FF:92-27E5: Difference between revisions

Latest revision as of 19:21, 4 June 2020

Name:	uterus, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10509
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	uterus
dev stage	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		SAMD00004798

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10509		CAGE		DRX009129		DRR010003

Accession ID Mm9

Library id		BAM		CTSS
CNhs10509		DRZ001428		DRZ002811

Accession ID Mm10

Library id		BAM		CTSS
CNhs10509		DRZ012778		DRZ014161

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

CNhs10509

0	0
1	0
10	0
100	0
1000	0.0564
1001	0.147
1002	-0.0624
1003	0.197
1004	0.737
1005	0.137
1006	0
1007	0.041
1008	0
1009	0.328
101	0.0583
1010	0
1011	0
1012	0
1013	0.0847
1014	-0.0874
1015	-0.0662
1016	0.038
1017	0
1018	0.19
1019	0
102	0
1020	0
1021	-0.0487
1022	0.0583
1023	0
1024	0.0847
1025	0.0294
1026	0.0436
1027	-0.0163
1028	0.073
1029	0.247
103	0.269
1030	0
1031	0.425
1032	-0.103
1033	0
1034	0.073
1035	0
1036	0.00733
1037	0
1038	0.0237
1039	-0.11
104	0
1040	0.108
1041	0.136

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: CNhs10509

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.234
MA0003.1	MA0003.1	0.0525
MA0004.1	MA0004.1	0.645
MA0006.1	MA0006.1	0.0633
MA0007.1	MA0007.1	0.494
MA0009.1	MA0009.1	0.219
MA0014.1	MA0014.1	0.898
MA0017.1	MA0017.1	0.00572
MA0018.2	MA0018.2	0.0301
MA0019.1	MA0019.1	0.275
MA0024.1	MA0024.1	3.88638e-4
MA0025.1	MA0025.1	0.585
MA0027.1	MA0027.1	0.109
MA0028.1	MA0028.1	0.0317
MA0029.1	MA0029.1	0.127
MA0030.1	MA0030.1	0.234
MA0031.1	MA0031.1	0.118
MA0035.2	MA0035.2	2.18553e-4
MA0038.1	MA0038.1	0.802
MA0039.2	MA0039.2	0.0103
MA0040.1	MA0040.1	0.561
MA0041.1	MA0041.1	0.36
MA0042.1	MA0042.1	0.429
MA0043.1	MA0043.1	0.0297
MA0046.1	MA0046.1	0.72
MA0047.2	MA0047.2	0.344
MA0048.1	MA0048.1	0.699
MA0050.1	MA0050.1	2.59579e-15
MA0051.1	MA0051.1	7.4444e-9
MA0052.1	MA0052.1	0.476
MA0055.1	MA0055.1	0.318
MA0057.1	MA0057.1	0.645
MA0058.1	MA0058.1	0.544
MA0059.1	MA0059.1	0.134
MA0060.1	MA0060.1	1.35348e-8
MA0061.1	MA0061.1	0.0661
MA0062.2	MA0062.2	0.11
MA0065.2	MA0065.2	0.136
MA0066.1	MA0066.1	0.116
MA0067.1	MA0067.1	0.566
MA0068.1	MA0068.1	0.779
MA0069.1	MA0069.1	0.314
MA0070.1	MA0070.1	0.614
MA0071.1	MA0071.1	0.13
MA0072.1	MA0072.1	0.919
MA0073.1	MA0073.1	0.792
MA0074.1	MA0074.1	0.674
MA0076.1	MA0076.1	0.0305
MA0077.1	MA0077.1	0.532
MA0078.1	MA0078.1	0.0383
MA0079.2	MA0079.2	0.0197
MA0080.2	MA0080.2	1.87407e-6
MA0081.1	MA0081.1	0.66
MA0083.1	MA0083.1	3.30071e-4
MA0084.1	MA0084.1	0.267
MA0087.1	MA0087.1	0.293
MA0088.1	MA0088.1	0.638
MA0090.1	MA0090.1	0.0994
MA0091.1	MA0091.1	0.128
MA0092.1	MA0092.1	0.914
MA0093.1	MA0093.1	0.657
MA0099.2	MA0099.2	1.44974e-9
MA0100.1	MA0100.1	0.15
MA0101.1	MA0101.1	0.00784
MA0102.2	MA0102.2	0.816
MA0103.1	MA0103.1	0.18
MA0104.2	MA0104.2	0.0431
MA0105.1	MA0105.1	0.724
MA0106.1	MA0106.1	0.584
MA0107.1	MA0107.1	8.21536e-4
MA0108.2	MA0108.2	0.811
MA0111.1	MA0111.1	0.493
MA0112.2	MA0112.2	0.0191
MA0113.1	MA0113.1	0.975
MA0114.1	MA0114.1	0.00115
MA0115.1	MA0115.1	0.00109
MA0116.1	MA0116.1	0.588
MA0117.1	MA0117.1	0.462
MA0119.1	MA0119.1	0.312
MA0122.1	MA0122.1	0.712
MA0124.1	MA0124.1	0.917
MA0125.1	MA0125.1	0.00982
MA0131.1	MA0131.1	0.17
MA0135.1	MA0135.1	0.573
MA0136.1	MA0136.1	1.09973e-4
MA0137.2	MA0137.2	0.00138
MA0138.2	MA0138.2	0.714
MA0139.1	MA0139.1	0.566
MA0140.1	MA0140.1	5.53801e-4
MA0141.1	MA0141.1	2.97999e-5
MA0142.1	MA0142.1	0.345
MA0143.1	MA0143.1	0.251
MA0144.1	MA0144.1	4.86885e-4
MA0145.1	MA0145.1	0.00313
MA0146.1	MA0146.1	0.802
MA0147.1	MA0147.1	0.0272
MA0148.1	MA0148.1	0.542
MA0149.1	MA0149.1	0.175
MA0150.1	MA0150.1	0.381
MA0152.1	MA0152.1	0.128
MA0153.1	MA0153.1	0.0599
MA0154.1	MA0154.1	0.304
MA0155.1	MA0155.1	0.8
MA0156.1	MA0156.1	1.24072e-5
MA0157.1	MA0157.1	0.0274
MA0159.1	MA0159.1	0.176
MA0160.1	MA0160.1	0.0146
MA0162.1	MA0162.1	0.53
MA0163.1	MA0163.1	0.681
MA0164.1	MA0164.1	0.457
MA0258.1	MA0258.1	0.265
MA0259.1	MA0259.1	0.0962

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: CNhs10509

Novel motif	Logo	P-value
1	1	0.399
10	10	0.184
100	100	0.0372
101	101	0.73
102	102	0.364
103	103	0.712
104	104	0.163
105	105	0.391
106	106	0.00157
107	107	0.0181
108	108	0.619
109	109	0.334
11	11	0.309
110	110	0.718
111	111	0.52
112	112	0.222
113	113	0.524
114	114	0.258
115	115	0.634
116	116	0.939
117	117	0.00702
118	118	0.0505
119	119	0.612
12	12	0.98
120	120	0.258
121	121	0.221
122	122	0.737
123	123	0.222
124	124	0.692
125	125	0.447
126	126	0.355
127	127	0.139
128	128	0.0611
129	129	0.291
13	13	0.107
130	130	0.0639
131	131	0.605
132	132	0.842
133	133	0.31
134	134	0.419
135	135	0.895
136	136	0.458
137	137	0.12
138	138	0.0665
139	139	0.729
14	14	0.715
140	140	0.0538
141	141	0.984
142	142	0.441
143	143	0.373
144	144	0.936
145	145	0.356
146	146	0.273
147	147	0.0865
148	148	0.171
149	149	0.139
15	15	0.283
150	150	0.524
151	151	0.909
152	152	0.0192
153	153	0.341
154	154	0.798
155	155	0.484
156	156	3.97782e-4
157	157	0.727
158	158	0.623
159	159	0.166
160	160	0.434
161	161	0.564
162	162	0.87
163	163	0.963
164	164	0.911
165	165	0.961
166	166	0.00112
167	167	0.201
168	168	0.382
169	169	0.0261
17	17	0.386
18	18	0.0797
19	19	0.00676
2	2	0.00759
20	20	0.203
21	21	0.497
22	22	0.194
23	23	0.373
24	24	0.175
25	25	0.281
26	26	0.0688
27	27	0.347
28	28	0.751
29	29	0.406
3	3	0.855
30	30	0.178
31	31	0.805
32	32	0.589
33	33	0.614
34	34	0.769
35	35	0.0648
36	36	0.0404
37	37	0.385
38	38	0.731
39	39	0.467
4	4	0.903
40	40	0.445
41	41	0.175
42	42	0.807
43	43	0.764
44	44	0.26
45	45	0.0867
46	46	0.459
47	47	0.867
48	48	0.671
49	49	0.923
5	5	0.704
50	50	0.264
51	51	0.867
52	52	0.0686
53	53	0.102
54	54	0.962
55	55	0.757
56	56	0.969
57	57	0.179
58	58	0.817
59	59	0.393
6	6	0.303
60	60	0.184
61	61	0.22
62	62	0.622
63	63	0.493
64	64	0.303
65	65	0.96
66	66	0.292
67	67	0.718
68	68	0.862
69	69	0.243
7	7	0.945
70	70	0.939
71	71	0.541
72	72	0.623
73	73	0.297
74	74	0.462
75	75	0.317
76	76	0.0928
77	77	0.608
78	78	0.391
79	79	0.733
8	8	0.0707
80	80	0.0608
81	81	0.936
82	82	0.696
83	83	0.958
84	84	0.742
85	85	0.491
86	86	0.641
87	87	0.562
88	88	0.834
89	89	0.537
9	9	0.24
90	90	0.0461
91	91	0.459
92	92	0.383
93	93	0.274
94	94	0.398
95	95	0.436
96	96	0.0467
97	97	0.464
98	98	0.884
99	99	0.32

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: CNhs10509

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011440 mouse uterus- 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)
0000995 (uterus)
0003134 (female reproductive organ)
0000479 (tissue)
0005156 (reproductive structure)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000990 (reproductive system)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003133 (reproductive organ)
0003975 (internal female genitalia)
0004175 (internal genitalia)
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)
0011440 (mouse uterus- 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:0006603 (presumptive mesoderm)
UBERON:0005795 (embryonic uterus)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000922,UBERON:0005795,UBERON:0000995,UBERON:0003134,UBERON:0000926,UBERON:0000479,UBERON:0005156,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0000990,UBERON:0002050,UBERON:0005423,UBERON:0000467,UBERON:0001062,UBERON:0005291,UBERON:0003133,UBERON:0003975,UBERON:0004175,UBERON:0006598,UBERON:0002532,UBERON:0003100,UBERON:0000474,UBERON:0006603
+|DRA_sample_Accession=CAGE@SAMD00004798
+|accession_numbers=CAGE;DRX009129;DRR010003;DRZ001428;DRZ002811;DRZ012778;DRZ014161
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000995,UBERON:0003134,UBERON:0000479,UBERON:0005156,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000990,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003133,UBERON:0003975,UBERON:0004175,UBERON:0010317,UBERON:0003100,UBERON:0000474
 |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:0011440
 |comment=
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr1:137155026..137155042,-!p1@Elf3!2.28!1042.87!Elf3;;chr10:5636354..5636373,-!p2@Esr1!2.19!154.95!Esr1;;chr10:5636374..5636421,-!p1@Esr1!2.12!161.91!Esr1;;chr9:8900459..8900489,+!p1@Pgr!1.97!93.22!Pgr;;chr6:6832076..6832092,-!p1@Dlx5!1.92!94.69!Dlx5;;chr10:30375579..30375616,-!p3@Ncoa7!1.78!135.90!Ncoa7;;chr6:52190467..52190500,-!p1@Hoxa10!1.75!55.13!Hoxa10;;chr19:59533221..59533271,+!p1@Emx2!1.73!64.65!Emx2;;chr6:52195763..52195792,-!p2@Hoxa11!1.73!52.93!Hoxa11;;chr6:52195795..52195825,-!p1@Hoxa11!1.69!47.99!Hoxa11;;chr2:103143336..103143367,-!p1@Ehf!1.68!73.81!Ehf;;chr5:38215819..38215823,-!p1@Msx1!1.62!103.30!Msx1;;chr6:52184901..52184959,-!p2@Hoxa10!1.55!34.80!Hoxa10;;chr2:74529970..74529997,+!p1@Hoxd10!1.50!30.40!Hoxd10;;chr2:24331085..24331100,-!p1@Pax8!1.49!29.67!Pax8;;chr5:31271028..31271040,+!p1@Tcf23!1.47!28.39!Tcf23;;chr6:52190668..52190682,-!p3@Hoxa10!1.47!28.21!Hoxa10;;chr15:35225845..35225867,+!p1@Osr2!1.45!66.48!Osr2;;chr11:96143666..96143725,+!p1@Hoxb8!1.45!31.32!Hoxb8;;chr2:104966766..104966786,+!p1@Wt1!1.44!41.58!Wt1;;chr11:96153767..96153822,+!p1@Hoxb6!1.43!39.56!Hoxb6;;chr9:8900409..8900425,+!p2@Pgr!1.43!26.01!Pgr;;chr9:8899828..8899855,+!p3@Pgr!1.42!25.27!Pgr;;chr19:19185671..19185693,-!p1@Rorb!1.37!53.11!Rorb;;chr8:59799772..59799789,+!p1@Hand2!1.36!61.54!Hand2;;chr2:103143315..103143328,-!p2@Ehf!1.35!21.61!Ehf;;chr1:4483679..4483695,-!p1@Sox17!1.33!94.32!Sox17;;chr2:173044380..173044432,-!p1@Zbp1!1.32!47.07!Zbp1;;chr19:59532915..59532940,+!p5@Emx2!1.30!19.05!Emx2;;chr10:22539932..22539956,-!p1@Tcf21!1.29!48.35!Tcf21;;chr11:5761979..5761992,+!p2@Aebp1!1.27!34.98!Aebp1;;chr2:74517742..74517758,+!p2@Hoxd11!1.27!17.58!Hoxd11;;chr6:52190858..52190873,-!p4@Hoxa10!1.26!17.40!Hoxa10;;chr2:74549968..74549996,+!p1@Hoxd3!1.25!20.88!Hoxd3;;chr11:96143843..96143868,+!p3@Hoxb8!1.24!16.48!Hoxb8;;chr15:102828658..102828678,+!p1@Hoxc6!1.24!16.48!Hoxc6;;chr11:5761889..5761969,+!p1@Aebp1!1.23!653.67!Aebp1;;chr6:88148650..88148669,+!p1@Gata2!1.22!128.57!Gata2;;chr13:53568104..53568156,-!p1@Msx2!1.20!21.80!Msx2;;chr6:6812988..6813002,+!p3@Dlx6!1.20!15.02!Dlx6;;chr6:6812962..6812979,+!p1@Dlx6!1.20!14.84!Dlx6;;chr19:59533139..59533152,+!p2@Emx2!1.20!14.84!Emx2;;chr1:120524520..120524528,+!p1@Tfcp2l1!1.19!41.21!Tfcp2l1;;chr6:88143711..88143717,+!p2@Gata2!1.19!23.26!Gata2;;chr9:8900490..8900502,+!p4@Pgr!1.19!14.65!Pgr;;chr9:98855868..98855895,+!p1@Foxl2!1.13!12.45!Foxl2;;chr10:5734525..5734569,-!p3@Esr1!1.12!20.33!Esr1;;chr11:83664365..83664383,+!p1@Hnf1b!1.11!11.90!Hnf1b;;chr6:6831928..6831949,-!p3@Dlx5!1.11!11.90!Dlx5;;chr6:52176164..52176195,-!p1@Hoxa9!1.10!14.47!Hoxa9;;chr2:74517609..74517621,+!p3@Hoxd11!1.09!11.36!Hoxd11;;chr9:8900563..8900574,+!p5@Pgr!1.09!11.36!Pgr;;chr4:124805061..124805087,-!p1@Zc3h12a!1.08!34.43!Zc3h12a;;chr11:96160426..96160443,+!p2@Hoxb6!1.08!10.99!Hoxb6;;chr14:64562503..64562524,+!p1@Sox7!1.07!64.10!Sox7;;chr6:52195747..52195762,-!p3@Hoxa11!1.07!10.81!Hoxa11;;chr6:6831950..6831985,-!p2@Dlx5!1.06!11.54!Dlx5;;chr11:96147952..96147967,+!p1@Hoxb7!1.04!12.45!Hoxb7;;chr2:74529998..74530020,+!p2@Hoxd10!1.04!10.07!Hoxd10;;chr19:28754692..28754757,-!p1@Glis3!1.03!41.21!Glis3;;chr7:148452314..148452329,-!p1@Irf7!1.02!67.58!Irf7;;chr2:173044357..173044377,-!p2@Zbp1!1.02!13.55!Zbp1;;chr10:30375559..30375568,-!p9@Ncoa7!1.02!9.52!Ncoa7;;chr2:74536026..74536039,+!p1@Hoxd9!1.01!9.34!Hoxd9;;chr12:75002389..75002406,+!p4@Hif1a!1.01!9.16!Hif1a;;chr10:5636678..5636725,-!p6@Esr1!1.01!9.16!Esr1;;chr12:12948633..12948651,-!p1@Mycn!0.99!85.17!Mycn;;chr7:147129712..147129774,+!p1@Utf1!0.99!8.79!Utf1;;chr2:104966662..104966673,+!p4@Wt1!0.98!8.61!Wt1;;chr10:20880629..20880683,-!p1@Myb!0.97!24.54!Myb;;chr1:4486530..4486557,-!p4@Sox17!0.97!10.81!Sox17;;chr19:59533163..59533185,+!p3@Emx2!0.97!8.42!Emx2;;chr6:52184880..52184893,-!p6@Hoxa10!0.97!8.24!Hoxa10;;chr19:44831390..44831414,+!p1@Pax2!0.97!8.24!Pax2;;chr3:30408603..30408668,-!p1@Mecom!0.96!19.23!Mecom;;chr2:74550015..74550057,+!p2@Hoxd3!0.96!8.06!Hoxd3;;chr6:6813269..6813272,+!p2@Dlx6!0.96!8.06!Dlx6;;chr2:65683890..65683907,+!p1@Csrnp3!0.94!15.02!Csrnp3;;chr9:98855692..98855710,+!p2@Foxl2!0.94!7.69!Foxl2;;chr10:5636336..5636347,-!p9@Esr1!0.94!7.69!Esr1;;chr6:51382677..51382783,+!p1@Nfe2l3!0.92!19.23!Nfe2l3;;chr16:43508231..43508271,+!p21@Zbtb20!0.92!7.33!Zbtb20;;chr1:93698030..93698064,+!p1@Twist2!0.91!14.84!Twist2;;chr6:97879817..97879857,+!p2@Mitf!0.91!7.14!Mitf;;chr15:37162834..37162849,+!p2@Grhl2!0.90!8.42!Grhl2;;chr3:30408674..30408716,-!p2@Mecom!0.89!11.54!Mecom;;chr10:30375530..30375535,-!p12@Ncoa7!0.89!6.78!Ncoa7;;chr2:104966874..104966907,+!p2@Wt1!0.88!6.59!Wt1;;chr2:147871627..147871641,-!p1@Foxa2!0.88!6.59!Foxa2;;chr9:98855847..98855866,+!p3@Foxl2!0.88!6.59!Foxl2;;chr4:55545337..55545357,-!p1@Klf4!0.86!97.07!Klf4;;chr6:108610766..108610781,+!p2@Bhlhe40!0.86!11.72!Bhlhe40;;chr7:77511311..77511352,-!p4@Nr2f2!0.85!12.82!Nr2f2;;chr19:59533429..59533470,+!p4@Emx2!0.85!6.04!Emx2;;chr11:98407370..98407395,-!p3@Ikzf3!0.84!5.86!Ikzf3;;chr16:55822241..55822258,-!p1@Nfkbiz!0.82!189.01!Nfkbiz;;chr11:96143962..96144035,+!p2@Hoxb8!0.82!5.68!Hoxb8;;chr11:98636531..98636559,-!p1@Nr1d1!0.81!33.52!Nr1d1;;chr6:97757008..97757061,+!p1@Mitf!0.81!24.91!Mitf;;chr1:87546583..87546595,+!p1@Sp100!0.81!8.06!Sp100;;chr1:4486594..4486612,-!p6@Sox17!0.81!5.49!Sox17;;chr2:74520343..74520383,+!p4@Hoxd11!0.81!5.49!Hoxd11;;chr8:111227641..111227672,+!p@chr8:111227641..111227672,+!0.80!15.02!Zfhx3;;chr11:116196664..116196679,-!p1@Foxj1!0.80!8.42!Foxj1;;chr10:5734473..5734489,-!p5@Esr1!0.80!5.31!Esr1;;chr7:77511234..77511302,-!p2@Nr2f2!0.79!37.18!Nr2f2;;chr9:31720843..31720888,-!p1@Barx2!0.79!5.86!Barx2;;chr5:31271010..31271019,+!p2@Tcf23!0.79!5.13!Tcf23;;chr2:74520048..74520064,+!p1@Hoxd11!0.79!5.13!Hoxd11;;chr7:77511403..77511450,-!p3@Nr2f2!0.78!11.36!Nr2f2;;chr15:37162796..37162828,+!p1@Grhl2!0.78!8.79!Grhl2;;chr8:87297280..87297326,-!p2@Nfix!0.77!12.27!Nfix;;chr4:55545051..55545110,-!p2@Klf4!0.77!6.23!Klf4;;chr4:84320893..84320910,-!p1@Bnc2!0.76!11.17!Bnc2;;chr2:74517725..74517738,+!p5@Hoxd11!0.76!4.76!Hoxd11;;chr10:5734677..5734702,-!p4@Esr1!0.76!4.76!Esr1;;chr16:43363190..43363242,+!p2@Zbtb20!0.75!15.38!Zbtb20;;chr4:119486912..119486954,+!p3@Hivep3!0.74!8.24!Hivep3;;chr6:108610513..108610528,+!p3@Bhlhe40!0.74!7.14!Bhlhe40;;chr7:52960555..52960662,+!p1@Dbp!0.73!41.39!Dbp;;chr1:120879128..120879183,-!p3@Gli2!0.73!8.79!Gli2;;chr6:52163319..52163342,-!p1@Hoxa3!0.73!6.59!Hoxa3;;chr19:59533595..59533628,+!p6@Emx2!0.73!4.40!Emx2;;chr1:194979315..194979359,+!p1@Irf6!0.72!28.94!Irf6;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!0.72!8.42!Zbtb38;;chr1:170361678..170361689,-!p13@Pbx1!0.72!5.31!Pbx1;;chr19:59534008..59534046,+!p7@Emx2!0.72!4.21!Emx2;;chr11:98407264..98407295,-!p1@Ikzf3!0.72!4.21!Ikzf3;;chr10:126778916..126778974,-!p1@Gli1!0.71!10.07!Gli1;;chr6:39068163..39068176,-!p2@Parp12!0.71!8.24!Parp12;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.71!7.51!Hoxb2;;chr1:194979361..194979373,+!p2@Irf6!0.71!5.86!Irf6;;chr3:30408384..30408431,-!p4@Mecom!0.71!5.31!Mecom;;chr1:165243792..165243808,-!p1@Prrx1!0.70!15.57!Prrx1;;chr16:43363152..43363186,+!p3@Zbtb20!0.70!10.07!Zbtb20;;chr10:30375647..30375658,-!p7@Ncoa7!0.70!4.03!Ncoa7;;chr17:71202822..71202877,-!p3@Tgif1!0.69!12.45!Tgif1;;chr11:96145450..96145517,+!p2@Hoxb7!0.69!6.23!Hoxb7;;chr3:29912058..29912071,-!p6@Mecom!0.69!4.58!Mecom;;chr2:104966933..104966966,+!p3@Wt1!0.69!3.85!Wt1;;chr2:104966465..104966479,+!p6@Wt1!0.69!3.85!Wt1;;chr6:6831986..6832007,-!p4@Dlx5!0.69!3.85!Dlx5;;chr11:96160451..96160462,+!p5@Hoxb6!0.69!3.85!Hoxb6;;chr14:99697871..99697934,+!p1@Klf5!0.67!84.25!Klf5;;chr14:22807107..22807119,-!p2@Zfp503!0.67!18.13!Zfp503;;chr15:35225873..35225889,+!p2@Osr2!0.67!3.66!Osr2;;chr2:74549945..74549965,+!p4@Hoxd3!0.67!3.66!Hoxd3;;chr15:50720601..50720630,-!p2@Trps1!0.66!9.52!Trps1;;chr7:134376558..134376587,+!p2@Zfp553!0.66!6.41!Zfp553;;chr7:20408047..20408125,-!p1@Bcl3!0.65!46.52!Bcl3;;chr1:170361730..170361769,-!p7@Pbx1!0.65!8.79!Pbx1;;chr13:44825008..44825066,+!p5@Jarid2!0.65!7.51!Jarid2;;chr8:91568074..91568094,-!p1@Sall1!0.65!3.48!Sall1;;chr2:74549915..74549930,+!p6@Hoxd3!0.65!3.48!Hoxd3;;chr6:52190656..52190667,-!p7@Hoxa10!0.65!3.48!Hoxa10;;chr12:56593574..56593592,-!p1@Nfkbia!0.64!203.48!Nfkbia;;chr9:36954842..36954908,-!p1@Pknox2!0.64!45.60!Pknox2;;chr11:18918820..18918831,-!p4@Meis1!0.64!6.96!Meis1;;chr16:15887371..15887385,+!p1@Cebpd!0.63!133.88!Cebpd;;chr1:52176315..52176343,+!p1@Stat1!0.63!55.86!Stat1;;chr5:120121020..120121049,+!p1@Tbx3!0.63!23.26!Tbx3;;chr16:14705961..14705978,+!p2@Snai2!0.63!17.77!Snai2;;chr10:5734660..5734670,-!p7@Esr1!0.63!3.30!Esr1;;chr10:44178521..44178557,-!p1@Prdm1!0.62!6.23!Prdm1;;chr14:22807216..22807231,-!p3@Zfp503!0.62!5.86!Zfp503;;chr14:79915425..79915501,+!p1@Elf1!0.61!32.23!Elf1;;chr4:148178559..148178603,+!p1@Casz1!0.61!10.07!Casz1;;chr11:18918917..18918944,-!p1@Meis1!0.60!46.89!Meis1;;chr1:135320989..135321043,-!p1@Sox13!0.60!39.38!Sox13;;chr6:53018556..53018650,-!p1@Jazf1!0.60!23.81!Jazf1;;chr5:120121446..120121461,+!p2@Tbx3!0.60!11.36!Tbx3;;chr4:55545152..55545194,-!p3@Klf4!0.60!3.66!Klf4;;chr9:48644037..48644067,-!p2@Zbtb16!0.59!8.24!Zbtb16;;chr19:28754655..28754673,-!p3@Glis3!0.59!4.76!Glis3;;chr17:87153519..87153533,+!p5@Epas1!0.59!4.58!Epas1;;chrX:95345005..95345053,+!p1@Ar!0.59!2.93!Ar;;chr6:108610610..108610676,+!p1@Bhlhe40!0.58!170.15!Bhlhe40;;chr1:170362273..170362317,-!p1@Pbx1!0.58!97.99!Pbx1;;chr10:119913310..119913366,-!p1@Hmga2!0.58!26.56!Hmga2;;chr11:44431687..44431706,+!p2@Ebf1!0.58!15.75!Ebf1;;chr2:25562263..25562314,+!p2@Bmyc!0.58!12.82!Bmyc;;chr15:102087880..102087927,-!p2@Rarg!0.58!7.33!Rarg;;chr2:115890469..115890485,-!p7@Meis2!0.58!4.95!Meis2;;chr2:74542918..74542971,+!p1@Hoxd8!0.58!4.58!Hoxd8;;chr1:69732511..69732540,-!p2@Ikzf2!0.58!3.85!Ikzf2;;chr6:39068181..39068206,-!p3@Parp12!0.57!6.41!Parp12;;chr19:28754600..28754612,-!p2@Glis3!0.57!4.76!Glis3;;chr1:93698095..93698113,+!p3@Twist2!0.57!3.48!Twist2;;ch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+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006603,UBERON:0005795,UBERON:0010316
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 39: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011440
 |is_obsolete=
+|library_id=CNhs10509
+|library_id_phase_based=2:CNhs10509
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;92
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;92
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/uterus%252c%2520adult.CNhs10509.92-27E5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/uterus%252c%2520adult.CNhs10509.92-27E5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/uterus%252c%2520adult.CNhs10509.92-27E5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/uterus%252c%2520adult.CNhs10509.92-27E5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/uterus%252c%2520adult.CNhs10509.92-27E5.mm9.nobarcode.rdna.fa.gz
 |name=uterus, adult
 |namespace=FANTOM5
@@ Line 44: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10509,LSID648,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.061368063367215,0,0,0,0,0.0143627607101675,0.122588498232959,0,0.00341335928395735,0,0,0.467613411274321,0,0,0,0,0,0,0.0468065877363109,0,0,0,0,0,0,0,0,0,0,0,0,0,0.300544590285877,0,0.135547100918658,0,0,0,0.0710241258420576,0.0111077339133303,-0.130827714116259,-0.410495874501469,0.182150419240514,0,0,0,0,0,0,0,0,0,0,0.0730404042754446,0,0.292321771851749,0,0,0,0,0,0,0,0.0730404042754446,0.0730404042754446,0.00712506090478571,0.0310662306811613,0.0476766620758033,-0.0225439418524249,0.0456951761544419,0,0.0730404042754446,0.00023315907553112,0.00535520189494476,0,0,0,0.127780343618331,-0.23758756132538,0.159868343778978,0,0,0,0,0,0,-0.116433714462344,-0.329431361237453,-0.106939985711125,0,0,0,0,0
 |rna_box=27
 |rna_catalog_number=
@@ Line 56: / Line 73: @@
 |rna_rin=
 |rna_sample_type=
-|rna_tube_id=27E5
+|rna_tube_id=2.70E+06
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 79: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:92-27E5;search_select_hide=table117:92-27E5
 }}

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FF:92-27E5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:21, 4 June 2020

CNhs10509

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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