FF:988-6G6: Difference between revisions

Latest revision as of 19:21, 4 June 2020

Name:	oviduct, adult pregnant day01
Species:	Mouse (Mus musculus)
Library ID:	CNhs10500
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	oviduct
dev stage	1 day pregnant adult
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		SAMD00004897

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10500		CAGE		DRX009053		DRR009927

Accession ID Mm9

Library id		BAM		CTSS
CNhs10500		DRZ001352		DRZ002735

Accession ID Mm10

Library id		BAM		CTSS
CNhs10500		DRZ012702		DRZ014085

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

CNhs10500

0	0
1	0
10	0
100	0
1000	0.0663
1001	0.271
1002	0.0412
1003	0.201
1004	0.648
1005	0.0436
1006	0.0189
1007	0.0667
1008	0
1009	0.446
101	0.0292
1010	0
1011	0.086
1012	0.0663
1013	0.118
1014	0
1015	-0.0664
1016	0.198
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	0.124
1023	0
1024	0.213
1025	0.138
1026	0.232
1027	0
1028	0
1029	0.35
103	0.235
1030	0
1031	0.587
1032	-0.11
1033	0
1034	0.0663
1035	0
1036	-0.0283
1037	0
1038	0.101
1039	0.0197
104	0
1040	0.38
1041	0.0663

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: CNhs10500

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.948
MA0003.1	MA0003.1	0.084
MA0004.1	MA0004.1	0.623
MA0006.1	MA0006.1	0.178
MA0007.1	MA0007.1	0.814
MA0009.1	MA0009.1	0.83
MA0014.1	MA0014.1	0.758
MA0017.1	MA0017.1	2.55299e-5
MA0018.2	MA0018.2	0.0064
MA0019.1	MA0019.1	0.496
MA0024.1	MA0024.1	0.012
MA0025.1	MA0025.1	0.175
MA0027.1	MA0027.1	0.781
MA0028.1	MA0028.1	0.024
MA0029.1	MA0029.1	0.286
MA0030.1	MA0030.1	0.142
MA0031.1	MA0031.1	0.12
MA0035.2	MA0035.2	0.00186
MA0038.1	MA0038.1	0.296
MA0039.2	MA0039.2	0.0465
MA0040.1	MA0040.1	0.47
MA0041.1	MA0041.1	0.184
MA0042.1	MA0042.1	0.377
MA0043.1	MA0043.1	0.367
MA0046.1	MA0046.1	4.03884e-5
MA0047.2	MA0047.2	0.983
MA0048.1	MA0048.1	0.511
MA0050.1	MA0050.1	3.18734e-8
MA0051.1	MA0051.1	3.71695e-5
MA0052.1	MA0052.1	0.35
MA0055.1	MA0055.1	0.406
MA0057.1	MA0057.1	0.679
MA0058.1	MA0058.1	0.491
MA0059.1	MA0059.1	0.0472
MA0060.1	MA0060.1	0.0155
MA0061.1	MA0061.1	0.627
MA0062.2	MA0062.2	0.0159
MA0065.2	MA0065.2	0.00314
MA0066.1	MA0066.1	0.0105
MA0067.1	MA0067.1	0.62
MA0068.1	MA0068.1	0.501
MA0069.1	MA0069.1	0.52
MA0070.1	MA0070.1	0.772
MA0071.1	MA0071.1	0.00356
MA0072.1	MA0072.1	0.0758
MA0073.1	MA0073.1	0.683
MA0074.1	MA0074.1	0.882
MA0076.1	MA0076.1	0.081
MA0077.1	MA0077.1	0.845
MA0078.1	MA0078.1	0.0155
MA0079.2	MA0079.2	0.0341
MA0080.2	MA0080.2	0.00124
MA0081.1	MA0081.1	0.885
MA0083.1	MA0083.1	4.9262e-6
MA0084.1	MA0084.1	0.186
MA0087.1	MA0087.1	0.299
MA0088.1	MA0088.1	0.271
MA0090.1	MA0090.1	0.641
MA0091.1	MA0091.1	0.23
MA0092.1	MA0092.1	0.682
MA0093.1	MA0093.1	0.715
MA0099.2	MA0099.2	0.692
MA0100.1	MA0100.1	0.643
MA0101.1	MA0101.1	0.754
MA0102.2	MA0102.2	0.993
MA0103.1	MA0103.1	0.712
MA0104.2	MA0104.2	0.019
MA0105.1	MA0105.1	0.107
MA0106.1	MA0106.1	0.663
MA0107.1	MA0107.1	0.18
MA0108.2	MA0108.2	0.176
MA0111.1	MA0111.1	0.903
MA0112.2	MA0112.2	0.594
MA0113.1	MA0113.1	0.331
MA0114.1	MA0114.1	1.01807e-5
MA0115.1	MA0115.1	8.75703e-6
MA0116.1	MA0116.1	0.166
MA0117.1	MA0117.1	0.119
MA0119.1	MA0119.1	0.266
MA0122.1	MA0122.1	0.453
MA0124.1	MA0124.1	0.952
MA0125.1	MA0125.1	0.035
MA0131.1	MA0131.1	0.377
MA0135.1	MA0135.1	0.808
MA0136.1	MA0136.1	0.037
MA0137.2	MA0137.2	0.287
MA0138.2	MA0138.2	0.645
MA0139.1	MA0139.1	0.934
MA0140.1	MA0140.1	0.00178
MA0141.1	MA0141.1	1.32638e-7
MA0142.1	MA0142.1	0.555
MA0143.1	MA0143.1	0.72
MA0144.1	MA0144.1	0.275
MA0145.1	MA0145.1	0.0202
MA0146.1	MA0146.1	0.787
MA0147.1	MA0147.1	0.00778
MA0148.1	MA0148.1	0.954
MA0149.1	MA0149.1	0.0329
MA0150.1	MA0150.1	0.139
MA0152.1	MA0152.1	0.119
MA0153.1	MA0153.1	2.34612e-5
MA0154.1	MA0154.1	0.874
MA0155.1	MA0155.1	0.621
MA0156.1	MA0156.1	0.0129
MA0157.1	MA0157.1	0.0448
MA0159.1	MA0159.1	0.0122
MA0160.1	MA0160.1	7.65576e-4
MA0162.1	MA0162.1	0.68
MA0163.1	MA0163.1	0.0639
MA0164.1	MA0164.1	0.595
MA0258.1	MA0258.1	0.111
MA0259.1	MA0259.1	0.0461

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: CNhs10500

Novel motif	Logo	P-value
1	1	0.169
10	10	0.0317
100	100	0.0933
101	101	0.445
102	102	0.997
103	103	0.628
104	104	0.265
105	105	0.851
106	106	0.464
107	107	0.276
108	108	0.416
109	109	0.912
11	11	0.172
110	110	0.569
111	111	0.145
112	112	0.38
113	113	0.859
114	114	0.0393
115	115	0.635
116	116	0.425
117	117	0.00107
118	118	0.0401
119	119	0.283
12	12	0.817
120	120	0.23
121	121	0.293
122	122	0.653
123	123	0.279
124	124	0.64
125	125	0.386
126	126	0.771
127	127	0.0691
128	128	0.969
129	129	0.793
13	13	0.894
130	130	0.0392
131	131	0.692
132	132	0.721
133	133	0.33
134	134	0.531
135	135	0.223
136	136	0.44
137	137	0.381
138	138	0.0287
139	139	0.688
14	14	0.679
140	140	0.453
141	141	0.592
142	142	0.344
143	143	0.156
144	144	0.644
145	145	0.621
146	146	0.366
147	147	0.364
148	148	0.311
149	149	0.094
15	15	0.857
150	150	0.805
151	151	0.829
152	152	0.0562
153	153	0.741
154	154	0.948
155	155	0.893
156	156	0.246
157	157	0.794
158	158	0.78
159	159	0.139
160	160	0.8
161	161	0.618
162	162	0.717
163	163	0.205
164	164	0.649
165	165	0.802
166	166	0.00105
167	167	0.0606
168	168	0.308
169	169	0.0742
17	17	0.57
18	18	0.0126
19	19	0.165
2	2	0.0379
20	20	0.18
21	21	0.744
22	22	0.48
23	23	0.595
24	24	0.25
25	25	0.131
26	26	0.861
27	27	0.429
28	28	0.538
29	29	0.0734
3	3	0.337
30	30	0.239
31	31	0.588
32	32	0.19
33	33	0.388
34	34	0.696
35	35	0.0178
36	36	0.015
37	37	0.863
38	38	0.673
39	39	0.569
4	4	0.819
40	40	0.108
41	41	0.122
42	42	0.651
43	43	0.336
44	44	0.0875
45	45	0.208
46	46	0.435
47	47	0.853
48	48	0.559
49	49	0.186
5	5	0.262
50	50	0.436
51	51	0.938
52	52	0.255
53	53	0.159
54	54	0.656
55	55	0.864
56	56	0.684
57	57	0.215
58	58	0.623
59	59	0.934
6	6	0.413
60	60	0.633
61	61	0.602
62	62	0.146
63	63	0.851
64	64	0.206
65	65	0.982
66	66	0.349
67	67	0.427
68	68	0.347
69	69	0.413
7	7	0.531
70	70	0.191
71	71	0.0422
72	72	0.579
73	73	0.923
74	74	0.84
75	75	0.0383
76	76	0.165
77	77	0.896
78	78	0.00427
79	79	0.691
8	8	0.042
80	80	0.178
81	81	0.481
82	82	0.908
83	83	0.908
84	84	0.99
85	85	0.834
86	86	0.92
87	87	0.438
88	88	0.668
89	89	0.918
9	9	0.505
90	90	0.0166
91	91	0.554
92	92	0.635
93	93	0.472
94	94	0.0987
95	95	0.12
96	96	0.0449
97	97	0.232
98	98	0.659
99	99	0.284

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: CNhs10500

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011442 mouse oviduct- adult pregnant day01 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)
0000993 (oviduct)
0000479 (tissue)
0005156 (reproductive structure)
0004111 (anatomical conduit)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0000025 (tube)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
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)
0000998 (adult tissue sample)
0000004 (tissue sample)
0000317 (mouse pregnant tissue sample)
0000318 (mouse pregnant day 1 sample)
0011442 (mouse oviduct- adult pregnant day01 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:0006603 (presumptive mesoderm)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00004897
+|accession_numbers=CAGE;DRX009053;DRR009927;DRZ001352;DRZ002735;DRZ012702;DRZ014085
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000993,UBERON:0000479,UBERON:0005156,UBERON:0004111,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000990,UBERON:0000025,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0010317,UBERON:0003100,UBERON:0000474
 |ancestors_in_cell_lineage_facet=
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr10:5636354..5636373,-!p2@Esr1!2.21!161.34!Esr1;;chr10:5636374..5636421,-!p1@Esr1!2.16!179.16!Esr1;;chr5:31271028..31271040,+!p1@Tcf23!1.93!84.30!Tcf23;;chr6:52184901..52184959,-!p2@Hoxa10!1.87!73.91!Hoxa10;;chr15:102828658..102828678,+!p1@Hoxc6!1.84!67.80!Hoxc6;;chr6:52195763..52195792,-!p2@Hoxa11!1.79!60.87!Hoxa11;;chr19:59533221..59533271,+!p1@Emx2!1.75!66.81!Emx2;;chr6:52190467..52190500,-!p1@Hoxa10!1.75!54.61!Hoxa10;;chr6:52195795..52195825,-!p1@Hoxa11!1.70!49.16!Hoxa11;;chr11:116196664..116196679,-!p1@Foxj1!1.69!72.92!Foxj1;;chr2:74529970..74529997,+!p1@Hoxd10!1.68!46.69!Hoxd10;;chr15:35225845..35225867,+!p1@Osr2!1.67!112.67!Osr2;;chr2:103143336..103143367,-!p1@Ehf!1.67!71.93!Ehf;;chr9:8900459..8900489,+!p1@Pgr!1.67!45.86!Pgr;;chr2:104966766..104966786,+!p1@Wt1!1.66!69.62!Wt1;;chr6:52163319..52163342,-!p1@Hoxa3!1.61!57.41!Hoxa3;;chr6:52176164..52176195,-!p1@Hoxa9!1.61!49.00!Hoxa9;;chr8:59799772..59799789,+!p1@Hand2!1.57!100.14!Hand2;;chr6:52190668..52190682,-!p3@Hoxa10!1.57!35.96!Hoxa10;;chr1:4483679..4483695,-!p1@Sox17!1.53!148.97!Sox17;;chr6:88143711..88143717,+!p2@Gata2!1.51!49.00!Gata2;;chr5:38215819..38215823,-!p1@Msx1!1.50!77.54!Msx1;;chr11:5761979..5761992,+!p2@Aebp1!1.50!61.20!Aebp1;;chr6:6832076..6832092,-!p1@Dlx5!1.47!33.32!Dlx5;;chr1:137155026..137155042,-!p1@Elf3!1.46!156.06!Elf3;;chr2:24331085..24331100,-!p1@Pax8!1.45!26.89!Pax8;;chr2:74549968..74549996,+!p1@Hoxd3!1.44!32.83!Hoxd3;;chr11:5761889..5761969,+!p1@Aebp1!1.43!1020.51!Aebp1;;chr6:88148650..88148669,+!p1@Gata2!1.40!193.67!Gata2;;chr19:19185671..19185693,-!p1@Rorb!1.37!53.12!Rorb;;chr10:22539932..22539956,-!p1@Tcf21!1.36!57.41!Tcf21;;chr19:59532915..59532940,+!p5@Emx2!1.35!21.28!Emx2;;chr2:103143315..103143328,-!p2@Ehf!1.34!20.95!Ehf;;chr18:52775562..52775650,+!p1@Zfp474!1.32!19.96!Zfp474;;chr10:5636678..5636725,-!p6@Esr1!1.30!18.81!Esr1;;chr11:96153767..96153822,+!p1@Hoxb6!1.29!28.21!Hoxb6;;chr11:96143666..96143725,+!p1@Hoxb8!1.28!20.62!Hoxb8;;chr19:59533139..59533152,+!p2@Emx2!1.28!17.98!Emx2;;chrX:58146612..58146615,-!p1@Sox3!1.27!17.82!Sox3;;chr6:52190858..52190873,-!p4@Hoxa10!1.26!16.99!Hoxa10;;chr10:5734525..5734569,-!p3@Esr1!1.21!24.91!Esr1;;chr2:104966662..104966673,+!p4@Wt1!1.21!15.18!Wt1;;chr2:74529998..74530020,+!p2@Hoxd10!1.17!13.86!Hoxd10;;chr10:5636336..5636347,-!p9@Esr1!1.17!13.69!Esr1;;chr9:8900409..8900425,+!p2@Pgr!1.15!13.20!Pgr;;chr19:59533163..59533185,+!p3@Emx2!1.14!12.87!Emx2;;chr4:84320893..84320910,-!p1@Bnc2!1.13!27.55!Bnc2;;chr9:8899828..8899855,+!p3@Pgr!1.13!12.54!Pgr;;chr6:52195747..52195762,-!p3@Hoxa11!1.09!11.38!Hoxa11;;chr5:31271010..31271019,+!p2@Tcf23!1.08!11.05!Tcf23;;chr2:74536026..74536039,+!p1@Hoxd9!1.08!11.05!Hoxd9;;chr15:102828642..102828653,+!p2@Hoxc6!1.08!11.05!Hoxc6;;chr7:77511311..77511352,-!p4@Nr2f2!1.07!21.78!Nr2f2;;chr7:52960555..52960662,+!p1@Dbp!1.06!89.91!Dbp;;chr16:43508231..43508271,+!p21@Zbtb20!1.06!10.56!Zbtb20;;chr10:126778916..126778974,-!p1@Gli1!1.05!23.43!Gli1;;chr3:90046995..90047031,-!p2@Creb3l4!1.03!12.21!Creb3l4;;chr2:104966933..104966966,+!p3@Wt1!1.03!9.73!Wt1;;chr2:104966874..104966907,+!p2@Wt1!1.03!9.73!Wt1;;chr10:30375579..30375616,-!p3@Ncoa7!1.02!22.77!Ncoa7;;chr13:53568104..53568156,-!p1@Msx2!1.02!14.02!Msx2;;chr11:96143843..96143868,+!p3@Hoxb8!1.02!9.57!Hoxb8;;chr11:83664365..83664383,+!p1@Hnf1b!1.01!9.24!Hnf1b;;chr16:43363190..43363242,+!p2@Zbtb20!1.00!28.37!Zbtb20;;chr9:98855868..98855895,+!p1@Foxl2!0.97!8.41!Foxl2;;chr6:52184880..52184893,-!p6@Hoxa10!0.97!8.41!Hoxa10;;chr2:74517609..74517621,+!p3@Hoxd11!0.97!8.41!Hoxd11;;chr2:74550015..74550057,+!p2@Hoxd3!0.97!8.25!Hoxd3;;chr6:97879817..97879857,+!p2@Mitf!0.97!8.25!Mitf;;chr6:38204087..38204108,-!p2@D630045J12Rik!0.96!24.58!D630045J12Rik;;chr6:52167459..52167492,-!p1@Hoxa7!0.94!9.40!Hoxa7;;chr9:48644037..48644067,-!p2@Zbtb16!0.93!19.30!Zbtb16;;chr11:96147952..96147967,+!p1@Hoxb7!0.93!9.40!Hoxb7;;chr14:22807216..22807231,-!p3@Zfp503!0.92!12.70!Zfp503;;chr17:27865882..27865901,-!p1@Spdef!0.92!7.26!Spdef;;chr10:5734677..5734702,-!p4@Esr1!0.92!7.26!Esr1;;chr7:77511234..77511302,-!p2@Nr2f2!0.91!49.82!Nr2f2;;chr11:85646263..85646278,+!p2@Tbx2!0.91!18.97!Tbx2;;chr1:170361730..170361769,-!p7@Pbx1!0.91!16.99!Pbx1;;chr14:22807107..22807119,-!p2@Zfp503!0.90!31.67!Zfp503;;chr5:77543897..77543911,-!p2@Hopx!0.90!13.69!Hopx;;chr1:170361695..170361722,-!p12@Pbx1!0.90!9.07!Pbx1;;chr17:56970339..56970428,-!p1@Rfx2!0.89!21.94!Rfx2;;chr7:77511403..77511450,-!p3@Nr2f2!0.89!15.01!Nr2f2;;chr1:93698030..93698064,+!p1@Twist2!0.89!14.02!Twist2;;chr15:35225873..35225889,+!p2@Osr2!0.89!6.76!Osr2;;chr15:50720601..50720630,-!p2@Trps1!0.88!16.50!Trps1;;chr16:43363152..43363186,+!p3@Zbtb20!0.88!15.51!Zbtb20;;chr19:44831390..44831414,+!p1@Pax2!0.88!6.60!Pax2;;chr3:30408603..30408668,-!p1@Mecom!0.87!15.51!Mecom;;chr19:59533429..59533470,+!p4@Emx2!0.87!6.43!Emx2;;chr12:75002389..75002406,+!p4@Hif1a!0.87!6.43!Hif1a;;chr6:52190656..52190667,-!p7@Hoxa10!0.86!6.27!Hoxa10;;chrX:95345005..95345053,+!p1@Ar!0.86!6.27!Ar;;chr9:48644306..48644364,-!p1@Zbtb16!0.85!25.74!Zbtb16;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!0.85!11.88!Zbtb38;;chr9:98855692..98855710,+!p2@Foxl2!0.85!6.10!Foxl2;;chr9:8900490..8900502,+!p4@Pgr!0.85!6.10!Pgr;;chr2:74549945..74549965,+!p4@Hoxd3!0.85!6.10!Hoxd3;;chr2:115891534..115891589,-!p1@Meis2!0.84!88.75!Meis2;;chr11:90252223..90252240,-!p1@Hlf!0.84!52.13!Hlf;;chr2:74549915..74549930,+!p6@Hoxd3!0.84!5.94!Hoxd3;;chr2:173044380..173044432,-!p1@Zbp1!0.83!14.52!Zbp1;;chr11:98636531..98636559,-!p1@Nr1d1!0.82!34.15!Nr1d1;;chr9:31720843..31720888,-!p1@Barx2!0.82!6.27!Barx2;;chr16:42907676..42907797,+!p1@Zbtb20!0.81!76.55!Zbtb20;;chr11:5761871..5761882,+!p3@Aebp1!0.81!14.85!Aebp1;;chr16:42907554..42907591,+!p5@Zbtb20!0.81!14.52!Zbtb20;;chr1:4486530..4486557,-!p4@Sox17!0.81!7.26!Sox17;;chr2:74517742..74517758,+!p2@Hoxd11!0.81!5.44!Hoxd11;;chr6:88148324..88148328,+!p3@Gata2!0.81!5.44!Gata2;;chr2:115890469..115890485,-!p7@Meis2!0.80!8.74!Meis2;;chr1:170361678..170361689,-!p13@Pbx1!0.80!6.60!Pbx1;;chr2:103123759..103123777,-!p5@Ehf!0.80!5.28!Ehf;;chr2:104966465..104966479,+!p6@Wt1!0.80!5.28!Wt1;;chr11:96160426..96160443,+!p2@Hoxb6!0.80!5.28!Hoxb6;;chr9:98855847..98855866,+!p3@Foxl2!0.80!5.28!Foxl2;;chr15:81633165..81633188,+!p2@Tef!0.79!45.70!Tef;;chr6:97757008..97757061,+!p1@Mitf!0.79!23.76!Mitf;;chr10:44178521..44178557,-!p1@Prdm1!0.79!9.73!Prdm1;;chr10:5734473..5734489,-!p5@Esr1!0.79!5.11!Esr1;;chr10:5734660..5734670,-!p7@Esr1!0.79!5.11!Esr1;;chr15:50721515..50721540,-!p3@Trps1!0.78!15.67!Trps1;;chr9:36954842..36954908,-!p1@Pknox2!0.77!62.69!Pknox2;;chr1:120879128..120879183,-!p3@Gli2!0.77!9.90!Gli2;;chr4:119486912..119486954,+!p3@Hivep3!0.77!8.91!Hivep3;;chr2:74520343..74520383,+!p4@Hoxd11!0.77!4.95!Hoxd11;;chr15:102820964..102821006,+!p1@Hoxc8!0.77!4.95!Hoxc8;;chr2:127347067..127347093,-!p1@Kcnip3!0.76!8.41!Kcnip3;;chr11:18918434..18918489,-!p3@Meis1!0.75!7.59!Meis1;;chr15:50720589..50720600,-!p12@Trps1!0.75!6.27!Trps1;;chr1:194979315..194979359,+!p1@Irf6!0.74!30.68!Irf6;;chr14:64562503..64562524,+!p1@Sox7!0.74!29.36!Sox7;;chr5:120121446..120121461,+!p2@Tbx3!0.74!16.33!Tbx3;;chr12:34642682..34642753,+!p2@Twist1!0.74!13.03!Twist1;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.74!8.08!Hoxb2;;chr5:31270977..31270988,+!p3@Tcf23!0.74!4.45!Tcf23;;chr2:103123925..103123959,-!p3@Ehf!0.74!4.45!Ehf;;chr2:74536050..74536065,+!p2@Hoxd9!0.74!4.45!Hoxd9;;chr1:170362242..170362256,-!p3@Pbx1!0.73!35.30!Pbx1;;chr7:148452314..148452329,-!p1@Irf7!0.73!33.98!Irf7;;chr14:19071466..19071550,-!p1@Nr1d2!0.73!32.99!Nr1d2;;chr6:38204109..38204155,-!p1@D630045J12Rik!0.73!26.23!D630045J12Rik;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.73!13.69!Tfcp2l1;;chr8:87297280..87297326,-!p2@Nfix!0.73!11.05!Nfix;;chr10:44178575..44178590,-!p5@Prdm1!0.73!5.61!Prdm1;;chr3:30408384..30408431,-!p4@Mecom!0.73!5.61!Mecom;;chr1:170362273..170362317,-!p1@Pbx1!0.72!138.41!Pbx1;;chr11:18918917..18918944,-!p1@Meis1!0.72!61.04!Meis1;;chr2:115891427..115891441,-!p4@Meis2!0.72!9.73!Meis2;;chr4:148178559..148178603,+!p1@Casz1!0.71!13.03!Casz1;;chr2:104966436..104966455,+!p7@Wt1!0.71!4.12!Wt1;;chr2:105003277..105003280,+!p5@Wt1!0.71!4.12!Wt1;;chr6:6831928..6831949,-!p3@Dlx5!0.71!4.12!Dlx5;;chr7:77505617..77505632,-!p1@Nr2f2!0.70!210.83!Nr2f2;;chr2:173044357..173044377,-!p2@Zbp1!0.70!6.10!Zbp1;;chr1:194979361..194979373,+!p2@Irf6!0.70!5.61!Irf6;;chr11:18918959..18918976,-!p2@Meis1!0.69!60.21!Meis1;;chr5:120121020..120121049,+!p1@Tbx3!0.69!27.22!Tbx3;;chr1:165243792..165243808,-!p1@Prrx1!0.69!15.18!Prrx1;;chr18:11052485..11052508,+!p2@Gata6!0.69!12.21!Gata6;;chr11:98636508..98636524,-!p3@Nr1d1!0.69!4.95!Nr1d1;;chr5:104121391..104121450,+!p3@Aff1!0.68!22.44!Aff1;;chr2:74542918..74542971,+!p1@Hoxd8!0.68!6.10!Hoxd8;;chr15:102821007..102821021,+!p2@Hoxc8!0.68!3.79!Hoxc8;;chr2:167363692..167363710,+!p1@Snai1!0.67!51.31!Snai1;;chr10:67599319..67599360,-!p2@Arid5b!0.67!46.36!Arid5b;;chr16:43619101..43619151,+!p6@Zbtb20!0.67!9.90!Zbtb20;;chr16:43619057..43619078,+!p8@Zbtb20!0.67!8.41!Zbtb20;;chr16:43503493..43503570,+!p9@Zbtb20!0.67!6.76!Zbtb20;;chr7:37483231..37483263,+!p2@Tshz3!0.67!5.94!Tshz3;;chr15:37162834..37162849,+!p2@Grhl2!0.67!4.45!Grhl2;;chr15:102865131..102865151,+!p2@Hoxc4!0.67!4.29!Hoxc4;;chr3:29912058..29912071,-!p6@Mecom!0.67!4.29!Mecom;;chr2:74550178..74550214,+!p5@Hoxd3!0.67!4.12!Hoxd3;;chr6:6831950..6831985,-!p2@Dlx5!0.67!4.12!Dlx5;;chr6:88143570..88143590,+!p4@Gata2!0.67!3.63!Gata2;;chr11:96143962..96144035,+!p2@Hoxb8!0.67!3.63!Hoxb8;;chr1:4486594..4486612,-!p6@Sox17!0.67!3.63!Sox17;;chr2:74543397..74543435,+!p2@Hoxd8!0.67!3.63!Hoxd8;;chr19:26679654..26679675,+!p1@Smarca2!0.66!38.60!Smarca2;;chr2:65683890..65683907,+!p1@Csrnp3!0.66!7.42!Csrnp3;;chr16:43363968..43364001,+!p7@Zbtb20!0.66!7.09!Zbtb20;;chr2:169458192..169458247,+!p1@Tshz2!0.65!35.96!Tshz2;;chr2:74530022..74530033,+!p3@Hoxd10!0.65!3.46!Hoxd10;;chr2:115891409..115891425,-!p2@Meis2!0.63!10.72!Meis2;;chr6:38204214..38204267,-!p4@D630045J12Rik!0.63!6.76!D630045J12Rik;;chr7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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011442
 |is_obsolete=
+|library_id=CNhs10500
+|library_id_phase_based=2:CNhs10500
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;988
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;988
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/oviduct%252c%2520adult%2520pregnant%2520day01.CNhs10500.988-6G6.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/oviduct%252c%2520adult%2520pregnant%2520day01.CNhs10500.988-6G6.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/oviduct%252c%2520adult%2520pregnant%2520day01.CNhs10500.988-6G6.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/oviduct%252c%2520adult%2520pregnant%2520day01.CNhs10500.988-6G6.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/oviduct%252c%2520adult%2520pregnant%2520day01.CNhs10500.988-6G6.mm9.nobarcode.rdna.fa.gz
 |name=oviduct, adult pregnant day01
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10500,LSID648,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.152653801795506,0,0,0,0,0.046078568508448,0.134798489891053,0,5.055090255552e-05,0,0,-0.0843392403965415,0,0,0,0,0,0,0.0693339673366489,0,0,0,0,0,0.174615154231399,0,0,0,0,0,0,0,0.164969101657404,0,0,0,0,0.0296367635214477,-0.0600990840767725,0.0924572636342148,-0.0952317447724849,-0.403914680930309,0.0289453147432099,0,0,0,0,0,0,0,0,0,0,0.474164010886602,0,0.408158463323161,0,0,0,0,0.0234678324297662,0,0.0187104109259939,0,0,0.0620178914049146,0.0784110858652953,0.112546249957171,-0.0917762552584416,0.0422512627435209,0,0.0966065534794477,0.0508738268665326,0.0663147875126409,0,0,0.0678375953331019,0.0716952030877719,-0.262509755851607,0.182395723379316,0,0,0,0,0,0,-0.104528826548756,-0.482058223261667,-0.149338031359379,0.0440420216776854,0,0.0663147875126409,0,0
@@ Line 62: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 82: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:988-6G6;search_select_hide=table117:988-6G6
 }}

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FF:988-6G6: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:21, 4 June 2020

CNhs10500

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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