FF:1556-45F2: Difference between revisions

Latest revision as of 19:08, 4 June 2020

Name:	pancreas, embryo E15
Species:	Mouse (Mus musculus)
Library ID:	CNhs11042
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	DBA/2
tissue	pancreas
dev stage	15 days embryo
sex	mixture
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		SAMD00005490

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11042		CAGE		DRX009056		DRR009930

Accession ID Mm9

Library id		BAM		CTSS
CNhs11042		DRZ001355		DRZ002738

Accession ID Mm10

Library id		BAM		CTSS
CNhs11042		DRZ012705		DRZ014088

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

CNhs11042

0	0
1	0
10	0
100	0
1000	0.115
1001	0.0159
1002	0.195
1003	-0.0969
1004	0
1005	-0.0389
1006	-0.143
1007	0.0212
1008	0
1009	-0.0754
101	0.0901
1010	1.064
1011	-0.0439
1012	0
1013	0.171
1014	0.28
1015	0.285
1016	-0.016
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0247
1022	0
1023	0
1024	-0.0899
1025	0.28
1026	0
1027	-0.048
1028	0
1029	-0.0138
103	0.133
1030	0
1031	0.204
1032	-0.0689
1033	0.0242
1034	0.115
1035	0
1036	0.217
1037	0
1038	-0.0184
1039	0.0495
104	0
1040	0.0282
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: CNhs11042

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0122
MA0003.1	MA0003.1	0.718
MA0004.1	MA0004.1	0.0451
MA0006.1	MA0006.1	0.52
MA0007.1	MA0007.1	0.135
MA0009.1	MA0009.1	0.725
MA0014.1	MA0014.1	0.886
MA0017.1	MA0017.1	0.816
MA0018.2	MA0018.2	0.0362
MA0019.1	MA0019.1	0.678
MA0024.1	MA0024.1	2.95834e-8
MA0025.1	MA0025.1	0.00257
MA0027.1	MA0027.1	0.107
MA0028.1	MA0028.1	6.46695e-5
MA0029.1	MA0029.1	0.0921
MA0030.1	MA0030.1	0.18
MA0031.1	MA0031.1	0.138
MA0035.2	MA0035.2	0.531
MA0038.1	MA0038.1	0.722
MA0039.2	MA0039.2	0.918
MA0040.1	MA0040.1	0.0701
MA0041.1	MA0041.1	0.278
MA0042.1	MA0042.1	0.582
MA0043.1	MA0043.1	0.135
MA0046.1	MA0046.1	4.1104e-34
MA0047.2	MA0047.2	0.163
MA0048.1	MA0048.1	0.0149
MA0050.1	MA0050.1	1.88758e-4
MA0051.1	MA0051.1	1.83347e-5
MA0052.1	MA0052.1	1.44208e-7
MA0055.1	MA0055.1	3.87029e-5
MA0057.1	MA0057.1	0.999
MA0058.1	MA0058.1	0.0393
MA0059.1	MA0059.1	9.62342e-6
MA0060.1	MA0060.1	2.83914e-9
MA0061.1	MA0061.1	0.936
MA0062.2	MA0062.2	0.00113
MA0065.2	MA0065.2	0.479
MA0066.1	MA0066.1	0.786
MA0067.1	MA0067.1	0.0257
MA0068.1	MA0068.1	0.661
MA0069.1	MA0069.1	0.705
MA0070.1	MA0070.1	0.527
MA0071.1	MA0071.1	0.797
MA0072.1	MA0072.1	0.267
MA0073.1	MA0073.1	0.921
MA0074.1	MA0074.1	0.238
MA0076.1	MA0076.1	6.46382e-4
MA0077.1	MA0077.1	0.634
MA0078.1	MA0078.1	0.735
MA0079.2	MA0079.2	0.525
MA0080.2	MA0080.2	7.87469e-5
MA0081.1	MA0081.1	0.0554
MA0083.1	MA0083.1	0.00512
MA0084.1	MA0084.1	0.37
MA0087.1	MA0087.1	0.315
MA0088.1	MA0088.1	0.0698
MA0090.1	MA0090.1	0.287
MA0091.1	MA0091.1	0.00239
MA0092.1	MA0092.1	0.55
MA0093.1	MA0093.1	0.0539
MA0099.2	MA0099.2	6.24194e-5
MA0100.1	MA0100.1	0.213
MA0101.1	MA0101.1	0.628
MA0102.2	MA0102.2	0.00151
MA0103.1	MA0103.1	6.12214e-4
MA0104.2	MA0104.2	0.0102
MA0105.1	MA0105.1	0.211
MA0106.1	MA0106.1	0.689
MA0107.1	MA0107.1	0.14
MA0108.2	MA0108.2	0.462
MA0111.1	MA0111.1	0.327
MA0112.2	MA0112.2	0.346
MA0113.1	MA0113.1	0.676
MA0114.1	MA0114.1	0.927
MA0115.1	MA0115.1	0.732
MA0116.1	MA0116.1	0.258
MA0117.1	MA0117.1	0.0484
MA0119.1	MA0119.1	0.343
MA0122.1	MA0122.1	0.713
MA0124.1	MA0124.1	0.888
MA0125.1	MA0125.1	0.672
MA0131.1	MA0131.1	0.0448
MA0135.1	MA0135.1	0.725
MA0136.1	MA0136.1	0.0186
MA0137.2	MA0137.2	0.753
MA0138.2	MA0138.2	0.00819
MA0139.1	MA0139.1	0.156
MA0140.1	MA0140.1	0.0921
MA0141.1	MA0141.1	0.427
MA0142.1	MA0142.1	0.0499
MA0143.1	MA0143.1	0.879
MA0144.1	MA0144.1	0.893
MA0145.1	MA0145.1	0.838
MA0146.1	MA0146.1	0.446
MA0147.1	MA0147.1	2.59441e-4
MA0148.1	MA0148.1	0.41
MA0149.1	MA0149.1	0.538
MA0150.1	MA0150.1	6.7415e-4
MA0152.1	MA0152.1	0.576
MA0153.1	MA0153.1	1.2e-16
MA0154.1	MA0154.1	0.32
MA0155.1	MA0155.1	0.191
MA0156.1	MA0156.1	0.929
MA0157.1	MA0157.1	0.433
MA0159.1	MA0159.1	0.558
MA0160.1	MA0160.1	0.967
MA0162.1	MA0162.1	0.314
MA0163.1	MA0163.1	9.04564e-4
MA0164.1	MA0164.1	0.727
MA0258.1	MA0258.1	0.684
MA0259.1	MA0259.1	0.0629

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: CNhs11042

Novel motif	Logo	P-value
1	1	0.947
10	10	0.241
100	100	0.251
101	101	0.425
102	102	0.577
103	103	0.458
104	104	0.506
105	105	0.62
106	106	0.581
107	107	0.144
108	108	0.66
109	109	0.0603
11	11	0.684
110	110	0.135
111	111	0.887
112	112	0.678
113	113	0.0494
114	114	0.236
115	115	0.795
116	116	0.481
117	117	0.114
118	118	0.413
119	119	0.507
12	12	0.47
120	120	0.381
121	121	0.115
122	122	0.837
123	123	0.00955
124	124	0.0638
125	125	0.899
126	126	0.127
127	127	0.162
128	128	0.509
129	129	0.0325
13	13	3.07162e-5
130	130	0.677
131	131	0.775
132	132	0.79
133	133	0.654
134	134	0.0469
135	135	0.371
136	136	0.0697
137	137	0.869
138	138	0.0643
139	139	0.0417
14	14	0.312
140	140	0.805
141	141	0.515
142	142	0.384
143	143	0.164
144	144	0.292
145	145	0.19
146	146	0.891
147	147	0.198
148	148	0.974
149	149	0.655
15	15	0.202
150	150	0.433
151	151	0.209
152	152	0.314
153	153	0.543
154	154	0.644
155	155	0.857
156	156	1.86543e-5
157	157	0.485
158	158	0.793
159	159	0.131
160	160	0.211
161	161	0.062
162	162	0.164
163	163	0.209
164	164	0.708
165	165	0.71
166	166	0.316
167	167	0.687
168	168	0.552
169	169	0.411
17	17	0.585
18	18	0.317
19	19	0.299
2	2	0.163
20	20	0.135
21	21	0.761
22	22	0.982
23	23	0.0175
24	24	0.0505
25	25	0.526
26	26	0.0325
27	27	0.629
28	28	0.0431
29	29	0.188
3	3	0.544
30	30	0.594
31	31	0.68
32	32	0.895
33	33	0.193
34	34	0.958
35	35	0.762
36	36	0.139
37	37	0.365
38	38	0.695
39	39	0.12
4	4	0.362
40	40	0.067
41	41	0.0966
42	42	0.509
43	43	0.303
44	44	0.816
45	45	0.47
46	46	0.759
47	47	0.837
48	48	0.866
49	49	0.305
5	5	0.252
50	50	0.285
51	51	0.977
52	52	0.912
53	53	0.433
54	54	0.386
55	55	0.69
56	56	0.781
57	57	0.743
58	58	0.953
59	59	0.969
6	6	0.829
60	60	0.884
61	61	0.137
62	62	0.37
63	63	0.826
64	64	0.557
65	65	0.989
66	66	0.291
67	67	0.528
68	68	0.19
69	69	0.825
7	7	0.318
70	70	0.0732
71	71	0.057
72	72	0.51
73	73	0.138
74	74	0.39
75	75	0.332
76	76	0.201
77	77	0.941
78	78	0.691
79	79	0.294
8	8	0.15
80	80	0.0935
81	81	0.0874
82	82	0.848
83	83	0.577
84	84	0.0217
85	85	0.369
86	86	0.729
87	87	0.252
88	88	0.951
89	89	0.807
9	9	0.862
90	90	0.882
91	91	0.845
92	92	0.936
93	93	0.434
94	94	0.159
95	95	0.0461
96	96	0.92
97	97	0.61
98	98	0.619
99	99	0.289

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: CNhs11042

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011257 mouse pancreas- embryo E15 sample

Ancestor terms (non development)Summary:Connected ontology terms with is_a, part_of or located_in relationship Analyst: Hideya Kawaji link to source data data

UBERON: Anatomy
0000468 (multi-cellular organism)
0000922 (embryo)
0001264 (pancreas)
0002100 (trunk)
0000479 (tissue)
0000466 (immaterial anatomical entity)
0002075 (viscus)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002323 (body cavity)
0005177 (trunk region element)
0000464 (anatomical space)
0004458 (body cavity or lining)
0000949 (endocrine system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000298 (mouse embryonic day 15 sample)
0011257 (mouse pancreas- embryo E15 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
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002108,UBERON:0001264,UBERON:0002100,UBERON:0000160,UBERON:0000926,UBERON:0000479,UBERON:0001007,UBERON:0000077,UBERON:0000466,UBERON:0002075,UBERON:0000062,UBERON:0000475,UBERON:0004120,UBERON:0004119,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0002050,UBERON:0004921,UBERON:0005423,UBERON:0002553,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0005291,UBERON:0002323,UBERON:0005177,UBERON:0003104,UBERON:0000464,UBERON:0004458,UBERON:0001048,UBERON:0000925,UBERON:0006598,UBERON:0003886,UBERON:0003922,UBERON:0004185,UBERON:0002532,UBERON:0001555,UBERON:0002114,UBERON:0005409,UBERON:0007026,UBERON:0001041,UBERON:0000949,UBERON:0009142,UBERON:0003923,UBERON:0006595,UBERON:0006603,UBERON:0001045,UBERON:0003924,UBERON:0003921
+|DRA_sample_Accession=CAGE@SAMD00005490
+|accession_numbers=CAGE;DRX009056;DRR009930;DRZ001355;DRZ002738;DRZ012705;DRZ014088
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0001264,UBERON:0002100,UBERON:0000479,UBERON:0000466,UBERON:0002075,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0002553,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0002323,UBERON:0005177,UBERON:0000464,UBERON:0004458,UBERON:0000949
 |ancestors_in_cell_lineage_facet=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000999,FF:0000292,FF:0000004,FF:0000298,FF:0011257
 |comment=
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr2:164228702..164228719,+!p1@Rbpjl!2.45!278.44!Rbpjl;;chr2:19367259..19367278,+!p1@Ptf1a!2.18!148.74!Ptf1a;;chr10:61595830..61595846,+!p1@Neurog3!2.11!128.19!Neurog3;;chr5:144951153..144951203,+!p1@Bhlha15!1.77!82.53!Bhlha15;;chr9:74709695..74709722,+!p1@Onecut1!1.72!52.00!Onecut1;;chr8:59799772..59799789,+!p1@Hand2!1.62!112.16!Hand2;;chr2:79296783..79296801,-!p1@Neurod1!1.40!23.88!Neurod1;;chr2:163332558..163332596,+!p2@Hnf4a!1.37!22.37!Hnf4a;;chr2:147871627..147871641,-!p1@Foxa2!1.35!21.16!Foxa2;;chr14:63864056..63864102,-!p1@Gata4!1.34!35.98!Gata4;;chr7:19608891..19608895,-!p1@Foxa3!1.32!25.70!Foxa3;;chr5:148081686..148081715,+!p1@Pdx1!1.26!17.23!Pdx1;;chr17:27865882..27865901,-!p1@Spdef!1.21!15.12!Spdef;;chr1:138857076..138857105,-!p1@Nr5a2!1.20!14.81!Nr5a2;;chr2:147019977..147019985,-!p2@Nkx2-2!1.12!12.09!Nkx2-2;;chr13:48758276..48758291,+!p1@Barx1!1.12!12.09!Barx1;;chr5:148081722..148081744,+!p2@Pdx1!1.11!11.79!Pdx1;;chr2:146047829..146047847,+!p1@Insm1!1.07!19.65!Insm1;;chr10:22539932..22539956,-!p1@Tcf21!1.05!27.81!Tcf21;;chr7:6649134..6649167,-!p1@Zim1!1.04!54.12!Zim1;;chr19:43686789..43686811,+!p1@Nkx2-3!1.02!9.37!Nkx2-3;;chr5:148081667..148081678,+!p3@Pdx1!1.02!9.37!Pdx1;;chr10:12810631..12810649,+!p1@Plagl1!1.01!245.79!Plagl1;;chr13:117099847..117099907,-!p1@Isl1!1.00!16.93!Isl1;;chr2:105509045..105509071,+!p1@Pax6!1.00!9.07!Pax6;;chr1:137155026..137155042,-!p1@Elf3!0.99!52.30!Elf3;;chr1:138857112..138857130,-!p7@Nr5a2!0.99!8.77!Nr5a2;;chr10:119913310..119913366,-!p1@Hmga2!0.98!68.63!Hmga2;;chr11:83664365..83664383,+!p1@Hnf1b!0.98!8.47!Hnf1b;;chr5:102094214..102094230,-!p1@Nkx6-1!0.96!8.16!Nkx6-1;;chr1:138857048..138857071,-!p2@Nr5a2!0.93!7.56!Nr5a2;;chr2:103143336..103143367,-!p1@Ehf!0.92!12.09!Ehf;;chr7:17647736..17647772,-!p1@Hif3a!0.91!26.00!Hif3a;;chr1:138846009..138846038,-!p3@Nr5a2!0.90!7.86!Nr5a2;;chr1:138850177..138850182,-!p11@Nr5a2!0.90!6.95!Nr5a2;;chr4:133109285..133109308,+!p1@Nr0b2!0.90!6.95!Nr0b2;;chr2:103264213..103264233,+!p1@Elf5!0.88!6.65!Elf5;;chrX:90531838..90531861,+!p1@Arx!0.85!7.86!Arx;;chr10:119913278..119913298,-!p2@Hmga2!0.84!13.91!Hmga2;;chr2:104966766..104966786,+!p1@Wt1!0.84!9.67!Wt1;;chrX:98449898..98449913,+!p2@Foxo4!0.83!19.65!Foxo4;;chr1:138846079..138846103,-!p6@Nr5a2!0.83!5.74!Nr5a2;;chr10:51397572..51397595,+!p1@Rfx6!0.83!5.74!Rfx6;;chr1:140739014..140739032,-!p1@Lhx9!0.82!7.26!Lhx9;;chr10:119913546..119913583,-!p3@Hmga2!0.81!12.09!Hmga2;;chr11:106128936..106128955,-!p4@Smarcd2!0.81!6.35!Smarcd2;;chrX:108009761..108009788,+!p1@Pou3f4!0.81!5.44!Pou3f4;;chr5:102094266..102094273,-!p3@Nkx6-1!0.81!5.44!Nkx6-1;;chr19:45225149..45225186,+!p1@Tlx1!0.79!5.14!Tlx1;;chr12:3891810..3891829,+!p2@Dnmt3a!0.78!8.16!Dnmt3a;;chr1:138846047..138846074,-!p5@Nr5a2!0.78!5.44!Nr5a2;;chr19:10315179..10315241,-!p1@Gm98!0.77!55.93!Gm98;;chr2:147012125..147012149,-!p1@Nkx2-2!0.77!4.84!Nkx2-2;;chr11:98605517..98605539,+!p5@Thra!0.76!7.26!Thra;;chr5:135582751..135582788,+!p1@Mlxipl!0.75!20.26!Mlxipl;;chr1:191994550..191994623,-!p1@Prox1!0.74!34.46!Prox1;;chr13:48758358..48758415,+!p2@Barx1!0.74!4.53!Barx1;;chr9:74709682..74709691,+!p3@Onecut1!0.74!4.53!Onecut1;;chr15:35225845..35225867,+!p1@Osr2!0.73!11.79!Osr2;;chr7:17642053..17642066,-!p2@Hif3a!0.73!6.35!Hif3a;;chrX:45245679..45245702,-!p1@Smarca1!0.72!21.16!Smarca1;;chr6:52154414..52154462,-!p1@Hoxa5!0.72!6.05!Hoxa5;;chr5:115420882..115420896,-!p3@Hnf1a!0.72!4.23!Hnf1a;;chr5:42155788..42155800,-!p1@Nkx3-2!0.72!4.23!Nkx3-2;;chr14:63890491..63890516,-!p2@Gata4!0.72!4.23!Gata4;;chr4:154010918..154010931,-!p1@Prdm16!0.71!13.30!Prdm16;;chr4:135129538..135129558,-!p1@Grhl3!0.71!6.65!Grhl3;;chr11:5420954..5420969,+!p2@Xbp1!0.70!57.44!Xbp1;;chr3:90046995..90047031,-!p2@Creb3l4!0.70!5.14!Creb3l4;;chr13:72766250..72766273,+!p1@Irx2!0.69!6.35!Irx2;;chr19:37509324..37509337,+!p1@Hhex!0.68!30.53!Hhex;;chr11:102178005..102178022,-!p8@Ubtf!0.67!6.35!Ubtf;;chr12:3891753..3891801,+!p4@Dnmt3a!0.67!6.35!Dnmt3a;;chr14:63890519..63890539,-!p3@Gata4!0.67!3.63!Gata4;;chr14:63890545..63890560,-!p5@Gata4!0.67!3.63!Gata4;;chr3:30039329..30039355,-!p5@Mecom!0.67!3.63!Mecom;;chr7:52471143..52471186,+!p1@Tead2!0.66!44.44!Tead2;;chr7:52472041..52472065,+!p2@Tead2!0.66!4.23!Tead2;;chr8:123608252..123608268,+!p1@Foxf1a!0.65!5.44!Foxf1a;;chr2:115890953..115890974,-!p6@Meis2!0.64!5.44!Meis2;;chr10:119914001..119914078,-!p4@Hmga2!0.64!4.84!Hmga2;;chr2:147872074..147872079,-!p4@Foxa2!0.64!3.33!Foxa2;;chr2:147871948..147871977,-!p3@Foxa2!0.64!3.33!Foxa2;;chr14:63890660..63890687,-!p7@Gata4!0.64!3.33!Gata4;;chr12:9581262..9581282,+!p1@Osr1!0.63!46.86!Osr1;;chr4:154010409..154010466,-!p2@Prdm16!0.63!8.47!Prdm16;;chr1:165243379..165243402,-!p3@Prrx1!0.62!5.14!Prrx1;;chr15:37162834..37162849,+!p2@Grhl2!0.62!3.93!Grhl2;;chr17:32506357..32506377,-!p3@Wiz!0.61!7.26!Wiz;;chr11:18918434..18918489,-!p3@Meis1!0.60!5.14!Meis1;;chr2:103264245..103264268,+!p2@Elf5!0.60!3.02!Elf5;;chr2:104966874..104966907,+!p2@Wt1!0.60!3.02!Wt1;;chr2:103143315..103143328,-!p2@Ehf!0.60!3.02!Ehf;;chr18:11052642..11052659,+!p1@Gata6!0.59!17.23!Gata6;;chr1:138845748..138845766,-!p4@Nr5a2!0.59!3.93!Nr5a2;;chr9:96620459..96620478,-!p9@Zbtb38!0.59!3.33!Zbtb38;;chr2:115890469..115890485,-!p7@Meis2!0.58!4.84!Meis2;;chr2:147872790..147872821,-!p2@Foxa2!0.57!2.72!Foxa2;;chr2:115890864..115890869,-!p14@Meis2!0.57!2.72!Meis2;;chr2:147012101..147012118,-!p3@Nkx2-2!0.57!2.72!Nkx2-2;;chr9:74714303..74714318,+!p2@Onecut1!0.57!2.72!Onecut1;;chr5:148118639..148118715,-!p1@Cdx2!0.57!2.72!Cdx2;;chr14:63890459..63890484,-!p4@Gata4!0.57!2.72!Gata4;;chr14:63890691..63890718,-!p8@Gata4!0.57!2.72!Gata4;;chr11:98190918..98190951,-!p1@Neurod2!0.57!2.72!Neurod2;;chr10:50614546..50614568,+!p@chr10:50614546..50614568,+!0.57!2.72!Sim1;;chr12:9581284..9581303,+!p2@Osr1!0.56!5.74!Osr1;;chr15:37162796..37162828,+!p1@Grhl2!0.56!4.84!Grhl2;;chr18:11052456..11052477,+!p3@Gata6!0.55!9.37!Gata6;;chr2:115891381..115891392,-!p5@Meis2!0.55!5.74!Meis2;;chr10:119913792..119913820,-!p5@Hmga2!0.55!4.84!Hmga2;;chr7:6683123..6683142,-!p1@Peg3!0.54!163.25!Peg3;;chr11:96153767..96153822,+!p1@Hoxb6!0.54!4.23!Hoxb6;;chr10:119913839..119913869,-!p7@Hmga2!0.54!3.33!Hmga2;;chr2:115891534..115891589,-!p1@Meis2!0.53!43.23!Meis2;;chr2:103123925..103123959,-!p3@Ehf!0.53!2.42!Ehf;;chr1:138846117..138846129,-!p8@Nr5a2!0.53!2.42!Nr5a2;;chr6:30908793..30908815,-!p1@Klf14!0.53!2.42!Klf14;;chr7:146768691..146768707,-!p1@Nkx6-2!0.53!2.42!Nkx6-2;;chr19:45225276..45225304,+!p2@Tlx1!0.53!2.42!Tlx1;;chr10:88969376..88969395,-!p1@Nr1h4!0.53!2.42!Nr1h4;;chr14:22807083..22807104,-!p1@Zfp503!0.52!52.91!Zfp503;;chr18:11052485..11052508,+!p2@Gata6!0.52!7.86!Gata6;;chr8:73905344..73905381,-!p2@Nr2f6!0.52!6.65!Nr2f6;;chr15:102865088..102865107,+!p1@Hoxc4!0.52!3.33!Hoxc4;;chr19:5560600..5560617,-!p1@Ovol1!0.52!3.02!Ovol1;;chr11:85646263..85646278,+!p2@Tbx2!0.51!6.95!Tbx2;;chr6:52154386..52154407,-!p2@Hoxa5!0.51!3.02!Hoxa5;;chr17:48061584..48061601,-!p2@Foxp4!0.50!18.14!Foxp4;;chr10:114821393..114821431,-!p5@Thap2!0.50!7.26!Thap2;;chr18:11052606..11052633,+!p4@Gata6!0.50!6.65!Gata6;;chr2:115891427..115891441,-!p4@Meis2!0.50!5.44!Meis2;;chr6:52114821..52114828,-!p1@Hoxa2!0.50!3.63!Hoxa2;;chr14:65977498..65977528,+!p1@Zfp395!0.49!18.14!Zfp395;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!0.49!4.84!Hmga1;;chr7:86956107..86956152,+!p@chr7:86956107..86956152,+!0.49!3.63!Mesp2;;chr8:87425854..87425891,+!p1@Klf1!0.49!2.12!Klf1;;chr14:63864337..63864381,-!p6@Gata4!0.49!2.12!Gata4;;chr5:115421065..115421088,-!p1@Hnf1a!0.49!2.12!Hnf1a;;chr5:29805118..29805137,-!p1@Mnx1!0.49!2.12!Mnx1;;chr11:84339016..84339044,-!p1@Lhx1!0.49!2.12!Lhx1;;chr17:26978521..26978536,-!p2@Nkx2-5!0.49!2.12!Nkx2-5;;chr19:37511111..37511115,+!p2@Hhex!0.49!2.12!Hhex;;chr2:163372884..163372904,+!p1@Hnf4a!0.49!2.12!Hnf4a;;chr11:112643496..112643562,+!p1@Sox9!0.48!101.88!Sox9;;chr11:18918917..18918944,-!p1@Meis1!0.48!35.07!Meis1;;chr2:91864300..91864379,-!p2@Creb3l1!0.48!7.26!Creb3l1;;chr3:30408384..30408431,-!p4@Mecom!0.48!2.72!Mecom;;chr11:96143666..96143725,+!p1@Hoxb8!0.48!2.42!Hoxb8;;chr8:124806048..124806094,+!p1@Zfpm1!0.47!23.88!Zfpm1;;chr2:115891409..115891425,-!p2@Meis2!0.47!7.26!Meis2;;chr2:180069370..180069409,-!p1@Gata5!0.47!2.42!Gata5;;chr19:28754692..28754757,-!p1@Glis3!0.46!10.28!Glis3;;chr2:115891454..115891471,-!p3@Meis2!0.46!7.26!Meis2;;chr19:7342725..7342784,+!p1@Rcor2!0.45!9.98!Rcor2;;chr2:153475210..153475252,+!p2@Dnmt3b!0.45!6.35!Dnmt3b;;chr7:25292076..25292114,+!p4@Zfp428!0.45!6.35!Zfp428;;chr11:3189683..3189744,+!p2@Patz1!0.45!4.53!Patz1;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.45!3.63!Hoxb2;;chr2:115888250..115888298,-!p10@Meis2!0.45!2.42!Meis2;;chr1:6724908..6724955,+!p2@St18!0.45!1.81!St18;;chr2:105003277..105003280,+!p5@Wt1!0.45!1.81!Wt1;;chr2:181498020..181498040,+!p5@Myt1!0.45!1.81!Myt1;;chr7:150155143..150155156,-!p1@Ascl2!0.45!1.81!Ascl2;;chr7:108966820..108966835,+!p1@Phox2a!0.45!1.81!Phox2a;;chr5:148118840..148118857,-!p2@Cdx2!0.45!1.81!Cdx2;;chr5:144951136..144951139,+!p2@Bhlha15!0.45!1.81!Bhlha15;;chr11:83664334..83664353,+!p2@Hnf1b!0.45!1.81!Hnf1b;;chr11:96164905..96164919,+!p2@Hoxb5!0.45!1.81!Hoxb5;;chr4:13678723..13678739,+!p10@Runx1t1!0.45!1.81!Runx1t1;;chr19:55816414..55816425,+!p4@Tcf7l2!0.44!12.40!Tcf7l2;;chr11:74981654..74981658,-!p1@Hic1!0.44!9.37!Hic1;;chr3:30408603..30408668,-!p1@Mecom!0.44!5.14!Mecom;;chr11:3190303..3190351,+!p3@Patz1!0.44!4.23!Patz1;;chr11:85646427..85646451,+!p4@Tbx2!0.44!3.63!Tbx2;;chr13:72766279..72766296,+!p2@Irx2!0.44!3.02!Irx2;;chr3:128916868..128916890,+!p1@Pitx2!0.44!2.72!Pitx2;;chrX:45245644..45245666,-!p2@Smarca1!0.43!7.26!Smarca1;;chr11:18918820..18918831,-!p4@Meis1!0.43!3.93!Meis1;;chr7:37483231..37483263,+!p2@Tshz3!0.43!3.02!Tshz3;;chr19:10315252..10315266,-!p2@Gm98!0.43!3.02!Gm98;;chr11:85646303..85646329,+!p1@Tbx2!0.42!15.12!Tbx2;;chr13:22036953..22037009,+!p1@Zfp184!0.42!5.74!Zfp184;;chr11:102177921..102177960,-!p9@Ubtf!0.42!2.72!Ubtf;;chr14:47896467..47896523,-!p1@Wdhd1!0.41!27.81!Wdhd1;;c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chr8:90328310..90328362,-!p3@Zfp423!0.15!0.60!Zfp423;;chr12:25257176..25257190,+!p3@Grhl1!0.15!0.60!Grhl1;;chr13:44829403..44829438,+!p11@Jarid2!0.15!0.60!Jarid2;;chr11:23978229..23978268,+!p8@Bcl11a!0.15!0.60!Bcl11a;;chr10:127080230..127080241,+!p6@Stat6!0.15!0.60!Stat6;;chr5:107003699..107003717,-!p11@Zfp644!0.15!0.60!Zfp644;;chr7:26035739..26035757,-!p1@Erf!0.14!29.93!Erf;;chr6:48395743..48395820,-!p1@Zfp467!0.14!26.00!Zfp467;;chr17:3557742..3557775,-!p1@Tfb1m!0.14!16.93!Tfb1m;;chr4:116480137..116480178,-!p1@Toe1!0.14!13.00!Toe1;;chr8:108939219..108939296,+!p1@Zfp90!0.14!12.70!Zfp90;;chr15:36937113..36937127,-!p3@Gm10193,p3@Zfp706!0.14!11.49!Zfp706;;chr8:72520015..72520053,-!p2@Gatad2a!0.14!7.56!Gatad2a;;chr6:29998062..29998078,+!p2@Nrf1!0.14!5.14!Nrf1;;chr7:148513409..148513455,-!p2@Deaf1!0.14!5.14!Deaf1;;chr11:98603160..98603171,+!p3@Thra!0.14!5.14!Thra;;chrX:132420488..132420517,+!p4@Bhlhb9!0.14!4.53!Bhlhb9;;chr8:114167356..114167390,+!p3@Zfp1!0.14!3.63!Zfp1;;chr15:102301130..102301147,+!p3@Pcbp2!0.14!3.02!Pcbp2;;chr7:30875490..30875555,-!p1@Zfp566,p1@Zfp82!0.14!2.72!Zfp566;;chr11:59285966..59285990,-!p2@Zfp867!0.14!2.42!Zfp867;;chr4:97444261..97444272,+!p9@Nfia!0.14!2.12!Nfia;;chr15:75799598..75799619,+!p3@Zfp707!0.14!1.81!Zfp707;;chr7:49761111..49761128,-!p2@ENSMUST00000174407,p2@uc009gmb.1!0.14!1.81!Zfp141;;chr5:76733981..76734018,-!p3@Clock!0.14!1.81!Clock;;chr4:133310137..133310152,-!p12@Arid1a!0.14!1.21!Arid1a;;chr7:134169648..134169657,-!p14@Maz!0.14!0.91!Maz;;chr13:112476264..112476282,+!p3@Mier3!0.14!0.91!Mier3;;chr13:64254572..64254585,-!p6@Zfp367!0.14!0.91!Zfp367;;chr14:67853457..67853482,+!p2@Ebf2!0.14!0.91!Ebf2;;chr14:52640355..52640369,-!p9@Zfp219!0.14!0.91!Zfp219;;chr1:165243653..165243664,-!p4@Prrx1!0.14!0.91!Prrx1;;chr6:15135439..15135452,+!p13@Foxp2!0.14!0.60!Foxp2;;chr15:85566051..85566080,+!p4@Ppara!0.14!0.60!Ppara;;chr17:48015839..48015915,-!p3@Foxp4!0.14!0.60!Foxp4;;chr14:22808697..22808715,-!p4@Zfp503!0.14!0.60!Zfp503;;chr13:78339382..78339420,-!p3@Nr2f1!0.14!0.60!Nr2f1;;chr9:21420674..21420725,+!p1@Smarca4!0.13!96.74!Smarca4;;chr17:13897509..13897607,+!p1@Mllt4!0.13!35.37!Mllt4;;chr5:138558139..138558214,+!p1@Zscan21!0.13!33.26!Zscan21;;chr17:32501375..32501433,-!p1@Wiz!0.13!28.72!Wiz;;chr4:117354838..117354884,-!p1@Dmap1!0.13!16.63!Dmap1;;chr11:72990702..72990737,+!p1@LOC100047518,p1@Tax1bp3!0.13!11.19!Tax1bp3;;chr4:94718861..94718872,-!p2@Jun!0.13!8.47!Jun;;chr4:128483534..128483613,-!p1@Zfp362!0.13!7.86!Zfp362;;chr17:45570660..45570694,-!p1@Cdc5l!0.13!7.56!Cdc5l;;chr10:62328186..62328219,-!p1@Tet1!0.13!6.65!Tet1;;chr4:129055091..129055168,-!p1@Zbtb8a!0.13!6.35!Zbtb8a;;chr18:24178808..24178865,-!p2@Zfp191!0.13!5.74!Zfp191;;chr6:38204109..38204155,-!p1@D630045J12Rik!0.13!5.74!D630045J12Rik;;chr19:12870598..12870636,-!p1@U05342,p1@Zfp91!0.13!5.44!Zfp91;;chr2:181100154..181100181,+!p3@Zgpat!0.13!5.44!Zgpat;;chr16:4559777..4559825,-!p2@Tfap4!0.13!4.84!Tfap4;;chr7:135020060..135020124,-!p2@Zfp668!0.13!4.53!Zfp668;;chr13:58503894..58503895,-!p4@Hnrnpk!0.13!3.33!Hnrnpk;;chr15:100058289..100058300,+!p3@Atf1!0.13!2.42!Atf1;;chr15:81575602..81575618,+!p3@Zc3h7b!0.13!2.42!Zc3h7b;;chr14:52935788..52935817,-!p2@Sall2!0.13!1.81!Sall2;;chr11:102180407..102180419,-!p6@Ubtf!0.13!1.81!Ubtf;;chr13:44826634..44826645,+!p7@Jarid2!0.13!1.51!Jarid2;;chr6:72185553..72185612,-!p2@Atoh8!0.13!1.51!Atoh8;;chr10:80598209..80598236,+!p4@Zbtb7a!0.13!1.21!Zbtb7a;;chr18:69681483..69681514,+!p11@Tcf4!0.13!1.21!Tcf4;;chr8:72498017..72498059,-!p13@Gatad2a!0.13!1.21!Gatad2a;;chr9:20385868..20385902,+!p3@Zfp846!0.13!0.91!Zfp846;;chr11:11584970..11585030,+!p2@Ikzf1!0.13!0.91!Ikzf1;;chr2:115891521..115891532,-!p8@Meis2!0.13!0.91!Meis2;;chr12:37835120..37835133,+!p2@Meox2!0.13!0.91!Meox2;;chr14:52935860..52935874,-!p3@Sall2!0.13!0.91!Sall2;;chr14:118636214..118636235,-!p1@Sox21!0.13!0.60!Sox21;;chr15:61819047..61819076,+!p5@Myc!0.13!0.60!Myc;;chr10:128082840..128082872,-!p1@Ikzf4!0.13!0.60!Ikzf4;;chr11:69749299..69749319,+!p5@Ybx2!0.13!0.60!Ybx2;;chr7:25292118..25292129,+!p8@Zfp428!0.13!0.60!Zfp428;;chr6:29490887..29490891,+!p5@Irf5!0.13!0.60!Irf5;;chr5:65203575..65203589,+!p11@Klf3!0.13!0.60!Klf3;;chr5:125538703..125538715,-!p5@Ncor2!0.13!0.60!Ncor2;;chr4:13670441..13670463,+!p8@Runx1t1!0.13!0.60!Runx1t1;;chr4:135129447..135129467,-!p2@Grhl3!0.13!0.60!Grhl3;;chr2:153067233..153067236,-!p4@Plagl2!0.13!0.60!Plagl2;;chr10:75384307..75384370,-!p1@Smarcb1!0.12!92.81!Smarcb1;;chr2:31428295..31428361,+!p1@Fubp3!0.12!31.14!Fubp3;;chr2:153067094..153067130,-!p1@Plagl2!0.12!29.02!Plagl2;;chr11:3189883..3189925,+!p1@Patz1!0.12!15.72!Patz1;;chr11:115891618..115891699,+!p1@Unk!0.12!14.21!Unk;;chr7:24993112..24993158,-!p1@Zfp111!0.12!11.79!Zfp111;;chr8:81552152..81552208,+!p1@Zfp827!0.12!7.86!Zfp827;;chr15:100382390..100382441,-!p1@Tfcp2!0.12!7.26!Tfcp2;;chr17:34784132..34784161,+!p1@Atf6b!0.12!6.05!Atf6b;;chr15:97738692..97738747,-!p1@Vdr!0.12!5.74!Vdr;;chr5:92391901..92391936,+!p1@Thap6!0.12!5.14!Thap6;;chr2:168781029..1687810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+|ffid_belonging_in_development=FF:0000294
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 39: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011257
 |is_obsolete=
+|library_id=CNhs11042
+|library_id_phase_based=2:CNhs11042
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1556
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1556
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E15.CNhs11042.1556-45F2.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E15.CNhs11042.1556-45F2.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E15.CNhs11042.1556-45F2.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E15.CNhs11042.1556-45F2.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E15.CNhs11042.1556-45F2.mm9.nobarcode.rdna.fa.gz
 |name=pancreas, embryo E15
 |namespace=FANTOM5
@@ Line 44: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11042,LSID732,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.0797358586589015,0,0,0,0,0,-0.09757917980292,0,0.0299109770216051,0,0,0.608525846681049,0,0,0,0,0,0,0.0134861884604184,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0776194604959366,0,0,0,0,0,-0.003943186152833,0,0.0786141174934052,0.643342172363459,-0.0644890986673582,0,0,0,0,0,0,0,0,0,0,0.205379539342993,0,-0.0660055475634404,0,0,0,0,-0.0428469550828748,0,0,0,0,0,0.107895500147215,0.223196164378963,0.186162515122266,0.16878683034614,0,0,-0.00955564697501265,-0.0179610971653228,0,0,0,-0.112035957426648,-0.10228051287708,-0.0788315948399074,0,0,0,0,0,0,-0.0645298412884199,0.0551133320054693,-0.0403167751213107,0,0,0,0,0
 |rna_box=45
 |rna_catalog_number=
@@ Line 59: / Line 76: @@
 |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=table111:1556-45F2;search_select_hide=table117:1556-45F2
 }}

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FF:1556-45F2: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:08, 4 June 2020

CNhs11042

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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