FF:590-15F5: Difference between revisions

Latest revision as of 19:18, 4 June 2020

Name:	uterus, adult pregnant day19
Species:	Mouse (Mus musculus)
Library ID:	CNhs10497
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	uterus
dev stage	19 days 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		SAMD00005325

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10497		CAGE		DRX009128		DRR010002

Accession ID Mm9

Library id		BAM		CTSS
CNhs10497		DRZ001427		DRZ002810

Accession ID Mm10

Library id		BAM		CTSS
CNhs10497		DRZ012777		DRZ014160

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

CNhs10497

0	0
1	0
10	0
100	0
1000	0.0747
1001	0.0216
1002	-0.00992
1003	0.0253
1004	0.243
1005	0.217
1006	0
1007	-0.0428
1008	0
1009	0.435
101	-0.0296
1010	0
1011	-0.0328
1012	0
1013	0.352
1014	-0.043
1015	-0.157
1016	-0.0319
1017	0
1018	0.0747
1019	0
102	0
1020	0
1021	0
1022	0
1023	0
1024	0.148
1025	0.086
1026	0.109
1027	-0.0147
1028	0
1029	0.108
103	0.523
1030	0
1031	0.447
1032	0.00456
1033	0
1034	0.0747
1035	0
1036	-0.168
1037	0
1038	0.00121
1039	-0.0765
104	0
1040	0.309
1041	0.194

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: CNhs10497

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0132
MA0003.1	MA0003.1	0.0902
MA0004.1	MA0004.1	0.955
MA0006.1	MA0006.1	0.0817
MA0007.1	MA0007.1	0.157
MA0009.1	MA0009.1	0.275
MA0014.1	MA0014.1	0.773
MA0017.1	MA0017.1	0.247
MA0018.2	MA0018.2	0.0622
MA0019.1	MA0019.1	0.199
MA0024.1	MA0024.1	4.64425e-5
MA0025.1	MA0025.1	0.459
MA0027.1	MA0027.1	0.00221
MA0028.1	MA0028.1	0.0168
MA0029.1	MA0029.1	0.731
MA0030.1	MA0030.1	0.0256
MA0031.1	MA0031.1	0.00889
MA0035.2	MA0035.2	0.155
MA0038.1	MA0038.1	0.75
MA0039.2	MA0039.2	0.00174
MA0040.1	MA0040.1	0.586
MA0041.1	MA0041.1	0.677
MA0042.1	MA0042.1	0.0586
MA0043.1	MA0043.1	0.0172
MA0046.1	MA0046.1	0.228
MA0047.2	MA0047.2	0.984
MA0048.1	MA0048.1	0.867
MA0050.1	MA0050.1	4.3844e-7
MA0051.1	MA0051.1	5.18446e-5
MA0052.1	MA0052.1	0.0851
MA0055.1	MA0055.1	0.3
MA0057.1	MA0057.1	0.198
MA0058.1	MA0058.1	0.582
MA0059.1	MA0059.1	0.601
MA0060.1	MA0060.1	1.18828e-9
MA0061.1	MA0061.1	0.108
MA0062.2	MA0062.2	0.0236
MA0065.2	MA0065.2	0.896
MA0066.1	MA0066.1	0.828
MA0067.1	MA0067.1	0.733
MA0068.1	MA0068.1	0.182
MA0069.1	MA0069.1	0.925
MA0070.1	MA0070.1	0.526
MA0071.1	MA0071.1	0.499
MA0072.1	MA0072.1	0.408
MA0073.1	MA0073.1	0.533
MA0074.1	MA0074.1	0.649
MA0076.1	MA0076.1	0.00833
MA0077.1	MA0077.1	0.00955
MA0078.1	MA0078.1	0.0186
MA0079.2	MA0079.2	0.00138
MA0080.2	MA0080.2	5.95874e-7
MA0081.1	MA0081.1	0.536
MA0083.1	MA0083.1	1.94906e-9
MA0084.1	MA0084.1	0.906
MA0087.1	MA0087.1	0.987
MA0088.1	MA0088.1	0.428
MA0090.1	MA0090.1	0.00791
MA0091.1	MA0091.1	0.719
MA0092.1	MA0092.1	0.408
MA0093.1	MA0093.1	0.903
MA0099.2	MA0099.2	3.42072e-18
MA0100.1	MA0100.1	0.0523
MA0101.1	MA0101.1	0.283
MA0102.2	MA0102.2	0.566
MA0103.1	MA0103.1	0.933
MA0104.2	MA0104.2	0.18
MA0105.1	MA0105.1	0.762
MA0106.1	MA0106.1	0.127
MA0107.1	MA0107.1	0.0274
MA0108.2	MA0108.2	0.00172
MA0111.1	MA0111.1	0.565
MA0112.2	MA0112.2	6.33075e-4
MA0113.1	MA0113.1	0.624
MA0114.1	MA0114.1	0.186
MA0115.1	MA0115.1	0.343
MA0116.1	MA0116.1	0.856
MA0117.1	MA0117.1	0.662
MA0119.1	MA0119.1	0.415
MA0122.1	MA0122.1	0.756
MA0124.1	MA0124.1	0.12
MA0125.1	MA0125.1	0.189
MA0131.1	MA0131.1	0.23
MA0135.1	MA0135.1	0.935
MA0136.1	MA0136.1	0.00177
MA0137.2	MA0137.2	0.0132
MA0138.2	MA0138.2	0.602
MA0139.1	MA0139.1	0.436
MA0140.1	MA0140.1	0.0404
MA0141.1	MA0141.1	0.192
MA0142.1	MA0142.1	0.456
MA0143.1	MA0143.1	0.418
MA0144.1	MA0144.1	8.79137e-5
MA0145.1	MA0145.1	0.00277
MA0146.1	MA0146.1	0.402
MA0147.1	MA0147.1	0.153
MA0148.1	MA0148.1	0.897
MA0149.1	MA0149.1	0.539
MA0150.1	MA0150.1	0.0592
MA0152.1	MA0152.1	0.753
MA0153.1	MA0153.1	0.812
MA0154.1	MA0154.1	0.0248
MA0155.1	MA0155.1	0.547
MA0156.1	MA0156.1	2.49691e-4
MA0157.1	MA0157.1	0.00487
MA0159.1	MA0159.1	0.854
MA0160.1	MA0160.1	0.232
MA0162.1	MA0162.1	0.481
MA0163.1	MA0163.1	0.788
MA0164.1	MA0164.1	0.89
MA0258.1	MA0258.1	0.0398
MA0259.1	MA0259.1	0.14

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: CNhs10497

Novel motif	Logo	P-value
1	1	0.937
10	10	0.581
100	100	0.312
101	101	0.642
102	102	0.311
103	103	0.486
104	104	0.28
105	105	0.16
106	106	7.33772e-4
107	107	0.00783
108	108	0.683
109	109	0.0512
11	11	0.902
110	110	0.458
111	111	0.657
112	112	0.0187
113	113	0.533
114	114	0.902
115	115	0.656
116	116	0.314
117	117	0.238
118	118	0.128
119	119	0.248
12	12	0.322
120	120	0.272
121	121	0.299
122	122	0.986
123	123	0.155
124	124	0.667
125	125	0.753
126	126	0.31
127	127	0.475
128	128	0.0272
129	129	0.224
13	13	0.151
130	130	0.711
131	131	0.195
132	132	0.272
133	133	0.426
134	134	0.744
135	135	0.456
136	136	0.219
137	137	0.304
138	138	0.027
139	139	0.1
14	14	0.479
140	140	0.0219
141	141	0.883
142	142	0.278
143	143	0.196
144	144	0.5
145	145	0.27
146	146	0.402
147	147	0.0336
148	148	0.047
149	149	0.00456
15	15	0.0616
150	150	0.152
151	151	0.652
152	152	0.0112
153	153	0.523
154	154	0.941
155	155	0.783
156	156	0.00245
157	157	0.668
158	158	0.495
159	159	0.807
160	160	0.272
161	161	0.262
162	162	0.759
163	163	0.94
164	164	0.22
165	165	0.146
166	166	0.0394
167	167	0.157
168	168	0.0874
169	169	0.0219
17	17	0.186
18	18	0.656
19	19	0.00893
2	2	0.0453
20	20	0.496
21	21	0.275
22	22	0.151
23	23	0.101
24	24	0.0219
25	25	0.308
26	26	0.136
27	27	0.688
28	28	0.984
29	29	0.777
3	3	0.998
30	30	0.376
31	31	0.964
32	32	0.0832
33	33	0.649
34	34	0.513
35	35	0.0566
36	36	0.097
37	37	0.0902
38	38	0.429
39	39	0.321
4	4	0.962
40	40	0.317
41	41	0.474
42	42	0.885
43	43	0.308
44	44	0.751
45	45	0.104
46	46	0.447
47	47	0.511
48	48	0.881
49	49	0.823
5	5	0.983
50	50	0.138
51	51	0.582
52	52	0.0372
53	53	0.127
54	54	0.503
55	55	0.607
56	56	0.67
57	57	0.628
58	58	0.986
59	59	0.135
6	6	0.364
60	60	0.0852
61	61	0.292
62	62	0.843
63	63	0.204
64	64	0.651
65	65	0.255
66	66	0.539
67	67	0.106
68	68	0.809
69	69	0.479
7	7	0.92
70	70	0.0144
71	71	0.723
72	72	0.443
73	73	0.0659
74	74	0.341
75	75	0.823
76	76	0.163
77	77	0.0443
78	78	0.106
79	79	0.895
8	8	0.345
80	80	0.979
81	81	0.63
82	82	0.201
83	83	0.112
84	84	0.816
85	85	0.21
86	86	0.752
87	87	0.196
88	88	0.964
89	89	0.388
9	9	0.26
90	90	0.0155
91	91	0.149
92	92	0.129
93	93	0.767
94	94	0.0875
95	95	0.453
96	96	0.259
97	97	0.426
98	98	0.694
99	99	0.324

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: CNhs10497

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011389 mouse uterus- adult pregnant day19 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)
0006834 (uterus or analog)
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)
0000317 (mouse pregnant tissue sample)
0000323 (mouse pregnant day 18)
0011389 (mouse uterus- adult pregnant day19 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:0006834,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@SAMD00005325
+|accession_numbers=CAGE;DRX009128;DRR010002;DRZ001427;DRZ002810;DRZ012777;DRZ014160
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000995,UBERON:0006834,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:0000317,FF:0000323,FF:0011389
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr10:5636354..5636373,-!p2@Esr1!2.25!175.30!Esr1;;chr10:5636374..5636421,-!p1@Esr1!2.03!130.63!Esr1;;chr5:31271028..31271040,+!p1@Tcf23!2.01!102.10!Tcf23;;chr6:52195763..52195792,-!p2@Hoxa11!1.98!93.65!Hoxa11;;chr6:52195795..52195825,-!p1@Hoxa11!1.97!91.96!Hoxa11;;chr9:8900459..8900489,+!p1@Pgr!1.92!81.45!Pgr;;chr8:59799772..59799789,+!p1@Hand2!1.84!189.37!Hand2;;chr6:52190668..52190682,-!p3@Hoxa10!1.82!65.13!Hoxa10;;chr2:24331085..24331100,-!p1@Pax8!1.81!62.87!Pax8;;chr6:52190467..52190500,-!p1@Hoxa10!1.67!46.17!Hoxa10;;chr11:83664365..83664383,+!p1@Hnf1b!1.63!41.48!Hnf1b;;chr7:147129712..147129774,+!p1@Utf1!1.61!39.98!Utf1;;chr6:52184901..52184959,-!p2@Hoxa10!1.56!35.47!Hoxa10;;chr2:104966766..104966786,+!p1@Wt1!1.54!52.55!Wt1;;chr6:38097380..38097407,-!p6@D630045J12Rik!1.53!32.66!D630045J12Rik;;chr19:59533221..59533271,+!p1@Emx2!1.49!36.79!Emx2;;chr11:5761979..5761992,+!p2@Aebp1!1.48!57.62!Aebp1;;chr11:5761889..5761969,+!p1@Aebp1!1.44!1054.78!Aebp1;;chr2:103143336..103143367,-!p1@Ehf!1.42!40.54!Ehf;;chr6:52195747..52195762,-!p3@Hoxa11!1.42!25.34!Hoxa11;;chr2:74529970..74529997,+!p1@Hoxd10!1.40!23.84!Hoxd10;;chr7:147129777..147129814,+!p2@Utf1!1.39!23.46!Utf1;;chr10:5636678..5636725,-!p6@Esr1!1.36!21.96!Esr1;;chr9:8900409..8900425,+!p2@Pgr!1.36!21.77!Pgr;;chr1:137155026..137155042,-!p1@Elf3!1.35!120.49!Elf3;;chr9:8899828..8899855,+!p3@Pgr!1.29!18.58!Pgr;;chr12:75002389..75002406,+!p4@Hif1a!1.20!14.83!Hif1a;;chr15:35225845..35225867,+!p1@Osr2!1.18!35.47!Osr2;;chr1:170361678..170361689,-!p13@Pbx1!1.18!17.27!Pbx1;;chr6:38097421..38097440,-!p7@D630045J12Rik!1.18!14.26!D630045J12Rik;;chr19:19185671..19185693,-!p1@Rorb!1.16!32.47!Rorb;;chr2:74517742..74517758,+!p2@Hoxd11!1.16!13.33!Hoxd11;;chr11:96153767..96153822,+!p1@Hoxb6!1.14!19.89!Hoxb6;;chr5:31271010..31271019,+!p2@Tcf23!1.13!12.39!Tcf23;;chr2:74549968..74549996,+!p1@Hoxd3!1.12!15.20!Hoxd3;;chr9:8900490..8900502,+!p4@Pgr!1.12!12.20!Pgr;;chr2:173044380..173044432,-!p1@Zbp1!1.11!28.15!Zbp1;;chr9:48644037..48644067,-!p2@Zbtb16!1.08!27.78!Zbtb16;;chr2:74529998..74530020,+!p2@Hoxd10!1.08!11.07!Hoxd10;;chr6:52184880..52184893,-!p6@Hoxa10!1.06!10.51!Hoxa10;;chr7:148452314..148452329,-!p1@Irf7!1.05!72.07!Irf7;;chr6:52190858..52190873,-!p4@Hoxa10!1.05!10.32!Hoxa10;;chr10:5636336..5636347,-!p9@Esr1!1.05!10.32!Esr1;;chr1:165243792..165243808,-!p1@Prrx1!1.04!35.28!Prrx1;;chr2:104966874..104966907,+!p2@Wt1!1.04!9.95!Wt1;;chr5:144951153..144951203,+!p1@Bhlha15!1.03!14.26!Bhlha15;;chr6:128250471..128250519,-!p1@Tead4!1.02!18.96!Tead4;;chr11:96160426..96160443,+!p2@Hoxb6!1.01!9.20!Hoxb6;;chr16:92697560..92697592,-!p2@Runx1!0.98!54.99!Runx1;;chr10:22539932..22539956,-!p1@Tcf21!0.98!23.27!Tcf21;;chr11:96143666..96143725,+!p1@Hoxb8!0.98!9.95!Hoxb8;;chr19:59532915..59532940,+!p5@Emx2!0.98!8.63!Emx2;;chr6:52190656..52190667,-!p7@Hoxa10!0.98!8.45!Hoxa10;;chr6:53523358..53523388,+!p1@Creb5!0.97!102.85!Creb5;;chr6:6832076..6832092,-!p1@Dlx5!0.97!9.76!Dlx5;;chr2:104966933..104966966,+!p3@Wt1!0.96!8.07!Wt1;;chr4:134676555..134676575,+!p2@Runx3!0.95!7.88!Runx3;;chr9:8900563..8900574,+!p5@Pgr!0.93!7.51!Pgr;;chr19:5447886..5447905,+!p1@Fosl1!0.92!7.32!Fosl1;;chr17:87153462..87153473,+!p3@Epas1!0.91!27.96!Epas1;;chr5:125538737..125538781,-!p2@Ncor2!0.91!26.65!Ncor2;;chr17:87153240..87153254,+!p1@Epas1!0.89!140.20!Epas1;;chr17:87153505..87153516,+!p6@Epas1!0.89!9.57!Epas1;;chr6:38097441..38097447,-!p13@D630045J12Rik!0.89!6.76!D630045J12Rik;;chr10:88969376..88969395,-!p1@Nr1h4!0.89!6.76!Nr1h4;;chr16:43363190..43363242,+!p2@Zbtb20!0.87!20.46!Zbtb20;;chr6:52176164..52176195,-!p1@Hoxa9!0.87!8.07!Hoxa9;;chr2:104966662..104966673,+!p4@Wt1!0.87!6.38!Wt1;;chr17:87153028..87153049,+!p2@Epas1!0.85!133.25!Epas1;;chr14:99697871..99697934,+!p1@Klf5!0.85!129.69!Klf5;;chr2:44965856..44965896,-!p5@Zeb2!0.85!25.15!Zeb2;;chr2:9800207..9800234,-!p1@Gata3!0.85!19.71!Gata3;;chr11:5761871..5761882,+!p3@Aebp1!0.85!16.52!Aebp1;;chr2:74536026..74536039,+!p1@Hoxd9!0.85!6.01!Hoxd9;;chr6:88148650..88148669,+!p1@Gata2!0.84!52.55!Gata2;;chr17:87153519..87153533,+!p5@Epas1!0.84!9.01!Epas1;;chr16:15887371..15887385,+!p1@Cebpd!0.83!209.83!Cebpd;;chr17:87153440..87153451,+!p4@Epas1!0.83!12.20!Epas1;;chr2:173044357..173044377,-!p2@Zbp1!0.83!8.45!Zbp1;;chr11:96147952..96147967,+!p1@Hoxb7!0.83!7.32!Hoxb7;;chr2:74520343..74520383,+!p4@Hoxd11!0.83!5.82!Hoxd11;;chr10:5734525..5734569,-!p3@Esr1!0.82!9.57!Esr1;;chr6:38097449..38097457,-!p16@D630045J12Rik!0.82!5.63!D630045J12Rik;;chr19:59533163..59533185,+!p3@Emx2!0.82!5.63!Emx2;;chr4:84320893..84320910,-!p1@Bnc2!0.81!12.76!Bnc2;;chr2:74550015..74550057,+!p2@Hoxd3!0.81!5.44!Hoxd3;;chr10:5734677..5734702,-!p4@Esr1!0.80!5.26!Esr1;;chr9:118387969..118387984,+!p2@Eomes!0.80!5.26!Eomes;;chr5:32438395..32438406,+!p3@Fosl2!0.79!8.26!Fosl2;;chr7:77511311..77511352,-!p4@Nr2f2!0.78!10.70!Nr2f2;;chr15:102828658..102828678,+!p1@Hoxc6!0.78!5.07!Hoxc6;;chr11:96143962..96144035,+!p2@Hoxb8!0.77!4.88!Hoxb8;;chr8:123260252..123260264,+!p1@Irf8!0.76!36.41!Irf8;;chr15:97738692..97738747,-!p1@Vdr!0.76!28.72!Vdr;;chr5:104121453..104121479,+!p4@Aff1!0.76!23.46!Aff1;;chr10:44178521..44178557,-!p1@Prdm1!0.76!8.82!Prdm1;;chr2:169458799..169458832,+!p5@Tshz2!0.76!8.26!Tshz2;;chr9:36954842..36954908,-!p1@Pknox2!0.75!60.25!Pknox2;;chr6:144730427..144730508,-!p1@Sox5!0.75!31.53!Sox5;;chr10:30375579..30375616,-!p3@Ncoa7!0.75!11.82!Ncoa7;;chr1:170361695..170361722,-!p12@Pbx1!0.75!6.01!Pbx1;;chr12:75002335..75002352,+!p7@Hif1a!0.74!4.50!Hif1a;;chr9:118387300..118387317,+!p1@Eomes!0.74!4.50!Eomes;;chr2:74549945..74549965,+!p4@Hoxd3!0.74!4.50!Hoxd3;;chr2:74517609..74517621,+!p3@Hoxd11!0.73!4.32!Hoxd11;;chr12:75002357..75002378,+!p6@Hif1a!0.73!4.32!Hif1a;;chr11:16908650..16908690,-!p1@Plek!0.72!29.09!Plek;;chr16:14705961..14705978,+!p2@Snai2!0.72!21.96!Snai2;;chr6:108610766..108610781,+!p2@Bhlhe40!0.72!8.07!Bhlhe40;;chr6:53018556..53018650,-!p1@Jazf1!0.71!30.78!Jazf1;;chr16:43363152..43363186,+!p3@Zbtb20!0.71!10.32!Zbtb20;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!0.71!8.26!Zbtb38;;chr2:103143315..103143328,-!p2@Ehf!0.71!4.13!Ehf;;chr19:44831390..44831414,+!p1@Pax2!0.71!4.13!Pax2;;chr2:74549915..74549930,+!p6@Hoxd3!0.71!4.13!Hoxd3;;chr1:39250584..39250643,+!p1@Npas2!0.70!22.71!Npas2;;chr10:44178493..44178520,-!p3@Prdm1!0.70!5.82!Prdm1;;chr6:128250380..128250442,-!p2@Tead4!0.70!5.26!Tead4;;chr1:193007123..193007139,-!p1@Atf3!0.69!24.40!Atf3;;chr2:74542918..74542971,+!p1@Hoxd8!0.69!6.19!Hoxd8;;chr14:22808697..22808715,-!p4@Zfp503!0.69!4.69!Zfp503;;chr5:31270977..31270988,+!p3@Tcf23!0.69!3.94!Tcf23;;chr2:105003138..105003155,+!p13@Wt1!0.69!3.94!Wt1;;chr19:5447692..5447711,+!p2@Fosl1!0.69!3.94!Fosl1;;chr1:170362273..170362317,-!p1@Pbx1!0.68!124.25!Pbx1;;chr2:152758901..152758925,-!p1@Foxs1!0.68!18.77!Foxs1;;chr6:38204087..38204108,-!p2@D630045J12Rik!0.68!12.39!D630045J12Rik;;chr1:170361730..170361769,-!p7@Pbx1!0.68!9.38!Pbx1;;chr5:77543897..77543911,-!p2@Hopx!0.68!7.88!Hopx;;chr9:48644013..48644027,-!p5@Zbtb16!0.68!4.69!Zbtb16;;chr9:98855692..98855710,+!p2@Foxl2!0.68!3.75!Foxl2;;chr2:105003277..105003280,+!p5@Wt1!0.68!3.75!Wt1;;chr1:170362242..170362256,-!p3@Pbx1!0.67!30.59!Pbx1;;chr7:77511234..77511302,-!p2@Nr2f2!0.67!27.96!Nr2f2;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.67!11.82!Tfcp2l1;;chr6:51382677..51382783,+!p1@Nfe2l3!0.67!10.32!Nfe2l3;;chr4:55545337..55545357,-!p1@Klf4!0.66!61.18!Klf4;;chrX:7339938..7339963,+!p1@Tfe3!0.66!20.65!Tfe3;;chr6:97757008..97757061,+!p1@Mitf!0.66!17.27!Mitf;;chr9:48644306..48644364,-!p1@Zbtb16!0.66!16.52!Zbtb16;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.66!6.57!Hoxb2;;chr6:128250521..128250543,-!p3@Tead4!0.66!6.01!Tead4;;chr6:38097369..38097379,-!p11@D630045J12Rik!0.66!3.57!D630045J12Rik;;chr9:96653072..96653154,-!p1@Zbtb38!0.65!10.32!Zbtb38;;chr6:88143711..88143717,+!p2@Gata2!0.64!5.82!Gata2;;chr10:44178375..44178390,-!p2@Prdm1!0.64!4.88!Prdm1;;chr5:148118639..148118715,-!p1@Cdx2!0.64!3.38!Cdx2;;chr10:67599319..67599360,-!p2@Arid5b!0.63!42.79!Arid5b;;chr18:69681439..69681456,+!p7@Tcf4!0.63!9.38!Tcf4;;chr18:76219118..76219155,+!p1@Zbtb7c!0.63!6.19!Zbtb7c;;chr10:44178474..44178487,-!p4@Prdm1!0.63!5.07!Prdm1;;chr8:74842952..74842970,+!p1@Klf2!0.62!255.44!Klf2;;chr3:52072329..52072346,+!p1@Foxo1!0.62!57.43!Foxo1;;chr2:115890469..115890485,-!p7@Meis2!0.62!5.44!Meis2;;chr16:92697354..92697362,-!p3@Runx1!0.62!5.26!Runx1;;chr10:88996336..88996380,-!p2@Nr1h4!0.62!4.13!Nr1h4;;chr19:59533429..59533470,+!p4@Emx2!0.62!3.19!Emx2;;chr18:36441119..36441158,+!p2@Pura!0.61!8.45!Pura;;chr16:43363968..43364001,+!p7@Zbtb20!0.61!6.19!Zbtb20;;chr6:108610513..108610528,+!p3@Bhlhe40!0.61!5.07!Bhlhe40;;chr16:95924055..95924077,+!p1@Ets2!0.60!198.94!Ets2;;chr11:96690797..96690813,-!p1@Nfe2l1!0.60!68.88!Nfe2l1;;chr1:52176315..52176343,+!p1@Stat1!0.60!52.36!Stat1;;chr5:32438831..32438878,+!p1@Fosl2!0.60!36.79!Fosl2;;chr5:120121020..120121049,+!p1@Tbx3!0.60!21.96!Tbx3;;chr4:84321300..84321315,-!p2@Bnc2!0.60!3.75!Bnc2;;chr2:74543397..74543435,+!p2@Hoxd8!0.60!3.00!Hoxd8;;chr11:96143843..96143868,+!p3@Hoxb8!0.60!3.00!Hoxb8;;chr5:104121391..104121450,+!p3@Aff1!0.59!17.83!Aff1;;chr19:28754692..28754757,-!p1@Glis3!0.59!14.26!Glis3;;chr10:67000609..67000625,+!p1@Egr2!0.59!7.69!Egr2;;chr5:32438894..32438908,+!p2@Fosl2!0.59!6.94!Fosl2;;chr11:98636531..98636559,-!p1@Nr1d1!0.58!19.14!Nr1d1;;chr2:160698288..160698358,-!p3@Zhx3!0.58!10.13!Zhx3;;chr3:30408674..30408716,-!p2@Mecom!0.58!5.07!Mecom;;chr5:137042338..137042372,-!p5@Cux1!0.58!2.82!Cux1;;chr7:31377960..31377973,-!p3@Zbtb32!0.58!2.82!Zbtb32;;chr10:5734660..5734670,-!p7@Esr1!0.58!2.82!Esr1;;chr11:5420954..5420969,+!p2@Xbp1!0.57!41.85!Xbp1;;chr18:83079981..83080037,+!p6@Zfp516!0.57!5.26!Zfp516;;chr16:14705925..14705951,+!p1@Snai2!0.56!22.71!Snai2;;chr1:93698030..93698064,+!p1@Twist2!0.56!6.01!Twist2;;chr6:52163319..52163342,-!p1@Hoxa3!0.56!4.13!Hoxa3;;chr2:180069370..180069409,-!p1@Gata5!0.56!3.19!Gata5;;chr19:59534052..59534083,+!p8@Emx2!0.56!2.63!Emx2;;chr2:74535796..74535808,+!p3@Hoxd9!0.56!2.63!Hoxd9;;chr16:55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k1;;chr5:65194752..65194769,+!p1@Klf3!0.26!54.80!Klf3;;chr11:60034052..60034134,-!p2@Srebf1!0.26!38.29!Srebf1;;chr11:53583544..53583559,+!p1@Irf1!0.26!26.84!Irf1;;chr4:122911086..122911112,+!p1@Heyl!0.26!18.77!Heyl;;chr17:34730333..34730362,+!p2@Pbx2!0.26!5.82!Pbx2;;chr17:23004125..23004157,-!p3@Zfp945!0.26!4.32!Zfp945;;chr11:102178937..102178956,-!p5@Ubtf!0.26!4.32!Ubtf;;chr4:148178559..148178603,+!p1@Casz1!0.26!3.94!Casz1;;chr1:186556323..186556370,-!p2@Hlx!0.26!3.75!Hlx;;chr12:86940300..86940312,+!p2@Jdp2!0.26!3.19!Jdp2;;chr18:55149735..55149776,-!p4@Zfp608!0.26!3.19!Zfp608;;chr1:64167811..64167826,-!p5@Klf7!0.26!2.82!Klf7;;chr16:43619057..43619078,+!p8@Zbtb20!0.26!2.63!Zbtb20;;chr2:91035197..91035237,-!p1@Nr1h3!0.26!2.63!Nr1h3;;chr15:61818965..61819046,+!p3@Myc!0.26!2.06!Myc;;chr6:98978868..98978918,-!p6@Foxp1!0.26!2.06!Foxp1;;chr14:65568651..65568657,-!p4@Hmbox1!0.26!1.69!Hmbox1;;chr6:53523346..53523353,+!p3@Creb5!0.26!1.50!Creb5;;chr18:5593564..5593584,+!p2@Zeb1!0.26!1.13!Zeb1;;chr1:87546602..87546617,+!p2@Sp100!0.26!1.13!Sp100;;chr11:98636321..98636332,-!p8@Nr1d1!0.26!1.13!Nr1d1;;chr5:137043112..137043157,-!p1@Cux1!0.25!148.08!Cux1;;chr12:75008961..75009002,+!p1@Hif1a!0.25!96.66!Hif1a;;chr10:67741461..67741483,-!p1@Arid5b!0.25!43.17!Arid5b;;chr9:30838206..30838285,+!p2@Zbtb44!0.25!20.46!Zbtb44;;chr11:72990702..72990737,+!p1@LOC100047518,p1@Tax1bp3!0.25!15.01!Tax1bp3;;chr11:53164378..53164392,+!p2@Aff4!0.25!13.51!Aff4;;chr10:114821444..114821491,-!p1@Thap2!0.25!12.20!Thap2;;chr1:194979315..194979359,+!p1@Irf6!0.25!9.20!Irf6;;chr5:140267476..140267493,+!p1@Mafk!0.25!8.45!Mafk;;chr2:168415815..168415872,-!p1@Nfatc2!0.25!8.07!Nfatc2;;chr10:79390075..79390115,+!p2@Arid3a!0.25!4.69!Arid3a;;chr13:67830046..67830082,-!p2@Zfp71-rs1!0.25!3.94!Zfp71-rs1;;chr2:169458838..169458859,+!p4@Tshz2!0.25!2.44!Tshz2;;chr14:56443698..56443726,+!p2@Nfatc4!0.25!2.25!Nfatc4;;chr11:44430989..44431015,+!p4@Ebf1!0.25!2.06!Ebf1;;chr4:134708451..134708469,+!p1@Runx3!0.25!2.06!Runx3;;chr7:135020469..135020485,+!p4@Zfp646!0.25!2.06!Zfp646;;chr5:120121169..120121171,+!p4@Tbx3!0.25!2.06!Tbx3;;chr6:115311270..115311298,+!p1@Pparg!0.25!1.50!Pparg;;chr8:87237692..87237703,-!p12@Nfix!0.25!1.31!Nfix;;chr15:61817095..61817111,+!p1@Myc!0.24!94.59!Myc;;chr7:88138544..88138584,+!p1@Zfp592!0.24!38.66!Zfp592;;chr4:149943647..149943707,+!p2@Rere!0.24!27.78!Rere;;chr5:123844791..123844835,+!p1@Mlxip!0.24!26.46!Mlxip;;chr11:101087728..101087769,-!p1@Ezh1!0.24!22.90!Ezh1;;chr14:76814539..76814600,+!p2@Tsc22d1!0.24!21.96!Tsc22d1;;chr2:115891534..115891589,-!p1@Meis2!0.24!21.58!Meis2;;chr17:21625946..21626024,+!p1@Zfp53!0.24!16.70!Zfp53;;chr3:98186361..98186443,+!p1@Zfp697!0.24!15.01!Zfp697;;chr18:69504157..69504184,+!p3@Tcf4!0.24!9.20!Tcf4;;chr14:64562503..64562524,+!p1@Sox7!0.24!8.63!Sox7;;chr19:46379199..46379301,+!p1@Nfkb2!0.24!8.26!Nfkb2;;chr4:124805092..124805135,-!p2@Zc3h12a!0.24!6.01!Zc3h12a;;chr17:84587167..84587239,-!p2@Zfp36l2!0.24!4.69!Zfp36l2;;chr7:88138585..88138600,+!p2@Zfp592!0.24!3.75!Zfp592;;chr1:172797864..172797873,-!p2@Atf6!0.24!3.57!Atf6;;chr8:111227641..111227672,+!p@chr8:111227641..111227672,+!0.24!3.38!Zfhx3;;chr13:15555670..15555771,+!p2@Gli3!0.24!3.19!Gli3;;chr11:53583960..53584007,+!p2@Irf1!0.24!2.63!Irf1;;chr6:72185553..72185612,-!p2@Atoh8!0.24!2.25!Atoh8;;chr7:130644017..130644092,-!p1@Zkscan2!0.24!2.25!Zkscan2;;chr5:120120667..120120685,+!p3@Tbx3!0.24!2.25!Tbx3;;chr15:61818593..61818614,+!p4@Myc!0.24!1.88!Myc;;chr13:53568104..53568156,-!p1@Msx2!0.24!1.50!Msx2;;chr11:98636508..98636524,-!p3@Nr1d1!0.24!1.13!Nr1d1;;chr19:23215430..23215441,+!p7@Klf9!0.24!1.13!Klf9;;chr15:79178029..79178044,+!p4@Maff!0.24!1.13!Maff;;chr16:14705668..14705683,+!p3@Snai2!0.24!0.75!Snai2;;chr6:6813551..6813570,+!p5@Dlx6!0.24!0.75!Dlx6;;chr5:144951136..144951139,+!p2@Bhlha15!0.24!0.75!Bhlha15;;chr3:17954392..17954407,+!p2@Bhlhe22!0.24!0.75!Bhlhe22;;chr2:74535720..74535731,+!p6@Hoxd9!0.24!0.75!Hoxd9;;chr2:74529942..74529953,+!p4@Hoxd10!0.24!0.75!Hoxd10;;chr3:32264814..32264835,-!p5@Zmat3!0.24!0.75!Zmat3;;chr4:32334732..32334739,+!p7@Bach2!0.24!0.75!Bach2;;chr4:107107224..107107259,+!p2@Glis1!0.24!0.75!Glis1;;chr2:104966636..104966641,+!p12@Wt1!0.24!0.75!Wt1;;chr2:104966983..104966990,+!p11@Wt1!0.24!0.75!Wt1;;chr2:104966909..104966920,+!p8@Wt1!0.24!0.75!Wt1;;chr10:5734907..5734920,-!p11@Esr1!0.24!0.75!Esr1;;chr11:96685444..96685473,-!p5@Nfe2l1!0.24!0.75!Nfe2l1;;chr11:98822047..98822072,+!p9@Rara!0.24!0.75!Rara;;chr10:5734582..5734595,-!p10@Esr1!0.24!0.75!Esr1;;chr8:87232404..87232415,-!p22@Nfix!0.24!0.75!Nfix;;chr13:53568191..53568219,-!p2@Msx2!0.24!0.75!Msx2;;chr13:83712735..83712761,+!p9@Mef2c!0.24!0.75!Mef2c;;chr15:37163041..37163061,+!p5@Grhl2!0.24!0.75!Grhl2;;chr12:87027663..87027678,+!p2@Batf!0.24!0.75!Batf;;chr18:35020854..35020869,+!p1@Egr1!0.23!58.93!Egr1;;chr2:32218712..32218782,+!p2@Ciz1!0.23!15.01!Ciz1;;chr2:37278415..37278478,-!p1@Rc3h2!0.23!13.14!Rc3h2;;chr12:100631123..100631206,-!p3@Foxn3!0.23!8.07!Foxn3;;chr9:32443818..32443854,+!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+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006603,UBERON:0005795,UBERON:0010316
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 38: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011389
 |is_obsolete=
+|library_id=CNhs10497
+|library_id_phase_based=2:CNhs10497
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;590
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;590
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/uterus%252c%2520adult%2520pregnant%2520day19.CNhs10497.590-15F5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/uterus%252c%2520adult%2520pregnant%2520day19.CNhs10497.590-15F5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/uterus%252c%2520adult%2520pregnant%2520day19.CNhs10497.590-15F5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/uterus%252c%2520adult%2520pregnant%2520day19.CNhs10497.590-15F5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/uterus%252c%2520adult%2520pregnant%2520day19.CNhs10497.590-15F5.mm9.nobarcode.rdna.fa.gz
 |name=uterus, adult pregnant day19
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10497,LSID648,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.00381397835643939,0,0,0,0,0.0176947984364082,0.166358262585135,0,0,0,0,0.109632915288134,0,0,0.287446174218998,0,0,0,0.0955528233364239,0,0,0,0,0,0.0747003483965965,0,0,0,0,0,0,0,-0.0218804870130197,0,0,0,0,0,0.1692754829271,0,-0.135546226739006,-0.381834498454113,-0.0266494886167132,0.0747003483965965,0,0,0,0,0,0,0,0,0,0.138417952808354,0,0.221440626655558,0.910193848766884,0,0,0,-0.0428469550828748,0,0.0373501741982983,0,0,0,0.102844054011084,-0.11667850165471,0.0358811129135932,0.0326162674073235,0,0,0,0.19706097495586,0.193972155684676,0,0,0.0144303973159099,-0.137001473652663,0.208614579379091,0,0,0,0,0,0.0747003483965965,-0.0268351020258315,-0.180078458404759,-0.106011684205408,0.000146093489092392,0,0,0,0
 |rna_box=15
 |rna_catalog_number=
@@ Line 58: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 78: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:590-15F5;search_select_hide=table117:590-15F5
 }}

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FF:590-15F5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:18, 4 June 2020

CNhs10497

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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