FF:1271-21F2: Difference between revisions

Latest revision as of 18:42, 4 June 2020

Name:	spleen, embryo E18
Species:	Mouse (Mus musculus)
Library ID:	CNhs11011
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	spleen
dev stage	18 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		SAMD00004920

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11011		CAGE		DRX009086		DRR009960

Accession ID Mm9

Library id		BAM		CTSS
CNhs11011		DRZ001385		DRZ002768

Accession ID Mm10

Library id		BAM		CTSS
CNhs11011		DRZ012735		DRZ014118

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

CNhs11011

0	0
1	0
10	0
100	0
1000	0.0573
1001	0
1002	0.254
1003	-0.0842
1004	0
1005	0.223
1006	-0.143
1007	-0.0247
1008	0
1009	0.0508
101	0.152
1010	0
1011	-0.0131
1012	0.0738
1013	-0.0799
1014	0.192
1015	-0.00719
1016	-0.00909
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0738
1022	-0.246
1023	0.0738
1024	0.102
1025	0.192
1026	0
1027	0
1028	0
1029	0.142
103	0.0738
1030	0.192
1031	0.201
1032	-0.147
1033	0.0738
1034	0.0506
1035	0
1036	0.297
1037	0
1038	-0.102
1039	-0.211
104	0
1040	0.176
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: CNhs11011

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00172
MA0003.1	MA0003.1	0.458
MA0004.1	MA0004.1	0.83
MA0006.1	MA0006.1	0.137
MA0007.1	MA0007.1	0.658
MA0009.1	MA0009.1	0.231
MA0014.1	MA0014.1	0.967
MA0017.1	MA0017.1	0.921
MA0018.2	MA0018.2	2.51421e-7
MA0019.1	MA0019.1	0.604
MA0024.1	MA0024.1	6.05905e-7
MA0025.1	MA0025.1	0.0017
MA0027.1	MA0027.1	0.147
MA0028.1	MA0028.1	0.0331
MA0029.1	MA0029.1	0.808
MA0030.1	MA0030.1	0.261
MA0031.1	MA0031.1	0.414
MA0035.2	MA0035.2	1.0515e-5
MA0038.1	MA0038.1	0.429
MA0039.2	MA0039.2	0.277
MA0040.1	MA0040.1	0.921
MA0041.1	MA0041.1	0.191
MA0042.1	MA0042.1	0.542
MA0043.1	MA0043.1	0.0103
MA0046.1	MA0046.1	3.32153e-10
MA0047.2	MA0047.2	0.898
MA0048.1	MA0048.1	0.0174
MA0050.1	MA0050.1	1.02382e-7
MA0051.1	MA0051.1	4.73432e-5
MA0052.1	MA0052.1	1.316e-5
MA0055.1	MA0055.1	0.0223
MA0057.1	MA0057.1	0.775
MA0058.1	MA0058.1	0.906
MA0059.1	MA0059.1	0.64
MA0060.1	MA0060.1	0.606
MA0061.1	MA0061.1	0.00334
MA0062.2	MA0062.2	8.21893e-6
MA0065.2	MA0065.2	0.766
MA0066.1	MA0066.1	0.6
MA0067.1	MA0067.1	0.155
MA0068.1	MA0068.1	0.955
MA0069.1	MA0069.1	0.366
MA0070.1	MA0070.1	0.261
MA0071.1	MA0071.1	0.43
MA0072.1	MA0072.1	0.343
MA0073.1	MA0073.1	0.879
MA0074.1	MA0074.1	0.739
MA0076.1	MA0076.1	0.0289
MA0077.1	MA0077.1	0.271
MA0078.1	MA0078.1	0.368
MA0079.2	MA0079.2	0.139
MA0080.2	MA0080.2	1.052e-13
MA0081.1	MA0081.1	9.32232e-4
MA0083.1	MA0083.1	0.967
MA0084.1	MA0084.1	0.96
MA0087.1	MA0087.1	0.0725
MA0088.1	MA0088.1	0.14
MA0090.1	MA0090.1	0.157
MA0091.1	MA0091.1	0.207
MA0092.1	MA0092.1	0.669
MA0093.1	MA0093.1	0.848
MA0099.2	MA0099.2	0.448
MA0100.1	MA0100.1	0.848
MA0101.1	MA0101.1	0.0321
MA0102.2	MA0102.2	0.0195
MA0103.1	MA0103.1	0.00141
MA0104.2	MA0104.2	0.63
MA0105.1	MA0105.1	1.11841e-5
MA0106.1	MA0106.1	0.783
MA0107.1	MA0107.1	0.0367
MA0108.2	MA0108.2	0.144
MA0111.1	MA0111.1	0.847
MA0112.2	MA0112.2	0.0159
MA0113.1	MA0113.1	0.385
MA0114.1	MA0114.1	0.167
MA0115.1	MA0115.1	0.033
MA0116.1	MA0116.1	0.00403
MA0117.1	MA0117.1	0.418
MA0119.1	MA0119.1	0.0831
MA0122.1	MA0122.1	0.57
MA0124.1	MA0124.1	0.362
MA0125.1	MA0125.1	0.0597
MA0131.1	MA0131.1	0.99
MA0135.1	MA0135.1	0.101
MA0136.1	MA0136.1	5.80958e-14
MA0137.2	MA0137.2	0.0453
MA0138.2	MA0138.2	0.00354
MA0139.1	MA0139.1	0.157
MA0140.1	MA0140.1	1.73618e-30
MA0141.1	MA0141.1	0.522
MA0142.1	MA0142.1	0.408
MA0143.1	MA0143.1	0.216
MA0144.1	MA0144.1	0.24
MA0145.1	MA0145.1	0.939
MA0146.1	MA0146.1	0.271
MA0147.1	MA0147.1	0.746
MA0148.1	MA0148.1	0.694
MA0149.1	MA0149.1	0.612
MA0150.1	MA0150.1	0.118
MA0152.1	MA0152.1	0.136
MA0153.1	MA0153.1	9.01108e-7
MA0154.1	MA0154.1	0.00188
MA0155.1	MA0155.1	0.65
MA0156.1	MA0156.1	5.98618e-19
MA0157.1	MA0157.1	0.646
MA0159.1	MA0159.1	0.753
MA0160.1	MA0160.1	0.404
MA0162.1	MA0162.1	0.308
MA0163.1	MA0163.1	1.20397e-5
MA0164.1	MA0164.1	0.987
MA0258.1	MA0258.1	0.341
MA0259.1	MA0259.1	0.91

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: CNhs11011

Novel motif	Logo	P-value
1	1	0.217
10	10	0.0466
100	100	0.995
101	101	0.662
102	102	0.412
103	103	0.0439
104	104	0.992
105	105	0.591
106	106	0.0614
107	107	0.0988
108	108	0.599
109	109	0.0566
11	11	0.172
110	110	0.132
111	111	0.307
112	112	0.0275
113	113	0.494
114	114	0.847
115	115	0.488
116	116	0.844
117	117	0.0104
118	118	0.241
119	119	0.509
12	12	0.557
120	120	0.806
121	121	0.547
122	122	0.724
123	123	0.0165
124	124	0.79
125	125	0.0955
126	126	0.232
127	127	0.354
128	128	0.0883
129	129	0.619
13	13	0.001
130	130	0.0594
131	131	0.948
132	132	0.358
133	133	0.144
134	134	0.188
135	135	0.441
136	136	0.9
137	137	0.0233
138	138	0.289
139	139	0.945
14	14	0.865
140	140	0.0684
141	141	0.911
142	142	0.181
143	143	0.255
144	144	0.222
145	145	0.00181
146	146	0.907
147	147	0.605
148	148	0.0296
149	149	0.992
15	15	0.0825
150	150	0.0687
151	151	0.345
152	152	0.701
153	153	0.319
154	154	0.714
155	155	0.184
156	156	2.71243e-20
157	157	0.63
158	158	0.142
159	159	0.186
160	160	0.0616
161	161	0.0798
162	162	0.645
163	163	0.782
164	164	0.00798
165	165	0.124
166	166	0.778
167	167	0.436
168	168	0.848
169	169	0.0277
17	17	0.658
18	18	0.47
19	19	0.19
2	2	0.648
20	20	0.271
21	21	0.183
22	22	0.46
23	23	0.721
24	24	0.175
25	25	0.91
26	26	0.00303
27	27	0.987
28	28	0.681
29	29	0.0526
3	3	0.0215
30	30	0.631
31	31	0.977
32	32	0.961
33	33	0.13
34	34	0.516
35	35	0.697
36	36	0.316
37	37	0.109
38	38	0.757
39	39	0.694
4	4	0.695
40	40	0.25
41	41	0.609
42	42	0.0259
43	43	0.0986
44	44	0.354
45	45	0.903
46	46	0.11
47	47	0.423
48	48	0.304
49	49	0.209
5	5	0.17
50	50	0.223
51	51	0.969
52	52	0.771
53	53	0.666
54	54	0.791
55	55	0.251
56	56	0.56
57	57	0.0995
58	58	0.56
59	59	0.128
6	6	0.725
60	60	0.144
61	61	0.104
62	62	0.287
63	63	0.381
64	64	0.552
65	65	0.928
66	66	0.827
67	67	0.158
68	68	0.625
69	69	0.984
7	7	0.0106
70	70	0.751
71	71	0.00856
72	72	0.31
73	73	0.28
74	74	0.361
75	75	0.176
76	76	0.652
77	77	0.984
78	78	0.0131
79	79	0.443
8	8	0.0884
80	80	0.00974
81	81	0.614
82	82	0.364
83	83	0.917
84	84	0.00255
85	85	0.807
86	86	0.873
87	87	0.0476
88	88	0.808
89	89	0.981
9	9	0.293
90	90	0.17
91	91	0.151
92	92	0.569
93	93	0.411
94	94	0.161
95	95	0.207
96	96	0.416
97	97	0.938
98	98	0.362
99	99	0.414

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: CNhs11011

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011517 mouse spleen-, embryo E18 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)
0000302 (mouse embryonic day 18 sample)
0011517 (mouse spleen-, embryo E18 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@DRS008949
+|DRA_sample_Accession=CAGE@SAMD00004920
-|accession_numbers=CAGE;DRX009086;DRR009960;DRZ001385;DRZ002768
+|accession_numbers=CAGE;DRX009086;DRR009960;DRZ001385;DRZ002768;DRZ012735;DRZ014118
 |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=chr8:87425854..87425891,+!p1@Klf1!1.90!78.89!Klf1;;chr19:45225149..45225186,+!p1@Tlx1!1.88!74.82!Tlx1;;chr10:22539932..22539956,-!p1@Tcf21!1.84!175.38!Tcf21;;chr15:103085660..103085681,-!p1@Nfe2!1.75!81.86!Nfe2;;chr2:28477452..28477483,-!p1@Gfi1b!1.72!63.34!Gfi1b;;chrX:7544943..7545001,-!p1@Gata1!1.58!36.85!Gata1;;chr11:11584970..11585030,+!p2@Ikzf1!1.54!47.22!Ikzf1;;chr4:114732112..114732158,+!p1@Tal1!1.53!69.63!Tal1;;chr5:42155788..42155800,-!p1@Nkx3-2!1.52!32.04!Nkx3-2;;chr7:122989594..122989626,-!p1@Sox6!1.50!30.56!Sox6;;chr17:26978409..26978442,-!p1@Nkx2-5!1.46!28.15!Nkx2-5;;chr10:88145766..88145770,-!p1@Spic!1.42!32.78!Spic;;chr7:122989632..122989668,-!p2@Sox6!1.42!25.19!Sox6;;chr17:26978521..26978536,-!p2@Nkx2-5!1.33!20.56!Nkx2-5;;chr9:96159147..96159204,+!p2@Tfdp2!1.31!35.74!Tfdp2;;chr2:104966766..104966786,+!p1@Wt1!1.27!27.59!Wt1;;chr19:43686789..43686811,+!p1@Nkx2-3!1.24!16.48!Nkx2-3;;chr15:103085690..103085710,-!p3@Nfe2!1.23!17.22!Nfe2;;chr15:103082088..103082136,-!p2@Nfe2!1.22!15.56!Nfe2;;chr19:45225276..45225304,+!p2@Tlx1!1.16!13.52!Tlx1;;chr4:87452200..87452229,-!p2@Mllt3!1.14!27.41!Mllt3;;chr4:87452180..87452196,-!p3@Mllt3!1.07!21.11!Mllt3;;chr2:104966874..104966907,+!p2@Wt1!1.07!10.74!Wt1;;chr8:87225670..87225697,+!p2@Lyl1!1.04!29.45!Lyl1;;chr6:86619104..86619119,-!p1@Mxd1!1.03!79.45!Mxd1;;chr6:88143711..88143717,+!p2@Gata2!1.03!15.56!Gata2;;chr11:16908650..16908690,-!p1@Plek!1.02!59.08!Plek;;chr16:92826249..92826325,-!p1@Runx1!1.02!23.52!Runx1;;chr4:135728181..135728203,+!p2@E2f2!1.01!12.41!E2f2;;chr11:11586218..11586285,+!p1@Ikzf1!1.00!29.63!Ikzf1;;chr7:148452314..148452329,-!p1@Irf7!0.95!56.30!Irf7;;chr2:90936901..90936945,+!p1@Sfpi1!0.93!40.93!Sfpi1;;chr9:96159225..96159249,+!p5@Tfdp2!0.93!8.33!Tfdp2;;chr10:79884592..79884621,-!p5@Tcf3!0.93!7.59!Tcf3;;chr7:17642177..17642223,-!p3@Hif3a!0.92!7.22!Hif3a;;chr15:103085802..103085817,-!p4@Nfe2!0.90!8.70!Nfe2;;chr9:51021788..51021802,+!p1@Pou2af1!0.90!8.33!Pou2af1;;chr8:87225329..87225396,+!p1@Lyl1!0.89!26.85!Lyl1;;chr4:63064364..63064384,-!p1@Akna!0.87!19.82!Akna;;chr8:87225702..87225726,+!p3@Lyl1!0.87!13.33!Lyl1;;chr7:51787434..51787448,-!p1@Spib!0.86!9.07!Spib;;chr10:20880731..20880775,-!p2@Myb!0.85!13.15!Myb;;chr10:20880698..20880717,-!p3@Myb!0.84!9.63!Myb;;chr2:104966933..104966966,+!p3@Wt1!0.84!5.93!Wt1;;chr2:38570011..38570034,-!p1@Nr5a1!0.82!5.56!Nr5a1;;chr1:38721792..38721845,-!p1@Aff3!0.81!7.04!Aff3;;chr10:20880629..20880683,-!p1@Myb!0.80!16.48!Myb;;chr7:17642053..17642066,-!p2@Hif3a!0.80!7.78!Hif3a;;chr9:96159116..96159130,+!p6@Tfdp2!0.80!6.85!Tfdp2;;chr2:38567715..38567730,-!p2@Nr5a1!0.79!5.19!Nr5a1;;chr4:135728581..135728668,+!p1@E2f2!0.76!24.82!E2f2;;chr11:100683839..100683890,-!p2@Stat5b!0.76!12.04!Stat5b;;chr2:90936947..90936977,+!p2@Sfpi1!0.75!9.63!Sfpi1;;chr9:96159210..96159221,+!p10@Tfdp2!0.75!4.63!Tfdp2;;chr7:122989676..122989687,-!p8@Sox6!0.75!4.63!Sox6;;chr2:173044380..173044432,-!p1@Zbp1!0.74!11.48!Zbp1;;chr1:14746065..14746079,-!p1@Msc!0.74!5.56!Msc;;chr1:52176315..52176343,+!p1@Stat1!0.73!70.19!Stat1;;chr7:17647736..17647772,-!p1@Hif3a!0.73!17.04!Hif3a;;chr2:90922554..90922575,+!p4@Sfpi1!0.73!8.52!Sfpi1;;chr11:11585912..11585950,+!p6@Ikzf1!0.73!5.74!Ikzf1;;chr6:83301229..83301242,+!p3@Bola3!0.72!4.26!Bola3;;chr17:26978449..26978458,-!p3@Nkx2-5!0.72!4.26!Nkx2-5;;chr4:135728473..135728494,+!p5@E2f2!0.71!4.07!E2f2;;chr2:19367259..19367278,+!p1@Ptf1a!0.71!4.07!Ptf1a;;chr11:23980664..23980706,+!p2@Bcl11a!0.70!19.45!Bcl11a;;chr7:77505617..77505632,-!p1@Nr2f2!0.69!205.94!Nr2f2;;chr10:30375579..30375616,-!p3@Ncoa7!0.69!10.00!Ncoa7;;chr2:164228702..164228719,+!p1@Rbpjl!0.69!3.89!Rbpjl;;chr2:167363692..167363710,+!p1@Snai1!0.67!51.48!Snai1;;chr3:135271185..135271254,-!p4@Nfkb1!0.67!7.22!Nfkb1;;chr4:114729957..114730012,+!p3@Tal1!0.67!3.70!Tal1;;chr4:44723559..44723593,-!p1@Pax5!0.67!3.70!Pax5;;chr2:104966662..104966673,+!p4@Wt1!0.66!3.52!Wt1;;chr1:87546583..87546595,+!p1@Sp100!0.65!5.19!Sp100;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.64!5.74!Ncoa4;;chr11:120491440..120491474,-!p3@Mafg!0.64!5.19!Mafg;;chr14:47896467..47896523,-!p1@Wdhd1!0.63!47.04!Wdhd1;;chrX:45245679..45245702,-!p1@Smarca1!0.63!16.85!Smarca1;;chr2:152758901..152758925,-!p1@Foxs1!0.63!16.85!Foxs1;;chr6:99216488..99216534,-!p2@Foxp1!0.63!10.56!Foxp1;;chr8:123260252..123260264,+!p1@Irf8!0.62!26.11!Irf8;;chr6:29476690..29476724,+!p1@Irf5!0.62!17.04!Irf5;;chr5:65203599..65203617,+!p8@Klf3!0.62!5.74!Klf3;;chr13:30841099..30841116,+!p1@Irf4!0.62!5.37!Irf4;;chr2:90936978..90937023,+!p3@Sfpi1!0.61!6.48!Sfpi1;;chr8:124806048..124806094,+!p1@Zfpm1!0.60!32.78!Zfpm1;;chr14:56223010..56223067,+!p1@Irf9!0.60!27.96!Irf9;;chr2:162880327..162880385,+!p2@Mybl2!0.60!23.70!Mybl2;;chr17:33766353..33766393,+!p2@Zfp414!0.60!9.44!Zfp414;;chr7:87170879..87170914,+!p2@Zfp710!0.60!7.78!Zfp710;;chr6:39068163..39068176,-!p2@Parp12!0.60!6.30!Parp12;;chr4:134708451..134708469,+!p1@Runx3!0.60!5.74!Runx3;;chr4:87452236..87452249,-!p9@Mllt3!0.60!2.96!Mllt3;;chr2:105003277..105003280,+!p5@Wt1!0.60!2.96!Wt1;;chr19:37509324..37509337,+!p1@Hhex!0.59!24.45!Hhex;;chr7:25917492..25917512,-!p1@Pou2f2!0.59!5.37!Pou2f2;;chr1:52065508..52065522,+!p2@Stat4!0.59!3.52!Stat4;;chr2:90922519..90922544,+!p6@Sfpi1!0.58!3.15!Sfpi1;;chr2:169458519..169458555,+!p2@Tshz2!0.57!13.33!Tshz2;;chr9:32503590..32503680,+!p1@Ets1!0.56!120.38!Ets1;;chr9:32348943..32349001,-!p1@Fli1!0.56!26.30!Fli1;;chr5:104183477..104183548,+!p6@Aff1!0.56!5.93!Aff1;;chr15:103085864..103085876,-!p5@Nfe2!0.56!2.59!Nfe2;;chr8:124806017..124806040,+!p2@Zfpm1!0.55!34.82!Zfpm1;;chr18:69681439..69681456,+!p7@Tcf4!0.55!7.78!Tcf4;;chr11:23978111..23978134,+!p3@Bcl11a!0.55!6.11!Bcl11a;;chr10:80598968..80599012,+!p5@Zbtb7a!0.55!3.52!Zbtb7a;;chr17:48015645..48015689,-!p9@Foxp4!0.55!3.52!Foxp4;;chr11:101413151..101413207,-!p1@Brca1!0.54!29.82!Brca1;;chr7:56136362..56136400,-!p1@E2f8!0.54!20.19!E2f8;;chr4:3865501..3865548,-!p1@Plag1!0.54!15.74!Plag1;;chr2:166888058..166888105,-!p2@Znfx1!0.54!9.63!Znfx1;;chr6:39068181..39068206,-!p3@Parp12!0.54!5.93!Parp12;;chr11:96153767..96153822,+!p1@Hoxb6!0.54!4.26!Hoxb6;;chr6:16848347..16848391,-!p1@Tfec!0.54!3.52!Tfec;;chr1:140739014..140739032,-!p1@Lhx9!0.54!3.33!Lhx9;;chr12:36219645..36219730,-!p1@Ahr!0.53!29.82!Ahr;;chr4:97444012..97444045,+!p4@Nfia!0.53!22.59!Nfia;;chr19:28754692..28754757,-!p1@Glis3!0.53!12.22!Glis3;;chr9:96159133..96159145,+!p9@Tfdp2!0.53!2.41!Tfdp2;;chr14:79915425..79915501,+!p1@Elf1!0.52!26.30!Elf1;;chr16:95680889..95680991,-!p1@Erg!0.52!24.08!Erg;;chr12:85534957..85535017,-!p2@C130039O16Rik!0.51!14.26!C130039O16Rik;;chr2:91034924..91034946,-!p2@Nr1h3!0.51!2.96!Nr1h3;;chr4:114732159..114732166,+!p6@Tal1!0.51!2.22!Tal1;;chr2:90936867..90936874,+!p7@Sfpi1!0.51!2.22!Sfpi1;;chr14:55330976..55330990,-!p1@Cebpe!0.51!2.22!Cebpe;;chr6:83301243..83301258,+!p2@Bola3!0.51!2.22!Bola3;;chr11:18918917..18918944,-!p1@Meis1!0.50!37.04!Meis1;;chr1:52176378..52176401,+!p3@Stat1!0.50!7.96!Stat1;;chr14:22807216..22807231,-!p3@Zfp503!0.50!4.26!Zfp503;;chr1:52065454..52065495,+!p1@Stat4!0.50!4.07!Stat4;;chr11:52096066..52096081,-!p2@Tcf7!0.50!2.78!Tcf7;;chr7:17642018..17642045,-!p4@Hif3a!0.50!2.59!Hif3a;;chr4:135736690..135736705,+!p6@E2f2!0.50!2.59!E2f2;;chr2:181406327..181406350,-!p1@Sox18!0.49!87.41!Sox18;;chrX:45245644..45245666,-!p2@Smarca1!0.49!8.33!Smarca1;;chr7:77511403..77511450,-!p3@Nr2f2!0.49!5.37!Nr2f2;;chr2:44968512..44968530,-!p1@Zeb2!0.48!60.00!Zeb2;;chr2:169458192..169458247,+!p1@Tshz2!0.48!23.89!Tshz2;;chr6:88148650..88148669,+!p1@Gata2!0.48!22.41!Gata2;;chr11:3191741..3191769,+!p5@Patz1!0.48!2.78!Patz1;;chr5:104183579..104183600,+!p9@Aff1!0.48!2.41!Aff1;;chr11:96976641..96976646,-!p1@Tbx21!0.48!2.04!Tbx21;;chr2:166868994..166869023,-!p7@Znfx1!0.48!2.04!Znfx1;;chr2:104966436..104966455,+!p7@Wt1!0.48!2.04!Wt1;;chr14:27813679..27813693,+!p2@Hesx1!0.48!2.04!Hesx1;;chr14:52948124..52948148,-!p7@Sall2!0.48!2.04!Sall2;;chr6:86619130..86619158,-!p2@Mxd1!0.47!37.78!Mxd1;;chr17:28487603..28487626,-!p2@Tead3!0.47!5.00!Tead3;;chr5:92391466..92391471,+!p2@Thap6!0.47!3.15!Thap6;;chr11:23978022..23978076,+!p1@Bcl11a!0.46!56.30!Bcl11a;;chr2:162880387..162880413,+!p1@Mybl2!0.46!16.11!Mybl2;;chr9:32349240..32349276,-!p2@Fli1!0.46!5.56!Fli1;;chr2:34227446..34227511,-!p1@Pbx3!0.46!5.37!Pbx3;;chr1:120879128..120879183,-!p3@Gli2!0.46!4.26!Gli2;;chr4:44723520..44723544,-!p2@Pax5!0.46!1.85!Pax5;;chr19:43686882..43686906,+!p2@Nkx2-3!0.46!1.85!Nkx2-3;;chr8:59799772..59799789,+!p1@Hand2!0.45!6.67!Hand2;;chr6:16848395..16848416,-!p2@Tfec!0.45!2.22!Tfec;;chr7:77511234..77511302,-!p2@Nr2f2!0.44!15.93!Nr2f2;;chr14:64562503..64562524,+!p1@Sox7!0.44!14.07!Sox7;;chr10:80870405..80870428,-!p4@Nfic!0.44!6.11!Nfic;;chr8:118231678..118231692,-!p2@Maf!0.43!21.67!Maf;;chr15:61816932..61816952,+!p2@Myc!0.43!19.82!Myc;;chr13:55431084..55431137,-!p1@Mxd3!0.43!18.33!Mxd3;;chr18:55150011..55150059,-!p3@Zfp608!0.43!7.41!Zfp608;;chr14:79915502..79915514,+!p4@Elf1!0.43!2.96!Elf1;;chr2:173044357..173044377,-!p2@Zbp1!0.43!2.78!Zbp1;;chr11:11590140..11590187,+!p3@Ikzf1!0.43!2.22!Ikzf1;;chr11:11590117..11590138,+!p4@Ikzf1!0.43!1.67!Ikzf1;;chr17:26978464..26978469,-!p4@Nkx2-5!0.43!1.67!Nkx2-5;;chr4:44723633..44723646,-!p3@Pax5!0.43!1.67!Pax5;;chr4:134676555..134676575,+!p2@Runx3!0.43!1.67!Runx3;;chr4:114730015..114730042,+!p7@Tal1!0.43!1.67!Tal1;;chrX:45807329..45807370,-!p1@Elf4!0.42!16.30!Elf4;;chr2:44965593..44965624,-!p3@Zeb2!0.42!12.78!Zeb2;;chr14:22807107..22807119,-!p2@Zfp503!0.42!9.82!Zfp503;;chr3:95021663..95021687,-!p3@Gabpb2!0.42!7.59!Gabpb2;;chr18:69681483..69681514,+!p11@Tcf4!0.42!3.33!Tcf4;;chr10:67599432..67599444,-!p4@Arid5b!0.42!3.15!Arid5b;;chr11:102178005..102178022,-!p8@Ubtf!0.42!3.15!Ubtf;;chr11:11585678..11585745,+!p5@Ikzf1!0.42!2.78!Ikzf1;;chr6:52163319..52163342,-!p1@Hoxa3!0.42!2.78!Hoxa3;;chr2:92886587..92886622,-!p3@Prdm11!0.42!2.78!Prdm11;;chr2:34227273..34227292,-!p4@Pbx3!0.42!1.85!Pbx3;;chr10:12810631..12810649,+!p1@Plagl1!0.41!60.56!Plagl1;;chr9:32443818..32443854,+!p2@Ets1!0.41!9.82!Ets1;;chr10:79896347..79896358,-!p2@Tcf3!0.41!7.78!Tcf3;;chr2:44966659..44966675,-!p7@Zeb2!0.41!6.11!Zeb2;;chr2:153475178..153475196,+!p1@Dnmt3b!0.41!4.26!Dnmt3b;;chr5:32438894..32438908,+!p2@Fosl2!0.41!4.26!Fosl2;;chr11:18918820..18918831,-!p4@Meis1!0.41!3.70!Meis1;;chr8:90483433..90483457,-!p2@Zfp423!0.41!2.41!Zfp423;;chr5:65203575..65203589,+!p11@Klf3!0.41!2.04!Klf3;;chr14:79915521..79915539,+!p5@Elf1!0.41!2.04!Elf1;;chr4:135728282..135728310,+!p4@E2f2!0.41!1.85!E2f2;;chr13:30077847..30077906,-!p1@E2f3!0.40!17.22!E2f3;;chr16:14705925..14705951,+!p1@Snai2!0.40!15.56!Snai2;;chr6:144730427..144730508,-!p1@Sox5!0.40!13.52!Sox5;;chr10:79389784..79389833,+!p1@Arid3a!0.40!11.48!Arid3a;;chr1:52176406..52176433,+!p2@Stat1!0.40!5.00!Stat1;;chr8:13339656..13339661,+!p3@Tfdp1!0.40!4.44!Tfdp1;;chr6:15135456..15135520,+!p3@Foxp2!0.40!4.26!Foxp2;;chr2:169458496..169458516,+!p6@Tshz2!0.40!4.07!Tshz2;;chr7:31206743..31206761,+!p1@Nfkbid!0.40!2.41!Nfkbid;;chr15:61817095..61817111,+!p1@Myc!0.39!132.78!Myc;;chr5:38611720..38611799,+!p1@Lyar!0.39!59.26!Lyar;;chrX:48558950..48559016,-!p1@Mbnl3!0.39!6.48!Mbnl3;;chr12:87027598..87027652,+!p1@Batf!0.39!4.44!Batf;;chr11:23977565..23977612,+!p5@Bcl11a!0.39!4.07!Bcl11a;;chr11:70043257..70043263,-!p1@Bcl6b!0.39!3.15!Bcl6b;;chr4:63064395..63064410,-!p2@Akna!0.39!3.15!Akna;;chr8:123608252..123608268,+!p1@Foxf1a!0.39!2.59!Foxf1a;;chr11:98407264..98407295,-!p1@Ikzf3!0.39!1.48!Ikzf3;;chr3:94181331..94181345,+!p4@Rorc!0.39!1.48!Rorc;;chr1:38721767..38721778,-!p5@Aff3!0.39!1.48!Aff3;;chr1:52065530..52065548,+!p3@Stat4!0.39!1.48!Stat4;;chr14:32978944..32978953,+!p8@Gm6768,p8@Ncoa4!0.39!1.48!Ncoa4;;chr13:48758276..48758291,+!p1@Barx1!0.39!1.48!Barx1;;chr12:86940338..86940357,+!p1@Jdp2!0.38!20.74!Jdp2;;chr2:181194069..181194144,-!p1@Zbtb46!0.38!11.67!Zbtb46;;chr1:4483679..4483695,-!p1@Sox17!0.38!9.63!Sox17;;chr14:65568469..65568511,-!p2@Hmbox1!0.38!6.48!Hmbox1;;chr4:133276698..133276743,-!p6@Arid1a!0.38!5.37!Arid1a;;chr6:28211956..28211967,-!p2@Zfp800!0.38!3.89!Zfp800;;chr1:4486530..4486557,-!p4@Sox17!0.38!2.04!Sox17;;chr2:162880418..162880429,+!p4@Mybl2!0.38!2.04!Mybl2;;chr9:96159427..96159432,+!p11@Tfdp2!0.38!1.85!Tfdp2;;chr11:23978353..23978379,+!p10@Bcl11a!0.38!1.85!Bcl11a;;chr13:59923965..59924003,-!p2@Zcchc6!0.38!1.85!Zcchc6;;chr8:107821563..107821642,+!p1@E2f4!0.37!59.82!E2f4;;chr10:92773591..92773623,-!p1@Elk3!0.37!47.59!Elk3;;chr11:18918959..18918976,-!p2@Meis1!0.37!28.52!Meis1;;chr4:6917606..6917681,-!p1@Tox!0.37!8.33!Tox;;chr2:44965856..44965896,-!p5@Zeb2!0.37!7.59!Zeb2;;chr2:44965662..44965685,-!p9@Zeb2!0.37!4.26!Zeb2;;chr14:56443806..56443848,+!p1@Nfatc4!0.37!3.52!Nfatc4;;chr4:13712168..13712218,+!p4@Runx1t1!0.37!2.78!Runx1t1;;chr11:18918434..18918489,-!p3@Meis1!0.37!2.59!Meis1;;chr1:4486481..4486501,-!p2@Sox17!0.37!2.41!Sox17;;chr3:133207214..133207228,-!p2@Tet2!0.37!1.85!Tet2;;chr11:98821917..98821934,+!p11@Rara!0.37!1.67!Rara;;chr8:118231723..118231740,-!p1@Maf!0.36!45.93!Maf;;chr14:22807083..22807104,-!p1@Zfp503!0.36!36.11!Zfp503;;chr10:127707602..127707633,+!p1@Stat2!0.36!17.96!Stat2;;chr7:6649134..6649167,-!p1@Zim1!0.36!10.74!Zim1;;chr10:30523091..30523182,-!p4@Ncoa7!0.36!6.48!Ncoa7;;chr17:27693706..27693724,+!p4@Hmga1,p5@Hmga1-rs1!0.36!4.44!Hmga1;;chr6:115803317..115803361,-!p2@Mbd4!0.36!4.44!Mbd4;;chr4:97444537..97444555,+!p8@Nfia!0.36!4.44!Nfia;;chr10:126778916..126778974,-!p1@Gli1!0.36!3.89!Gli1;;chr4:114730254..114730276,+!p2@Tal1!0.36!1.85!Tal1;;chr1:181733959..181733977,-!p4@Ahctf1!0.36!1.85!Ahctf1;;chr6:52154386..52154407,-!p2@Hoxa5!0.36!1.85!Hoxa5;;chr6:29479308..29479325,+!p3@Irf5!0.36!1.30!Irf5;;chr6:29479277..29479296,+!p2@Irf5!0.36!1.30!Irf5;;chr4:44723835..44723849,-!p4@Pax5!0.36!1.30!Pax5;;chr3:89191054..89191070,-!p5@Zbtb7b!0.36!1.30!Zbtb7b;;chr4:135736707..135736724,+!p8@E2f2!0.36!1.30!E2f2;;chr11:98407234..98407259,-!p2@Ikzf3!0.36!1.30!Ikzf3;;chr11:11584953..11584958,+!p11@Ikzf1!0.36!1.30!Ikzf1;;chr1:87495371..87495397,-!p1@Sp110!0.36!1.30!Sp110;;chr13:48758358..48758415,+!p2@Barx1!0.36!1.30!Barx1;;chr14:55330957..55330971,-!p2@Cebpe!0.36!1.30!Cebpe;;chr18:69681413..69681424,+!p24@Tcf4!0.36!1.30!Tcf4;;chr4:122911086..122911112,+!p1@Heyl!0.35!23.52!Heyl;;chr10:119913310..119913366,-!p1@Hmga2!0.35!15.19!Hmga2;;chr13:67461490..67461531,-!p1@Zfp595,p1@Zfp953!0.35!7.59!Zfp953;;chr6:48395825..48395846,-!p3@Zfp467!0.35!7.04!Zfp467;;chr4:154010918..154010931,-!p1@Prdm16!0.35!5.19!Prdm16;;chr10:30562571..30562597,-!p1@Hey2!0.35!4.07!Hey2;;chrX:48559079..48559108,-!p2@Mbnl3!0.35!3.89!Mbnl3;;chr7:77511311..77511352,-!p4@Nr2f2!0.35!3.33!Nr2f2;;chr6:52154414..52154462,-!p1@Hoxa5!0.35!2.04!Hoxa5;;chr14:32979290..32979309,+!p3@Gm6768,p3@Ncoa4!0.35!1.67!Ncoa4;;chr17:87153240..87153254,+!p1@Epas1!0.34!38.52!Epas1;;chr11:53583544..53583559,+!p1@Irf1!0.34!32.59!Irf1;;chr5:34163023..34163090,+!p2@Whsc1!0.34!12.22!Whsc1;;chr19:55816414..55816425,+!p4@Tcf7l2!0.34!9.82!Tcf7l2;;chr2:44968775..44968795,-!p4@Zeb2!0.34!8.70!Zeb2;;chr2:153475210..153475252,+!p2@Dnmt3b!0.34!4.82!Dnmt3b;;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@@ Line 44: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11011
-|library_ids=CNhs11011
+|library_id_phase_based=2:CNhs11011
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1271
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1271
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E18.CNhs11011.1271-21F2.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E18.CNhs11011.1271-21F2.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E18.CNhs11011.1271-21F2.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E18.CNhs11011.1271-21F2.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520embryo%2520E18.CNhs11011.1271-21F2.mm9.nobarcode.rdna.fa.gz
 |name=spleen, embryo E18
 |namespace=FANTOM5
@@ Line 50: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11011,LSID730,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.0124788369739747,0,0.00237424948465421,0,0,0,0.058079096192185,0,0.0368948187299337,0,0,0.156404176343788,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0737896374598673,0,0,0,0,0,0,0.162519530903479,0,0,0,0.0737896374598673,0,0.150300644995254,-0.0660723386166493,0.180216837199013,0.118471154476478,-0.0779752871277767,0,0,0,0,0,0,0,0,0,0,0.191893350882575,0,-0.0660055475634404,0.0737896374598673,0,0,0.0737896374598673,0.0990387161451143,0,-0.0103248570806218,0.191893350882575,0.482464783170982,0.00837753965492648,0.0333585226224696,0.221788884897145,-0.0843014053112152,0.0471975002250055,0,0.0737896374598673,-0.0343435772730296,-0.00339923071064852,0.284650112617126,0,0,-0.108253654460124,-0.040491100158494,-0.00504195738004014,0,0,0,0,0.0368948187299337,0,-0.0417740847988257,0.123202162798746,-0.0706468722424072,0.0114833154431302,0,0,0,0.0056601731069681
@@ 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=table111:1271-21F2;search_select_hide=table117:1271-21F2
 }}

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FF:1271-21F2: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:42, 4 June 2020

CNhs11011

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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