FF:461-43C1: Difference between revisions

Latest revision as of 19:17, 4 June 2020

Name:	spleen, embryo E16
Species:	Mouse (Mus musculus)
Library ID:	CNhs11035
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	spleen
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		SAMD00005309

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11035		CAGE		DRX009085		DRR009959

Accession ID Mm9

Library id		BAM		CTSS
CNhs11035		DRZ001384		DRZ002767

Accession ID Mm10

Library id		BAM		CTSS
CNhs11035		DRZ012734		DRZ014117

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

CNhs11035

0	0
1	0
10	0
100	0
1000	0.00363
1001	-0.0631
1002	0.239
1003	0.0389
1004	0
1005	0.109
1006	-0.107
1007	0.0301
1008	0
1009	0.152
101	0.049
1010	0.209
1011	-0.00851
1012	0
1013	-0.0113
1014	0.209
1015	0.135
1016	0.187
1017	0.0815
1018	0.0815
1019	0
102	0
1020	0
1021	0
1022	-0.142
1023	0
1024	-0.00131
1025	0.247
1026	0
1027	0
1028	0
1029	-0.0945
103	0.259
1030	0
1031	0.329
1032	-0.0782
1033	0.015
1034	0.0301
1035	0
1036	0.123
1037	0
1038	0.0487
1039	-0.125
104	0
1040	0.202
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: CNhs11035

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.111
MA0003.1	MA0003.1	0.174
MA0004.1	MA0004.1	0.57
MA0006.1	MA0006.1	0.0942
MA0007.1	MA0007.1	0.892
MA0009.1	MA0009.1	0.251
MA0014.1	MA0014.1	0.811
MA0017.1	MA0017.1	0.00213
MA0018.2	MA0018.2	1.75304e-7
MA0019.1	MA0019.1	0.165
MA0024.1	MA0024.1	8.53203e-13
MA0025.1	MA0025.1	0.00175
MA0027.1	MA0027.1	0.00875
MA0028.1	MA0028.1	0.499
MA0029.1	MA0029.1	0.841
MA0030.1	MA0030.1	0.222
MA0031.1	MA0031.1	0.0174
MA0035.2	MA0035.2	0.0104
MA0038.1	MA0038.1	0.506
MA0039.2	MA0039.2	0.0291
MA0040.1	MA0040.1	0.442
MA0041.1	MA0041.1	0.413
MA0042.1	MA0042.1	0.48
MA0043.1	MA0043.1	0.0115
MA0046.1	MA0046.1	0.00524
MA0047.2	MA0047.2	0.456
MA0048.1	MA0048.1	0.0187
MA0050.1	MA0050.1	0.115
MA0051.1	MA0051.1	0.3
MA0052.1	MA0052.1	1.33787e-5
MA0055.1	MA0055.1	0.0236
MA0057.1	MA0057.1	0.91
MA0058.1	MA0058.1	0.587
MA0059.1	MA0059.1	0.567
MA0060.1	MA0060.1	7.32359e-4
MA0061.1	MA0061.1	0.0174
MA0062.2	MA0062.2	0.0236
MA0065.2	MA0065.2	0.00318
MA0066.1	MA0066.1	0.451
MA0067.1	MA0067.1	0.0303
MA0068.1	MA0068.1	0.241
MA0069.1	MA0069.1	0.834
MA0070.1	MA0070.1	0.819
MA0071.1	MA0071.1	0.0489
MA0072.1	MA0072.1	0.249
MA0073.1	MA0073.1	0.997
MA0074.1	MA0074.1	0.0838
MA0076.1	MA0076.1	0.395
MA0077.1	MA0077.1	0.64
MA0078.1	MA0078.1	0.501
MA0079.2	MA0079.2	0.031
MA0080.2	MA0080.2	3.55221e-12
MA0081.1	MA0081.1	0.00231
MA0083.1	MA0083.1	0.26
MA0084.1	MA0084.1	0.554
MA0087.1	MA0087.1	0.178
MA0088.1	MA0088.1	0.762
MA0090.1	MA0090.1	0.575
MA0091.1	MA0091.1	0.481
MA0092.1	MA0092.1	0.56
MA0093.1	MA0093.1	0.72
MA0099.2	MA0099.2	0.00318
MA0100.1	MA0100.1	0.469
MA0101.1	MA0101.1	0.0825
MA0102.2	MA0102.2	0.222
MA0103.1	MA0103.1	2.75319e-5
MA0104.2	MA0104.2	0.123
MA0105.1	MA0105.1	0.0227
MA0106.1	MA0106.1	0.123
MA0107.1	MA0107.1	0.0837
MA0108.2	MA0108.2	0.84
MA0111.1	MA0111.1	0.939
MA0112.2	MA0112.2	0.985
MA0113.1	MA0113.1	0.25
MA0114.1	MA0114.1	2.24783e-5
MA0115.1	MA0115.1	2.99192e-4
MA0116.1	MA0116.1	0.399
MA0117.1	MA0117.1	0.0048
MA0119.1	MA0119.1	0.241
MA0122.1	MA0122.1	0.468
MA0124.1	MA0124.1	0.328
MA0125.1	MA0125.1	0.532
MA0131.1	MA0131.1	0.884
MA0135.1	MA0135.1	0.651
MA0136.1	MA0136.1	6.67065e-12
MA0137.2	MA0137.2	0.667
MA0138.2	MA0138.2	0.00828
MA0139.1	MA0139.1	0.14
MA0140.1	MA0140.1	5.72709e-8
MA0141.1	MA0141.1	0.00178
MA0142.1	MA0142.1	0.876
MA0143.1	MA0143.1	0.585
MA0144.1	MA0144.1	0.81
MA0145.1	MA0145.1	0.735
MA0146.1	MA0146.1	0.234
MA0147.1	MA0147.1	0.242
MA0148.1	MA0148.1	0.611
MA0149.1	MA0149.1	0.28
MA0150.1	MA0150.1	0.0446
MA0152.1	MA0152.1	0.572
MA0153.1	MA0153.1	5.99419e-4
MA0154.1	MA0154.1	0.00626
MA0155.1	MA0155.1	0.0504
MA0156.1	MA0156.1	1.14231e-12
MA0157.1	MA0157.1	0.252
MA0159.1	MA0159.1	0.0433
MA0160.1	MA0160.1	0.0154
MA0162.1	MA0162.1	0.321
MA0163.1	MA0163.1	0.0108
MA0164.1	MA0164.1	0.368
MA0258.1	MA0258.1	0.216
MA0259.1	MA0259.1	0.753

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: CNhs11035

Novel motif	Logo	P-value
1	1	0.191
10	10	0.966
100	100	0.645
101	101	0.622
102	102	0.765
103	103	0.881
104	104	0.886
105	105	0.54
106	106	0.48
107	107	0.281
108	108	0.958
109	109	0.0826
11	11	0.751
110	110	0.69
111	111	0.206
112	112	0.461
113	113	0.971
114	114	0.078
115	115	0.322
116	116	0.242
117	117	0.854
118	118	0.967
119	119	0.382
12	12	0.223
120	120	0.432
121	121	0.918
122	122	0.864
123	123	0.0173
124	124	0.5
125	125	0.348
126	126	0.582
127	127	0.613
128	128	0.717
129	129	0.209
13	13	0.027
130	130	0.00615
131	131	0.909
132	132	0.399
133	133	0.103
134	134	0.187
135	135	0.319
136	136	0.0614
137	137	0.07
138	138	0.00642
139	139	0.0737
14	14	0.863
140	140	0.576
141	141	0.987
142	142	0.814
143	143	0.476
144	144	0.526
145	145	0.0526
146	146	0.822
147	147	0.289
148	148	0.122
149	149	0.434
15	15	0.731
150	150	0.0513
151	151	0.608
152	152	0.117
153	153	0.525
154	154	0.393
155	155	0.437
156	156	2.75692e-5
157	157	0.818
158	158	0.99
159	159	0.308
160	160	0.0431
161	161	0.0324
162	162	0.622
163	163	0.76
164	164	0.581
165	165	0.228
166	166	0.344
167	167	0.413
168	168	0.855
169	169	0.139
17	17	0.391
18	18	0.28
19	19	0.112
2	2	0.79
20	20	0.994
21	21	0.0841
22	22	0.242
23	23	0.259
24	24	0.00212
25	25	0.11
26	26	0.0188
27	27	0.962
28	28	0.231
29	29	0.928
3	3	0.916
30	30	0.638
31	31	0.545
32	32	0.307
33	33	0.177
34	34	0.381
35	35	0.0293
36	36	0.711
37	37	0.455
38	38	0.765
39	39	0.638
4	4	0.558
40	40	0.695
41	41	0.387
42	42	0.275
43	43	0.935
44	44	0.0657
45	45	0.722
46	46	0.692
47	47	0.406
48	48	0.608
49	49	0.295
5	5	0.507
50	50	0.0571
51	51	0.55
52	52	0.494
53	53	0.601
54	54	0.377
55	55	0.581
56	56	0.716
57	57	0.657
58	58	0.581
59	59	0.177
6	6	0.623
60	60	0.5
61	61	0.146
62	62	0.192
63	63	0.777
64	64	0.793
65	65	0.956
66	66	0.991
67	67	0.874
68	68	0.0547
69	69	0.944
7	7	0.543
70	70	0.00333
71	71	0.421
72	72	0.139
73	73	0.124
74	74	0.571
75	75	0.852
76	76	0.72
77	77	0.825
78	78	0.301
79	79	0.617
8	8	0.795
80	80	0.542
81	81	0.654
82	82	0.559
83	83	0.436
84	84	0.00312
85	85	0.233
86	86	0.921
87	87	0.617
88	88	0.767
89	89	0.499
9	9	0.244
90	90	0.257
91	91	0.761
92	92	0.441
93	93	0.91
94	94	0.717
95	95	0.12
96	96	0.35
97	97	0.909
98	98	0.477
99	99	0.186

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: CNhs11035

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011360 mouse spleen- 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)
0002106 (spleen)
0002100 (trunk)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0000466 (immaterial anatomical entity)
0002075 (viscus)
0000062 (organ)
0000475 (organism subdivision)
0004120 (mesoderm-derived structure)
0000077 (mixed endoderm/mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0002323 (body cavity)
0005177 (trunk region element)
0004177 (hemopoietic organ)
0005057 (immune organ)
0005172 (abdomen element)
0000464 (anatomical space)
0004458 (body cavity or lining)
0010317 (germ layer / neural crest derived structure)
0005173 (abdominal segment element)
0002390 (hematopoietic system)
0002417 (abdominal segment of trunk)
0002193 (hemolymphoid system)
0000916 (abdomen)
0002405 (immune 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)
0011360 (mouse spleen- 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
UBERON:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0006603 (presumptive mesoderm)
UBERON:0004872 (splanchnic layer of lateral plate mesoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008948
+|DRA_sample_Accession=CAGE@SAMD00005309
-|accession_numbers=CAGE;DRX009085;DRR009959;DRZ001384;DRZ002767
+|accession_numbers=CAGE;DRX009085;DRR009959;DRZ001384;DRZ002767;DRZ012734;DRZ014117
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002106,UBERON:0002100,UBERON:0000479,UBERON:0001007,UBERON:0004119,UBERON:0000466,UBERON:0002075,UBERON:0000062,UBERON:0000475,UBERON:0004120,UBERON:0000077,UBERON:0000061,UBERON:0000465,UBERON:0002553,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0009569,UBERON:0002323,UBERON:0005177,UBERON:0004177,UBERON:0005057,UBERON:0005172,UBERON:0000464,UBERON:0004458,UBERON:0010317,UBERON:0005173,UBERON:0002390,UBERON:0002417,UBERON:0002193,UBERON:0000916,UBERON:0002405
 |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=chr19:45225149..45225186,+!p1@Tlx1!2.06!113.93!Tlx1;;chr10:22539932..22539956,-!p1@Tcf21!1.95!225.99!Tcf21;;chr5:42155788..42155800,-!p1@Nkx3-2!1.88!74.71!Nkx3-2;;chr17:26978409..26978442,-!p1@Nkx2-5!1.78!59.65!Nkx2-5;;chr17:26978521..26978536,-!p2@Nkx2-5!1.72!52.01!Nkx2-5;;chr2:164228702..164228719,+!p1@Rbpjl!1.67!45.61!Rbpjl;;chr2:104966766..104966786,+!p1@Wt1!1.51!49.12!Wt1;;chr19:43686789..43686811,+!p1@Nkx2-3!1.44!26.42!Nkx2-3;;chr8:87425854..87425891,+!p1@Klf1!1.43!25.80!Klf1;;chr19:45225276..45225304,+!p2@Tlx1!1.34!20.64!Tlx1;;chr2:19367259..19367278,+!p1@Ptf1a!1.27!17.54!Ptf1a;;chr2:104966874..104966907,+!p2@Wt1!1.23!16.10!Wt1;;chr7:17647736..17647772,-!p1@Hif3a!1.20!51.80!Hif3a;;chr15:103085660..103085681,-!p1@Nfe2!1.17!20.64!Nfe2;;chr1:140739014..140739032,-!p1@Lhx9!1.15!16.51!Lhx9;;chr2:104966933..104966966,+!p3@Wt1!1.15!13.21!Wt1;;chr2:28477452..28477483,-!p1@Gfi1b!1.14!15.69!Gfi1b;;chr11:11584970..11585030,+!p2@Ikzf1!1.09!16.30!Ikzf1;;chrX:7544943..7545001,-!p1@Gata1!1.05!10.11!Gata1;;chr2:38567715..38567730,-!p2@Nr5a1!1.04!9.91!Nr5a1;;chr5:144951153..144951203,+!p1@Bhlha15!1.03!14.24!Bhlha15;;chr6:88143711..88143717,+!p2@Gata2!1.00!14.65!Gata2;;chr13:48758276..48758291,+!p1@Barx1!0.98!8.46!Barx1;;chr8:59799772..59799789,+!p1@Hand2!0.97!24.35!Hand2;;chr2:104966662..104966673,+!p4@Wt1!0.95!7.84!Wt1;;chr10:12810631..12810649,+!p1@Plagl1!0.89!186.16!Plagl1;;chr10:88145766..88145770,-!p1@Spic!0.89!9.08!Spic;;chr13:48758358..48758415,+!p2@Barx1!0.87!6.40!Barx1;;chr8:123608252..123608268,+!p1@Foxf1a!0.86!9.49!Foxf1a;;chr8:90483433..90483457,-!p2@Zfp423!0.86!8.67!Zfp423;;chr2:90936901..90936945,+!p1@Sfpi1!0.85!34.26!Sfpi1;;chr8:87225329..87225396,+!p1@Lyl1!0.85!24.35!Lyl1;;chr15:103085802..103085817,-!p4@Nfe2!0.85!7.64!Nfe2;;chr11:11586218..11586285,+!p1@Ikzf1!0.84!19.81!Ikzf1;;chr17:26978449..26978458,-!p3@Nkx2-5!0.83!5.78!Nkx2-5;;chr5:42155732..42155733,-!p3@Nkx3-2!0.80!5.37!Nkx3-2;;chr12:36219645..36219730,-!p1@Ahr!0.79!55.11!Ahr;;chr4:114732112..114732158,+!p1@Tal1!0.79!11.97!Tal1;;chr14:22807107..22807119,-!p2@Zfp503!0.78!23.73!Zfp503;;chr9:96159147..96159204,+!p2@Tfdp2!0.78!9.91!Tfdp2;;chr4:63064364..63064384,-!p1@Akna!0.77!15.48!Akna;;chr2:90936947..90936977,+!p2@Sfpi1!0.77!10.11!Sfpi1;;chr7:77505617..77505632,-!p1@Nr2f2!0.76!245.39!Nr2f2;;chr2:167363692..167363710,+!p1@Snai1!0.74!60.88!Snai1;;chr7:77511403..77511450,-!p3@Nr2f2!0.74!10.11!Nr2f2;;chr2:90922554..90922575,+!p4@Sfpi1!0.74!8.67!Sfpi1;;chr14:22807216..22807231,-!p3@Zfp503!0.74!8.05!Zfp503;;chr17:26978464..26978469,-!p4@Nkx2-5!0.74!4.54!Nkx2-5;;chr14:22807083..22807104,-!p1@Zfp503!0.73!85.86!Zfp503;;chr16:92826249..92826325,-!p1@Runx1!0.71!10.94!Runx1;;chr15:103082088..103082136,-!p2@Nfe2!0.71!4.13!Nfe2;;chr11:18918917..18918944,-!p1@Meis1!0.70!59.03!Meis1;;chr6:29476690..29476724,+!p1@Irf5!0.70!20.64!Irf5;;chr8:87225670..87225697,+!p2@Lyl1!0.70!13.00!Lyl1;;chr11:18918820..18918831,-!p4@Meis1!0.70!8.26!Meis1;;chr11:96153767..96153822,+!p1@Hoxb6!0.70!6.60!Hoxb6;;chr12:3891810..3891829,+!p2@Dnmt3a!0.70!6.60!Dnmt3a;;chr6:88148650..88148669,+!p1@Gata2!0.69!36.94!Gata2;;chr7:77511234..77511302,-!p2@Nr2f2!0.68!28.69!Nr2f2;;chrX:45245679..45245702,-!p1@Smarca1!0.68!19.19!Smarca1;;chr4:87452200..87452229,-!p2@Mllt3!0.67!8.67!Mllt3;;chr11:18918434..18918489,-!p3@Meis1!0.67!6.19!Meis1;;chr5:42155277..42155281,-!p2@Nkx3-2!0.67!3.71!Nkx3-2;;chr7:17642177..17642223,-!p3@Hif3a!0.67!3.71!Hif3a;;chr7:17642053..17642066,-!p2@Hif3a!0.66!5.37!Hif3a;;chr19:59533221..59533271,+!p1@Emx2!0.66!4.54!Emx2;;chr9:51021788..51021802,+!p1@Pou2af1!0.66!4.33!Pou2af1;;chr15:103085690..103085710,-!p3@Nfe2!0.66!3.92!Nfe2;;chr19:10315179..10315241,-!p1@Gm98!0.65!42.10!Gm98;;chr10:119913278..119913298,-!p2@Hmga2!0.65!8.67!Hmga2;;chr7:89137163..89137200,-!p1@Bnc1!0.65!4.33!Bnc1;;chr7:122989632..122989668,-!p2@Sox6!0.65!3.51!Sox6;;chrX:98449898..98449913,+!p2@Foxo4!0.63!11.97!Foxo4;;chr10:119913546..119913583,-!p3@Hmga2!0.63!7.64!Hmga2;;chr5:77543897..77543911,-!p2@Hopx!0.63!6.81!Hopx;;chr2:104966465..104966479,+!p6@Wt1!0.63!3.30!Wt1;;chr16:14705925..14705951,+!p1@Snai2!0.62!26.62!Snai2;;chr18:55150011..55150059,-!p3@Zfp608!0.62!11.76!Zfp608;;chr7:87170879..87170914,+!p2@Zfp710!0.62!8.26!Zfp710;;chr2:30700788..30700824,+!p2@Prrx2!0.62!5.16!Prrx2;;chr7:52471143..52471186,+!p1@Tead2!0.61!39.01!Tead2;;chr2:169458519..169458555,+!p2@Tshz2!0.61!14.45!Tshz2;;chr18:76219118..76219155,+!p1@Zbtb7c!0.61!5.99!Zbtb7c;;chr4:154010228..154010244,-!p4@Prdm16!0.61!4.54!Prdm16;;chr7:77511622..77511657,-!p5@Nr2f2!0.61!4.13!Nr2f2;;chr2:104966436..104966455,+!p7@Wt1!0.61!3.10!Wt1;;chr4:97444012..97444045,+!p4@Nfia!0.60!26.83!Nfia;;chr19:37509324..37509337,+!p1@Hhex!0.60!25.18!Hhex;;chr6:52154414..52154462,-!p1@Hoxa5!0.60!4.33!Hoxa5;;chr7:17642018..17642045,-!p4@Hif3a!0.60!3.51!Hif3a;;chr10:30562571..30562597,-!p1@Hey2!0.59!7.84!Hey2;;chr8:87225702..87225726,+!p3@Lyl1!0.59!6.60!Lyl1;;chr11:18918406..18918431,-!p6@Meis1!0.59!4.13!Meis1;;chr10:61595830..61595846,+!p1@Neurog3!0.59!2.89!Neurog3;;chr19:43686882..43686906,+!p2@Nkx2-3!0.59!2.89!Nkx2-3;;chr2:105003277..105003280,+!p5@Wt1!0.59!2.89!Wt1;;chr9:32503590..32503680,+!p1@Ets1!0.58!127.55!Ets1;;chr11:16908650..16908690,-!p1@Plek!0.58!20.85!Plek;;chr4:3865501..3865548,-!p1@Plag1!0.58!17.34!Plag1;;chr2:90936978..90937023,+!p3@Sfpi1!0.58!5.99!Sfpi1;;chr13:55932591..55932622,-!p1@Pitx1!0.58!3.51!Pitx1;;chr5:138187341..138187406,+!p3@Tsc22d4!0.57!35.91!Tsc22d4;;chr7:6649134..6649167,-!p1@Zim1!0.57!17.75!Zim1;;chr4:6917606..6917681,-!p1@Tox!0.57!13.62!Tox;;chr8:90483459..90483475,-!p1@Zfp423!0.57!8.67!Zfp423;;chr17:28487603..28487626,-!p2@Tead3!0.57!6.60!Tead3;;chr14:22806778..22806795,-!p5@Zfp503!0.57!3.10!Zfp503;;chr2:163332558..163332596,+!p2@Hnf4a!0.57!2.68!Hnf4a;;chr9:74709695..74709722,+!p1@Onecut1!0.57!2.68!Onecut1;;chr14:64562503..64562524,+!p1@Sox7!0.56!18.78!Sox7;;chr6:52163319..52163342,-!p1@Hoxa3!0.56!4.13!Hoxa3;;chr4:135728181..135728203,+!p2@E2f2!0.56!3.71!E2f2;;chr7:77511311..77511352,-!p4@Nr2f2!0.55!5.99!Nr2f2;;chr7:19608891..19608895,-!p1@Foxa3!0.55!3.51!Foxa3;;chr9:96159225..96159249,+!p5@Tfdp2!0.55!2.89!Tfdp2;;chr2:44968512..44968530,-!p1@Zeb2!0.54!68.73!Zeb2;;chr10:119913310..119913366,-!p1@Hmga2!0.54!24.35!Hmga2;;chr8:123260252..123260264,+!p1@Irf8!0.54!21.67!Irf8;;chr4:97444537..97444555,+!p8@Nfia!0.54!7.22!Nfia;;chr4:135129538..135129558,-!p1@Grhl3!0.54!4.13!Grhl3;;chr7:37483231..37483263,+!p2@Tshz3!0.54!4.13!Tshz3;;chr15:102865088..102865107,+!p1@Hoxc4!0.54!3.51!Hoxc4;;chr15:102844431..102844445,+!p1@Hoxc5!0.54!2.48!Hoxc5;;chr4:44723559..44723593,-!p1@Pax5!0.54!2.48!Pax5;;chr7:122989594..122989626,-!p1@Sox6!0.54!2.48!Sox6;;chr2:169458192..169458247,+!p1@Tshz2!0.53!26.83!Tshz2;;chr2:162880327..162880385,+!p2@Mybl2!0.53!20.02!Mybl2;;chr4:62626594..62626651,+!p1@Zfp618!0.53!11.14!Zfp618;;chr6:15135456..15135520,+!p3@Foxp2!0.53!5.99!Foxp2;;chr2:92886587..92886622,-!p3@Prdm11!0.53!3.92!Prdm11;;chr11:96143666..96143725,+!p1@Hoxb8!0.53!2.89!Hoxb8;;chr11:18918959..18918976,-!p2@Meis1!0.52!40.45!Meis1;;chr6:72739185..72739232,-!p1@Tcf7l1!0.52!30.96!Tcf7l1;;chr19:28754692..28754757,-!p1@Glis3!0.51!11.56!Glis3;;chrX:45245644..45245666,-!p2@Smarca1!0.51!8.87!Smarca1;;chr10:119914001..119914078,-!p4@Hmga2!0.51!3.30!Hmga2;;chr11:52096066..52096081,-!p2@Tcf7!0.51!2.89!Tcf7;;chr2:147871627..147871641,-!p1@Foxa2!0.51!2.27!Foxa2;;chr2:152223441..152223465,-!p2@Sox12!0.50!11.35!Sox12;;chr2:91864300..91864379,-!p2@Creb3l1!0.50!7.64!Creb3l1;;chr3:135271185..135271254,-!p4@Nfkb1!0.50!4.54!Nfkb1;;chr11:70043257..70043263,-!p1@Bcl6b!0.50!4.33!Bcl6b;;chr13:48356475..48356492,+!p1@Id4!0.49!60.47!Id4;;chr19:26822880..26822964,+!p2@Smarca2!0.49!23.32!Smarca2;;chr1:4483679..4483695,-!p1@Sox17!0.49!12.59!Sox17;;chr15:102865131..102865151,+!p2@Hoxc4!0.49!2.48!Hoxc4;;chr2:44968775..44968795,-!p4@Zeb2!0.48!12.38!Zeb2;;chr4:154010918..154010931,-!p1@Prdm16!0.48!7.43!Prdm16;;chr14:52935788..52935817,-!p2@Sall2!0.48!5.37!Sall2;;chr2:181406327..181406350,-!p1@Sox18!0.47!82.76!Sox18;;chr12:87027598..87027652,+!p1@Batf!0.47!5.57!Batf;;chr10:20880731..20880775,-!p2@Myb!0.47!4.95!Myb;;chr14:56443806..56443848,+!p1@Nfatc4!0.47!4.75!Nfatc4;;chr2:169458799..169458832,+!p5@Tshz2!0.47!3.71!Tshz2;;chr2:90922519..90922544,+!p6@Sfpi1!0.47!2.27!Sfpi1;;chr13:99954640..99954681,+!p1@Zfp366!0.46!8.87!Zfp366;;chr1:186556410..186556424,-!p1@Hlx!0.46!7.64!Hlx;;chr11:98821937..98821987,+!p4@Rara!0.46!5.16!Rara;;chr18:75979866..75979890,+!p3@Zbtb7c!0.46!4.75!Zbtb7c;;chr11:11585678..11585745,+!p5@Ikzf1!0.46!3.10!Ikzf1;;chr6:30908793..30908815,-!p1@Klf14!0.46!1.86!Klf14;;chr10:92773591..92773623,-!p1@Elk3!0.45!57.17!Elk3;;chr12:9581262..9581282,+!p1@Osr1!0.45!30.13!Osr1;;chr2:152223469..152223512,-!p1@Sox12!0.45!12.80!Sox12;;chr2:92886297..92886329,-!p1@Prdm11!0.45!11.35!Prdm11;;chr6:99216488..99216534,-!p2@Foxp1!0.45!6.60!Foxp1;;chr1:120950098..120950132,-!p2@Gli2!0.45!5.16!Gli2;;chr2:153475178..153475196,+!p1@Dnmt3b!0.45!4.75!Dnmt3b;;chr2:27532479..27532509,+!p3@Rxra!0.45!4.54!Rxra;;chr12:3891753..3891801,+!p4@Dnmt3a!0.45!3.51!Dnmt3a;;chr6:16848347..16848391,-!p1@Tfec!0.45!2.68!Tfec;;chr2:91864661..91864686,-!p1@Creb3l1!0.44!54.69!Creb3l1;;chrX:45807329..45807370,-!p1@Elf4!0.44!17.13!Elf4;;chr12:28027561..28027591,-!p1@Sox11!0.44!15.89!Sox11;;chr11:98821749..98821799,+!p2@Rara!0.44!15.07!Rara;;chr15:102301130..102301147,+!p3@Pcbp2!0.44!7.02!Pcbp2;;chr7:37483021..37483078,+!p1@Tshz3!0.44!7.02!Tshz3;;chr2:169458352..169458397,+!p3@Tshz2!0.44!5.57!Tshz2;;chr10:126778916..126778974,-!p1@Gli1!0.44!4.95!Gli1;;chr6:52154386..52154407,-!p2@Hoxa5!0.44!2.48!Hoxa5;;chr1:14746065..14746079,-!p1@Msc!0.44!2.27!Msc;;chr8:118231678..118231692,-!p2@Maf!0.43!21.46!Maf;;chr18:69681439..69681456,+!p7@Tcf4!0.43!5.57!Tcf4;;chr4:87452180..87452196,-!p3@Mllt3!0.43!4.13!Mllt3;;chr11:120491440..120491474,-!p3@Mafg!0.43!2.89!Mafg;;chr17:37139472..37139514,+!p1@Zfp57!0.42!15.69!Zfp57;;chr10:79389784..79389833,+!p1@Arid3a!0.42!12.18!Arid3a;;chr17:35031460..35031518,+!p1@Zbtb12!0.42!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ol1;;chr7:91558537..91558558,-!p4@Arnt2!0.18!0.83!Arnt2;;chr11:11590140..11590187,+!p3@Ikzf1!0.18!0.83!Ikzf1;;chr15:50721503..50721514,-!p15@Trps1!0.18!0.83!Trps1;;chr6:29490887..29490891,+!p5@Irf5!0.18!0.83!Irf5;;chr2:168032563..168032642,-!p2@Adnp!0.17!78.63!Adnp;;chr18:75527009..75527027,+!p1@Smad7!0.17!27.24!Smad7;;chr17:48549054..48549091,-!p1@Nfya!0.17!23.12!Nfya;;chr8:97855656..97855736,-!p1@Zfp319!0.17!21.26!Zfp319;;chr4:82151274..82151290,-!p3@Nfib!0.17!20.85!Nfib;;chr11:5420954..5420969,+!p2@Xbp1!0.17!15.89!Xbp1;;chr7:24993112..24993158,-!p1@Zfp111!0.17!13.21!Zfp111;;chr8:107694628..107694659,+!p1@Cbfb!0.17!11.35!Cbfb;;chr7:134170310..134170341,-!p5@Maz!0.17!11.14!Maz;;chr5:24107779..24107825,-!p1@Smarcd3!0.17!8.26!Smarcd3;;chr6:39068210..39068251,-!p1@Parp12!0.17!5.37!Parp12;;chr13:64254457..64254497,-!p1@Zfp367!0.17!5.16!Zfp367;;chr13:67461490..67461531,-!p1@Zfp595,p1@Zfp953!0.17!4.75!Zfp953;;chr2:168032763..168032802,-!p3@Adnp!0.17!3.92!Adnp;;chr7:25292141..25292158,+!p2@Zfp428!0.17!3.92!Zfp428;;chr3:95021799..95021840,-!p4@Gabpb2!0.17!3.30!Gabpb2;;chr4:45025159..45025197,-!p1@Zbtb5!0.17!3.30!Zbtb5;;chr2:9800207..9800234,-!p1@Gata3!0.17!3.30!Gata3;;chr9:21420744..21420755,+!p3@Smarca4!0.17!3.10!Smarca4;;chr17:33766353..33766393,+!p2@Zfp414!0.17!2.89!Zfp414;;chr9:63869751..63869767,-!p1@Smad6!0.17!2.68!Smad6;;chr14:65977427..65977452,+!p4@Zfp395!0.17!2.48!Zfp395;;chr17:13897299..13897342,+!p3@Mllt4!0.17!2.27!Mllt4;;chr2:34227446..34227511,-!p1@Pbx3!0.17!2.27!Pbx3;;chr19:46380235..46380277,+!p3@Nfkb2!0.17!2.06!Nfkb2;;chr6:72739034..72739055,-!p3@Tcf7l1!0.17!2.06!Tcf7l1;;chr10:92773708..92773734,-!p3@Elk3!0.17!1.86!Elk3;;chr7:134169999..134170010,-!p13@Maz!0.17!1.44!Maz;;chr7:134376558..134376587,+!p2@Zfp553!0.17!1.44!Zfp553;;chr11:99092280..99092302,-!p3@Smarce1!0.17!1.24!Smarce1;;chr1:9690474..9690493,-!p3@Mybl1!0.17!1.24!Mybl1;;chr2:154395552..154395561,-!p3@E2f1!0.17!1.03!E2f1;;chr7:25292310..25292329,+!p5@Zfp428!0.17!1.03!Zfp428;;chr10:62328079..62328093,-!p5@Tet1!0.17!1.03!Tet1;;chr4:102786990..102786999,+!p11@Mier1!0.17!1.03!Mier1;;chr4:82151500..82151505,-!p11@Nfib!0.17!0.83!Nfib;;chr5:77695390..77695414,+!p2@Rest!0.17!0.83!Rest;;chr10:126779021..126779032,-!p2@Gli1!0.17!0.83!Gli1;;chr10:30562617..30562637,-!p2@Hey2!0.17!0.83!Hey2;;chr17:71202982..71202985,-!p7@Tgif1!0.17!0.83!Tgif1;;chr8:111227455..111227464,+!p@chr8:111227455..111227464,+!0.17!0.83!Zfhx3;;chr2:115890495..115890507,-!p16@Meis2!0.17!0.62!Meis2;;chr1:170362027..170362036,-!p15@Pbx1!0.17!0.62!Pbx1;;chr6:86476158..86476181,-!p1@Pcbp1!0.16!170.68!Pcbp1;;chr9:110034519..110034606,+!p1@Smarcc1!0.16!56.55!Smarcc1;;chr5:138187195..138187255,+!p1@Tsc22d4!0.16!54.90!Tsc22d4;;chr7:134170235..134170294,-!p1@Maz!0.16!36.53!Maz;;chr13:83663902..83663927,+!p1@Mef2c!0.16!30.96!Mef2c;;chr13:23461025..23461086,-!p1@Zfp322a!0.16!29.93!Zfp322a;;chr7:13595144..13595205,-!p1@Zbtb45!0.16!24.97!Zbtb45;;chr6:48036529..48036657,-!p1@Zfp746!0.16!19.40!Zfp746;;chr5:108494715..108494757,+!p1@Mtf2!0.16!18.99!Mtf2;;chr4:55545337..55545357,-!p1@Klf4!0.16!18.78!Klf4;;chr12:85559785..85559840,-!p1@C130039O16Rik!0.16!16.92!C130039O16Rik;;chr15:102076870..102076941,-!p1@Rarg!0.16!13.62!Rarg;;chr12:39506873..39506913,+!p1@Etv1!0.16!12.80!Etv1;;chr18:55152206..55152251,-!p1@Zfp608!0.16!11.97!Zfp608;;chr7:13551180..13551243,+!p1@Zfp324!0.16!9.91!Zfp324;;chr11:52096804..52096896,-!p1@Tcf7!0.16!9.91!Tcf7;;chr7:11080671..11080750,-!p1@Zik1!0.16!8.46!Zik1;;chr8:72498266..72498306,-!p3@Gatad2a!0.16!8.05!Gatad2a;;chr7:30568977..30569047,+!p1@Zfp30!0.16!6.60!Zfp30;;chr2:168415815..168415872,-!p1@Nfatc2!0.16!6.40!Nfatc2;;chr13:67825201..67825277,-!p1@Zfp71-rs1!0.16!5.78!Zfp71-rs1;;chr11:62602904..62602945,-!p1@Zfp286!0.16!5.37!Zfp286;;chr9:96159665..96159680,+!p3@Tfdp2!0.16!5.16!Tfdp2;;chr11:23980664..23980706,+!p2@Bcl11a!0.16!4.95!Bcl11a;;chr17:46693078..46693097,-!p3@Srf!0.16!4.54!Srf;;chr7:46773114..46773155,+!p1@Zfp619!0.16!4.13!Zfp619;;chr5:125538737..125538781,-!p2@Ncor2!0.16!3.92!Ncor2;;chr3:95021663..95021687,-!p3@Gabpb2!0.16!3.71!Gabpb2;;chr1:64579440..64579451,+!p4@Creb1!0.16!3.71!Creb1;;chrX:45807489..45807502,-!p2@Elf4!0.16!3.30!Elf4;;chr6:48552000..48552042,+!p@chr6:48552000..48552042,+!0.16!3.10!Zfp775;;chr11:102179074..102179099,-!p4@Ubtf!0.16!3.10!Ubtf;;chr7:88138585..88138600,+!p2@Zfp592!0.16!2.89!Zfp592;;chr15:81575602..81575618,+!p3@Zc3h7b!0.16!2.68!Zc3h7b;;chr4:97444280..97444291,+!p10@Nfia!0.16!2.27!Nfia;;chr4:58956447..58956510,+!p1@Zkscan16!0.16!2.06!Zkscan16;;chr8:112229540..112229566,+!p2@Zfp821!0.16!2.06!Zfp821;;chr5:145962744..145962760,-!p2@Zkscan14!0.16!1.86!Zkscan14;;chr1:133904862..133904893,+!p6@Elk4!0.16!1.86!Elk4;;chr3:135354349..135354371,-!p6@Nfkb1!0.16!1.86!Nfkb1;;chr18:83079981..83080037,+!p6@Zfp516!0.16!1.44!Zfp516;;chr13:96095097..96095114,+!p5@Zbed3!0.16!1.44!Zbed3;;chr5:138188113..138188145,+!p9@Tsc22d4!0.16!1.24!Tsc22d4;;chr5:92391466..92391471,+!p2@Thap6!0.16!1.03!Thap6;;chr11:98605517..98605539,+!p5@Thra!0.16!1.03!Thra;;chr1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@@ Line 44: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11035
-|library_ids=CNhs11035
+|library_id_phase_based=2:CNhs11035
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;461
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;461
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E16.CNhs11035.461-43C1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E16.CNhs11035.461-43C1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E16.CNhs11035.461-43C1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E16.CNhs11035.461-43C1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E16.CNhs11035.461-43C1.mm9.nobarcode.rdna.fa.gz
 |name=spleen, embryo E16
 |namespace=FANTOM5
@@ Line 50: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11035,LSID732,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.0770522958052115,0,0.00415059153831483,0,0.0814866010703366,0,-0.104489472029866,0,0,0,0,0.265583169211483,0,0,0,0,0,0,0.0694997800189989,0,0.0407433005351683,0,0,0,0,0.0814866010703366,0,0,0,0,0,0,0.216333869267416,0,0,0,0,0,0.0492770736925489,0.0198342723536606,-0.0111505022410543,0.0616182490728342,0.153556643396508,0,0,0,0,0,0,0,0,0,0,0.150072612586664,0,-0.0660055475634404,0,0,0,0,0,0,0,0,0,0,0.0874444790104409,0.301688404489783,-0.158091042771083,0.0133180839142448,0,0.0034780003183852,0,0,0.0814866010703366,0,0.00625445618007105,-0.0917099688385443,-0.334521749838996,0.0712410177467562,0,0,0,0,0.0407433005351683,0,-0.145605663129316,-0.0899661735817814,-0.22905970169623,0,0,0,0,0
@@ Line 87: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:461-43C1;search_select_hide=table117:461-43C1
 }}

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FF:461-43C1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:17, 4 June 2020

CNhs11035

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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