA0154.1	0.0151
MA0155.1	MA0155.1	0.641
MA0156.1	MA0156.1	0.0368
MA0157.1	MA0157.1	0.813
MA0159.1	MA0159.1	0.00389
MA0160.1	MA0160.1	0.00726
MA0162.1	MA0162.1	0.382
MA0163.1	MA0163.1	0.0428
MA0164.1	MA0164.1	0.725
MA0258.1	MA0258.1	6.30243e-4
MA0259.1	MA0259.1	0.938

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: CNhs11217

Novel motif	Logo	P-value
1	1	0.0385
10	10	0.081
100	100	0.884
101	101	0.585
102	102	0.727
103	103	0.132
104	104	0.557
105	105	0.594
106	106	0.127
107	107	0.884
108	108	0.727
109	109	0.221
11	11	0.117
110	110	0.319
111	111	0.0284
112	112	0.376
113	113	0.837
114	114	0.0111
115	115	0.392
116	116	0.97
117	117	0.0373
118	118	0.614
119	119	0.0893
12	12	0.524
120	120	0.278
121	121	0.643
122	122	0.897
123	123	0.204
124	124	0.114
125	125	0.259
126	126	0.503
127	127	0.0747
128	128	0.0484
129	129	0.381
13	13	0.374
130	130	0.345
131	131	0.433
132	132	0.809
133	133	0.444
134	134	0.976
135	135	0.213
136	136	0.536
137	137	0.898
138	138	0.172
139	139	0.0395
14	14	0.434
140	140	0.853
141	141	0.205
142	142	0.755
143	143	0.0894
144	144	0.2
145	145	0.619
146	146	0.561
147	147	0.573
148	148	0.638
149	149	0.491
15	15	0.0603
150	150	0.984
151	151	0.112
152	152	0.886
153	153	0.571
154	154	0.924
155	155	0.76
156	156	0.00122
157	157	0.306
158	158	0.121
159	159	0.988
160	160	0.906
161	161	0.301
162	162	0.915
163	163	0.151
164	164	0.235
165	165	0.153
166	166	0.0899
167	167	0.278
168	168	0.494
169	169	0.104
17	17	0.268
18	18	0.0947
19	19	0.916
2	2	0.719
20	20	0.746
21	21	0.887
22	22	0.766
23	23	0.268
24	24	0.732
25	25	0.151
26	26	0.514
27	27	0.501
28	28	0.239
29	29	0.138
3	3	0.131
30	30	0.868
31	31	0.444
32	32	0.762
33	33	0.938
34	34	0.994
35	35	0.0152
36	36	0.0179
37	37	0.159
38	38	0.622
39	39	0.755
4	4	0.675
40	40	0.231
41	41	0.0542
42	42	0.326
43	43	0.14
44	44	0.0546
45	45	0.981
46	46	0.176
47	47	0.089
48	48	0.143
49	49	0.0631
5	5	0.13
50	50	0.574
51	51	0.715
52	52	0.814
53	53	0.989
54	54	0.412
55	55	0.399
56	56	0.211
57	57	0.367
58	58	0.259
59	59	0.414
6	6	0.947
60	60	0.354
61	61	0.909
62	62	0.0439
63	63	0.278
64	64	0.362
65	65	0.183
66	66	0.929
67	67	0.934
68	68	0.0452
69	69	0.471
7	7	0.295
70	70	0.00301
71	71	0.0913
72	72	0.469
73	73	0.237
74	74	0.877
75	75	0.0332
76	76	0.956
77	77	0.335
78	78	0.161
79	79	0.89
8	8	0.0236
80	80	0.155
81	81	0.334
82	82	0.181
83	83	0.358
84	84	0.494
85	85	0.0346
86	86	0.13
87	87	0.313
88	88	0.83
89	89	0.203
9	9	0.806
90	90	0.0162
91	91	0.646
92	92	0.208
93	93	0.946
94	94	0.132
95	95	0.182
96	96	0.106
97	97	0.865
98	98	0.234
99	99	0.99

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: CNhs11217

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011510 mouse ovary, neonate N00 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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000304 (mouse neonate N0 sample)
0011510 (mouse ovary, neonate N00 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@DRS008915
+|DRA_sample_Accession=CAGE@SAMD00005795
-|accession_numbers=CAGE;DRX009052;DRR009926;DRZ001351;DRZ002734
+|accession_numbers=CAGE;DRX009052;DRR009926;DRZ001351;DRZ002734;DRZ012701;DRZ014084
 |ancestors_in_anatomy_facet=UBERON:0000468,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=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr2:104966766..104966786,+!p1@Wt1!1.77!90.08!Wt1;;chr10:22539932..22539956,-!p1@Tcf21!1.74!138.94!Tcf21;;chr2:104966874..104966907,+!p2@Wt1!1.70!48.87!Wt1;;chr6:52190467..52190500,-!p1@Hoxa10!1.68!47.24!Hoxa10;;chr15:35225845..35225867,+!p1@Osr2!1.66!109.79!Osr2;;chr19:59533221..59533271,+!p1@Emx2!1.64!51.96!Emx2;;chr8:59799772..59799789,+!p1@Hand2!1.46!78.35!Hand2;;chr2:104966933..104966966,+!p3@Wt1!1.41!24.92!Wt1;;chr6:52195795..52195825,-!p1@Hoxa11!1.39!23.78!Hoxa11;;chr6:52184901..52184959,-!p2@Hoxa10!1.34!20.85!Hoxa10;;chr10:5636374..5636421,-!p1@Esr1!1.31!24.43!Esr1;;chr15:102828658..102828678,+!p1@Hoxc6!1.28!18.24!Hoxc6;;chr6:52195763..52195792,-!p2@Hoxa11!1.28!18.08!Hoxa11;;chr2:74520343..74520383,+!p4@Hoxd11!1.28!17.92!Hoxd11;;chr6:52176164..52176195,-!p1@Hoxa9!1.26!21.50!Hoxa9;;chr10:5734525..5734569,-!p3@Esr1!1.25!27.85!Esr1;;chr10:5636354..5636373,-!p2@Esr1!1.25!16.94!Esr1;;chr6:88148650..88148669,+!p1@Gata2!1.23!130.80!Gata2;;chr2:74529970..74529997,+!p1@Hoxd10!1.21!15.15!Hoxd10;;chr14:63864056..63864102,-!p1@Gata4!1.20!25.41!Gata4;;chr6:52190668..52190682,-!p3@Hoxa10!1.19!14.33!Hoxa10;;chr10:12810631..12810649,+!p1@Plagl1!1.17!354.12!Plagl1;;chr6:52163319..52163342,-!p1@Hoxa3!1.16!19.71!Hoxa3;;chr7:6649134..6649167,-!p1@Zim1!1.14!68.58!Zim1;;chr1:140739014..140739032,-!p1@Lhx9!1.14!16.45!Lhx9;;chr2:74550015..74550057,+!p2@Hoxd3!1.14!12.71!Hoxd3;;chr2:74520048..74520064,+!p1@Hoxd11!1.13!12.54!Hoxd11;;chr1:168168856..168168893,-!p1@Mael!1.13!12.54!Mael;;chr9:98855868..98855895,+!p1@Foxl2!1.12!12.22!Foxl2;;chr13:53568104..53568156,-!p1@Msx2!1.10!17.27!Msx2;;chr2:74549968..74549996,+!p1@Hoxd3!1.09!14.17!Hoxd3;;chrX:90531838..90531861,+!p1@Arx!1.08!13.85!Arx;;chr6:6832076..6832092,-!p1@Dlx5!1.05!11.89!Dlx5;;chr1:4483679..4483695,-!p1@Sox17!1.04!47.73!Sox17;;chr2:24331085..24331100,-!p1@Pax8!1.02!9.45!Pax8;;chr2:74517742..74517758,+!p2@Hoxd11!1.01!9.12!Hoxd11;;chr2:104966662..104966673,+!p4@Wt1!1.00!8.96!Wt1;;chr5:38215819..38215823,-!p1@Msx1!0.99!23.29!Msx1;;chr2:105003277..105003280,+!p5@Wt1!0.97!8.31!Wt1;;chr2:74536026..74536039,+!p1@Hoxd9!0.97!8.31!Hoxd9;;chr18:11052642..11052659,+!p1@Gata6!0.95!41.21!Gata6;;chr19:59533429..59533470,+!p4@Emx2!0.95!7.98!Emx2;;chr2:74529998..74530020,+!p2@Hoxd10!0.95!7.82!Hoxd10;;chr4:3865501..3865548,-!p1@Plag1!0.94!40.56!Plag1;;chr11:96153767..96153822,+!p1@Hoxb6!0.93!11.89!Hoxb6;;chr15:102828642..102828653,+!p2@Hoxc6!0.93!7.49!Hoxc6;;chr7:17647736..17647772,-!p1@Hif3a!0.92!26.71!Hif3a;;chr19:10315179..10315241,-!p1@Gm98!0.91!78.02!Gm98;;chr9:71743854..71743909,-!p1@Tcf12!0.90!57.34!Tcf12;;chr18:11052485..11052508,+!p2@Gata6!0.89!19.87!Gata6;;chr19:59533139..59533152,+!p2@Emx2!0.89!6.84!Emx2;;chr17:28487603..28487626,-!p2@Tead3!0.88!14.50!Tead3;;chr19:59533163..59533185,+!p3@Emx2!0.87!6.35!Emx2;;chr14:22807083..22807104,-!p1@Zfp503!0.86!115.98!Zfp503;;chr5:120121020..120121049,+!p1@Tbx3!0.86!40.23!Tbx3;;chr15:102820964..102821006,+!p1@Hoxc8!0.86!6.19!Hoxc8;;chr10:5734660..5734670,-!p7@Esr1!0.86!6.19!Esr1;;chr10:5734582..5734595,-!p10@Esr1!0.86!6.19!Esr1;;chr10:5734677..5734702,-!p4@Esr1!0.85!6.03!Esr1;;chr14:56443806..56443848,+!p1@Nfatc4!0.84!12.54!Nfatc4;;chr7:89137163..89137200,-!p1@Bnc1!0.83!7.00!Bnc1;;chr12:34642682..34642753,+!p2@Twist1!0.82!15.80!Twist1;;chr11:18918434..18918489,-!p3@Meis1!0.82!9.28!Meis1;;chr9:98855847..98855866,+!p3@Foxl2!0.82!5.54!Foxl2;;chr11:18918917..18918944,-!p1@Meis1!0.81!75.74!Meis1;;chr14:22807107..22807119,-!p2@Zfp503!0.81!25.41!Zfp503;;chr18:11052456..11052477,+!p3@Gata6!0.80!17.43!Gata6;;chr10:5636678..5636725,-!p6@Esr1!0.80!5.38!Esr1;;chr2:38570011..38570034,-!p1@Nr5a1!0.80!5.38!Nr5a1;;chr12:34642510..34642530,+!p1@Twist1!0.79!17.75!Twist1;;chr2:104966465..104966479,+!p6@Wt1!0.79!5.21!Wt1;;chr2:91864300..91864379,-!p2@Creb3l1!0.78!15.47!Creb3l1;;chr1:168168817..168168850,-!p2@Mael!0.78!5.05!Mael;;chr2:103143336..103143367,-!p1@Ehf!0.77!8.31!Ehf;;chr2:74536050..74536065,+!p2@Hoxd9!0.77!4.89!Hoxd9;;chr2:130120884..130120972,+!p1@Ebf4!0.76!30.46!Ebf4;;chr19:19185671..19185693,-!p1@Rorb!0.76!12.22!Rorb;;chr1:170361730..170361769,-!p7@Pbx1!0.76!11.56!Pbx1;;chr6:85967211..85967223,+!p1@Figla!0.76!4.72!Figla;;chr1:170362040..170362113,-!p2@Pbx1!0.75!40.23!Pbx1;;chr15:40486566..40486600,+!p1@Zfpm2!0.75!29.81!Zfpm2;;chr10:119913546..119913583,-!p3@Hmga2!0.75!10.42!Hmga2;;chr2:30700788..30700824,+!p2@Prrx2!0.75!7.33!Prrx2;;chr2:74542918..74542971,+!p1@Hoxd8!0.74!7.00!Hoxd8;;chr11:5761889..5761969,+!p1@Aebp1!0.73!204.26!Aebp1;;chr11:18918959..18918976,-!p2@Meis1!0.73!66.62!Meis1;;chr1:165243379..165243402,-!p3@Prrx1!0.73!6.84!Prrx1;;chr10:44178375..44178390,-!p2@Prdm1!0.73!6.19!Prdm1;;chr2:180069370..180069409,-!p1@Gata5!0.73!5.21!Gata5;;chr13:96093557..96093561,+!p6@Zbed3!0.73!4.40!Zbed3;;chr10:5734473..5734489,-!p5@Esr1!0.73!4.40!Esr1;;chr10:102491237..102491291,-!p2@Alx1!0.73!4.40!Alx1;;chr2:74517609..74517621,+!p3@Hoxd11!0.73!4.40!Hoxd11;;chr4:84320893..84320910,-!p1@Bnc2!0.72!10.10!Bnc2;;chr11:18918820..18918831,-!p4@Meis1!0.72!8.63!Meis1;;chr10:119914001..119914078,-!p4@Hmga2!0.72!6.03!Hmga2;;chr15:102865088..102865107,+!p1@Hoxc4!0.72!5.86!Hoxc4;;chr2:152223881..152223933,-!p3@Sox12!0.71!15.47!Sox12;;chr11:85646263..85646278,+!p2@Tbx2!0.71!11.40!Tbx2;;chr10:119913278..119913298,-!p2@Hmga2!0.71!9.94!Hmga2;;chr15:102820946..102820961,+!p3@Hoxc8!0.71!4.07!Hoxc8;;chr9:98855692..98855710,+!p2@Foxl2!0.71!4.07!Foxl2;;chr2:104966909..104966920,+!p8@Wt1!0.71!4.07!Wt1;;chr7:119822957..119822980,+!p2@Tead1!0.70!21.99!Tead1;;chr2:152223441..152223465,-!p2@Sox12!0.69!18.24!Sox12;;chr7:37483231..37483263,+!p2@Tshz3!0.69!6.35!Tshz3;;chr6:52195747..52195762,-!p3@Hoxa11!0.69!3.91!Hoxa11;;chr6:52190858..52190873,-!p4@Hoxa10!0.69!3.91!Hoxa10;;chr2:103123925..103123959,-!p3@Ehf!0.69!3.91!Ehf;;chr19:59532915..59532940,+!p5@Emx2!0.69!3.91!Emx2;;chr11:85646303..85646329,+!p1@Tbx2!0.68!28.51!Tbx2;;chrX:45245679..45245702,-!p1@Smarca1!0.68!19.22!Smarca1;;chr7:37483021..37483078,+!p1@Tshz3!0.68!13.03!Tshz3;;chr7:25372631..25372684,-!p1@Zfp575!0.68!12.87!Zfp575;;chr15:50720601..50720630,-!p2@Trps1!0.68!10.10!Trps1;;chr1:93698030..93698064,+!p1@Twist2!0.68!8.31!Twist2;;chr19:59533595..59533628,+!p6@Emx2!0.68!3.75!Emx2;;chr1:165243792..165243808,-!p1@Prrx1!0.67!14.66!Prrx1;;chr5:120121446..120121461,+!p2@Tbx3!0.67!13.52!Tbx3;;chr15:35225873..35225889,+!p2@Osr2!0.66!3.58!Osr2;;chr9:98855944..98855971,+!p4@Foxl2!0.66!3.58!Foxl2;;chrX:83437105..83437121,+!p1@Nr0b1!0.66!3.58!Nr0b1;;chr2:104966983..104966990,+!p11@Wt1!0.66!3.58!Wt1;;chr2:104966436..104966455,+!p7@Wt1!0.66!3.58!Wt1;;chr6:72739185..72739232,-!p1@Tcf7l1!0.65!41.37!Tcf7l1;;chrX:45245644..45245666,-!p2@Smarca1!0.65!12.71!Smarca1;;chr19:25746898..25746910,+!p1@Dmrt2!0.65!5.54!Dmrt2;;chr7:17642053..17642066,-!p2@Hif3a!0.65!5.21!Hif3a;;chr6:52184880..52184893,-!p6@Hoxa10!0.65!3.42!Hoxa10;;chr2:25702816..25702827,-!p2@Sohlh1!0.65!3.42!Sohlh1;;chr14:63890491..63890516,-!p2@Gata4!0.65!3.42!Gata4;;chr2:30700857..30700873,+!p3@Prrx2!0.64!4.89!Prrx2;;chr14:22806778..22806795,-!p5@Zfp503!0.64!3.75!Zfp503;;chr7:77505617..77505632,-!p1@Nr2f2!0.63!178.52!Nr2f2;;chr10:119913310..119913366,-!p1@Hmga2!0.63!29.97!Hmga2;;chr16:14705925..14705951,+!p1@Snai2!0.63!26.88!Snai2;;chr7:77511403..77511450,-!p3@Nr2f2!0.63!7.66!Nr2f2;;chr9:8900459..8900489,+!p1@Pgr!0.63!3.26!Pgr;;chr2:167363692..167363710,+!p1@Snai1!0.62!45.77!Snai1;;chr9:48644037..48644067,-!p2@Zbtb16!0.62!8.96!Zbtb16;;chr11:18918982..18918993,-!p5@Meis1!0.61!7.17!Meis1;;chr1:170361695..170361722,-!p12@Pbx1!0.61!4.07!Pbx1;;chr15:102821007..102821021,+!p2@Hoxc8!0.61!3.09!Hoxc8;;chr2:74543202..74543213,+!p3@Hoxd8!0.61!3.09!Hoxd8;;chr3:54985946..54985981,+!p1@Sohlh2!0.61!3.09!Sohlh2;;chr12:9581262..9581282,+!p1@Osr1!0.60!43.65!Osr1;;chr11:5761871..5761882,+!p3@Aebp1!0.60!8.96!Aebp1;;chr8:87297280..87297326,-!p2@Nfix!0.59!7.82!Nfix;;chr5:120121169..120121171,+!p4@Tbx3!0.59!5.70!Tbx3;;chr6:88143711..88143717,+!p2@Gata2!0.59!5.05!Gata2;;chrX:110411840..110411860,+!p1@Dach2!0.59!3.75!Dach2;;chr6:52167459..52167492,-!p1@Hoxa7!0.59!3.58!Hoxa7;;chr8:87425854..87425891,+!p1@Klf1!0.59!2.93!Klf1;;chr14:63890459..63890484,-!p4@Gata4!0.59!2.93!Gata4;;chr10:5636336..5636347,-!p9@Esr1!0.59!2.93!Esr1;;chr11:69749396..69749433,+!p1@Ybx2!0.59!2.93!Ybx2;;chr2:74543397..74543435,+!p2@Hoxd8!0.59!2.93!Hoxd8;;chr2:115891534..115891589,-!p1@Meis2!0.58!48.54!Meis2;;chr2:169458192..169458247,+!p1@Tshz2!0.58!30.46!Tshz2;;chr17:37139472..37139514,+!p1@Zfp57!0.58!23.13!Zfp57;;chr13:15555496..15555544,+!p1@Gli3!0.58!11.40!Gli3;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.58!9.45!Tfcp2l1;;chr2:169458799..169458832,+!p5@Tshz2!0.58!5.05!Tshz2;;chr2:74520075..74520087,+!p6@Hoxd11!0.58!2.77!Hoxd11;;chr15:102797225..102797243,+!p2@Hoxc10!0.58!2.77!Hoxc10;;chr6:38204087..38204108,-!p2@D630045J12Rik!0.57!9.28!D630045J12Rik;;chr2:169458838..169458859,+!p4@Tshz2!0.57!6.19!Tshz2;;chr1:120949925..120949947,-!p4@Gli2!0.57!6.03!Gli2;;chr4:97444120..97444141,+!p13@Nfia!0.57!5.70!Nfia;;chr8:90483433..90483457,-!p2@Zfp423!0.57!3.91!Zfp423;;chr2:169458352..169458397,+!p3@Tshz2!0.56!7.66!Tshz2;;chr2:91864449..91864492,-!p3@Creb3l1!0.56!4.72!Creb3l1;;chr2:168427252..168427273,-!p2@Nfatc2!0.56!3.42!Nfatc2;;chr15:102865131..102865151,+!p2@Hoxc4!0.56!3.09!Hoxc4;;chr19:59534052..59534083,+!p8@Emx2!0.56!2.61!Emx2;;chr2:103143315..103143328,-!p2@Ehf!0.56!2.61!Ehf;;chr19:59533206..59533217,+!p9@Emx2!0.56!2.61!Emx2;;chr12:81213989..81214006,-!p1@Zfp36l1!0.55!167.61!Zfp36l1;;chr7:52471143..52471186,+!p1@Tead2!0.55!34.37!Tead2;;chr4:128483534..128483613,-!p1@Zfp362!0.55!21.83!Zfp362;;chr7:5003165..5003203,+!p2@Zfp580!0.55!17.59!Zfp580;;chr13:15555079..15555136,+!p3@Gli3!0.55!9.77!Gli3;;chr11:5761979..5761992,+!p2@Aebp1!0.55!5.86!Aebp1;;chr6:72185553..72185612,-!p2@Atoh8!0.55!5.54!Atoh8;;chr12:9581284..9581303,+!p2@Osr1!0.55!5.54!Osr1;;chr1:165243591..165243625,-!p2@Prrx1!0.55!4.24!Prrx1;;chr8:90328310..90328362,-!p3@Zfp423!0.55!3.09!Zfp423;;chr6:38204109..38204155,-!p1@D630045J12Rik!0.54!16.45!D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@@ Line 44: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11217
+|library_id_phase_based=2:CNhs11217
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1299
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1299
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/ovary%252c%2520neonate%2520N00.CNhs11217.1299-22I4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/ovary%252c%2520neonate%2520N00.CNhs11217.1299-22I4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/ovary%252c%2520neonate%2520N00.CNhs11217.1299-22I4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/ovary%252c%2520neonate%2520N00.CNhs11217.1299-22I4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/ovary%252c%2520neonate%2520N00.CNhs11217.1299-22I4.mm9.nobarcode.rdna.fa.gz
 |name=ovary, neonate N00
 |namespace=FANTOM5
@@ Line 49: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11217,LSID748,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.117456948297832,0,0,0,0,0.0200057269455351,0.134389258487625,0,0.0119141808586489,0,0,0.708918961180435,0,0,0,0,0,0,0.0259978067538043,0,0,0,0,0,0.0655375003561515,0,0,0,0,0,0,0,-0.021447376013206,0,0,0,0,0.0655375003561515,0.122561625422119,0.11916661415542,-0.0351434551067595,0.597149129831963,0.0262087068411216,0,0,0,0,0,0,0,0,0,0,0.419769043233597,0,-0.0660055475634404,0.0655375003561515,0,0,0,-0.0192352294896423,0,0,0,0.0655375003561515,0.0421235425363529,0.0745180040394363,0.051661322390827,0.10065032331043,0.173965406765962,0,0.122469471105573,0.107510276502773,0.142531243630235,0.296077344851473,0,0.116028638376092,0.00462101564390245,-0.203924866836659,0.179909771241606,0,0,0,0,0,0.0655375003561515,-0.0937099990352357,-0.12042843806063,-0.0605295942528762,0,0,0,0,0
@@ Line 86: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:1299-22I4;search_select_hide=table117:1299-22I4
 }}

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FF:1299-22I4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:48, 4 June 2020

CNhs11217

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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