FF:405-44F4: Difference between revisions

Latest revision as of 19:15, 4 June 2020

Name:	pancreas, embryo E14
Species:	Mouse (Mus musculus)
Library ID:	CNhs11012
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	pancreas
dev stage	14 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		SAMD00004683

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11012		CAGE		DRX009055		DRR009929

Accession ID Mm9

Library id		BAM		CTSS
CNhs11012		DRZ001354		DRZ002737

Accession ID Mm10

Library id		BAM		CTSS
CNhs11012		DRZ012704		DRZ014087

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

CNhs11012

0	0
1	0
10	0
100	0
1000	0.0117
1001	0.00785
1002	0.491
1003	-0.0469
1004	0
1005	0
1006	-0.143
1007	-3.128138e-4
1008	0
1009	-0.0281
101	0.102
1010	0.768
1011	-0.0131
1012	0.0944
1013	-0.126
1014	0.643
1015	0.167
1016	0.0893
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0163
1022	-0.0632
1023	0
1024	0.082
1025	0.233
1026	0
1027	0.0334
1028	0
1029	-0.00496
103	0.172
1030	0
1031	0.206
1032	-0.0822
1033	0.0967
1034	0.0322
1035	0
1036	0.208
1037	0
1038	-0.0941
1039	-0.0117
104	0
1040	0.0791
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: CNhs11012

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	2.91802e-4
MA0003.1	MA0003.1	0.749
MA0004.1	MA0004.1	0.399
MA0006.1	MA0006.1	0.897
MA0007.1	MA0007.1	0.44
MA0009.1	MA0009.1	0.842
MA0014.1	MA0014.1	0.611
MA0017.1	MA0017.1	0.0467
MA0018.2	MA0018.2	0.0304
MA0019.1	MA0019.1	0.689
MA0024.1	MA0024.1	5.47639e-10
MA0025.1	MA0025.1	0.0123
MA0027.1	MA0027.1	0.06
MA0028.1	MA0028.1	0.00165
MA0029.1	MA0029.1	0.303
MA0030.1	MA0030.1	0.0277
MA0031.1	MA0031.1	0.00594
MA0035.2	MA0035.2	0.774
MA0038.1	MA0038.1	0.442
MA0039.2	MA0039.2	0.412
MA0040.1	MA0040.1	0.0925
MA0041.1	MA0041.1	0.21
MA0042.1	MA0042.1	0.315
MA0043.1	MA0043.1	0.6
MA0046.1	MA0046.1	3.48631e-25
MA0047.2	MA0047.2	0.621
MA0048.1	MA0048.1	0.0488
MA0050.1	MA0050.1	2.72432e-7
MA0051.1	MA0051.1	1.30669e-7
MA0052.1	MA0052.1	6.27851e-7
MA0055.1	MA0055.1	0.00122
MA0057.1	MA0057.1	0.417
MA0058.1	MA0058.1	0.282
MA0059.1	MA0059.1	1.79057e-4
MA0060.1	MA0060.1	5.51113e-8
MA0061.1	MA0061.1	0.731
MA0062.2	MA0062.2	0.0308
MA0065.2	MA0065.2	0.486
MA0066.1	MA0066.1	0.583
MA0067.1	MA0067.1	0.0131
MA0068.1	MA0068.1	0.682
MA0069.1	MA0069.1	0.365
MA0070.1	MA0070.1	0.248
MA0071.1	MA0071.1	0.222
MA0072.1	MA0072.1	0.0224
MA0073.1	MA0073.1	0.892
MA0074.1	MA0074.1	0.163
MA0076.1	MA0076.1	0.0127
MA0077.1	MA0077.1	0.459
MA0078.1	MA0078.1	0.909
MA0079.2	MA0079.2	0.298
MA0080.2	MA0080.2	2.0505e-6
MA0081.1	MA0081.1	0.0951
MA0083.1	MA0083.1	0.166
MA0084.1	MA0084.1	0.658
MA0087.1	MA0087.1	0.61
MA0088.1	MA0088.1	0.285
MA0090.1	MA0090.1	0.498
MA0091.1	MA0091.1	0.0111
MA0092.1	MA0092.1	0.802
MA0093.1	MA0093.1	0.392
MA0099.2	MA0099.2	1.72416e-5
MA0100.1	MA0100.1	0.528
MA0101.1	MA0101.1	0.532
MA0102.2	MA0102.2	0.0471
MA0103.1	MA0103.1	0.182
MA0104.2	MA0104.2	0.031
MA0105.1	MA0105.1	0.166
MA0106.1	MA0106.1	0.71
MA0107.1	MA0107.1	0.115
MA0108.2	MA0108.2	0.451
MA0111.1	MA0111.1	0.461
MA0112.2	MA0112.2	0.754
MA0113.1	MA0113.1	0.777
MA0114.1	MA0114.1	0.0509
MA0115.1	MA0115.1	0.422
MA0116.1	MA0116.1	0.519
MA0117.1	MA0117.1	0.0213
MA0119.1	MA0119.1	0.902
MA0122.1	MA0122.1	0.157
MA0124.1	MA0124.1	0.465
MA0125.1	MA0125.1	0.748
MA0131.1	MA0131.1	0.0818
MA0135.1	MA0135.1	0.632
MA0136.1	MA0136.1	7.54696e-4
MA0137.2	MA0137.2	0.425
MA0138.2	MA0138.2	0.00365
MA0139.1	MA0139.1	0.46
MA0140.1	MA0140.1	0.0911
MA0141.1	MA0141.1	0.32
MA0142.1	MA0142.1	0.353
MA0143.1	MA0143.1	0.476
MA0144.1	MA0144.1	0.71
MA0145.1	MA0145.1	0.733
MA0146.1	MA0146.1	0.611
MA0147.1	MA0147.1	0.00196
MA0148.1	MA0148.1	0.681
MA0149.1	MA0149.1	0.587
MA0150.1	MA0150.1	4.72773e-4
MA0152.1	MA0152.1	0.999
MA0153.1	MA0153.1	1.39388e-13
MA0154.1	MA0154.1	0.819
MA0155.1	MA0155.1	0.169
MA0156.1	MA0156.1	0.13
MA0157.1	MA0157.1	0.0267
MA0159.1	MA0159.1	0.586
MA0160.1	MA0160.1	0.121
MA0162.1	MA0162.1	0.307
MA0163.1	MA0163.1	0.00448
MA0164.1	MA0164.1	0.418
MA0258.1	MA0258.1	0.298
MA0259.1	MA0259.1	0.216

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: CNhs11012

Novel motif	Logo	P-value
1	1	0.362
10	10	0.311
100	100	0.395
101	101	0.502
102	102	0.676
103	103	0.616
104	104	0.974
105	105	0.242
106	106	0.126
107	107	0.0515
108	108	0.976
109	109	0.472
11	11	0.738
110	110	0.405
111	111	0.184
112	112	0.39
113	113	0.0589
114	114	0.00586
115	115	0.536
116	116	0.69
117	117	0.254
118	118	0.521
119	119	0.204
12	12	0.462
120	120	0.854
121	121	0.834
122	122	0.712
123	123	0.0577
124	124	0.0832
125	125	0.204
126	126	0.349
127	127	0.335
128	128	0.228
129	129	0.0108
13	13	0.0319
130	130	0.335
131	131	0.956
132	132	0.631
133	133	0.86
134	134	0.0943
135	135	0.416
136	136	0.374
137	137	0.934
138	138	0.219
139	139	0.0371
14	14	0.276
140	140	0.633
141	141	0.495
142	142	0.664
143	143	0.701
144	144	0.37
145	145	0.774
146	146	0.425
147	147	0.538
148	148	0.581
149	149	0.823
15	15	0.162
150	150	0.915
151	151	0.0298
152	152	0.734
153	153	0.638
154	154	0.484
155	155	0.577
156	156	2.38952e-5
157	157	0.896
158	158	0.809
159	159	0.598
160	160	0.344
161	161	0.428
162	162	0.351
163	163	0.0592
164	164	0.743
165	165	0.493
166	166	0.382
167	167	0.971
168	168	0.915
169	169	0.745
17	17	0.352
18	18	0.608
19	19	0.492
2	2	0.26
20	20	0.39
21	21	0.46
22	22	0.949
23	23	0.00829
24	24	0.656
25	25	0.432
26	26	0.0583
27	27	0.31
28	28	0.0427
29	29	0.415
3	3	0.949
30	30	0.758
31	31	0.663
32	32	0.664
33	33	0.6
34	34	0.975
35	35	0.37
36	36	0.344
37	37	0.826
38	38	0.709
39	39	0.518
4	4	0.544
40	40	0.303
41	41	0.0521
42	42	0.594
43	43	0.155
44	44	0.979
45	45	0.424
46	46	0.833
47	47	0.721
48	48	0.713
49	49	0.173
5	5	0.0905
50	50	0.506
51	51	0.469
52	52	0.493
53	53	0.345
54	54	0.184
55	55	0.665
56	56	0.933
57	57	0.923
58	58	0.441
59	59	0.551
6	6	0.209
60	60	0.421
61	61	0.482
62	62	0.176
63	63	0.44
64	64	0.967
65	65	0.663
66	66	0.207
67	67	0.768
68	68	0.479
69	69	0.807
7	7	0.69
70	70	0.00591
71	71	0.288
72	72	0.288
73	73	0.425
74	74	0.161
75	75	0.806
76	76	0.301
77	77	0.538
78	78	0.227
79	79	0.852
8	8	0.31
80	80	0.167
81	81	0.207
82	82	0.453
83	83	0.543
84	84	0.0858
85	85	0.0387
86	86	0.986
87	87	0.503
88	88	0.844
89	89	0.307
9	9	0.486
90	90	0.907
91	91	0.623
92	92	0.351
93	93	0.696
94	94	0.169
95	95	0.31
96	96	0.6
97	97	0.896
98	98	0.647
99	99	0.261

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: CNhs11012

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011262 mouse pancreas- embryo E14 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)
0000296 (mouse embryonic day 14 sample)
0011262 (mouse pancreas- embryo E14 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@DRS008918
+|DRA_sample_Accession=CAGE@SAMD00004683
-|accession_numbers=CAGE;DRX009055;DRR009929;DRZ001354;DRZ002737
+|accession_numbers=CAGE;DRX009055;DRR009929;DRZ001354;DRZ002737;DRZ012704;DRZ014087
 |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 9: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr10:61595830..61595846,+!p1@Neurog3!2.30!197.38!Neurog3;;chr2:164228702..164228719,+!p1@Rbpjl!1.88!74.78!Rbpjl;;chr2:19367259..19367278,+!p1@Ptf1a!1.84!68.22!Ptf1a;;chr8:59799772..59799789,+!p1@Hand2!1.83!182.57!Hand2;;chr9:74709695..74709722,+!p1@Onecut1!1.77!58.51!Onecut1;;chr2:79296783..79296801,-!p1@Neurod1!1.47!28.41!Neurod1;;chr2:147871627..147871641,-!p1@Foxa2!1.37!22.34!Foxa2;;chr5:102094214..102094230,-!p1@Nkx6-1!1.35!21.36!Nkx6-1;;chr5:144951153..144951203,+!p1@Bhlha15!1.34!30.10!Bhlha15;;chr11:83664365..83664383,+!p1@Hnf1b!1.30!19.18!Hnf1b;;chr10:22539932..22539956,-!p1@Tcf21!1.29!48.56!Tcf21;;chr14:63864056..63864102,-!p1@Gata4!1.29!31.56!Gata4;;chr7:19608891..19608895,-!p1@Foxa3!1.28!23.31!Foxa3;;chr2:146047829..146047847,+!p1@Insm1!1.26!30.35!Insm1;;chr13:48758276..48758291,+!p1@Barx1!1.26!16.99!Barx1;;chr10:119913310..119913366,-!p1@Hmga2!1.25!129.89!Hmga2;;chr5:148081686..148081715,+!p1@Pdx1!1.25!16.75!Pdx1;;chr5:148081722..148081744,+!p2@Pdx1!1.21!15.30!Pdx1;;chr10:119913546..119913583,-!p3@Hmga2!1.20!30.83!Hmga2;;chr2:147012125..147012149,-!p1@Nkx2-2!1.19!14.32!Nkx2-2;;chr2:163332558..163332596,+!p2@Hnf4a!1.17!13.84!Hnf4a;;chr13:117099847..117099907,-!p1@Isl1!1.15!24.04!Isl1;;chr10:119913278..119913298,-!p2@Hmga2!1.14!28.89!Hmga2;;chrX:90531838..90531861,+!p1@Arx!1.13!15.78!Arx;;chr12:3891810..3891829,+!p2@Dnmt3a!1.12!19.18!Dnmt3a;;chr10:12810631..12810649,+!p1@Plagl1!1.10!299.35!Plagl1;;chr7:6649134..6649167,-!p1@Zim1!1.10!63.61!Zim1;;chrX:108009761..108009788,+!p1@Pou3f4!1.09!11.41!Pou3f4;;chr5:148081667..148081678,+!p3@Pdx1!1.09!11.17!Pdx1;;chr2:105509045..105509071,+!p1@Pax6!1.08!10.93!Pax6;;chr2:147019977..147019985,-!p2@Nkx2-2!1.05!10.20!Nkx2-2;;chr10:119914001..119914078,-!p4@Hmga2!1.01!12.62!Hmga2;;chr1:138857112..138857130,-!p7@Nr5a2!1.01!9.23!Nr5a2;;chr5:42155788..42155800,-!p1@Nkx3-2!1.01!9.23!Nkx3-2;;chr2:103264213..103264233,+!p1@Elf5!0.98!8.50!Elf5;;chr1:138857076..138857105,-!p1@Nr5a2!0.98!8.50!Nr5a2;;chr1:140739014..140739032,-!p1@Lhx9!0.96!10.44!Lhx9;;chr1:138846009..138846038,-!p3@Nr5a2!0.96!9.23!Nr5a2;;chr6:52154414..52154462,-!p1@Hoxa5!0.95!10.93!Hoxa5;;chr19:45225149..45225186,+!p1@Tlx1!0.94!7.77!Tlx1;;chr1:137155026..137155042,-!p1@Elf3!0.93!45.40!Elf3;;chr19:43686789..43686811,+!p1@Nkx2-3!0.93!7.53!Nkx2-3;;chr2:104966766..104966786,+!p1@Wt1!0.92!11.65!Wt1;;chr1:191994550..191994623,-!p1@Prox1!0.89!48.56!Prox1;;chr6:52154386..52154407,-!p2@Hoxa5!0.89!8.74!Hoxa5;;chr2:103143336..103143367,-!p1@Ehf!0.88!10.93!Ehf;;chr1:138850177..138850182,-!p11@Nr5a2!0.88!6.56!Nr5a2;;chr13:48758358..48758415,+!p2@Barx1!0.88!6.56!Barx1;;chr12:9581262..9581282,+!p1@Osr1!0.84!75.02!Osr1;;chr19:10315179..10315241,-!p1@Gm98!0.82!63.12!Gm98;;chr18:11052642..11052659,+!p1@Gata6!0.82!30.10!Gata6;;chrX:45245679..45245702,-!p1@Smarca1!0.82!26.71!Smarca1;;chr8:87425854..87425891,+!p1@Klf1!0.82!5.58!Klf1;;chr11:106128936..106128955,-!p4@Smarcd2!0.80!6.31!Smarcd2;;chr10:51397572..51397595,+!p1@Rfx6!0.80!5.34!Rfx6;;chr5:102094266..102094273,-!p3@Nkx6-1!0.80!5.34!Nkx6-1;;chr15:35225845..35225867,+!p1@Osr2!0.79!13.84!Osr2;;chr17:27865882..27865901,-!p1@Spdef!0.79!5.10!Spdef;;chr11:85646303..85646329,+!p1@Tbx2!0.77!35.45!Tbx2;;chr4:133109285..133109308,+!p1@Nr0b2!0.77!4.86!Nr0b2;;chr5:29805118..29805137,-!p1@Mnx1!0.77!4.86!Mnx1;;chr7:52471143..52471186,+!p1@Tead2!0.76!56.08!Tead2;;chr19:37509324..37509337,+!p1@Hhex!0.76!36.90!Hhex;;chr10:119913792..119913820,-!p5@Hmga2!0.76!8.50!Hmga2;;chr11:96213434..96213452,+!p@chr11:96213434..96213452,+!0.76!6.56!Hoxb2;;chr11:85646263..85646278,+!p2@Tbx2!0.75!12.87!Tbx2;;chr7:17642053..17642066,-!p2@Hif3a!0.75!6.80!Hif3a;;chrX:98449898..98449913,+!p2@Foxo4!0.74!15.78!Foxo4;;chr13:72766250..72766273,+!p1@Irx2!0.74!7.28!Irx2;;chr1:165243379..165243402,-!p3@Prrx1!0.74!7.04!Prrx1;;chr11:112643496..112643562,+!p1@Sox9!0.73!180.87!Sox9;;chr15:102865088..102865107,+!p1@Hoxc4!0.73!6.07!Hoxc4;;chr11:18918434..18918489,-!p3@Meis1!0.72!7.04!Meis1;;chr7:17647736..17647772,-!p1@Hif3a!0.71!16.27!Hif3a;;chr2:147872790..147872821,-!p2@Foxa2!0.71!4.13!Foxa2;;chr2:104966933..104966966,+!p3@Wt1!0.71!4.13!Wt1;;chr1:138857048..138857071,-!p2@Nr5a2!0.71!4.13!Nr5a2;;chr19:45225276..45225304,+!p2@Tlx1!0.71!4.13!Tlx1;;chr15:102865131..102865151,+!p2@Hoxc4!0.70!4.61!Hoxc4;;chr6:30908793..30908815,-!p1@Klf14!0.69!3.88!Klf14;;chr7:108966820..108966835,+!p1@Phox2a!0.69!3.88!Phox2a;;chr11:96164821..96164865,+!p1@Hoxb5!0.69!3.88!Hoxb5;;chr2:115891534..115891589,-!p1@Meis2!0.68!61.18!Meis2;;chr5:135582751..135582788,+!p1@Mlxipl!0.68!16.99!Mlxipl;;chr11:3189683..3189744,+!p2@Patz1!0.67!8.25!Patz1;;chr11:98605517..98605539,+!p5@Thra!0.67!5.58!Thra;;chr11:84339016..84339044,-!p1@Lhx1!0.67!3.64!Lhx1;;chr6:83020355..83020371,-!p1@Tlx2!0.67!3.64!Tlx2;;chr17:26978521..26978536,-!p2@Nkx2-5!0.67!3.64!Nkx2-5;;chr2:103264245..103264268,+!p2@Elf5!0.67!3.64!Elf5;;chr17:35031460..35031518,+!p1@Zbtb12!0.66!20.64!Zbtb12;;chr11:96180045..96180059,+!p1@Hoxb4!0.66!5.34!Hoxb4;;chr2:28477452..28477483,-!p1@Gfi1b!0.66!4.61!Gfi1b;;chr14:22807083..22807104,-!p1@Zfp503!0.65!70.65!Zfp503;;chr19:7342725..7342784,+!p1@Rcor2!0.65!16.51!Rcor2;;chr18:11052456..11052477,+!p3@Gata6!0.64!11.90!Gata6;;chr2:103143315..103143328,-!p2@Ehf!0.64!3.40!Ehf;;chr1:173987720..173987729,-!p1@Nhlh1!0.64!3.40!Nhlh1;;chr15:102844431..102844445,+!p1@Hoxc5!0.64!3.40!Hoxc5;;chr9:74709682..74709691,+!p3@Onecut1!0.64!3.40!Onecut1;;chr4:154010409..154010466,-!p2@Prdm16!0.63!8.50!Prdm16;;chr18:11052606..11052633,+!p4@Gata6!0.62!8.98!Gata6;;chr12:3891753..3891801,+!p4@Dnmt3a!0.62!5.58!Dnmt3a;;chr11:96153767..96153822,+!p1@Hoxb6!0.62!5.34!Hoxb6;;chr17:26978409..26978442,-!p1@Nkx2-5!0.62!3.16!Nkx2-5;;chr11:18918917..18918944,-!p1@Meis1!0.61!47.83!Meis1;;chr14:17407549..17407575,-!p3@Rarb!0.61!5.10!Rarb;;chr8:90483433..90483457,-!p2@Zfp423!0.61!4.37!Zfp423;;chr1:138846047..138846074,-!p5@Nr5a2!0.61!3.40!Nr5a2;;chr14:22807216..22807231,-!p3@Zfp503!0.60!5.58!Zfp503;;chr4:154010918..154010931,-!p1@Prdm16!0.59!9.71!Prdm16;;chr19:10315252..10315266,-!p2@Gm98!0.59!4.86!Gm98;;chr2:104966874..104966907,+!p2@Wt1!0.59!2.91!Wt1;;chr2:147012101..147012118,-!p3@Nkx2-2!0.59!2.91!Nkx2-2;;chr8:124806048..124806094,+!p1@Zfpm1!0.58!31.08!Zfpm1;;chr19:28754692..28754757,-!p1@Glis3!0.58!13.84!Glis3;;chr6:52114821..52114828,-!p1@Hoxa2!0.58!4.61!Hoxa2;;chr7:6683123..6683142,-!p1@Peg3!0.57!177.47!Peg3;;chr11:18918959..18918976,-!p2@Meis1!0.57!45.40!Meis1;;chr17:48061584..48061601,-!p2@Foxp4!0.57!21.61!Foxp4;;chr11:74981654..74981658,-!p1@Hic1!0.57!12.87!Hic1;;chr2:115891409..115891425,-!p2@Meis2!0.57!9.23!Meis2;;chr2:115891381..115891392,-!p5@Meis2!0.57!6.07!Meis2;;chr15:37162834..37162849,+!p2@Grhl2!0.57!3.40!Grhl2;;chr8:73905344..73905381,-!p2@Nr2f6!0.56!7.28!Nr2f6;;chr11:96145450..96145517,+!p2@Hoxb7!0.56!4.37!Hoxb7;;chr12:9581317..9581333,+!p3@Osr1!0.56!4.37!Osr1;;chr13:72101161..72101177,-!p2@Irx1!0.56!3.88!Irx1;;chr1:6724908..6724955,+!p2@St18!0.56!2.67!St18;;chrX:7544943..7545001,-!p1@Gata1!0.56!2.67!Gata1;;chr5:115420882..115420896,-!p3@Hnf1a!0.56!2.67!Hnf1a;;chr15:61816932..61816952,+!p2@Myc!0.55!26.71!Myc;;chr2:115890953..115890974,-!p6@Meis2!0.54!4.13!Meis2;;chr1:138846079..138846103,-!p6@Nr5a2!0.54!2.43!Nr5a2;;chr2:147871948..147871977,-!p3@Foxa2!0.54!2.43!Foxa2;;chr5:67490284..67490302,-!p1@Phox2b!0.54!2.43!Phox2b;;chr7:77505617..77505632,-!p1@Nr2f2!0.53!143.00!Nr2f2;;chr10:86956396..86956411,-!p1@Ascl1!0.53!4.13!Ascl1;;chr2:156666727..156666753,+!p2@Tgif2!0.53!3.88!Tgif2;;chr16:14705925..14705951,+!p1@Snai2!0.52!20.88!Snai2;;chr18:65741358..65741415,+!p1@Zfp532!0.52!12.62!Zfp532;;chr14:22807107..22807119,-!p2@Zfp503!0.52!12.62!Zfp503;;chr4:108151497..108151514,+!p3@Zcchc11!0.52!5.34!Zcchc11;;chr6:52141694..52141715,-!p1@Hoxa4!0.52!3.16!Hoxa4;;chr19:28086045..28086080,-!p4@Rfx3!0.51!13.35!Rfx3;;chr4:13670499..13670526,+!p2@Runx1t1!0.51!5.83!Runx1t1;;chr1:138845748..138845766,-!p4@Nr5a2!0.51!3.16!Nr5a2;;chr12:28027561..28027591,-!p1@Sox11!0.50!18.45!Sox11;;chr2:169458519..169458555,+!p2@Tshz2!0.50!11.17!Tshz2;;chr18:11052485..11052508,+!p2@Gata6!0.50!7.53!Gata6;;chr7:135019147..135019187,-!p3@Zfp668!0.50!5.58!Zfp668;;chr14:56443806..56443848,+!p1@Nfatc4!0.50!5.10!Nfatc4;;chr15:37162796..37162828,+!p1@Grhl2!0.50!4.13!Grhl2;;chr7:52472041..52472065,+!p2@Tead2!0.50!2.67!Tead2;;chr9:24578720..24578735,-!p1@Tbx20!0.50!2.19!Tbx20;;chrX:108009798..108009815,+!p3@Pou3f4!0.50!2.19!Pou3f4;;chr1:6720216..6720232,+!p1@St18!0.50!2.19!St18;;chr11:106128919..106128933,-!p8@Smarcd2!0.50!2.19!Smarcd2;;chr11:96164905..96164919,+!p2@Hoxb5!0.50!2.19!Hoxb5;;chr10:50614546..50614568,+!p@chr10:50614546..50614568,+!0.50!2.19!Sim1;;chr4:13678723..13678739,+!p10@Runx1t1!0.50!2.19!Runx1t1;;chr7:150155143..150155156,-!p1@Ascl2!0.50!2.19!Ascl2;;chr17:48061605..48061629,-!p6@Foxp4!0.49!10.93!Foxp4;;chr7:77511403..77511450,-!p3@Nr2f2!0.49!5.34!Nr2f2;;chr3:128916868..128916890,+!p1@Pitx2!0.49!3.16!Pitx2;;chr13:30077847..30077906,-!p1@E2f3!0.48!20.64!E2f3;;chrX:45245644..45245666,-!p2@Smarca1!0.48!8.25!Smarca1;;chr17:32506357..32506377,-!p3@Wiz!0.48!5.10!Wiz;;chr13:72766279..72766296,+!p2@Irx2!0.48!3.40!Irx2;;chr15:103085660..103085681,-!p1@Nfe2!0.48!3.40!Nfe2;;chr7:17642018..17642045,-!p4@Hif3a!0.48!2.43!Hif3a;;chr3:30408603..30408668,-!p1@Mecom!0.47!5.58!Mecom;;chr2:153475178..153475196,+!p1@Dnmt3b!0.47!5.10!Dnmt3b;;chr4:135129538..135129558,-!p1@Grhl3!0.47!3.40!Grhl3;;chr19:7342786..7342803,+!p2@Rcor2!0.47!2.91!Rcor2;;chr10:119913839..119913869,-!p7@Hmga2!0.47!2.67!Hmga2;;chr2:147872074..147872079,-!p4@Foxa2!0.47!1.94!Foxa2;;chr2:181498020..181498040,+!p5@Myt1!0.47!1.94!Myt1;;chr1:138846117..138846129,-!p8@Nr5a2!0.47!1.94!Nr5a2;;chr9:55388997..55389016,+!p1@Isl2!0.47!1.94!Isl2;;chr9:106356211..106356242,+!p1@Pcbp4!0.46!50.50!Pcbp4;;chr2:115891427..115891441,-!p4@Meis2!0.46!4.86!Meis2;;chr13:72101178..72101203,-!p1@Irx1!0.46!3.40!Irx1;;chr7:89137163..89137200,-!p1@Bnc1!0.46!2.43!Bnc1;;chr6:72739185..72739232,-!p1@Tcf7l1!0.45!25.73!Tcf7l1;;chr16:4559608..4559681,-!p1@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eox2;;chr18:35721916..35721927,+!p3@Matr3!0.17!2.91!Matr3;;chr7:148008023..148008092,-!p1@Zfp941!0.17!2.43!Zfp941;;chr2:56976543..56976558,-!p2@Nr4a2!0.17!2.19!Nr4a2;;chr2:31428187..31428198,+!p3@Fubp3!0.17!1.94!Fubp3;;chr11:23978111..23978134,+!p3@Bcl11a!0.17!1.94!Bcl11a;;chr13:37949830..37949861,+!p7@Rreb1!0.17!1.70!Rreb1;;chr13:83663600..83663625,+!p6@Mef2c!0.17!1.21!Mef2c;;chr13:78339476..78339515,-!p1@Nr2f1!0.17!1.21!Nr2f1;;chr5:122499831..122499891,-!p1@Cux2!0.17!1.21!Cux2;;chr4:133801432..133801448,-!p3@Zfp593!0.17!1.21!Zfp593;;chr7:28516464..28516475,+!p3@Zfp60!0.17!1.21!Zfp60;;chr11:99092280..99092302,-!p3@Smarce1!0.17!1.21!Smarce1;;chr2:30700788..30700824,+!p2@Prrx2!0.17!1.21!Prrx2;;chr15:40486883..40486903,+!p4@Zfpm2!0.17!0.97!Zfpm2;;chr13:37918661..37918673,+!p17@Rreb1!0.17!0.73!Rreb1;;chr14:22808697..22808715,-!p4@Zfp503!0.17!0.73!Zfp503;;chr15:102237575..102237578,+!p7@Sp1!0.17!0.73!Sp1;;chr1:93698068..93698085,+!p2@Twist2!0.17!0.73!Twist2;;chr4:154011072..154011095,-!p6@Prdm16!0.17!0.73!Prdm16;;chr4:108132526..108132533,+!p11@Zcchc11!0.17!0.73!Zcchc11;;chr3:95032213..95032226,-!p6@Mllt11!0.17!0.73!Mllt11;;chr7:122968213..122968266,-!p4@Sox6!0.17!0.73!Sox6;;chr10:88996295..88996335,-!p3@Nr1h4!0.17!0.73!Nr1h4;;chr11:96160403..96160416,+!p4@Hoxb6!0.17!0.49!Hoxb6;;chr11:83665637..83665671,+!p6@Hnf1b!0.17!0.49!Hnf1b;;chr10:106931775..106931798,-!p1@Myf6!0.17!0.49!Myf6;;chr11:98826216..98826227,+!p10@Rara!0.17!0.49!Rara;;chr11:57645506..57645523,-!p1@Hand1!0.17!0.49!Hand1;;chr10:106923133..106923146,-!p1@Myf5!0.17!0.49!Myf5;;chr11:98190955..98190968,-!p2@Neurod2!0.17!0.49!Neurod2;;chr11:50641158..50641165,-!p3@Zfp354c!0.17!0.49!Zfp354c;;chr3:66785857..66785873,-!p1@Shox2!0.17!0.49!Shox2;;chr4:87452167..87452178,-!p8@Mllt3!0.17!0.49!Mllt3;;chr2:71367142..71367167,+!p2@Dlx1!0.17!0.49!Dlx1;;chr2:74543103..74543135,+!p4@Hoxd8!0.17!0.49!Hoxd8;;chr4:154010882..154010889,-!p10@Prdm16!0.17!0.49!Prdm16;;chr2:74543397..74543435,+!p2@Hoxd8!0.17!0.49!Hoxd8;;chr4:84192360..84192376,-!p8@Bnc2!0.17!0.49!Bnc2;;chr3:29911926..29911942,-!p13@Mecom!0.17!0.49!Mecom;;chr3:29911947..29911958,-!p14@Mecom!0.17!0.49!Mecom;;chr4:84321317..84321332,-!p4@Bnc2!0.17!0.49!Bnc2;;chr4:114729957..114730012,+!p3@Tal1!0.17!0.49!Tal1;;chr4:134676555..134676575,+!p2@Runx3!0.17!0.49!Runx3;;chr1:194979383..194979393,+!p3@Irf6!0.17!0.49!Irf6;;chr2:168592636..168592651,-!p1@Sall4!0.17!0.49!Sall4;;chr1:186556307..186556318,-!p7@Hlx!0.17!0.49!Hlx;;chr2:163372884..163372904,+!p1@Hnf4a!0.17!0.49!Hnf4a;;chr1:169528551..169528569,+!p8@Rxrg!0.17!0.49!Rxrg;;chr1:169528581..169528607,+!p7@Rxrg!0.17!0.49!Rxrg;;chr2:103264277..103264292,+!p3@Elf5!0.17!0.49!Elf5;;chr2:163372869..163372882,+!p3@Hnf4a!0.17!0.49!Hnf4a;;chr2:127347042..127347058,-!p3@Kcnip3!0.17!0.49!Kcnip3;;chr2:169458593..169458603,+!p13@Tshz2!0.17!0.49!Tshz2;;chr1:169528433..169528456,+!p10@Rxrg!0.17!0.49!Rxrg;;chr2:181501988..181502026,+!p3@Myt1!0.17!0.49!Myt1;;chr1:140743964..140743976,-!p3@Lhx9!0.17!0.49!Lhx9;;chr2:181501745..181501778,+!p1@Myt1!0.17!0.49!Myt1;;chr13:72766234..72766243,+!p3@Irx2!0.17!0.49!Irx2;;chr14:63890691..63890718,-!p8@Gata4!0.17!0.49!Gata4;;chr15:103085821..103085828,-!p6@Nfe2!0.17!0.49!Nfe2;;chr14:56443742..56443756,+!p6@Nfatc4!0.17!0.49!Nfatc4;;chr15:103082088..103082136,-!p2@Nfe2!0.17!0.49!Nfe2;;chr13:78339241..78339273,-!p9@Nr2f1!0.17!0.49!Nr2f1;;chr14:63890491..63890516,-!p2@Gata4!0.17!0.49!Gata4;;chr12:39510042..39510069,+!p8@Etv1!0.17!0.49!Etv1;;chr12:3806003..3806031,+!p11@Dnmt3a!0.17!0.49!Dnmt3a;;chr15:102839948..102839975,+!p3@Hoxc6!0.17!0.49!Hoxc6;;chr13:73397958..73397994,+!p1@Irx4!0.17!0.49!Irx4;;chr17:37139555..37139562,+!p6@Zfp57!0.17!0.49!Zfp57;;chr17:86087592..86087615,-!p1@Six2!0.17!0.49!Six2;;chr16:94085471..94085495,+!p1@Sim2!0.17!0.49!Sim2;;chr17:26978449..26978458,-!p3@Nkx2-5!0.17!0.49!Nkx2-5;;chr16:30064437..30064449,+!p11@Hes1!0.17!0.49!Hes1;;chr19:46380374..46380397,+!p7@Nfkb2!0.17!0.49!Nfkb2;;chr16:38294860..38294924,-!p1@Nr1i2!0.17!0.49!Nr1i2;;chr5:29805170..29805178,-!p2@Mnx1!0.17!0.49!Mnx1;;chr6:83301229..83301242,+!p3@Bola3!0.17!0.49!Bola3;;chr6:83301243..83301258,+!p2@Bola3!0.17!0.49!Bola3;;chr6:99216360..99216372,-!p8@Foxp1!0.17!0.49!Foxp1;;chr6:29479308..29479325,+!p3@Irf5!0.17!0.49!Irf5;;chr5:42155732..42155733,-!p3@Nkx3-2!0.17!0.49!Nkx3-2;;chr6:52108291..52108323,-!p1@Hoxa1!0.17!0.49!Hoxa1;;chr6:6831928..6831949,-!p3@Dlx5!0.17!0.49!Dlx5;;chr7:144505942..144505949,-!p10@Ebf3!0.17!0.49!Ebf3;;chr7:135019127..135019137,-!p6@Zfp668!0.17!0.49!Zfp668;;chr8:73222425..73222444,+!p2@Jund!0.17!0.49!Jund;;chr9:74714303..74714318,+!p2@Onecut1!0.17!0.49!Onecut1;;chr8:74842792..74842814,+!p2@Klf2!0.17!0.49!Klf2;;chr9:32349051..32349061,-!p5@Fli1!0.17!0.49!Fli1;;chr9:74714281..74714296,+!p5@Onecut1!0.17!0.49!Onecut1;;chr7:53631818..53631829,+!p2@Myod1!0.17!0.49!Myod1;;chrX:48499591..48499593,-!p3@Mbnl3!0.17!0.49!Mbnl3;;chr6:124662297..124662371,+!p1@Phb2!0.16!259.78!Phb2;;chr3:151873433..151873498,+!p1@Fubp1!0.16!172.86!Fubp1;;chr9:20757282.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@@ Line 44: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11012
+|library_id_phase_based=2:CNhs11012
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;405
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;405
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E14.CNhs11012.405-44F4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E14.CNhs11012.405-44F4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E14.CNhs11012.405-44F4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E14.CNhs11012.405-44F4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pancreas%252c%2520embryo%2520E14.CNhs11012.405-44F4.mm9.nobarcode.rdna.fa.gz
 |name=pancreas, embryo E14
 |namespace=FANTOM5
@@ Line 49: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11012,LSID730,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.0234011184749802,0,0,0,0,0.0447162759342594,0.0826278514788454,0,0.100035680620446,0,0,0.749873821383247,0,0,0,0,0,0,0.102820274309009,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.0897439456622788,0,0,0,0,0,0.0492018711619747,-0.0276698166538832,-0.14265776324384,0.851434929136711,0.0248449871812328,0.0943944778653996,0,0,0,0,0,0,0,0,0,0,0,0.0283889303019593,0,0,0,0,0.0515475227825249,0,0,0,0.0943944778653996,0,-0.027586971696221,-0.0730209965858106,-0.0636965649056829,0.0316954043410389,0,0,-0.0115522227799219,0,0,0,0,-0.0860297297145198,0.347034216491998,0.0155628830254922,0,0,0,0,0,0,0.259277274745119,0.672161374576981,0.173829134756451,0,0,0,0,0
@@ Line 86: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:405-44F4;search_select_hide=table117:405-44F4
 }}

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FF:405-44F4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:15, 4 June 2020

CNhs11012

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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