FF:395-14B1: Difference between revisions

Latest revision as of 19:14, 4 June 2020

Name:	whole body, embryo E14
Species:	Mouse (Mus musculus)
Library ID:	CNhs10519
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 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		SAMD00005034

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10519		CAGE		DRX009146		DRR010020

Accession ID Mm9

Library id		BAM		CTSS
CNhs10519		DRZ001445		DRZ002828

Accession ID Mm10

Library id		BAM		CTSS
CNhs10519		DRZ012795		DRZ014178

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

CNhs10519

0	0
1	0.0826
10	0
100	0.0826
1000	0.00421
1001	-0.0749
1002	0.0663
1003	0.0441
1004	0.0413
1005	0
1006	0.0826
1007	-0.012
1008	0
1009	-0.117
101	0.0734
1010	0
1011	0.0136
1012	0
1013	-0.3
1014	0.264
1015	0.139
1016	0.0255
1017	0
1018	0.0826
1019	0
102	0
1020	0
1021	0
1022	-0.124
1023	0
1024	-0.0427
1025	0.191
1026	0.0272
1027	0.0627
1028	0
1029	-0.115
103	0.00443
1030	0
1031	0.128
1032	-0.109
1033	-0.0665
1034	0.0826
1035	0.033
1036	-0.0152
1037	0
1038	-0.119
1039	-0.00323
104	0
1040	-0.00376
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: CNhs10519

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00987
MA0003.1	MA0003.1	0.834
MA0004.1	MA0004.1	0.344
MA0006.1	MA0006.1	0.213
MA0007.1	MA0007.1	0.00723
MA0009.1	MA0009.1	0.446
MA0014.1	MA0014.1	0.0914
MA0017.1	MA0017.1	0.00956
MA0018.2	MA0018.2	0.437
MA0019.1	MA0019.1	0.619
MA0024.1	MA0024.1	8.72663e-6
MA0025.1	MA0025.1	0.276
MA0027.1	MA0027.1	0.567
MA0028.1	MA0028.1	0.0161
MA0029.1	MA0029.1	0.276
MA0030.1	MA0030.1	0.505
MA0031.1	MA0031.1	0.24
MA0035.2	MA0035.2	6.23234e-4
MA0038.1	MA0038.1	0.00913
MA0039.2	MA0039.2	0.526
MA0040.1	MA0040.1	0.88
MA0041.1	MA0041.1	0.302
MA0042.1	MA0042.1	0.732
MA0043.1	MA0043.1	0.659
MA0046.1	MA0046.1	4.38127e-7
MA0047.2	MA0047.2	0.898
MA0048.1	MA0048.1	0.0806
MA0050.1	MA0050.1	1.78165e-7
MA0051.1	MA0051.1	2.79483e-6
MA0052.1	MA0052.1	2.45646e-5
MA0055.1	MA0055.1	0.0276
MA0057.1	MA0057.1	0.305
MA0058.1	MA0058.1	0.473
MA0059.1	MA0059.1	0.182
MA0060.1	MA0060.1	2.14359e-16
MA0061.1	MA0061.1	0.117
MA0062.2	MA0062.2	1.17664e-5
MA0065.2	MA0065.2	0.00976
MA0066.1	MA0066.1	0.106
MA0067.1	MA0067.1	0.024
MA0068.1	MA0068.1	0.547
MA0069.1	MA0069.1	0.926
MA0070.1	MA0070.1	0.502
MA0071.1	MA0071.1	0.0293
MA0072.1	MA0072.1	0.148
MA0073.1	MA0073.1	0.962
MA0074.1	MA0074.1	0.0636
MA0076.1	MA0076.1	0.0324
MA0077.1	MA0077.1	0.208
MA0078.1	MA0078.1	0.689
MA0079.2	MA0079.2	0.281
MA0080.2	MA0080.2	4.26206e-10
MA0081.1	MA0081.1	0.137
MA0083.1	MA0083.1	3.75769e-4
MA0084.1	MA0084.1	0.599
MA0087.1	MA0087.1	0.336
MA0088.1	MA0088.1	0.402
MA0090.1	MA0090.1	0.669
MA0091.1	MA0091.1	0.772
MA0092.1	MA0092.1	0.535
MA0093.1	MA0093.1	0.396
MA0099.2	MA0099.2	0.00806
MA0100.1	MA0100.1	0.36
MA0101.1	MA0101.1	0.0413
MA0102.2	MA0102.2	0.727
MA0103.1	MA0103.1	0.00207
MA0104.2	MA0104.2	0.778
MA0105.1	MA0105.1	0.441
MA0106.1	MA0106.1	0.0435
MA0107.1	MA0107.1	0.0456
MA0108.2	MA0108.2	2.46842e-24
MA0111.1	MA0111.1	0.258
MA0112.2	MA0112.2	1.37628e-5
MA0113.1	MA0113.1	0.088
MA0114.1	MA0114.1	0.0543
MA0115.1	MA0115.1	0.444
MA0116.1	MA0116.1	0.134
MA0117.1	MA0117.1	0.791
MA0119.1	MA0119.1	0.679
MA0122.1	MA0122.1	0.763
MA0124.1	MA0124.1	0.253
MA0125.1	MA0125.1	0.0122
MA0131.1	MA0131.1	0.831
MA0135.1	MA0135.1	0.00431
MA0136.1	MA0136.1	3.63734e-10
MA0137.2	MA0137.2	0.00188
MA0138.2	MA0138.2	0.337
MA0139.1	MA0139.1	0.0581
MA0140.1	MA0140.1	1.65826e-6
MA0141.1	MA0141.1	1.56043e-4
MA0142.1	MA0142.1	0.229
MA0143.1	MA0143.1	0.0231
MA0144.1	MA0144.1	0.0261
MA0145.1	MA0145.1	0.165
MA0146.1	MA0146.1	0.0881
MA0147.1	MA0147.1	0.817
MA0148.1	MA0148.1	0.885
MA0149.1	MA0149.1	0.00399
MA0150.1	MA0150.1	0.0656
MA0152.1	MA0152.1	0.996
MA0153.1	MA0153.1	8.96608e-4
MA0154.1	MA0154.1	0.0245
MA0155.1	MA0155.1	0.931
MA0156.1	MA0156.1	5.26285e-8
MA0157.1	MA0157.1	0.105
MA0159.1	MA0159.1	0.0217
MA0160.1	MA0160.1	0.0353
MA0162.1	MA0162.1	0.763
MA0163.1	MA0163.1	0.0065
MA0164.1	MA0164.1	0.707
MA0258.1	MA0258.1	4.00149e-4
MA0259.1	MA0259.1	0.791

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: CNhs10519

Novel motif	Logo	P-value
1	1	0.0472
10	10	0.0265
100	100	0.788
101	101	0.878
102	102	0.271
103	103	0.019
104	104	0.815
105	105	0.586
106	106	0.0235
107	107	0.395
108	108	0.579
109	109	0.0103
11	11	0.0655
110	110	0.0532
111	111	0.00119
112	112	0.0155
113	113	0.584
114	114	0.0144
115	115	0.719
116	116	0.895
117	117	0.021
118	118	0.397
119	119	0.0208
12	12	0.834
120	120	0.899
121	121	0.903
122	122	0.735
123	123	0.701
124	124	0.624
125	125	0.0912
126	126	0.0973
127	127	0.134
128	128	0.26
129	129	0.344
13	13	0.00126
130	130	0.419
131	131	0.0245
132	132	0.365
133	133	0.0196
134	134	0.451
135	135	0.787
136	136	0.028
137	137	0.576
138	138	0.654
139	139	0.00261
14	14	0.696
140	140	0.291
141	141	0.173
142	142	0.477
143	143	0.515
144	144	0.802
145	145	0.0369
146	146	0.995
147	147	0.627
148	148	0.0292
149	149	0.703
15	15	0.0443
150	150	0.156
151	151	0.23
152	152	0.0847
153	153	0.146
154	154	0.206
155	155	0.233
156	156	0.418
157	157	0.774
158	158	0.0299
159	159	0.0114
160	160	0.934
161	161	0.199
162	162	0.427
163	163	0.746
164	164	0.0133
165	165	0.445
166	166	0.62
167	167	0.417
168	168	0.214
169	169	0.00828
17	17	0.0779
18	18	0.783
19	19	0.283
2	2	0.556
20	20	0.022
21	21	0.676
22	22	0.316
23	23	0.821
24	24	0.207
25	25	0.685
26	26	0.00492
27	27	0.612
28	28	0.311
29	29	0.046
3	3	0.0743
30	30	0.288
31	31	0.749
32	32	0.065
33	33	0.355
34	34	0.643
35	35	0.351
36	36	0.496
37	37	0.0129
38	38	0.172
39	39	0.201
4	4	0.703
40	40	0.556
41	41	0.73
42	42	0.487
43	43	0.091
44	44	0.244
45	45	0.99
46	46	0.145
47	47	0.199
48	48	0.0492
49	49	0.0404
5	5	0.327
50	50	0.533
51	51	0.711
52	52	0.811
53	53	0.444
54	54	0.959
55	55	0.893
56	56	0.657
57	57	0.492
58	58	0.312
59	59	0.254
6	6	0.53
60	60	0.063
61	61	0.12
62	62	0.251
63	63	0.0996
64	64	0.786
65	65	0.29
66	66	0.235
67	67	0.704
68	68	0.248
69	69	0.379
7	7	0.16
70	70	0.00363
71	71	0.0463
72	72	0.51
73	73	0.0081
74	74	0.67
75	75	0.0352
76	76	0.0177
77	77	0.305
78	78	0.312
79	79	0.657
8	8	0.173
80	80	0.468
81	81	0.872
82	82	0.085
83	83	0.825
84	84	0.479
85	85	0.0273
86	86	0.138
87	87	0.578
88	88	0.204
89	89	0.828
9	9	0.893
90	90	0.0203
91	91	0.958
92	92	0.244
93	93	0.23
94	94	0.955
95	95	0.00351
96	96	0.863
97	97	0.649
98	98	0.704
99	99	0.916

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: CNhs10519

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011333 mouse whole body- 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)
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)
0011333 (mouse whole body- 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@DRS009009
+|DRA_sample_Accession=CAGE@SAMD00005034
-|accession_numbers=CAGE;DRX009146;DRR010020;DRZ001445;DRZ002828
+|accession_numbers=CAGE;DRX009146;DRR010020;DRZ001445;DRZ002828;DRZ012795;DRZ014178
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062
 |ancestors_in_cell_lineage_facet=
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr8:87425854..87425891,+!p1@Klf1!1.68!47.37!Klf1;;chr1:136186574..136186592,+!p1@Myog!1.56!35.63!Myog;;chr15:103085660..103085681,-!p1@Nfe2!1.53!48.21!Nfe2;;chr6:55631042..55631102,-!p1@Neurod6!1.45!27.04!Neurod6;;chr11:96143666..96143725,+!p1@Hoxb8!1.44!30.18!Hoxb8;;chr12:34642510..34642530,+!p1@Twist1!1.40!74.62!Twist1;;chr2:28477452..28477483,-!p1@Gfi1b!1.38!28.51!Gfi1b;;chrX:7544943..7545001,-!p1@Gata1!1.27!17.82!Gata1;;chr7:53631837..53631850,+!p1@Myod1!1.27!17.61!Myod1;;chr4:114732112..114732158,+!p1@Tal1!1.24!35.22!Tal1;;chr12:28027561..28027591,-!p1@Sox11!1.22!101.03!Sox11;;chr9:91260594..91260612,-!p1@Zic1!1.22!15.51!Zic1;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!1.21!19.07!Pou3f3;;chr12:74147689..74147711,-!p1@Six1!1.18!30.81!Six1;;chr9:91260616..91260653,-!p2@Zic1!1.18!14.25!Zic1;;chr11:98190918..98190951,-!p1@Neurod2!1.16!13.42!Neurod2;;chr2:120365588..120365602,-!p2@Zfp106!1.15!22.01!Zfp106;;chr2:38206580..38206600,+!p2@Lhx2!1.14!15.72!Lhx2;;chr7:19608891..19608895,-!p1@Foxa3!1.13!16.14!Foxa3;;chr2:147190749..147190769,+!p1@Pax1!1.13!12.37!Pax1;;chr1:165243591..165243625,-!p2@Prrx1!1.12!18.45!Prrx1;;chr3:99057269..99057306,+!p1@Tbx15!1.12!14.88!Tbx15;;chr1:140739014..140739032,-!p1@Lhx9!1.11!15.30!Lhx9;;chr15:103082088..103082136,-!p2@Nfe2!1.10!11.53!Nfe2;;chr10:12810631..12810649,+!p1@Plagl1!1.09!292.41!Plagl1;;chr19:55969923..55969944,+!p6@Tcf7l2!1.08!11.11!Tcf7l2;;chr7:6649134..6649167,-!p1@Zim1!1.07!59.32!Zim1;;chr4:87452200..87452229,-!p2@Mllt3!1.07!23.06!Mllt3;;chr2:71384802..71384815,-!p1@Dlx2!1.07!13.42!Dlx2;;chr11:101755669..101755686,-!p1@Meox1!1.06!18.87!Meox1;;chr2:79296783..79296801,-!p1@Neurod1!1.05!10.27!Neurod1;;chr3:127336052..127336058,+!p1@Neurog2!1.05!10.27!Neurog2;;chr4:87452180..87452196,-!p3@Mllt3!1.04!19.91!Mllt3;;chr13:83643159..83643226,+!p3@Mef2c!1.04!10.06!Mef2c;;chr3:95032091..95032183,-!p1@Mllt11!1.02!82.17!Mllt11;;chr7:116154364..116154444,+!p1@Tub!1.02!16.56!Tub;;chr11:11584970..11585030,+!p2@Ikzf1!1.02!13.62!Ikzf1;;chr7:144505957..144505972,-!p2@Ebf3!1.02!11.74!Ebf3;;chr2:38206744..38206766,+!p1@Lhx2!1.01!11.11!Lhx2;;chrX:108009761..108009788,+!p1@Pou3f4!1.01!9.22!Pou3f4;;chr12:37835120..37835133,+!p2@Meox2!0.99!12.58!Meox2;;chr1:179374784..179374800,+!p2@Zfp238!0.99!10.27!Zfp238;;chr8:59799772..59799789,+!p1@Hand2!0.98!25.36!Hand2;;chr13:55932591..55932622,-!p1@Pitx1!0.98!10.27!Pitx1;;chr6:6832076..6832092,-!p1@Dlx5!0.98!10.06!Dlx5;;chr13:72766250..72766273,+!p1@Irx2!0.97!13.21!Irx2;;chr3:101814061..101814094,+!p1@Nhlh2!0.96!8.17!Nhlh2;;chr13:99124189..99124205,+!p1@Foxd1!0.95!12.37!Foxd1;;chr3:66785857..66785873,-!p1@Shox2!0.95!7.97!Shox2;;chr7:56892217..56892221,-!p1@Dbx1!0.95!7.97!Dbx1;;chr12:37835141..37835194,+!p1@Meox2!0.94!24.52!Meox2;;chr6:52190467..52190500,-!p1@Hoxa10!0.94!7.76!Hoxa10;;chrX:58146612..58146615,-!p1@Sox3!0.94!7.76!Sox3;;chr10:22539932..22539956,-!p1@Tcf21!0.93!20.54!Tcf21;;chr11:84339016..84339044,-!p1@Lhx1!0.92!7.34!Lhx1;;chr11:121380640..121380655,-!p1@Zfp750!0.91!11.95!Zfp750;;chr4:135129538..135129558,-!p1@Grhl3!0.91!10.90!Grhl3;;chr15:103085690..103085710,-!p3@Nfe2!0.91!7.76!Nfe2;;chr11:85699862..85699920,+!p1@Tbx4!0.91!7.13!Tbx4;;chr10:119913546..119913583,-!p3@Hmga2!0.90!14.88!Hmga2;;chr19:25746898..25746910,+!p1@Dmrt2!0.90!10.48!Dmrt2;;chr17:86087592..86087615,-!p1@Six2!0.89!6.71!Six2;;chr12:30213247..30213333,+!p1@Myt1l!0.89!6.71!Myt1l;;chr14:49287186..49287225,-!p1@Otx2!0.89!6.71!Otx2;;chr9:96159147..96159204,+!p2@Tfdp2!0.88!12.58!Tfdp2;;chr1:165243379..165243402,-!p3@Prrx1!0.88!10.06!Prrx1;;chr2:146047829..146047847,+!p1@Insm1!0.87!11.95!Insm1;;chr6:52176164..52176195,-!p1@Hoxa9!0.87!8.17!Hoxa9;;chr15:102828658..102828678,+!p1@Hoxc6!0.87!6.50!Hoxc6;;chr15:102197405..102197454,-!p1@Sp7!0.87!6.50!Sp7;;chr6:6831950..6831985,-!p2@Dlx5!0.86!6.92!Dlx5;;chr7:122989632..122989668,-!p2@Sox6!0.86!6.29!Sox6;;chr2:163372884..163372904,+!p1@Hnf4a!0.86!6.29!Hnf4a;;chr11:94981424..94981439,+!p1@Dlx3!0.85!6.92!Dlx3;;chr9:31720843..31720888,-!p1@Barx2!0.85!6.71!Barx2;;chr9:118387300..118387317,+!p1@Eomes!0.85!6.08!Eomes;;chr17:44951431..44951445,-!p3@Runx2!0.85!6.08!Runx2;;chr16:91270004..91270023,+!p1@Olig1!0.84!6.92!Olig1;;chr14:122874619..122874634,+!p1@Zic2!0.84!5.87!Zic2;;chr10:62562530..62562540,+!p1@Atoh7!0.84!5.87!Atoh7;;chr12:54349410..54349461,+!p1@Npas3!0.83!7.13!Npas3;;chrX:90531838..90531861,+!p1@Arx!0.82!7.13!Arx;;chr19:59533221..59533271,+!p1@Emx2!0.82!7.13!Emx2;;chr17:48015839..48015915,-!p3@Foxp4!0.82!6.71!Foxp4;;chr7:17642177..17642223,-!p3@Hif3a!0.82!5.66!Hif3a;;chr7:122989594..122989626,-!p1@Sox6!0.82!5.66!Sox6;;chr17:25707623..25707639,-!p1@Sox8!0.81!25.15!Sox8;;chr1:14746065..14746079,-!p1@Msc!0.81!6.71!Msc;;chr12:109242266..109242295,-!p1@Bcl11b!0.80!48.21!Bcl11b;;chr13:117099847..117099907,-!p1@Isl1!0.80!10.27!Isl1;;chr14:104867201..104867258,-!p1@Pou4f1!0.80!7.76!Pou4f1;;chr9:24578720..24578735,-!p1@Tbx20!0.80!5.24!Tbx20;;chr2:151907546..151907561,+!p1@Scrt2!0.80!5.24!Scrt2;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!13.21!Pbx1;;chr13:55431084..55431137,-!p1@Mxd3!0.29!13.21!Mxd3;;chr7:148513409..148513455,-!p2@Deaf1!0.29!7.55!Deaf1;;chr19:26681672..26681716,+!p5@Smarca2!0.29!6.71!Smarca2;;chr4:119960301..119960359,-!p1@Foxo6!0.29!5.03!Foxo6;;chr18:74375772..74375799,+!p2@Cxxc1!0.29!4.40!Cxxc1;;chr10:20880629..20880683,-!p1@Myb!0.29!4.40!Myb;;chr6:131338278..131338362,-!p2@Csda!0.29!4.40!Csda;;chr16:92826249..92826325,-!p1@Runx1!0.29!3.56!Runx1;;chr1:170361826..170361844,-!p9@Pbx1!0.29!3.14!Pbx1;;chr8:87297878..87297935,-!p3@Nfix!0.29!3.14!Nfix;;chr10:62328047..62328076,-!p3@Tet1!0.29!1.89!Tet1;;chr11:44431016..44431045,+!p5@Ebf1!0.29!1.68!Ebf1;;chr7:17642053..17642066,-!p2@Hif3a!0.29!1.68!Hif3a;;chr7:25292310..25292329,+!p5@Zfp428!0.29!1.68!Zfp428;;chr11:11585912..11585950,+!p6@Ikzf1!0.29!1.47!Ikzf1;;chr19:19185697..19185711,-!p2@Rorb!0.29!1.47!Rorb;;chr17:37139519..37139531,+!p5@Zfp57!0.29!1.26!Zfp57;;chr15:50721942..50721987,-!p13@Trps1!0.29!1.26!Trps1;;chr15:61817095..61817111,+!p1@Myc!0.28!103.13!Myc;;chr8:87324243..87324277,-!p1@Nfix!0.28!40.66!Nfix;;chr10:80040030..80040072,-!p1@Klf16!0.28!33.96!Klf16;;chr2:25562346..25562433,+!p1@Bmyc!0.28!31.02!Bmyc;;chr17:35653725..35653780,-!p1@Tcf19!0.28!28.51!Tcf19;;chr13:56804721..56804792,+!p2@Smad5!0.28!8.17!Smad5;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.28!6.08!Ppp1r13l;;chr2:56967334..56967366,-!p1@Nr4a2!0.28!2.72!Nr4a2;;chr2:127347067..127347093,-!p1@Kcnip3!0.28!2.10!Kcnip3;;chr4:135840552..135840567,+!p4@Zfp46!0.28!1.89!Zfp46;;chr17:35031524..35031539,+!p4@Zbtb12!0.28!1.47!Zbtb12;;chr16:43503594..43503634,+!p15@Zbtb20!0.28!1.26!Zbtb20;;chr4:13670441..13670463,+!p8@Runx1t1!0.28!1.26!Runx1t1;;chr1:165243272..165243283,-!p6@Prrx1!0.28!1.26!Prrx1;;chr7:123182248..123182264,-!p3@Sox6!0.28!1.26!Sox6;;chr13:83663902..83663927,+!p1@Mef2c!0.27!40.25!Mef2c;;chr2:160192793..160192809,-!p1@Mafb!0.27!25.15!Mafb;;chr8:124806017..124806040,+!p2@Zfpm1!0.27!17.82!Zfpm1;;chr5:34163023..34163090,+!p2@Whsc1!0.27!10.27!Whsc1;;chr2:130120884..130120972,+!p1@Ebf4!0.27!9.22!Ebf4;;chr7:5003165..5003203,+!p2@Zfp580!0.27!8.59!Zfp580;;chr2:152223469..152223512,-!p1@Sox12!0.27!8.17!Sox12;;chr7:25372631..25372684,-!p1@Zfp575!0.27!4.40!Zfp575;;chr7:19679964..19679982,+!p1@Six5!0.27!3.98!Six5;;chr2:77357622..77357704,-!p1@Zfp385b!0.27!3.77!Zfp385b;;chr4:58956447..58956510,+!p1@Zkscan16!0.27!2.93!Zkscan16;;chr11:23977565..23977612,+!p5@Bcl11a!0.27!2.93!Bcl11a;;chr11:62602947..62602980,-!p2@Zfp286!0.27!2.52!Zfp286;;chr5:104183477..104183548,+!p6@Aff1!0.27!2.52!Aff1;;chr2:90936947..90936977,+!p2@Sfpi1!0.27!2.52!Sfpi1;;chr17:35031589..35031630,+!p2@Zbtb12!0.27!2.31!Zbtb12;;chr4:54957886..54957907,+!p3@Zfp462!0.27!2.10!Zfp462;;chr7:134758722..134758733,-!p2@Zfp629!0.27!1.89!Zfp629;;chr1:194979361..194979373,+!p2@Irf6!0.27!1.47!Irf6;;chr15:40486883..40486903,+!p4@Zfpm2!0.27!1.47!Zfpm2;;chr2:77654936..77654988,-!p4@Zfp385b!0.27!1.26!Zfp385b;;chr10:79896360..79896400,-!p1@Tcf3!0.26!67.08!Tcf3;;chr1:136456791..136456810,+!p1@Kdm5b!0.26!58.90!Kdm5b;;chr5:134790507..134790546,-!p1@Gtf2i!0.26!40.25!Gtf2i;;chr7:134169762..134169795,-!p3@Maz!0.26!14.04!Maz;;chr19:37509324..37509337,+!p1@Hhex!0.26!11.11!Hhex;;chr7:77511234..77511302,-!p2@Nr2f2!0.26!10.27!Nr2f2;;chr14:64562503..64562524,+!p1@Sox7!0.26!9.01!Sox7;;chr11:62602904..62602945,-!p1@Zfp286!0.26!6.92!Zfp286;;chr9:106356243..106356264,+!p2@Pcbp4!0.26!6.50!Pcbp4;;chr7:5003205..5003234,+!p3@Zfp580!0.26!3.98!Zfp580;;chr4:54960387..54960415,+!p4@Zfp462!0.26!2.72!Zfp462;;chr6:128250471..128250519,-!p1@Tead4!0.26!2.52!Tead4;;chr6:47780508..47780583,-!p1@Zfp786!0.26!2.31!Zfp786;;chr14:56443698..56443726,+!p2@Nfatc4!0.26!2.31!Nfatc4;;chr7:119822915..119822936,+!p5@Tead1!0.26!1.89!Tead1;;chr7:19945089..19945107,+!p2@Ppp1r13l!0.26!1.89!Ppp1r13l;;chr2:169458799..169458832,+!p5@Tshz2!0.26!1.89!Tshz2;;chr2:115890953..115890974,-!p6@Meis2!0.26!1.68!Meis2;;chr2:70313168..70313184,+!p1@Sp5!0.26!1.68!Sp5;;chr11:85646469..85646488,+!p5@Tbx2!0.26!1.68!Tbx2;;chr7:37483231..37483263,+!p2@Tshz3!0.26!1.68!Tshz3;;chrX:45245621..45245632,-!p3@Smarca1!0.26!1.47!Smarca1;;chr7:25292223..25292234,+!p7@Zfp428!0.26!1.26!Zfp428;;chr2:77654815..77654872,-!p2@Zfp385b!0.26!1.26!Zfp385b;;chr11:96147952..96147967,+!p1@Hoxb7!0.26!1.26!Hoxb7;;chr11:96213264..96213282,+!p@chr11:96213264..96213282,+!0.26!1.26!Hoxb2;;chr11:120624132..120624143,+!p10@Hmga1,p9@Hmga1-rs1!0.26!1.26!Hmga1;;chr13:72101141..72101158,-!p3@Irx1!0.26!1.26!Irx1;;chr15:103085802..103085817,-!p4@Nfe2!0.26!1.26!Nfe2;;chr6:52154386..52154407,-!p2@Hoxa5!0.26!1.26!Hoxa5;;chr11:23978229..23978268,+!p8@Bcl11a!0.26!1.05!Bcl11a;;chr10:42303452..42303470,-!p2@Nr2e1!0.26!0.84!Nr2e1;;chr11:33103600..33103611,-!p2@Tlx3!0.26!0.84!Tlx3;;chr11:83664365..83664383,+!p1@Hnf1b!0.26!0.84!Hnf1b;;chr10:61595830..61595846,+!p1@Neurog3!0.26!0.84!Neurog3;;chr11:21901587..21901604,-!p2@Otx1!0.26!0.84!Otx1;;chr11:100553754..100553787,-!p1@Zfp385c!0.26!0.84!Zfp385c;;chr11:85703483..85703508,+!p2@Tbx4!0.26!0.84!Tbx4;;chr10:106931803..106931817,-!p2@Myf6!0.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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs10519
-|library_id_phase_based=1:CNhs10519
+|library_id_phase_based=2:CNhs10519
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;395
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;395
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14.CNhs10519.395-14B1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14.CNhs10519.395-14B1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14.CNhs10519.395-14B1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14.CNhs10519.395-14B1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/whole%2520body%252c%2520embryo%2520E14.CNhs10519.395-14B1.mm9.nobarcode.rdna.fa.gz
 |name=whole body, embryo E14
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10519,LSID649,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.076472344321339,0,0,0,0,0,-0.245586922068352,0,0,0,0,0.57495155932396,0,0,0,0,0,0,-0.191893350882575,0,0,0,0.0826465040380816,0,0,0,0,0,0,0,0,0,-0.47577628828595,0,0,0,0.211878289366281,0,-0.103383580812686,0.0545845522067729,0.210225039391641,0.180880219380248,0.479209522631867,0,0,0,0,0,0,0,0,0,0,0.152051658298929,0,-0.0660055475634404,0.264452449061451,0,0,0,0,0,-0.0651068161287265,0,0,0,-0.0850933395286746,-0.228004153301305,-0.00603938447215391,0.0523606339469388,0,-0.0780086007519514,0.0634006115058792,0,0.0826465040380816,0,0.0447623448655828,-0.0119769498058686,0.101545508869258,-0.0788315948399074,0,0,0,0,0,0,-0.00722404057502572,-0.0701488069950793,-0.0579247128651183,0,0,0,0,0
@@ Line 88: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:395-14B1;search_select_hide=table117:395-14B1
 }}

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FF:395-14B1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:14, 4 June 2020

CNhs10519

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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