FF:460-26E5: Difference between revisions

Latest revision as of 19:17, 4 June 2020

Name:	pancreas, embryo E16
Species:	Mouse (Mus musculus)
Library ID:	CNhs11003
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	pancreas
dev stage	16 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		SAMD00005291

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11003		CAGE		DRX009057		DRR009931

Accession ID Mm9

Library id		BAM		CTSS
CNhs11003		DRZ001356		DRZ002739

Accession ID Mm10

Library id		BAM		CTSS
CNhs11003		DRZ012706		DRZ014089

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

CNhs11003

0	0
1	0
10	0
100	0
1000	0.0715
1001	0
1002	0.195
1003	-0.0468
1004	0
1005	0
1006	-0.143
1007	0.0266
1008	0
1009	-0.0572
101	0.07
1010	0.892
1011	-0.0628
1012	0
1013	0.501
1014	0.312
1015	-0.0645
1016	-0.096
1017	0
1018	0.139
1019	0
102	0
1020	0
1021	0.0263
1022	0.177
1023	0
1024	-5.586389e-4
1025	0.134
1026	0
1027	0
1028	0
1029	0.0188
103	0.0875
1030	0
1031	0.171
1032	-0.0375
1033	0
1034	0.244
1035	0
1036	0.102
1037	0
1038	-0.0375
1039	0.012
104	0
1040	0.00266
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: CNhs11003

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0146
MA0003.1	MA0003.1	0.662
MA0004.1	MA0004.1	0.0639
MA0006.1	MA0006.1	0.362
MA0007.1	MA0007.1	0.0962
MA0009.1	MA0009.1	0.961
MA0014.1	MA0014.1	0.738
MA0017.1	MA0017.1	0.799
MA0018.2	MA0018.2	4.57239e-4
MA0019.1	MA0019.1	0.955
MA0024.1	MA0024.1	0.04
MA0025.1	MA0025.1	0.0239
MA0027.1	MA0027.1	0.574
MA0028.1	MA0028.1	0.00115
MA0029.1	MA0029.1	0.11
MA0030.1	MA0030.1	0.439
MA0031.1	MA0031.1	0.3
MA0035.2	MA0035.2	0.364
MA0038.1	MA0038.1	0.806
MA0039.2	MA0039.2	0.327
MA0040.1	MA0040.1	0.118
MA0041.1	MA0041.1	0.44
MA0042.1	MA0042.1	0.865
MA0043.1	MA0043.1	0.0201
MA0046.1	MA0046.1	2.03731e-36
MA0047.2	MA0047.2	3.00726e-4
MA0048.1	MA0048.1	0.232
MA0050.1	MA0050.1	1.93795e-4
MA0051.1	MA0051.1	2.58282e-5
MA0052.1	MA0052.1	2.73028e-5
MA0055.1	MA0055.1	0.109
MA0057.1	MA0057.1	0.895
MA0058.1	MA0058.1	0.11
MA0059.1	MA0059.1	2.20403e-5
MA0060.1	MA0060.1	2.83854e-4
MA0061.1	MA0061.1	0.76
MA0062.2	MA0062.2	0.023
MA0065.2	MA0065.2	0.172
MA0066.1	MA0066.1	0.581
MA0067.1	MA0067.1	0.0328
MA0068.1	MA0068.1	0.215
MA0069.1	MA0069.1	0.436
MA0070.1	MA0070.1	0.73
MA0071.1	MA0071.1	0.989
MA0072.1	MA0072.1	0.897
MA0073.1	MA0073.1	0.747
MA0074.1	MA0074.1	0.0656
MA0076.1	MA0076.1	0.017
MA0077.1	MA0077.1	0.325
MA0078.1	MA0078.1	0.98
MA0079.2	MA0079.2	0.499
MA0080.2	MA0080.2	0.00949
MA0081.1	MA0081.1	0.0931
MA0083.1	MA0083.1	0.0179
MA0084.1	MA0084.1	0.499
MA0087.1	MA0087.1	0.966
MA0088.1	MA0088.1	0.0123
MA0090.1	MA0090.1	0.723
MA0091.1	MA0091.1	2.65379e-8
MA0092.1	MA0092.1	0.314
MA0093.1	MA0093.1	0.0544
MA0099.2	MA0099.2	0.00196
MA0100.1	MA0100.1	0.0132
MA0101.1	MA0101.1	0.826
MA0102.2	MA0102.2	0.0402
MA0103.1	MA0103.1	1.16253e-6
MA0104.2	MA0104.2	0.0364
MA0105.1	MA0105.1	0.0945
MA0106.1	MA0106.1	0.295
MA0107.1	MA0107.1	0.183
MA0108.2	MA0108.2	0.0477
MA0111.1	MA0111.1	0.447
MA0112.2	MA0112.2	0.00799
MA0113.1	MA0113.1	0.247
MA0114.1	MA0114.1	0.738
MA0115.1	MA0115.1	0.897
MA0116.1	MA0116.1	0.168
MA0117.1	MA0117.1	0.865
MA0119.1	MA0119.1	0.0187
MA0122.1	MA0122.1	0.375
MA0124.1	MA0124.1	0.813
MA0125.1	MA0125.1	0.723
MA0131.1	MA0131.1	0.148
MA0135.1	MA0135.1	0.888
MA0136.1	MA0136.1	0.00369
MA0137.2	MA0137.2	0.0228
MA0138.2	MA0138.2	0.0962
MA0139.1	MA0139.1	0.046
MA0140.1	MA0140.1	0.0513
MA0141.1	MA0141.1	0.0384
MA0142.1	MA0142.1	0.193
MA0143.1	MA0143.1	0.395
MA0144.1	MA0144.1	0.169
MA0145.1	MA0145.1	0.273
MA0146.1	MA0146.1	0.421
MA0147.1	MA0147.1	0.00316
MA0148.1	MA0148.1	2.39256e-4
MA0149.1	MA0149.1	0.333
MA0150.1	MA0150.1	0.146
MA0152.1	MA0152.1	0.966
MA0153.1	MA0153.1	1.47398e-15
MA0154.1	MA0154.1	0.0743
MA0155.1	MA0155.1	0.235
MA0156.1	MA0156.1	0.47
MA0157.1	MA0157.1	0.944
MA0159.1	MA0159.1	0.213
MA0160.1	MA0160.1	0.487
MA0162.1	MA0162.1	0.329
MA0163.1	MA0163.1	4.73432e-4
MA0164.1	MA0164.1	0.211
MA0258.1	MA0258.1	0.144
MA0259.1	MA0259.1	0.0303

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: CNhs11003

Novel motif	Logo	P-value
1	1	0.231
10	10	0.0703
100	100	0.205
101	101	0.609
102	102	0.603
103	103	0.151
104	104	0.825
105	105	0.665
106	106	0.392
107	107	0.45
108	108	0.882
109	109	0.00265
11	11	0.294
110	110	0.0586
111	111	0.155
112	112	0.172
113	113	0.0213
114	114	0.627
115	115	0.807
116	116	0.122
117	117	0.0712
118	118	0.966
119	119	0.974
12	12	0.399
120	120	0.611
121	121	0.125
122	122	0.327
123	123	0.0627
124	124	0.232
125	125	0.552
126	126	0.0101
127	127	0.633
128	128	0.502
129	129	0.194
13	13	4.09986e-5
130	130	0.65
131	131	0.756
132	132	0.705
133	133	0.56
134	134	0.104
135	135	0.888
136	136	0.0488
137	137	0.806
138	138	0.0142
139	139	0.97
14	14	0.506
140	140	0.204
141	141	0.345
142	142	0.725
143	143	0.987
144	144	0.208
145	145	0.0502
146	146	0.772
147	147	0.225
148	148	0.281
149	149	0.364
15	15	0.247
150	150	0.442
151	151	0.768
152	152	0.125
153	153	0.683
154	154	0.93
155	155	0.88
156	156	0.0134
157	157	0.706
158	158	0.734
159	159	0.683
160	160	0.0335
161	161	0.118
162	162	0.452
163	163	0.202
164	164	0.405
165	165	0.691
166	166	0.396
167	167	0.711
168	168	0.719
169	169	0.113
17	17	0.468
18	18	0.468
19	19	0.0849
2	2	0.372
20	20	0.381
21	21	0.558
22	22	0.523
23	23	0.303
24	24	0.0258
25	25	0.924
26	26	5.6035e-4
27	27	0.863
28	28	0.202
29	29	0.0971
3	3	0.474
30	30	0.907
31	31	0.519
32	32	0.739
33	33	0.303
34	34	0.477
35	35	0.876
36	36	0.148
37	37	0.0544
38	38	0.978
39	39	0.248
4	4	0.352
40	40	0.291
41	41	0.0757
42	42	0.262
43	43	0.973
44	44	0.129
45	45	0.692
46	46	0.327
47	47	0.865
48	48	0.651
49	49	0.589
5	5	0.829
50	50	0.37
51	51	0.775
52	52	0.933
53	53	0.799
54	54	0.344
55	55	0.818
56	56	0.682
57	57	0.741
58	58	0.555
59	59	0.469
6	6	0.957
60	60	0.539
61	61	0.164
62	62	0.829
63	63	0.291
64	64	0.609
65	65	0.518
66	66	0.1
67	67	0.889
68	68	0.0219
69	69	0.984
7	7	0.0965
70	70	0.545
71	71	0.0014
72	72	0.837
73	73	0.065
74	74	0.64
75	75	0.141
76	76	0.648
77	77	0.323
78	78	0.355
79	79	0.158
8	8	0.101
80	80	0.133
81	81	0.176
82	82	0.332
83	83	0.919
84	84	0.0395
85	85	0.826
86	86	0.306
87	87	0.493
88	88	0.903
89	89	0.778
9	9	0.86
90	90	0.353
91	91	0.987
92	92	0.622
93	93	0.883
94	94	0.342
95	95	0.0439
96	96	0.906
97	97	0.335
98	98	0.567
99	99	0.669

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: CNhs11003

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011263 mouse pancreas- embryo E16 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)
0000299 (mouse embryonic day 16 sample)
0011263 (mouse pancreas- embryo E16 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
+|DRA_sample_Accession=CAGE@SAMD00005291
+|accession_numbers=CAGE;DRX009057;DRR009931;DRZ001356;DRZ002739;DRZ012706;DRZ014089
 |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=
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr2:164228702..164228719,+!p1@Rbpjl!2.88!753.29!Rbpjl;;chr2:19367259..19367278,+!p1@Ptf1a!2.59!387.96!Ptf1a;;chr5:144951153..144951203,+!p1@Bhlha15!2.25!252.16!Bhlha15;;chr10:61595830..61595846,+!p1@Neurog3!1.99!96.38!Neurog3;;chr9:74709695..74709722,+!p1@Onecut1!1.76!56.96!Onecut1;;chr17:27865882..27865901,-!p1@Spdef!1.66!45.08!Spdef;;chr7:19608891..19608895,-!p1@Foxa3!1.62!52.06!Foxa3;;chr1:138857076..138857105,-!p1@Nr5a2!1.52!32.06!Nr5a2;;chr8:59799772..59799789,+!p1@Hand2!1.43!72.24!Hand2;;chr2:147871627..147871641,-!p1@Foxa2!1.43!26.03!Foxa2;;chr2:79296783..79296801,-!p1@Neurod1!1.40!24.14!Neurod1;;chr2:163332558..163332596,+!p2@Hnf4a!1.37!22.63!Hnf4a;;chr7:17647736..17647772,-!p1@Hif3a!1.33!70.92!Hif3a;;chr14:63864056..63864102,-!p1@Gata4!1.32!34.33!Gata4;;chr3:30039329..30039355,-!p5@Mecom!1.31!19.43!Mecom;;chr2:103143336..103143367,-!p1@Ehf!1.26!27.91!Ehf;;chr1:138857112..138857130,-!p7@Nr5a2!1.24!16.41!Nr5a2;;chr4:133109285..133109308,+!p1@Nr0b2!1.15!13.01!Nr0b2;;chr7:6649134..6649167,-!p1@Zim1!1.10!62.81!Zim1;;chrX:45245679..45245702,-!p1@Smarca1!1.09!51.11!Smarca1;;chr5:148081686..148081715,+!p1@Pdx1!1.06!10.37!Pdx1;;chr1:138857048..138857071,-!p2@Nr5a2!1.06!10.37!Nr5a2;;chr13:117099847..117099907,-!p1@Isl1!1.05!18.86!Isl1;;chr11:83664365..83664383,+!p1@Hnf1b!1.04!10.00!Hnf1b;;chr1:138846009..138846038,-!p3@Nr5a2!1.01!10.56!Nr5a2;;chr5:148081667..148081678,+!p3@Pdx1!1.01!9.24!Pdx1;;chr9:96620459..96620478,-!p9@Zbtb38!1.00!10.00!Zbtb38;;chr11:98605517..98605539,+!p5@Thra!0.98!12.45!Thra;;chr5:125538737..125538781,-!p2@Ncor2!0.93!27.72!Ncor2;;chr1:138846079..138846103,-!p6@Nr5a2!0.93!7.54!Nr5a2;;chr2:146047829..146047847,+!p1@Insm1!0.91!13.20!Insm1;;chr2:147012125..147012149,-!p1@Nkx2-2!0.91!7.17!Nkx2-2;;chr14:63890491..63890516,-!p2@Gata4!0.91!7.17!Gata4;;chr10:12810631..12810649,+!p1@Plagl1!0.90!191.81!Plagl1;;chr1:137155026..137155042,-!p1@Elf3!0.90!42.62!Elf3;;chr3:30408384..30408431,-!p4@Mecom!0.90!8.86!Mecom;;chr5:148081722..148081744,+!p2@Pdx1!0.90!6.98!Pdx1;;chr1:138846047..138846074,-!p5@Nr5a2!0.87!6.98!Nr5a2;;chr5:102094214..102094230,-!p1@Nkx6-1!0.87!6.41!Nkx6-1;;chr3:90046995..90047031,-!p2@Creb3l4!0.86!7.92!Creb3l4;;chr10:22539932..22539956,-!p1@Tcf21!0.85!17.16!Tcf21;;chr2:105509045..105509071,+!p1@Pax6!0.85!6.04!Pax6;;chr14:63890519..63890539,-!p3@Gata4!0.84!5.85!Gata4;;chr14:63890545..63890560,-!p5@Gata4!0.82!5.66!Gata4;;chr5:135582751..135582788,+!p1@Mlxipl!0.80!23.01!Mlxipl;;chr2:115888250..115888298,-!p10@Meis2!0.79!6.41!Meis2;;chr4:135129538..135129558,-!p1@Grhl3!0.78!7.92!Grhl3;;chr10:51397572..51397595,+!p1@Rfx6!0.78!5.09!Rfx6;;chr11:5420655..5420659,+!p3@Xbp1!0.77!4.90!Xbp1;;chr13:48758276..48758291,+!p1@Barx1!0.77!4.90!Barx1;;chr19:10315179..10315241,-!p1@Gm98!0.76!54.13!Gm98;;chr10:119913310..119913366,-!p1@Hmga2!0.76!41.12!Hmga2;;chr2:103143315..103143328,-!p2@Ehf!0.76!4.72!Ehf;;chr19:5560600..5560617,-!p1@Ovol1!0.74!5.66!Ovol1;;chr2:147871948..147871977,-!p3@Foxa2!0.73!4.34!Foxa2;;chr10:114821393..114821431,-!p5@Thap2!0.72!12.83!Thap2;;chr11:106128936..106128955,-!p4@Smarcd2!0.72!5.09!Smarcd2;;chr14:63890660..63890687,-!p7@Gata4!0.71!4.15!Gata4;;chr6:30908793..30908815,-!p1@Klf14!0.71!4.15!Klf14;;chr2:147019977..147019985,-!p2@Nkx2-2!0.71!4.15!Nkx2-2;;chr2:147872790..147872821,-!p2@Foxa2!0.70!3.96!Foxa2;;chr7:86956107..86956152,+!p@chr7:86956107..86956152,+!0.69!6.41!Mesp2;;chrX:90531838..90531861,+!p1@Arx!0.69!5.09!Arx;;chr14:63890459..63890484,-!p4@Gata4!0.68!3.77!Gata4;;chr10:88969376..88969395,-!p1@Nr1h4!0.68!3.77!Nr1h4;;chr3:29911808..29911833,-!p8@Mecom!0.68!3.77!Mecom;;chr6:90412582..90412601,+!p1@Klf15!0.67!19.80!Klf15;;chr14:79915425..79915501,+!p1@Elf1!0.66!36.78!Elf1;;chr2:115890469..115890485,-!p7@Meis2!0.66!6.04!Meis2;;chr11:5420954..5420969,+!p2@Xbp1!0.65!49.98!Xbp1;;chr7:52471143..52471186,+!p1@Tead2!0.65!42.81!Tead2;;chr4:154010918..154010931,-!p1@Prdm16!0.65!11.50!Prdm16;;chr2:104966766..104966786,+!p1@Wt1!0.65!5.85!Wt1;;chr1:138845748..138845766,-!p4@Nr5a2!0.65!4.72!Nr5a2;;chr3:30408674..30408716,-!p2@Mecom!0.64!6.04!Mecom;;chr14:63890691..63890718,-!p8@Gata4!0.64!3.39!Gata4;;chr5:29805118..29805137,-!p1@Mnx1!0.64!3.39!Mnx1;;chr2:103264213..103264233,+!p1@Elf5!0.64!3.39!Elf5;;chr9:74714303..74714318,+!p2@Onecut1!0.64!3.39!Onecut1;;chrX:108009761..108009788,+!p1@Pou3f4!0.62!3.21!Pou3f4;;chr13:48758358..48758415,+!p2@Barx1!0.62!3.21!Barx1;;chr5:144951136..144951139,+!p2@Bhlha15!0.62!3.21!Bhlha15;;chrX:45245644..45245666,-!p2@Smarca1!0.61!11.32!Smarca1;;chr15:102865088..102865107,+!p1@Hoxc4!0.61!4.34!Hoxc4;;chr6:15135639..15135655,+!p9@Foxp2!0.61!3.96!Foxp2;;chr10:114821444..114821491,-!p1@Thap2!0.60!28.29!Thap2;;chr11:121380594..121380609,-!p2@Zfp750!0.60!5.66!Zfp750;;chr15:37162796..37162828,+!p1@Grhl2!0.60!5.47!Grhl2;;chr18:11052606..11052633,+!p4@Gata6!0.59!8.49!Gata6;;chr15:79178559..79178584,+!p8@Maff!0.58!2.83!Maff;;chr9:74709682..74709691,+!p3@Onecut1!0.58!2.83!Onecut1;;chr2:104966874..104966907,+!p2@Wt1!0.58!2.83!Wt1;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2!0.24!0.75!Meis2;;chr2:181501710..181501742,+!p2@Myt1!0.24!0.75!Myt1;;chr19:55969923..55969944,+!p6@Tcf7l2!0.24!0.75!Tcf7l2;;chr1:138846168..138846176,-!p14@Nr5a2!0.24!0.75!Nr5a2;;chr2:115890864..115890869,-!p14@Meis2!0.24!0.75!Meis2;;chr2:105515863..105515873,+!p8@Pax6!0.24!0.75!Pax6;;chr1:173987720..173987729,-!p1@Nhlh1!0.24!0.75!Nhlh1;;chr2:104966662..104966673,+!p4@Wt1!0.24!0.75!Wt1;;chr2:105002682..105002691,+!p10@Wt1!0.24!0.75!Wt1;;chr7:135019127..135019137,-!p6@Zfp668!0.24!0.75!Zfp668;;chr6:83301243..83301258,+!p2@Bola3!0.24!0.75!Bola3;;chr7:146768691..146768707,-!p1@Nkx6-2!0.24!0.75!Nkx6-2;;chr11:83666422..83666446,+!p4@Hnf1b!0.24!0.75!Hnf1b;;chr11:96164905..96164919,+!p2@Hoxb5!0.24!0.75!Hoxb5;;chr11:60034039..60034050,-!p4@Srebf1!0.24!0.75!Srebf1;;chr2:18314363..18314465,-!p1@Dnajc1!0.23!37.16!Dnajc1;;chr9:30838206..30838285,+!p2@Zbtb44!0.23!19.24!Zbtb44;;chr2:73730596..73730612,-!p3@Atf2,p3@LOC100047997!0.23!18.86!Atf2;;chr4:122911086..122911112,+!p1@Heyl!0.23!17.35!Heyl;;chr2:169458192..169458247,+!p1@Tshz2!0.23!13.01!Tshz2;;chr19:55816414..55816425,+!p4@Tcf7l2!0.23!7.36!Tcf7l2;;chr19:28086045..28086080,-!p4@Rfx3!0.23!6.60!Rfx3;;chr4:135728581..135728668,+!p1@E2f2!0.23!6.60!E2f2;;chr7:105851808..105851822,+!p3@Prkrir!0.23!4.72!Prkrir;;chr6:14851287..14851342,+!p1@Foxp2!0.23!4.34!Foxp2;;chr18:39649534..39649569,-!p3@Nr3c1!0.23!4.34!Nr3c1;;chr16:3744162..3744180,+!p2@Zfp263!0.23!3.39!Zfp263;;chr1:186556323..186556370,-!p2@Hlx!0.23!3.39!Hlx;;chr2:148506935..148506954,+!p2@Gzf1!0.23!2.26!Gzf1;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!0.23!2.26!Hmga1;;chr17:37140628..37140631,+!p2@Zfp57!0.23!2.26!Zfp57;;chr15:103085660..103085681,-!p1@Nfe2!0.23!1.51!Nfe2;;chr14:52640315..52640328,-!p10@Zfp219!0.23!1.13!Zfp219;;chr7:77511622..77511657,-!p5@Nr2f2!0.23!1.13!Nr2f2;;chr10:80555320..80555378,-!p1@Creb3l3!0.23!0.94!Creb3l3;;chr18:74375851..74375891,+!p1@Cxxc1!0.22!59.03!Cxxc1;;chr4:82151274..82151290,-!p3@Nfib!0.22!23.76!Nfib;;chr17:71199121..71199165,-!p2@Tgif1!0.22!10.18!Tgif1;;chr19:28085628..28085671,-!p1@Rfx3!0.22!9.81!Rfx3;;chr10:79389784..79389833,+!p1@Arid3a!0.22!7.36!Arid3a;;chr6:37392159..37392172,-!p2@Creb3l2!0.22!6.22!Creb3l2;;chr16:33380881..33380909,+!p1@Zfp148!0.22!5.85!Zfp148;;chrX:45807489..45807502,-!p2@Elf4!0.22!3.96!Elf4;;chr1:172797934..172797945,-!p4@Atf6!0.22!3.58!Atf6;;chr4:133276698..133276743,-!p6@Arid1a!0.22!3.39!Arid1a;;chr9:32349240..32349276,-!p2@Fli1!0.22!2.83!Fli1;;chr8:13339656..13339661,+!p3@Tfdp1!0.22!2.64!Tfdp1;;chr12:87027598..87027652,+!p1@Batf!0.22!2.64!Batf;;chr6:72185553..72185612,-!p2@Atoh8!0.22!2.07!Atoh8;;chr11:44430989..44431015,+!p4@Ebf1!0.22!1.89!Ebf1;;chr13:67500674..67500700,-!p2@Zfp429!0.22!1.70!Zfp429;;chr17:48015645..48015689,-!p9@Foxp4!0.22!1.13!Foxp4;;chr4:61869573..61869595,-!p2@Zfp37!0.22!1.13!Zfp37;;chr10:88996295..88996335,-!p3@Nr1h4!0.22!0.94!Nr1h4;;chr10:92773591..92773623,-!p1@Elk3!0.21!32.06!Elk3;;chr11:101413151..101413207,-!p1@Brca1!0.21!13.58!Brca1;;chr8:81552152..81552208,+!p1@Zfp827!0.21!10.00!Zfp827;;chr14:65977324..65977372,+!p2@Zfp395!0.21!7.54!Zfp395;;chr5:25004540..25004562,-!p3@Mll3!0.21!6.79!Mll3;;chr16:84835315..84835342,+!p3@Gabpa!0.21!4.53!Gabpa;;chr6:72849808..72849837,-!p4@Kcmf1!0.21!3.58!Kcmf1;;chr17:28487603..28487626,-!p2@Tead3!0.21!2.26!Tead3;;chr12:39507680..39507715,+!p2@Etv1!0.21!2.07!Etv1;;chr11:70043257..70043263,-!p1@Bcl6b!0.21!1.70!Bcl6b;;chr6:72185210..72185228,-!p3@Atoh8!0.21!1.70!Atoh8;;chr8:90483433..90483457,-!p2@Zfp423!0.21!1.13!Zfp423;;chr1:64168228..64168250,-!p7@Klf7!0.21!1.13!Klf7;;chr7:123177120..123177138,-!p10@Sox6!0.21!0.94!Sox6;;chr7:123182248..123182264,-!p3@Sox6!0.21!0.94!Sox6;;chr4:128483422..128483430,-!p6@Zfp362!0.21!0.94!Zfp362;;chr7:133839456..133839523,+!p1@Bola2!0.20!70.73!Bola2;;chr7:77505617..77505632,-!p1@Nr2f2!0.20!66.58!Nr2f2;;chr4:82151178..82151262,-!p1@Nfib!0.20!56.96!Nfib;;chr14:47896467..47896523,-!p1@Wdhd1!0.20!16.60!Wdhd1;;chr19:38893646..38893732,-!p1@Noc3l!0.20!14.90!Noc3l;;chr1:170362040..170362113,-!p2@Pbx1!0.20!10.56!Pbx1;;chr2:91077082..91077122,-!p1@Ddb2!0.20!8.11!Ddb2;;chr11:50700965..50701027,-!p1@Zfp454!0.20!4.34!Zfp454;;chr3:87945895..87945946,+!p2@Mef2d!0.20!3.77!Mef2d;;chr5:76733499..76733532,-!p2@Clock!0.20!3.77!Clock;;chr6:15135456..15135520,+!p3@Foxp2!0.20!2.26!Foxp2;;chr5:3647720..3647733,-!p3@Gatad1!0.20!1.89!Gatad1;;chr12:3891753..3891801,+!p4@Dnmt3a!0.20!1.51!Dnmt3a;;chr2:91864449..91864492,-!p3@Creb3l1!0.20!1.51!Creb3l1;;chr15:85566014..85566045,+!p3@Ppara!0.20!1.13!Ppara;;chr6:144157924..144157955,-!p2@Sox5!0.20!0.94!Sox5;;chr10:88996336..88996380,-!p2@Nr1h4!0.20!0.94!Nr1h4;;chr10:107769219..107769226,+!p5@Pawr!0.20!0.94!Pawr;;chr14:22806778..22806795,-!p5@Zfp503!0.20!0.75!Zfp503;;chr12:25780945..25780961,-!p1@Id2!0.19!238.96!Id2;;chr17:79336371..79336414,-!p1@Cebpz!0.19!66.95!Cebpz;;chr11:100948597..100948637,+!p1@Mlx!0.19!33.19!Mlx;;chr11:106134020..106134128,-!p1@Smarcd2!0.19!27.35!Smarcd2;;chr8:125897750..125897758,+!p2@Tcf25!0.19!8.86!Tcf25;;chr17:3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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011263
 |is_obsolete=
+|library_id=CNhs11003
+|library_id_phase_based=2:CNhs11003
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;460
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;460
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E16.CNhs11003.460-26E5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E16.CNhs11003.460-26E5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E16.CNhs11003.460-26E5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E16.CNhs11003.460-26E5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E16.CNhs11003.460-26E5.mm9.nobarcode.rdna.fa.gz
 |name=pancreas, embryo E16
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11003,LSID730,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.264706980627095,0,0,0,0,0.0375187909878671,0.128599423037834,0,0.00441194813410214,0,0,0.762947242377473,0,0,0,0,0,0,-0.0528931331005649,0,0,0,0,0,0,0.603975481062362,0,0,0,0,0,0,0.137120755766405,0,0,0,0,0,-0.134285143520092,-0.0207766921563666,-0.0356763598138365,0.853994169026285,0.018609839623752,0,0,0,0.0750375819757342,0,0,0,0,0,0,0,0,0.0729946702185694,0,0,0,0,0.146773777038888,0,0,0,0,0,0.0182725048742135,0.120302056554659,-0.158091042771083,0.181904318837004,0,0,-0.0390155181423728,0.0635122422873747,0,0,-0.0341196523431481,-0.0761268983706054,-0.196441805003801,-0.0788315948399074,0,0,0,0,0,0,0.00207105174827099,0.27174761305687,-0.0880449724264806,0,0,0.194740515512231,0,0
@@ Line 59: / Line 73: @@
 |rna_rin=
 |rna_sample_type=
-|rna_tube_id=26E5
+|rna_tube_id=2.60E+06
 |rna_weight_ug=
 |sample_age=
@@ Line 83: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:460-26E5;search_select_hide=table117:460-26E5
 }}

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FF:460-26E5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:17, 4 June 2020

CNhs11003

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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