FF:420-27D2: Difference between revisions

Latest revision as of 19:16, 4 June 2020

Name:	whole body, embryo E14.5
Species:	Mouse (Mus musculus)
Library ID:	CNhs10578
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	whole body
dev stage	14.5 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		SAMD00005313

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10578		CAGE		DRX009145		DRR010019

Accession ID Mm9

Library id		BAM		CTSS
CNhs10578		DRZ001444		DRZ002827

Accession ID Mm10

Library id		BAM		CTSS
CNhs10578		DRZ012794		DRZ014177

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

CNhs10578

0	0
1	0.0945
10	0
100	0.0945
1000	0.0473
1001	-0.0631
1002	0.143
1003	0.163
1004	0.0945
1005	-0.00321
1006	0.0324
1007	0.0249
1008	0
1009	0.108
101	0.0567
1010	0
1011	0.0929
1012	0.0945
1013	-0.168
1014	0.298
1015	0.14
1016	0.264
1017	0
1018	0.345
1019	0
102	0
1020	0
1021	0
1022	0.0241
1023	0
1024	0.162
1025	0.295
1026	0
1027	0.238
1028	0
1029	0.163
103	0.375
1030	0
1031	0.446
1032	-0.138
1033	0.0969
1034	0
1035	0.0945
1036	0.144
1037	0
1038	0.0122
1039	-0.0533
104	0
1040	0.129
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: CNhs10578

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00191
MA0003.1	MA0003.1	0.843
MA0004.1	MA0004.1	0.162
MA0006.1	MA0006.1	0.608
MA0007.1	MA0007.1	0.0474
MA0009.1	MA0009.1	0.435
MA0014.1	MA0014.1	0.0536
MA0017.1	MA0017.1	1.97993e-5
MA0018.2	MA0018.2	0.00842
MA0019.1	MA0019.1	0.355
MA0024.1	MA0024.1	0.00707
MA0025.1	MA0025.1	0.0303
MA0027.1	MA0027.1	0.253
MA0028.1	MA0028.1	1.60344e-6
MA0029.1	MA0029.1	0.356
MA0030.1	MA0030.1	0.261
MA0031.1	MA0031.1	0.00139
MA0035.2	MA0035.2	0.234
MA0038.1	MA0038.1	0.00459
MA0039.2	MA0039.2	0.393
MA0040.1	MA0040.1	0.121
MA0041.1	MA0041.1	0.124
MA0042.1	MA0042.1	0.421
MA0043.1	MA0043.1	0.284
MA0046.1	MA0046.1	0.0019
MA0047.2	MA0047.2	0.1
MA0048.1	MA0048.1	0.0494
MA0050.1	MA0050.1	6.90341e-7
MA0051.1	MA0051.1	1.92338e-6
MA0052.1	MA0052.1	1.18698e-5
MA0055.1	MA0055.1	0.00291
MA0057.1	MA0057.1	0.507
MA0058.1	MA0058.1	0.0652
MA0059.1	MA0059.1	0.0237
MA0060.1	MA0060.1	2.64699e-8
MA0061.1	MA0061.1	0.148
MA0062.2	MA0062.2	2.0728e-14
MA0065.2	MA0065.2	4.32013e-5
MA0066.1	MA0066.1	0.188
MA0067.1	MA0067.1	0.0562
MA0068.1	MA0068.1	0.704
MA0069.1	MA0069.1	0.517
MA0070.1	MA0070.1	0.497
MA0071.1	MA0071.1	0.00252
MA0072.1	MA0072.1	0.0148
MA0073.1	MA0073.1	0.743
MA0074.1	MA0074.1	0.0309
MA0076.1	MA0076.1	1.73752e-6
MA0077.1	MA0077.1	0.781
MA0078.1	MA0078.1	0.175
MA0079.2	MA0079.2	0.32
MA0080.2	MA0080.2	2.20951e-7
MA0081.1	MA0081.1	0.0455
MA0083.1	MA0083.1	2.37049e-5
MA0084.1	MA0084.1	0.637
MA0087.1	MA0087.1	0.0754
MA0088.1	MA0088.1	0.133
MA0090.1	MA0090.1	0.631
MA0091.1	MA0091.1	0.774
MA0092.1	MA0092.1	0.772
MA0093.1	MA0093.1	0.193
MA0099.2	MA0099.2	0.00274
MA0100.1	MA0100.1	0.0288
MA0101.1	MA0101.1	0.00463
MA0102.2	MA0102.2	0.498
MA0103.1	MA0103.1	0.00821
MA0104.2	MA0104.2	0.276
MA0105.1	MA0105.1	0.942
MA0106.1	MA0106.1	0.0525
MA0107.1	MA0107.1	0.0203
MA0108.2	MA0108.2	6.65393e-14
MA0111.1	MA0111.1	0.326
MA0112.2	MA0112.2	0.0024
MA0113.1	MA0113.1	0.0886
MA0114.1	MA0114.1	5.62932e-4
MA0115.1	MA0115.1	0.0106
MA0116.1	MA0116.1	0.456
MA0117.1	MA0117.1	0.183
MA0119.1	MA0119.1	0.817
MA0122.1	MA0122.1	0.867
MA0124.1	MA0124.1	0.78
MA0125.1	MA0125.1	0.00313
MA0131.1	MA0131.1	0.814
MA0135.1	MA0135.1	0.553
MA0136.1	MA0136.1	2.22206e-11
MA0137.2	MA0137.2	2.34562e-4
MA0138.2	MA0138.2	0.325
MA0139.1	MA0139.1	0.0205
MA0140.1	MA0140.1	2.29924e-6
MA0141.1	MA0141.1	3.3893e-7
MA0142.1	MA0142.1	0.879
MA0143.1	MA0143.1	0.198
MA0144.1	MA0144.1	0.00304
MA0145.1	MA0145.1	0.253
MA0146.1	MA0146.1	0.00972
MA0147.1	MA0147.1	0.361
MA0148.1	MA0148.1	0.137
MA0149.1	MA0149.1	0.00145
MA0150.1	MA0150.1	0.00346
MA0152.1	MA0152.1	0.318
MA0153.1	MA0153.1	0.0592
MA0154.1	MA0154.1	0.0859
MA0155.1	MA0155.1	0.714
MA0156.1	MA0156.1	3.10263e-11
MA0157.1	MA0157.1	0.00438
MA0159.1	MA0159.1	5.26744e-4
MA0160.1	MA0160.1	3.98178e-5
MA0162.1	MA0162.1	0.931
MA0163.1	MA0163.1	0.0235
MA0164.1	MA0164.1	0.824
MA0258.1	MA0258.1	0.00205
MA0259.1	MA0259.1	0.587

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: CNhs10578

Novel motif	Logo	P-value
1	1	0.0794
10	10	0.0609
100	100	0.693
101	101	0.972
102	102	0.0877
103	103	0.0565
104	104	0.767
105	105	0.896
106	106	0.383
107	107	0.509
108	108	0.542
109	109	0.0466
11	11	0.0528
110	110	0.142
111	111	0.0127
112	112	0.00981
113	113	0.883
114	114	0.00555
115	115	0.896
116	116	0.633
117	117	0.0047
118	118	0.297
119	119	0.215
12	12	0.592
120	120	0.502
121	121	0.411
122	122	0.895
123	123	0.912
124	124	0.795
125	125	0.121
126	126	0.0538
127	127	0.546
128	128	0.856
129	129	0.352
13	13	0.00733
130	130	0.388
131	131	0.098
132	132	0.916
133	133	0.45
134	134	0.673
135	135	0.831
136	136	0.00195
137	137	0.504
138	138	0.965
139	139	0.0157
14	14	0.606
140	140	0.837
141	141	0.112
142	142	0.34
143	143	0.142
144	144	0.304
145	145	0.165
146	146	0.968
147	147	0.606
148	148	0.199
149	149	0.163
15	15	0.0248
150	150	0.678
151	151	0.131
152	152	0.15
153	153	0.462
154	154	0.709
155	155	0.123
156	156	1.42572e-9
157	157	0.673
158	158	0.0632
159	159	0.335
160	160	0.563
161	161	0.186
162	162	0.555
163	163	0.247
164	164	0.0184
165	165	0.104
166	166	0.338
167	167	0.195
168	168	0.27
169	169	0.0856
17	17	0.145
18	18	0.391
19	19	0.829
2	2	0.253
20	20	0.0539
21	21	0.645
22	22	0.38
23	23	0.993
24	24	0.0213
25	25	0.277
26	26	0.311
27	27	0.799
28	28	0.425
29	29	0.0274
3	3	0.175
30	30	0.16
31	31	0.807
32	32	0.728
33	33	0.0833
34	34	0.936
35	35	0.153
36	36	0.0704
37	37	0.014
38	38	0.143
39	39	0.525
4	4	0.793
40	40	0.0465
41	41	0.0883
42	42	0.475
43	43	0.232
44	44	0.0334
45	45	0.866
46	46	0.434
47	47	0.318
48	48	0.0793
49	49	0.114
5	5	0.56
50	50	0.708
51	51	0.712
52	52	0.856
53	53	0.387
54	54	0.943
55	55	0.845
56	56	0.902
57	57	0.523
58	58	0.35
59	59	0.566
6	6	0.602
60	60	0.252
61	61	0.101
62	62	0.169
63	63	0.391
64	64	0.531
65	65	0.153
66	66	0.972
67	67	0.596
68	68	0.498
69	69	0.561
7	7	0.304
70	70	0.00247
71	71	0.104
72	72	0.186
73	73	0.00169
74	74	0.847
75	75	0.00618
76	76	0.0201
77	77	0.459
78	78	0.0961
79	79	0.526
8	8	0.116
80	80	0.542
81	81	0.738
82	82	0.0866
83	83	0.121
84	84	0.396
85	85	0.144
86	86	0.47
87	87	0.0153
88	88	0.672
89	89	0.82
9	9	0.814
90	90	0.0606
91	91	0.638
92	92	0.486
93	93	0.109
94	94	0.927
95	95	0.00307
96	96	0.787
97	97	0.426
98	98	0.5
99	99	0.588

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: CNhs10578

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011343 mouse whole body- embryo E14.5 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)
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)

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)
0011343 (mouse whole body- embryo E14.5 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@SAMD00005313
+|accession_numbers=CAGE;DRX009145;DRR010019;DRZ001444;DRZ002827;DRZ012794;DRZ014177
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062
 |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=chr8:87425854..87425891,+!p1@Klf1!1.58!36.95!Klf1;;chr15:103085660..103085681,-!p1@Nfe2!1.55!50.81!Nfe2;;chr12:34642510..34642530,+!p1@Twist1!1.52!98.94!Twist1;;chr1:136186574..136186592,+!p1@Myog!1.49!29.66!Myog;;chr6:55631042..55631102,-!p1@Neurod6!1.41!24.80!Neurod6;;chr3:99057269..99057306,+!p1@Tbx15!1.33!24.55!Tbx15;;chr7:53631837..53631850,+!p1@Myod1!1.31!19.21!Myod1;;chr11:121380640..121380655,-!p1@Zfp750!1.30!30.87!Zfp750;;chr4:87452200..87452229,-!p2@Mllt3!1.25!35.25!Mllt3;;chr7:6649134..6649167,-!p1@Zim1!1.23!85.82!Zim1;;chr2:120365588..120365602,-!p2@Zfp106!1.21!25.53!Zfp106;;chr13:72766250..72766273,+!p1@Irx2!1.19!22.12!Irx2;;chr9:91260594..91260612,-!p1@Zic1!1.19!14.59!Zic1;;chr13:83643159..83643226,+!p3@Mef2c!1.19!14.34!Mef2c;;chr10:12810631..12810649,+!p1@Plagl1!1.18!361.50!Plagl1;;chr2:28477452..28477483,-!p1@Gfi1b!1.18!17.50!Gfi1b;;chr12:74147689..74147711,-!p1@Six1!1.16!29.42!Six1;;chr4:114732112..114732158,+!p1@Tal1!1.16!29.17!Tal1;;chr4:87452180..87452196,-!p3@Mllt3!1.12!23.82!Mllt3;;chr9:96159147..96159204,+!p2@Tfdp2!1.12!22.85!Tfdp2;;chr7:122989632..122989668,-!p2@Sox6!1.12!12.16!Sox6;;chr11:96143666..96143725,+!p1@Hoxb8!1.11!13.61!Hoxb8;;chr12:30213247..30213333,+!p1@Myt1l!1.11!11.91!Myt1l;;chr4:135129538..135129558,-!p1@Grhl3!1.10!17.75!Grhl3;;chr7:122989594..122989626,-!p1@Sox6!1.10!11.67!Sox6;;chr12:28027561..28027591,-!p1@Sox11!1.08!71.96!Sox11;;chr12:37835120..37835133,+!p2@Meox2!1.08!15.80!Meox2;;chrX:7544943..7545001,-!p1@Gata1!1.08!10.94!Gata1;;chr1:165243591..165243625,-!p2@Prrx1!1.07!16.53!Prrx1;;chr16:25801993..25802014,+!p1@Trp63!1.07!10.70!Trp63;;chr15:103082088..103082136,-!p2@Nfe2!1.06!10.45!Nfe2;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!1.05!12.88!Pou3f3;;chr6:6832076..6832092,-!p1@Dlx5!1.05!12.16!Dlx5;;chr2:71384802..71384815,-!p1@Dlx2!1.04!12.40!Dlx2;;chr7:19608891..19608895,-!p1@Foxa3!1.01!12.16!Foxa3;;chr13:40829137..40829205,-!p1@Tfap2a!1.01!10.45!Tfap2a;;chr17:44951553..44951586,-!p2@Runx2!1.01!10.21!Runx2;;chr11:98190918..98190951,-!p1@Neurod2!1.01!9.24!Neurod2;;chr12:37835141..37835194,+!p1@Meox2!0.99!27.96!Meox2;;chr13:72766279..72766296,+!p2@Irx2!0.98!12.88!Irx2;;chr1:140739014..140739032,-!p1@Lhx9!0.98!10.94!Lhx9;;chr2:38206580..38206600,+!p2@Lhx2!0.98!10.70!Lhx2;;chr1:179374784..179374800,+!p2@Zfp238!0.98!10.21!Zfp238;;chr7:17647736..17647772,-!p1@Hif3a!0.97!30.63!Hif3a;;chr1:165243379..165243402,-!p3@Prrx1!0.97!12.64!Prrx1;;chr5:77543897..77543911,-!p2@Hopx!0.95!15.56!Hopx;;chrX:90531838..90531861,+!p1@Arx!0.94!9.72!Arx;;chr2:79296783..79296801,-!p1@Neurod1!0.94!7.78!Neurod1;;chr9:91260616..91260653,-!p2@Zic1!0.94!7.78!Zic1;;chr13:99124189..99124205,+!p1@Foxd1!0.93!11.67!Foxd1;;chr13:55932591..55932622,-!p1@Pitx1!0.93!8.99!Pitx1;;chr11:11584970..11585030,+!p2@Ikzf1!0.92!10.70!Ikzf1;;chr3:95032091..95032183,-!p1@Mllt11!0.91!62.96!Mllt11;;chr15:102828658..102828678,+!p1@Hoxc6!0.91!7.05!Hoxc6;;chr8:59799772..59799789,+!p1@Hand2!0.90!20.91!Hand2;;chr7:116154364..116154444,+!p1@Tub!0.90!12.40!Tub;;chr2:38206744..38206766,+!p1@Lhx2!0.90!8.51!Lhx2;;chr11:101755669..101755686,-!p1@Meox1!0.89!12.64!Meox1;;chr11:94981424..94981439,+!p1@Dlx3!0.89!7.78!Dlx3;;chr11:85699862..85699920,+!p1@Tbx4!0.89!6.81!Tbx4;;chr17:44951431..44951445,-!p3@Runx2!0.89!6.81!Runx2;;chr12:109242266..109242295,-!p1@Bcl11b!0.88!58.59!Bcl11b;;chr10:22539932..22539956,-!p1@Tcf21!0.88!18.23!Tcf21;;chr2:65683890..65683907,+!p1@Csrnp3!0.88!12.88!Csrnp3;;chr4:135728181..135728203,+!p2@E2f2!0.88!8.75!E2f2;;chr14:67853632..67853674,+!p3@Ebf2!0.88!8.02!Ebf2;;chr12:30219426..30219506,+!p2@Myt1l!0.88!6.56!Myt1l;;chr11:96880072..96880079,+!p1@Sp6!0.88!6.56!Sp6;;chrX:108009761..108009788,+!p1@Pou3f4!0.88!6.56!Pou3f4;;chr6:52190467..52190500,-!p1@Hoxa10!0.88!6.56!Hoxa10;;chr15:103085690..103085710,-!p3@Nfe2!0.87!7.05!Nfe2;;chr3:34548909..34548927,+!p1@Sox2!0.86!10.94!Sox2;;chr3:127336052..127336058,+!p1@Neurog2!0.86!6.32!Neurog2;;chr15:102197405..102197454,-!p1@Sp7!0.86!6.32!Sp7;;chr9:96159225..96159249,+!p5@Tfdp2!0.85!6.81!Tfdp2;;chr7:56892217..56892221,-!p1@Dbx1!0.85!6.08!Dbx1;;chr10:126778916..126778974,-!p1@Gli1!0.84!13.86!Gli1;;chr11:121380594..121380609,-!p2@Zfp750!0.84!10.70!Zfp750;;chr16:91270004..91270023,+!p1@Olig1!0.84!6.81!Olig1;;chr12:54349410..54349461,+!p1@Npas3!0.83!7.05!Npas3;;chr10:106931775..106931798,-!p1@Myf6!0.83!5.83!Myf6;;chr9:118387300..118387317,+!p1@Eomes!0.83!5.83!Eomes;;chr15:102087737..102087801,-!p3@Rarg!0.82!9.72!Rarg;;chr7:144505957..144505972,-!p2@Ebf3!0.82!7.05!Ebf3;;chr1:57028125..57028149,-!p2@Satb2!0.82!5.59!Satb2;;chr2:147190749..147190769,+!p1@Pax1!0.82!5.59!Pax1;;chr9:31720843..31720888,-!p1@Barx2!0.81!6.08!Barx2;;chr15:35225845..35225867,+!p1@Osr2!0.80!14.34!Osr2;;chr6:52176164..52176195,-!p1@Hoxa9!0.80!6.81!Hoxa9;;chr19:5560600..5560617,-!p1@Ovol1!0.80!6.56!Ovol1;;chr12:37835248..37835260,+!p4@Meox2!0.80!5.35!Meox2;;chrX:55283799..55283813,+!p1@Zic3!0.80!5.35!Zic3;;chr7:108966820..108966835,+!p1@Phox2a!0.80!5.35!Phox2a;;chr13:72101161..72101177,-!p2@Irx1!0.79!7.29!Irx1;;chr7:144505980..144506010,-!p3@Ebf3!0.79!6.32!Ebf3;;chr6:6831950..6831985,-!p2@Dlx5!0.79!5.83!Dlx5;;chr3:99057256..99057268,+!p3@Tbx15!0.79!5.11!Tbx15;;chr10:106923133..106923146,-!p1@Myf5!0.79!5.11!Myf5;;chr8:87225670..87225697,+!p2@Lyl1!0.78!15.56!Lyl1;;chr14:67853457..67853482,+!p2@Ebf2!0.78!7.29!Ebf2;;chr12:37835203..37835218,+!p3@Meox2!0.78!6.08!Meox2;;chr2:146047829..146047847,+!p1@Insm1!0.77!9.24!Insm1;;chr13:72101178..72101203,-!p1@Irx1!0.77!8.02!Irx1;;chr15:76352832..76352900,-!p1@Scrt1!0.77!4.86!Scrt1;;chr12:57796615..57796687,+!p1@Pax9!0.77!4.86!Pax9;;chr19:55969923..55969944,+!p6@Tcf7l2!0.77!4.86!Tcf7l2;;chr3:101814061..101814094,+!p1@Nhlh2!0.77!4.86!Nhlh2;;chr4:87452236..87452249,-!p9@Mllt3!0.77!4.86!Mllt3;;chr6:52184901..52184959,-!p2@Hoxa10!0.77!4.86!Hoxa10;;chr9:71743854..71743909,-!p1@Tcf12!0.76!41.81!Tcf12;;chr10:119913546..119913583,-!p3@Hmga2!0.76!10.45!Hmga2;;chr19:59533221..59533271,+!p1@Emx2!0.76!6.08!Emx2;;chr8:94881733..94881790,+!p1@Irx5!0.75!9.72!Irx5;;chr8:123608252..123608268,+!p1@Foxf1a!0.75!7.05!Foxf1a;;chr1:93698068..93698085,+!p2@Twist2!0.75!5.59!Twist2;;chr19:55969946..55969973,+!p8@Tcf7l2!0.75!4.62!Tcf7l2;;chr9:43013917..43013968,-!p1@Pou2f3!0.75!4.62!Pou2f3;;chr5:98609885..98609900,+!p1@Prdm8!0.75!4.62!Prdm8;;chr14:56443806..56443848,+!p1@Nfatc4!0.74!9.72!Nfatc4;;chr1:57029281..57029326,-!p1@Satb2!0.74!7.29!Satb2;;chr11:121380611..121380625,-!p3@Zfp750!0.74!5.59!Zfp750;;chr7:144506077..144506128,-!p1@Ebf3!0.73!10.94!Ebf3;;chr7:30088977..30089002,+!p2@Dpf1!0.73!6.32!Dpf1;;chr6:6831928..6831949,-!p3@Dlx5!0.73!4.38!Dlx5;;chr16:91225808..91225824,+!p1@Olig2!0.73!4.38!Olig2;;chr19:19185671..19185693,-!p1@Rorb!0.72!10.94!Rorb;;chr14:67853425..67853454,+!p1@Ebf2!0.72!6.32!Ebf2;;chr4:154335024..154335039,+!p1@Hes5!0.72!5.35!Hes5;;chr3:66785857..66785873,-!p1@Shox2!0.71!4.13!Shox2;;chr6:83301229..83301242,+!p3@Bola3!0.71!4.13!Bola3;;chr6:30908793..30908815,-!p1@Klf14!0.71!4.13!Klf14;;chr2:9800207..9800234,-!p1@Gata3!0.70!13.37!Gata3;;chr9:87626083..87626108,-!p1@Tbx18!0.70!9.48!Tbx18;;chr11:96153767..96153822,+!p1@Hoxb6!0.70!6.56!Hoxb6;;chr13:53568104..53568156,-!p1@Msx2!0.69!6.08!Msx2;;chr4:13678482..13678505,+!p9@Runx1t1!0.69!3.89!Runx1t1;;chr16:38294860..38294924,-!p1@Nr1i2!0.69!3.89!Nr1i2;;chr17:86087592..86087615,-!p1@Six2!0.69!3.89!Six2;;chr16:25684232..25684285,+!p2@Trp63!0.69!3.89!Trp63;;chrX:58146612..58146615,-!p1@Sox3!0.69!3.89!Sox3;;chr18:80909801..80909819,-!p1@Nfatc1!0.68!25.28!Nfatc1;;chr11:44431016..44431045,+!p5@Ebf1!0.68!5.59!Ebf1;;chr17:48015839..48015915,-!p3@Foxp4!0.68!4.62!Foxp4;;chr4:150503457..150503498,-!p3@Camta1!0.68!4.38!Camta1;;chr15:102865131..102865151,+!p2@Hoxc4!0.68!4.38!Hoxc4;;chr6:14851440..14851497,+!p2@Foxp2!0.67!9.97!Foxp2;;chr13:31717548..31717596,+!p1@Foxf2!0.67!8.02!Foxf2;;chr11:116196664..116196679,-!p1@Foxj1!0.67!6.08!Foxj1;;chr6:128250380..128250442,-!p2@Tead4!0.67!4.86!Tead4;;chr7:17642177..17642223,-!p3@Hif3a!0.67!3.65!Hif3a;;chr11:84339016..84339044,-!p1@Lhx1!0.67!3.65!Lhx1;;chr8:87297330..87297365,-!p5@Nfix!0.67!3.65!Nfix;;chr1:169528720..169528749,+!p6@Rxrg!0.67!3.65!Rxrg;;chr2:31495237..31495243,+!p1@Prdm12!0.67!3.65!Prdm12;;chr2:61642631..61642684,+!p1@Tbr1!0.67!3.65!Tbr1;;chr12:34642682..34642753,+!p2@Twist1!0.66!10.45!Twist1;;chr19:25746898..25746910,+!p1@Dmrt2!0.66!5.59!Dmrt2;;chr1:165243653..165243664,-!p4@Prrx1!0.66!5.35!Prrx1;;chr6:52167459..52167492,-!p1@Hoxa7!0.66!4.38!Hoxa7;;chr17:25707623..25707639,-!p1@Sox8!0.65!17.02!Sox8;;chr8:87297280..87297326,-!p2@Nfix!0.65!8.99!Nfix;;chr8:87225702..87225726,+!p3@Lyl1!0.65!7.78!Lyl1;;chr15:102865088..102865107,+!p1@Hoxc4!0.65!4.86!Hoxc4;;chr4:13670571..13670625,+!p1@Runx1t1!0.64!10.45!Runx1t1;;chr13:48758276..48758291,+!p1@Barx1!0.64!3.40!Barx1;;chr13:83643232..83643254,+!p5@Mef2c!0.64!3.40!Mef2c;;chr2:163372884..163372904,+!p1@Hnf4a!0.64!3.40!Hnf4a;;chr2:172375081..172375105,+!p1@Tfap2c!0.64!3.40!Tfap2c;;chr9:74709695..74709722,+!p1@Onecut1!0.64!3.40!Onecut1;;chrX:55284180..55284195,+!p2@Zic3!0.64!3.40!Zic3;;chr5:148118639..148118715,-!p1@Cdx2!0.64!3.40!Cdx2;;chr7:119885539..119885574,+!p3@Tead1!0.64!3.40!Tead1;;chr1:93698030..93698064,+!p1@Twist2!0.63!7.29!Twist2;;chr4:135728581..135728668,+!p1@E2f2!0.62!17.50!E2f2;;chr11:23980664..23980706,+!p2@Bcl11a!0.62!16.05!Bcl11a;;chr4:13670499..13670526,+!p2@Runx1t1!0.62!7.78!Runx1t1;;chr2:103143336..103143367,-!p1@Ehf!0.62!5.59!Ehf;;chr10:80598968..80599012,+!p5@Zbtb7a!0.62!4.38!Zbtb7a;;chr10:88145766..88145770,-!p1@Spic!0.62!4.38!Spic;;chr2:180069370..180069409,-!p1@Gata5!0.62!3.89!Gata5;;chr3:34548946..34548972,+!p2@Sox2!0.62!3.65!Sox2;;chr4:139388835..139388867,-!p1@Pax7!0.62!3.16!Pax7;;chr4:22415443..22415506,-!p1@Pou3f2!0.62!3.16!Pou3f2;;chr2:103264245..103264268,+!p2@Elf5!0.62!3.16!Elf5;;chr1:19199193..19199207,+!p11@Tfap2b!0.62!3.16!Tfap2b;;chr19:55969887..55969904,+!p9@Tcf7l2!0.62!3.16!Tcf7l2;;chr2:151907338..151907360,+!p2@Scrt2!0.62!3.16!Scrt2;;chr1:78193687..78193692,-!p1@Pax3!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Scrt1!0.54!2.43!Scrt1;;chr10:119913310..119913366,-!p1@Hmga2!0.53!23.58!Hmga2;;chr4:87678709..87678726,-!p4@Mllt3!0.53!8.99!Mllt3;;chr11:85646263..85646278,+!p2@Tbx2!0.53!7.29!Tbx2;;chr4:134708451..134708469,+!p1@Runx3!0.53!4.86!Runx3;;chr5:24107779..24107825,-!p1@Smarcd3!0.52!19.69!Smarcd3;;chr11:44431687..44431706,+!p2@Ebf1!0.52!13.37!Ebf1;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.52!11.43!Ppp1r13l;;chr18:14130694..14130697,-!p2@Zfp521!0.52!6.32!Zfp521;;chr6:128250471..128250519,-!p1@Tead4!0.52!5.35!Tead4;;chr8:111227493..111227517,+!p@chr8:111227493..111227517,+!0.52!4.62!Zfhx3;;chr5:24107676..24107722,-!p4@Smarcd3!0.52!3.40!Smarcd3;;chr10:119914001..119914078,-!p4@Hmga2!0.52!3.40!Hmga2;;chr6:14851344..14851364,+!p6@Foxp2!0.52!2.92!Foxp2;;chr18:14131126..14131211,-!p1@Zfp521!0.51!62.48!Zfp521;;chr11:44430812..44430838,+!p1@Ebf1!0.51!27.96!Ebf1;;chr13:15555496..15555544,+!p1@Gli3!0.51!9.72!Gli3;;chr8:94325321..94325366,-!p1@Irx3!0.51!6.56!Irx3;;chr2:169458799..169458832,+!p5@Tshz2!0.51!4.13!Tshz2;;chr3:5218546..5218561,+!p4@Zfhx4!0.51!3.89!Zfhx4;;chr1:137155026..137155042,-!p1@Elf3!0.50!16.05!Elf3;;chr11:23978111..23978134,+!p3@Bcl11a!0.50!5.35!Bcl11a;;chr8:111227518..111227550,+!p@chr8:111227518..111227550,+!0.50!4.38!Zfhx3;;chr14:63864056..63864102,-!p1@Gata4!0.50!4.38!Gata4;;chr6:52114821..52114828,-!p1@Hoxa2!0.50!3.65!Hoxa2;;chr2:77654650..77654685,-!p3@Zfp385b!0.50!2.92!Zfp385b;;chr3:128917187..128917223,+!p2@Pitx2!0.50!2.67!Pitx2;;chr10:80555320..80555378,-!p1@Creb3l3!0.50!2.67!Creb3l3;;chr15:50721942..50721987,-!p13@Trps1!0.50!2.67!Trps1;;chr12:25257265..25257294,+!p2@Grhl1!0.50!2.19!Grhl1;;chr14:122874593..122874610,+!p2@Zic2!0.50!2.19!Zic2;;chr13:56353536..56353542,-!p1@Neurog1!0.50!2.19!Neurog1;;chr4:13678514..13678539,+!p14@Runx1t1!0.50!2.19!Runx1t1;;chr4:53792566..53792578,+!p1@Tal2!0.50!2.19!Tal2;;chr4:46356509..46356527,+!p1@Foxe1!0.50!2.19!Foxe1;;chr2:73110004..73110016,+!p2@Sp9!0.50!2.19!Sp9;;chr5:28492230..28492257,+!p1@En2!0.50!2.19!En2;;chr11:96160360..96160397,+!p3@Hoxb6!0.50!2.19!Hoxb6;;chr10:62562530..62562540,+!p1@Atoh7!0.50!2.19!Atoh7;;chr11:57645506..57645523,-!p1@Hand1!0.50!2.19!Hand1;;chr11:100553754..100553787,-!p1@Zfp385c!0.50!2.19!Zfp385c;;chr11:23978270..23978290,+!p9@Bcl11a!0.50!2.19!Bcl11a;;chr2:151907546..151907561,+!p1@Scrt2!0.50!2.19!Scrt2;;chr2:103264213..103264233,+!p1@Elf5!0.50!2.19!Elf5;;chr1:136186545..136186554,+!p2@Myog!0.50!2.19!Myog;;chr1:169528823..169528860,+!p5@Rxrg!0.50!2.19!Rxrg;;chr2:91864300..91864379,-!p2@Creb3l1!0.49!7.54!Creb3l1;;chr13:78339476..78339515,-!p1@Nr2f1!0.49!3.65!Nr2f1;;chr2:30700857..30700873,+!p3@Prrx2!0.49!3.16!Prrx2;;chr6:14851250..14851277,+!p4@Foxp2!0.49!2.92!Foxp2;;chr1:14746065..14746079,-!p1@Msc!0.49!2.67!Msc;;chr4:55545337..55545357,-!p1@Klf4!0.48!39.87!Klf4;;chr11:85646303..85646329,+!p1@Tbx2!0.48!17.75!Tbx2;;chr19:55816414..55816425,+!p4@Tcf7l2!0.48!13.86!Tcf7l2;;chr11:23978078..23978096,+!p4@Bcl11a!0.48!7.78!Bcl11a;;chr5:38215819..38215823,-!p1@Msx1!0.48!6.56!Msx1;;chr7:17642053..17642066,-!p2@Hif3a!0.48!3.16!Hif3a;;chr11:106128936..106128955,-!p4@Smarcd2!0.48!2.43!Smarcd2;;chr2:115891534..115891589,-!p1@Meis2!0.47!37.68!Meis2;;chr8:87297878..87297935,-!p3@Nfix!0.47!5.35!Nfix;;chr8:123640063..123640077,+!p1@Foxc2!0.47!4.13!Foxc2;;chr2:164228702..164228719,+!p1@Rbpjl!0.47!1.94!Rbpjl;;chr1:19199221..19199234,+!p6@Tfap2b!0.47!1.94!Tfap2b;;chr1:57028538..57028553,-!p6@Satb2!0.47!1.94!Satb2;;chr2:181501745..181501778,+!p1@Myt1!0.47!1.94!Myt1;;chr1:19199119..19199134,+!p4@Tfap2b!0.47!1.94!Tfap2b;;chr2:32229906..32229942,+!p3@Ciz1!0.47!1.94!Ciz1;;chr11:83664365..83664383,+!p1@Hnf1b!0.47!1.94!Hnf1b;;chr10:106931803..106931817,-!p2@Myf6!0.47!1.94!Myf6;;chr11:96132637..96132652,+!p1@Hoxb9!0.47!1.94!Hoxb9;;chr12:37835219..37835230,+!p5@Meox2!0.47!1.94!Meox2;;chr12:75002389..75002406,+!p4@Hif1a!0.47!1.94!Hif1a;;chr5:120881900..120881914,+!p1@Lhx5!0.47!1.94!Lhx5;;chr19:5560570..5560582,-!p2@Ovol1!0.47!1.94!Ovol1;;chr2:74529970..74529997,+!p1@Hoxd10!0.47!1.94!Hoxd10;;chr3:3634145..3634161,+!p1@Hnf4g!0.47!1.94!Hnf4g;;chr2:74513125..74513143,+!p1@Hoxd12!0.47!1.94!Hoxd12;;chrX:45245679..45245702,-!p1@Smarca1!0.46!11.18!Smarca1;;chrX:98449898..98449913,+!p2@Foxo4!0.46!7.78!Foxo4;;chr8:90483459..90483475,-!p1@Zfp423!0.46!6.56!Zfp423;;chr1:120950098..120950132,-!p2@Gli2!0.46!5.35!Gli2;;chr15:40486754..40486771,+!p2@Zfpm2!0.46!3.89!Zfpm2;;chr2:104966766..104966786,+!p1@Wt1!0.46!3.40!Wt1;;chr1:120950197..120950215,-!p5@Gli2!0.46!2.92!Gli2;;chr3:128916868..128916890,+!p1@Pitx2!0.46!2.92!Pitx2;;chr3:130815703..130815721,+!p2@Lef1!0.46!2.43!Lef1;;chr4:133276698..133276743,-!p6@Arid1a!0.45!6.56!Arid1a;;chr15:78994907..78994926,-!p1@Sox10!0.45!5.83!Sox10;;chr15:102034510..102034549,+!p4@Zfp740!0.45!5.59!Zfp740;;chr11:23977565..23977612,+!p5@Bcl11a!0.45!4.86!Bcl11a;;chr9:106356278..106356292,+!p3@Pcbp4!0.45!3.65!Pcbp4;;chr6:88143711..88143717,+!p2@Gata2!0.45!3.40!Gata2;;chr16:18587076..18587106,-!p1@Tbx1!0.45!2.92!Tbx1;;chr11:96213434..96213452,+!p@chr11: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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011343
 |is_obsolete=
+|library_id=CNhs10578
+|library_id_phase_based=2:CNhs10578
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;420
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;420
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14%252e5.CNhs10578.420-27D2.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14%252e5.CNhs10578.420-27D2.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14%252e5.CNhs10578.420-27D2.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14%252e5.CNhs10578.420-27D2.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14%252e5.CNhs10578.420-27D2.mm9.nobarcode.rdna.fa.gz
 |name=whole body, embryo E14.5
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10578,LSID653,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.098026744176508,0,0,0,0,0,0.460816642214424,0,0.08604059132454,0,0,1.02666198390276,0,0,0,0,0,0,-0.0198121682334948,0,0,0,0,0,0,0,0,0,0,0,0,0,0.276287845036341,0,0,0,0.17208118264908,0.0695832725421811,0.0571154305189927,0.0783068347039699,0.128431508433586,0.906889473259069,0.161776043023424,0.0945084131504676,0,0,0,0,0,0,0,0,0,0,0,0.0285028655870272,0.17208118264908,0,0,0,0,0,-0.0446559741262468,0.0945084131504676,0.17208118264908,0.0655628240428648,0.168251743087264,-0.0156497475082202,0.273553638262693,0.0793056922583818,0,0.117313098339185,0.0708235685576906,0,0,0,0.101057288835685,0.02374921738155,0.04788253203127,-0.0788315948399074,0,0,0,0,0,0.0945084131504676,-0.0893284091371433,-0.164179000301147,-0.183762410906859,0,0,0,0,0
@@ 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=table111:420-27D2;search_select_hide=table117:420-27D2
 }}

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FF:420-27D2: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:16, 4 June 2020

CNhs10578

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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