FF:12122-128C7: Difference between revisions

Latest revision as of 18:31, 4 June 2020

Name:	common myeloid progenitor CMP, biol_rep1
Species:	Mouse (Mus musculus)
Library ID:	CNhs12550
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/8J
tissue	bone marrow
dev stage	NA
sex	male
age	9-10weeks
cell type	common myeloid progenitor
cell line	NA
company	NA
collaboration	Kitamura/Nakahara
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	rep1
catalog number	NA
sample type	total RNA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005978

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12550		CAGE		DRX008779		DRR009651

Accession ID Mm9

Library id		BAM		CTSS
CNhs12550		DRZ001076		DRZ002461

Accession ID Mm10

Library id		BAM		CTSS
CNhs12550		DRZ012426		DRZ013811

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

CNhs12550

0	0
1	0
10	0
100	0
1000	-0.0109
1001	-0.0749
1002	-0.116
1003	-0.102
1004	0
1005	0.0491
1006	-0.159
1007	-0.384
1008	0
1009	-0.126
101	0.274
1010	0
1011	0
1012	0
1013	-0.122
1014	-0.0874
1015	-0.0109
1016	-0.424
1017	0
1018	0
1019	0
102	0.0933
1020	0
1021	0
1022	-0.124
1023	0.552
1024	0.623
1025	-0.0611
1026	0
1027	-0.048
1028	0
1029	-0.128
103	-0.0887
1030	0
1031	-0.911
1032	-0.427
1033	0.0491
1034	0
1035	0
1036	0.527
1037	0
1038	-0.351
1039	-0.0122
104	0
1040	-0.216
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: CNhs12550

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	4.13101e-6
MA0003.1	MA0003.1	0.519
MA0004.1	MA0004.1	0.102
MA0006.1	MA0006.1	0.892
MA0007.1	MA0007.1	0.622
MA0009.1	MA0009.1	0.303
MA0014.1	MA0014.1	0.64
MA0017.1	MA0017.1	0.856
MA0018.2	MA0018.2	2.20543e-7
MA0019.1	MA0019.1	0.859
MA0024.1	MA0024.1	2.15406e-5
MA0025.1	MA0025.1	0.152
MA0027.1	MA0027.1	0.275
MA0028.1	MA0028.1	1.2842e-7
MA0029.1	MA0029.1	0.205
MA0030.1	MA0030.1	0.462
MA0031.1	MA0031.1	0.384
MA0035.2	MA0035.2	0.855
MA0038.1	MA0038.1	0.0101
MA0039.2	MA0039.2	0.858
MA0040.1	MA0040.1	0.0441
MA0041.1	MA0041.1	0.0925
MA0042.1	MA0042.1	0.328
MA0043.1	MA0043.1	1.04618e-5
MA0046.1	MA0046.1	4.79814e-15
MA0047.2	MA0047.2	0.923
MA0048.1	MA0048.1	0.00546
MA0050.1	MA0050.1	2.35473e-8
MA0051.1	MA0051.1	4.88554e-5
MA0052.1	MA0052.1	0.734
MA0055.1	MA0055.1	0.00547
MA0057.1	MA0057.1	0.747
MA0058.1	MA0058.1	0.0346
MA0059.1	MA0059.1	0.00179
MA0060.1	MA0060.1	0.694
MA0061.1	MA0061.1	6.62776e-8
MA0062.2	MA0062.2	3.5711e-17
MA0065.2	MA0065.2	0.38
MA0066.1	MA0066.1	0.253
MA0067.1	MA0067.1	0.00253
MA0068.1	MA0068.1	0.00638
MA0069.1	MA0069.1	0.537
MA0070.1	MA0070.1	0.266
MA0071.1	MA0071.1	0.346
MA0072.1	MA0072.1	0.848
MA0073.1	MA0073.1	0.682
MA0074.1	MA0074.1	0.254
MA0076.1	MA0076.1	3.89232e-8
MA0077.1	MA0077.1	0.396
MA0078.1	MA0078.1	0.595
MA0079.2	MA0079.2	0.0606
MA0080.2	MA0080.2	1.07993e-12
MA0081.1	MA0081.1	4.06049e-5
MA0083.1	MA0083.1	0.0562
MA0084.1	MA0084.1	0.162
MA0087.1	MA0087.1	0.659
MA0088.1	MA0088.1	0.481
MA0090.1	MA0090.1	0.0106
MA0091.1	MA0091.1	0.99
MA0092.1	MA0092.1	0.516
MA0093.1	MA0093.1	0.0872
MA0099.2	MA0099.2	3.56343e-16
MA0100.1	MA0100.1	6.01054e-4
MA0101.1	MA0101.1	2.56929e-12
MA0102.2	MA0102.2	0.00116
MA0103.1	MA0103.1	0.193
MA0104.2	MA0104.2	0.0269
MA0105.1	MA0105.1	5.21834e-7
MA0106.1	MA0106.1	0.401
MA0107.1	MA0107.1	1.03351e-11
MA0108.2	MA0108.2	0.259
MA0111.1	MA0111.1	0.975
MA0112.2	MA0112.2	0.117
MA0113.1	MA0113.1	0.624
MA0114.1	MA0114.1	0.277
MA0115.1	MA0115.1	0.923
MA0116.1	MA0116.1	0.00257
MA0117.1	MA0117.1	0.117
MA0119.1	MA0119.1	0.312
MA0122.1	MA0122.1	0.146
MA0124.1	MA0124.1	0.813
MA0125.1	MA0125.1	0.0494
MA0131.1	MA0131.1	0.0744
MA0135.1	MA0135.1	0.0312
MA0136.1	MA0136.1	1.92411e-28
MA0137.2	MA0137.2	0.0114
MA0138.2	MA0138.2	5.66019e-5
MA0139.1	MA0139.1	0.582
MA0140.1	MA0140.1	0.476
MA0141.1	MA0141.1	0.955
MA0142.1	MA0142.1	0.824
MA0143.1	MA0143.1	0.197
MA0144.1	MA0144.1	0.168
MA0145.1	MA0145.1	0.43
MA0146.1	MA0146.1	0.192
MA0147.1	MA0147.1	0.0158
MA0148.1	MA0148.1	0.88
MA0149.1	MA0149.1	0.169
MA0150.1	MA0150.1	4.63556e-5
MA0152.1	MA0152.1	0.972
MA0153.1	MA0153.1	1.23413e-4
MA0154.1	MA0154.1	0.39
MA0155.1	MA0155.1	0.659
MA0156.1	MA0156.1	2.53741e-22
MA0157.1	MA0157.1	0.345
MA0159.1	MA0159.1	0.0982
MA0160.1	MA0160.1	0.606
MA0162.1	MA0162.1	0.483
MA0163.1	MA0163.1	8.35981e-5
MA0164.1	MA0164.1	0.541
MA0258.1	MA0258.1	0.0979
MA0259.1	MA0259.1	0.214

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: CNhs12550

Novel motif	Logo	P-value
1	1	0.497
10	10	0.0484
100	100	0.714
101	101	0.676
102	102	0.666
103	103	0.616
104	104	0.735
105	105	0.409
106	106	0.107
107	107	0.996
108	108	0.623
109	109	0.14
11	11	0.316
110	110	0.199
111	111	0.427
112	112	0.188
113	113	0.569
114	114	0.331
115	115	0.654
116	116	0.759
117	117	2.04396e-4
118	118	0.219
119	119	0.731
12	12	0.84
120	120	0.361
121	121	0.285
122	122	0.347
123	123	0.166
124	124	0.348
125	125	0.549
126	126	0.445
127	127	0.741
128	128	0.177
129	129	0.582
13	13	8.3281e-4
130	130	0.537
131	131	0.361
132	132	0.403
133	133	0.577
134	134	0.868
135	135	0.528
136	136	0.202
137	137	0.00546
138	138	0.791
139	139	0.719
14	14	0.504
140	140	0.895
141	141	0.515
142	142	0.915
143	143	0.132
144	144	0.913
145	145	0.103
146	146	0.514
147	147	0.578
148	148	0.17
149	149	0.124
15	15	0.0423
150	150	0.516
151	151	0.852
152	152	0.661
153	153	0.351
154	154	0.409
155	155	0.755
156	156	0.0983
157	157	0.875
158	158	0.0661
159	159	0.535
160	160	0.478
161	161	0.217
162	162	0.285
163	163	0.215
164	164	0.0201
165	165	0.106
166	166	0.198
167	167	0.258
168	168	0.512
169	169	0.0938
17	17	0.803
18	18	0.462
19	19	0.478
2	2	0.0591
20	20	0.0127
21	21	0.494
22	22	0.901
23	23	0.203
24	24	0.0334
25	25	0.344
26	26	0.00346
27	27	0.348
28	28	0.736
29	29	0.0263
3	3	0.199
30	30	0.124
31	31	0.568
32	32	0.236
33	33	0.107
34	34	0.553
35	35	0.566
36	36	0.0629
37	37	0.0469
38	38	0.587
39	39	0.605
4	4	0.487
40	40	0.19
41	41	0.066
42	42	0.46
43	43	0.639
44	44	0.575
45	45	0.647
46	46	0.389
47	47	0.875
48	48	0.396
49	49	0.545
5	5	0.568
50	50	0.653
51	51	0.877
52	52	0.534
53	53	0.625
54	54	0.649
55	55	0.593
56	56	0.855
57	57	0.65
58	58	0.265
59	59	0.994
6	6	0.83
60	60	0.505
61	61	0.271
62	62	0.224
63	63	0.913
64	64	0.889
65	65	0.886
66	66	0.314
67	67	0.347
68	68	0.558
69	69	0.808
7	7	0.361
70	70	0.178
71	71	0.0197
72	72	0.18
73	73	0.0491
74	74	0.926
75	75	0.00611
76	76	0.0347
77	77	0.0728
78	78	0.127
79	79	0.712
8	8	0.181
80	80	0.872
81	81	0.892
82	82	0.251
83	83	0.0526
84	84	0.33
85	85	0.433
86	86	0.257
87	87	0.0372
88	88	0.519
89	89	0.521
9	9	0.829
90	90	0.0395
91	91	0.789
92	92	0.943
93	93	0.132
94	94	0.779
95	95	0.00223
96	96	0.938
97	97	0.883
98	98	0.716
99	99	0.194

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: CNhs12550

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000041 common myeloid progenitor sample
FF:0000103 mouse 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

CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000988 (hematopoietic cell)
0000548 (animal cell)
0002032 (hematopoietic oligopotent progenitor cell)
0002371 (somatic cell)
0000255 (eukaryotic cell)
0000049 (common myeloid progenitor)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000041 (common myeloid progenitor 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
CL:0000049 (common myeloid progenitor)
CL:0000134 (mesenchymal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008669
+|DRA_sample_Accession=CAGE@SAMD00005978
-|accession_numbers=CAGE;DRX008779;DRR009651;DRZ001076;DRZ002461
+|accession_numbers=CAGE;DRX008779;DRR009651;DRZ001076;DRZ002461;DRZ012426;DRZ013811
 |ancestors_in_anatomy_facet=
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000988,CL:0000548,CL:0002032,CL:0002371,CL:0000255,CL:0000049
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr7:19895354..19895369,-!p1@Fosb!2.48!403.42!Fosb;;chr7:19895384..19895399,-!p2@Fosb!2.33!297.50!Fosb;;chr11:16908650..16908690,-!p1@Plek!1.84!395.75!Plek;;chr1:193007123..193007139,-!p1@Atf3!1.84!357.29!Atf3;;chr15:101097270..101097290,+!p1@Nr4a1!1.83!641.25!Nr4a1;;chr1:38721792..38721845,-!p1@Aff3!1.81!77.88!Aff3;;chr16:55838757..55838774,-!p2@Nfkbiz!1.67!53.44!Nfkbiz;;chr7:31206743..31206761,+!p1@Nfkbid!1.61!53.20!Nfkbid;;chr4:124805061..124805087,-!p1@Zc3h12a!1.58!111.43!Zc3h12a;;chr12:86814833..86814846,+!p1@Fos!1.55!752.32!Fos;;chr16:92826249..92826325,-!p1@Runx1!1.55!81.59!Runx1;;chr8:87502608..87502623,-!p1@Junb!1.52!496.75!Junb;;chr11:11586218..11586285,+!p1@Ikzf1!1.52!99.81!Ikzf1;;chr4:134708451..134708469,+!p1@Runx3!1.52!55.95!Runx3;;chr2:90936901..90936945,+!p1@Sfpi1!1.45!137.91!Sfpi1;;chr14:79915521..79915539,+!p5@Elf1!1.44!31.87!Elf1;;chr8:123260252..123260264,+!p1@Irf8!1.43!174.33!Irf8;;chr10:20880629..20880683,-!p1@Myb!1.43!73.33!Myb;;chr2:90936978..90937023,+!p3@Sfpi1!1.43!48.29!Sfpi1;;chr5:92391466..92391471,+!p2@Thap6!1.36!31.63!Thap6;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.36!28.16!Zbtb11;;chr4:94718861..94718872,-!p2@Jun!1.33!147.01!Jun;;chr11:23670750..23670789,-!p2@Rel!1.33!38.10!Rel;;chr2:90936947..90936977,+!p2@Sfpi1!1.28!35.47!Sfpi1;;chr17:44872561..44872615,-!p1@Runx2!1.27!39.90!Runx2;;chr14:79915425..79915501,+!p1@Elf1!1.26!150.01!Elf1;;chr10:20880731..20880775,-!p2@Myb!1.26!35.70!Myb;;chr1:52065454..52065495,+!p1@Stat4!1.24!26.84!Stat4;;chr14:79915502..79915514,+!p4@Elf1!1.23!24.20!Elf1;;chr12:56593574..56593592,-!p1@Nfkbia!1.22!776.04!Nfkbia;;chr16:55822241..55822258,-!p1@Nfkbiz!1.22!471.95!Nfkbiz;;chr15:103085802..103085817,-!p4@Nfe2!1.22!19.41!Nfe2;;chr7:19895546..19895577,-!p3@Fosb!1.21!15.22!Fosb;;chr17:45692676..45692695,+!p2@Nfkbie!1.20!29.71!Nfkbie;;chr13:83663902..83663927,+!p1@Mef2c!1.19!342.67!Mef2c;;chr3:135354384..135354443,-!p1@Nfkb1!1.17!82.91!Nfkb1;;chr3:135271185..135271254,-!p4@Nfkb1!1.17!25.40!Nfkb1;;chr4:94718879..94718898,-!p1@Jun!1.16!949.89!Jun;;chr13:5860776..5860796,+!p1@Klf6!1.14!308.40!Klf6;;chr11:23670953..23671028,-!p1@Rel!1.14!72.37!Rel;;chr8:74842952..74842970,+!p1@Klf2!1.13!838.11!Klf2;;chr6:52176164..52176195,-!p1@Hoxa9!1.13!15.70!Hoxa9;;chr2:56967334..56967366,-!p1@Nr4a2!1.12!24.80!Nr4a2;;chr16:3744162..3744180,+!p2@Zfp263!1.11!32.23!Zfp263;;chr5:140267510..140267555,+!p2@Mafk!1.11!28.28!Mafk;;chr19:5447886..5447905,+!p1@Fosl1!1.11!11.86!Fosl1;;chr1:52065508..52065522,+!p2@Stat4!1.08!12.94!Stat4;;chrX:137077653..137077669,-!p3@Tsc22d3!1.07!49.24!Tsc22d3;;chr17:27693922..27693934,+!p10@Hmga1-rs1,p11@Hmga1!1.07!14.26!Hmga1;;chr19:5637528..5637548,+!p2@Rela!1.06!61.94!Rela;;chr15:79177964..79177986,+!p1@Maff!1.06!36.42!Maff;;chr4:48058129..48058179,+!p2@Nr4a3!1.06!20.01!Nr4a3;;chr2:90922554..90922575,+!p4@Sfpi1!1.05!18.81!Sfpi1;;chr4:124805092..124805135,-!p2@Zc3h12a!1.04!43.01!Zc3h12a;;chr8:87225329..87225396,+!p1@Lyl1!1.04!38.22!Lyl1;;chr11:100683839..100683890,-!p2@Stat5b!1.04!23.48!Stat5b;;chrX:137077608..137077619,-!p6@Tsc22d3!1.04!13.42!Tsc22d3;;chr17:44873258..44873281,-!p5@Runx2!1.04!13.18!Runx2;;chr13:83663868..83663894,+!p2@Mef2c!1.03!140.42!Mef2c;;chr19:46379199..46379301,+!p1@Nfkb2!1.03!56.79!Nfkb2;;chr4:55545337..55545357,-!p1@Klf4!1.02!142.22!Klf4;;chr13:59923965..59924003,-!p2@Zcchc6!1.02!11.50!Zcchc6;;chr1:36364590..36364608,+!p1@Arid5a!1.01!95.25!Arid5a;;chr10:119913792..119913820,-!p5@Hmga2!1.01!15.82!Hmga2;;chr6:108610428..108610440,+!p4@Bhlhe40!1.01!12.94!Bhlhe40;;chr16:92826232..92826245,-!p4@Runx1!1.01!9.35!Runx1;;chr17:44873599..44873623,-!p7@Runx2!1.01!9.35!Runx2;;chr4:134676555..134676575,+!p2@Runx3!1.01!9.35!Runx3;;chr19:5447692..5447711,+!p2@Fosl1!1.00!8.99!Fosl1;;chr9:32348943..32349001,-!p1@Fli1!0.99!73.57!Fli1;;chr17:27693887..27693908,+!p2@Hmga1-rs1,p2@Hmga1!0.99!64.10!Hmga1;;chr10:20880698..20880717,-!p3@Myb!0.99!14.02!Myb;;chr17:51971932..51971958,-!p2@Satb1!0.99!11.98!Satb1;;chr19:37509324..37509337,+!p1@Hhex!0.98!62.66!Hhex;;chr17:45692642..45692663,+!p1@Nfkbie!0.98!28.28!Nfkbie;;chr16:3744192..3744206,+!p4@Zfp263!0.98!11.02!Zfp263;;chr19:12871064..12871095,-!p2@Zfp91!0.98!8.63!Zfp91;;chr1:38721767..38721778,-!p5@Aff3!0.98!8.51!Aff3;;chr18:3281750..3281776,-!p2@Crem!0.97!17.37!Crem;;chr10:126727842..126727859,+!p1@Ddit3!0.96!238.19!Ddit3;;chr5:22940353..22940372,+!p3@Mll5!0.96!16.18!Mll5;;chr6:99216488..99216534,-!p2@Foxp1!0.95!23.00!Foxp1;;chr13:5860872..5860883,+!p3@Klf6!0.95!15.94!Klf6;;chr13:64254457..64254497,-!p1@Zfp367!0.94!35.23!Zfp367;;chr16:92826180..92826191,-!p5@Runx1!0.94!7.67!Runx1;;chr3:30993974..30994045,+!p1@Skil!0.92!212.55!Skil;;chr15:38230415..38230426,-!p2@Klf10!0.92!26.24!Klf10;;chr6:28347999..28348023,-!p3@Zfp800!0.92!7.31!Zfp800;;chr15:80085920..80085941,+!p1@Atf4!0.90!825.41!Atf4;;chr6:53523358..53523388,+!p1@Creb5!0.90!86.87!Creb5;;chr4:48058016..48058032,+!p3@Nr4a3!0.90!11.98!Nr4a3;;chr11:23978111..23978134,+!p3@Bcl11a!0.89!14.74!Bcl11a;;chr6:16848347..16848391,-!p1@Tfec!0.89!9.11!Tfec;;chr6:133986042..133986052,+!p7@Etv6!0.89!9.11!Etv6;;chr15:38230448..38230470,-!p1@Klf10!0.88!144.50!Klf10;;chr1:38721779..38721790,-!p6@Aff3!0.87!6.47!Aff3;;chr7:20214704..20214800,-!p1@Relb!0.86!21.33!Relb;;chr13:64254437..64254453,-!p4@Zfp367!0.86!8.75!Zfp367;;chr2:90922519..90922544,+!p6@Sfpi1!0.86!7.07!Sfpi1;;chr15:79178029..79178044,+!p4@Maff!0.85!7.67!Maff;;chr7:29551464..29551487,-!p2@Nfkbib!0.84!24.44!Nfkbib;;chr7:31207408..31207450,+!p4@Nfkbid!0.83!9.82!Nfkbid;;chr7:31208285..31208312,+!p3@Nfkbid!0.83!6.47!Nfkbid;;chr6:52176144..52176161,-!p2@Hoxa9!0.83!5.75!Hoxa9;;chr11:53583544..53583559,+!p1@Irf1!0.82!99.93!Irf1;;chr16:95680889..95680991,-!p1@Erg!0.82!49.48!Erg;;chr7:71083729..71083742,-!p4@Klf13!0.82!10.30!Klf13;;chr11:23670827..23670846,-!p3@Rel!0.82!5.63!Rel;;chr6:133985993..133986029,+!p2@Etv6!0.81!38.22!Etv6;;chr17:51971960..51971979,-!p1@Satb1!0.81!7.43!Satb1;;chr15:79178060..79178074,+!p2@Maff!0.80!7.07!Maff;;chr8:87502350..87502362,-!p2@Junb!0.80!5.27!Junb;;chr15:25914235..25914246,+!p5@Zfp622!0.80!5.27!Zfp622;;chr2:44968512..44968530,-!p1@Zeb2!0.79!124.37!Zeb2;;chr8:73222830..73222844,+!p1@Jund!0.78!1383.98!Jund;;chr14:32979290..32979309,+!p3@Gm6768,p3@Ncoa4!0.78!6.11!Ncoa4;;chr6:28348078..28348109,-!p5@Zfp800!0.78!5.03!Zfp800;;chr6:133986088..133986122,+!p4@Etv6!0.77!22.53!Etv6;;chr12:87027598..87027652,+!p1@Batf!0.77!11.98!Batf;;chrX:7544943..7545001,-!p1@Gata1!0.76!4.79!Gata1;;chr16:55838743..55838754,-!p6@Nfkbiz!0.76!4.79!Nfkbiz;;chrX:48559079..48559108,-!p2@Mbnl3!0.75!11.50!Mbnl3;;chr4:133801432..133801448,-!p3@Zfp593!0.75!7.31!Zfp593;;chr2:126501847..126501876,-!p5@Gabpb1!0.75!5.39!Gabpb1;;chr18:75527210..75527215,+!p4@Smad7!0.74!8.15!Smad7;;chr10:5734525..5734569,-!p3@Esr1!0.74!7.91!Esr1;;chr1:193041811..193041838,-!p2@Atf3!0.74!4.55!Atf3;;chr1:92950128..92950139,+!p4@Lrrfip1!0.74!4.43!Lrrfip1;;chr15:25914114..25914128,+!p2@Zfp622!0.73!19.53!Zfp622;;chr7:138553839..138553860,-!p2@Ikzf5!0.73!4.31!Ikzf5;;chr4:48058047..48058062,+!p1@Nr4a3!0.72!6.95!Nr4a3;;chr13:64254502..64254515,-!p3@Zfp367!0.72!6.71!Zfp367;;chrX:137077636..137077647,-!p7@Tsc22d3!0.72!5.27!Tsc22d3;;chr17:51971991..51972003,-!p4@Satb1!0.72!4.19!Satb1;;chr6:120314411..120314466,+!p2@Kdm5a!0.71!33.31!Kdm5a;;chr17:84586544..84586592,-!p3@Zfp36l2!0.71!5.99!Zfp36l2;;chr7:20408047..20408125,-!p1@Bcl3!0.70!52.00!Bcl3;;chr8:87225670..87225697,+!p2@Lyl1!0.70!12.82!Lyl1;;chr11:11585678..11585745,+!p5@Ikzf1!0.70!6.23!Ikzf1;;chr8:107694661..107694713,+!p2@Cbfb!0.69!29.83!Cbfb;;chr16:92697560..92697592,-!p2@Runx1!0.69!27.44!Runx1;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.69!6.59!Ncoa4;;chr6:133985790..133985801,+!p8@Etv6!0.69!5.27!Etv6;;chr16:55838940..55838966,-!p5@Nfkbiz!0.69!4.43!Nfkbiz;;chr18:35020854..35020869,+!p1@Egr1!0.68!168.58!Egr1;;chr12:25336211..25336274,+!p1@Klf11!0.68!45.41!Klf11;;chr16:55822638..55822669,-!p3@Nfkbiz!0.68!5.99!Nfkbiz;;chr17:84587279..84587294,-!p1@Zfp36l2!0.67!452.90!Zfp36l2;;chr19:5637501..5637517,+!p4@Rela!0.67!16.89!Rela;;chr6:133985709..133985735,+!p5@Etv6!0.67!11.26!Etv6;;chr15:25914217..25914232,+!p3@Zfp622!0.67!7.67!Zfp622;;chr2:17985518..17985540,+!p6@Mllt10!0.67!5.27!Mllt10;;chr2:90936886..90936898,+!p5@Sfpi1!0.67!4.43!Sfpi1;;chr10:5734473..5734489,-!p5@Esr1!0.67!3.71!Esr1;;chr4:133801453..133801492,-!p1@Zfp593!0.66!34.51!Zfp593;;chrX:137077682..137077692,-!p5@Tsc22d3!0.66!6.11!Tsc22d3;;chr15:103085660..103085681,-!p1@Nfe2!0.66!5.63!Nfe2;;chr10:20881239..20881254,-!p5@Myb!0.66!3.59!Myb;;chr19:12871044..12871058,-!p3@Zfp91!0.66!3.59!Zfp91;;chr6:133985839..133985915,+!p1@Etv6!0.65!68.05!Etv6;;chr6:29476690..29476724,+!p1@Irf5!0.65!18.33!Irf5;;chr17:44873393..44873418,-!p4@Runx2!0.65!6.59!Runx2;;chr3:30995296..30995300,+!p6@Skil!0.65!4.55!Skil;;chr6:29479277..29479296,+!p2@Irf5!0.65!3.47!Irf5;;chr7:35904304..35904320,+!p1@Cebpa!0.64!81.47!Cebpa;;chr4:134708909..134708939,+!p3@Runx3!0.64!3.35!Runx3;;chr1:92949999..92950097,+!p1@Lrrfip1!0.63!103.28!Lrrfip1;;chr11:100721761..100721851,+!p1@Stat5a!0.63!28.40!Stat5a;;chr10:5958538..5958568,+!p1@Zbtb2!0.63!17.01!Zbtb2;;chr11:100800641..100800669,-!p3@Stat3!0.63!6.11!Stat3;;chr6:52163319..52163342,-!p1@Hoxa3!0.63!5.03!Hoxa3;;chr11:11585912..11585950,+!p6@Ikzf1!0.63!4.31!Ikzf1;;chr14:32978944..32978953,+!p8@Gm6768,p8@Ncoa4!0.63!3.24!Ncoa4;;chr5:145962698..145962742,-!p1@Zkscan14!0.62!17.25!Zkscan14;;chr17:84587167..84587239,-!p2@Zfp36l2!0.62!12.58!Zfp36l2;;chr3:90097275..90097302,+!p2@Gatad2b!0.62!8.27!Gatad2b;;chr2:153475178..153475196,+!p1@Dnmt3b!0.62!7.55!Dnmt3b;;chr2:28477452..28477483,-!p1@Gfi1b!0.62!4.07!Gfi1b;;chr2:126501197..126501245,-!p1@Gabpb1!0.61!27.92!Gabpb1;;chr6:16848395..16848416,-!p2@Tfec!0.61!3.71!Tfec;;chr3:135257325..135257364,-!p11@Nfkb1!0.61!3.12!Nfkb1;;chr11:23671230..23671264,-!p6@Rel!0.61!3.12!Rel;;chr7:19895122..19895142,-!p4@Fosb!0.61!3.12!Fosb;;chr1:52065530..52065548,+!p3@Stat4!0.61!3.12!Stat4;;chr12:87027663..87027678,+!p2@Batf!0.61!3.12!Batf;;chr6:108610610..108610676,+!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Rela;;chr13:96095124..96095144,+!p3@Zbed3!0.22!2.16!Zbed3;;chr13:44826650..44826661,+!p8@Jarid2!0.22!1.80!Jarid2;;chr5:147760331..147760336,+!p5@Gtf3a!0.22!1.68!Gtf3a;;chr6:64992678..64992689,+!p3@Smarcad1!0.22!1.44!Smarcad1;;chr5:53981661..53981672,+!p5@Rbpj!0.22!1.20!Rbpj;;chr1:181733959..181733977,-!p4@Ahctf1!0.22!1.08!Ahctf1;;chr5:77695241..77695257,+!p10@Rest!0.22!0.84!Rest;;chr6:131338435..131338482,-!p1@Csda!0.21!138.51!Csda;;chr2:167514456..167514473,+!p1@Cebpb!0.21!65.30!Cebpb;;chr18:74427905..74427991,+!p1@Mbd1!0.21!27.56!Mbd1;;chr16:84835605..84835666,+!p1@Gabpa!0.21!23.00!Gabpa;;chr3:9610090..9610124,-!p1@Zfp704!0.21!19.17!Zfp704;;chr15:81575569..81575599,+!p2@Zc3h7b!0.21!15.46!Zc3h7b;;chr6:131338400..131338415,-!p3@Csda!0.21!14.50!Csda;;chr5:145992626..145992652,+!p2@Zfp655!0.21!9.59!Zfp655;;chr18:80909801..80909819,-!p1@Nfatc1!0.21!7.91!Nfatc1;;chr5:139060892..139060911,-!p2@Zfp68!0.21!6.47!Zfp68;;chr5:107125838..107125858,-!p2@Zfp644!0.21!4.31!Zfp644;;chr10:41996471..41996487,-!p4@Foxo3!0.21!3.47!Foxo3;;chr16:3872286..3872315,-!p3@Zfp597!0.21!2.04!Zfp597;;chr4:118954858..118954885,-!p5@Ybx1!0.21!1.80!Ybx1;;chr5:67698263..67698272,+!p3@Slc30a9!0.21!1.44!Slc30a9;;chr3:87946458..87946467,+!p6@Mef2d!0.21!0.96!Mef2d;;chr2:44965718..44965727,-!p24@Zeb2!0.21!0.84!Zeb2;;chr19:9016355..9016540,+!p1@Mta2!0.20!117.78!Mta2;;chr11:99091744..99091778,-!p1@Smarce1!0.20!60.87!Smarce1;;chr15:102301149..102301221,+!p2@Pcbp2!0.20!52.24!Pcbp2;;chr10:33670996..33671069,-!p1@Zufsp!0.20!28.04!Zufsp;;chr4:141000572..141000629,+!p1@Zbtb17!0.20!26.72!Zbtb17;;chr1:162836503..162836591,+!p1@Rc3h1!0.20!24.56!Rc3h1;;chr7:24866907..24866967,+!p1@LOC676710,p1@Zfp180!0.20!17.97!Zfp180;;chr12:72116953..72117050,+!p1@Arid4a!0.20!16.77!Arid4a;;chr19:46380172..46380231,+!p2@Nfkb2!0.20!9.11!Nfkb2;;chr17:45570488..45570510,-!p3@Cdc5l!0.20!4.31!Cdc5l;;chr16:17531086..17531109,-!p3@Thap7!0.20!3.71!Thap7;;chr5:53981592..53981616,+!p3@Rbpj!0.20!1.92!Rbpj;;chr5:38611621..38611635,-!p2@Zbtb49!0.20!1.32!Zbtb49;;chr4:114581524..114581551,-!p1@Foxd2!0.20!1.32!Foxd2;;chr2:44965761..44965785,-!p13@Zeb2!0.20!1.32!Zeb2;;chr11:23977742..23977794,+!p6@Bcl11a!0.20!0.96!Bcl11a;;chr11:100800621..100800633,-!p5@Stat3!0.20!0.84!Stat3;;chr7:24867205..24867217,+!p2@Zfp180!0.20!0.72!Zfp180;;chr8:87225806..87225809,+!p4@Lyl1!0.20!0.60!Lyl1;;chr10:119913954..119913972,-!p8@Hmga2!0.20!0.60!Hmga2;;chr11:23670864..23670877,-!p5@Rel!0.20!0.60!Rel;;chr10:30375559..30375568,-!p9@Ncoa7!0.20!0.60!Ncoa7;;chr11:23978291..23978323,+!p7@Bcl11a!0.20!0.60!Bcl11a;;chr1:179374820..179374831,+!p3@Zfp238!0.20!0.60!Zfp238;;chr1:87497610..87497645,+!p1@Gm2427,p1@Sp140!0.20!0.60!Sp140;;chr2:168415791..168415802,-!p5@Nfatc2!0.20!0.60!Nfatc2;;chr6:88148324..88148328,+!p3@Gata2!0.20!0.60!Gata2;;chr12:75002389..75002406,+!p4@Hif1a!0.20!0.60!Hif1a;;chr4:133312435..133312454,-!p22@Arid1a!0.20!0.60!Arid1a;;chr4:48064126..48064140,+!p13@Nr4a3!0.20!0.60!Nr4a3;;chr18:3337249..3337274,-!p17@Crem!0.20!0.60!Crem;;chr17:51972438..51972463,-!p8@Satb1!0.20!0.60!Satb1;;chr17:71201050..71201078,-!p9@Tgif1!0.20!0.60!Tgif1;;chr18:69752864..69752875,+!p25@Tcf4!0.20!0.60!Tcf4;;chr11:5420973..5420992,+!p1@Xbp1!0.19!149.53!Xbp1;;chr8:13338760..13338817,+!p1@Tfdp1!0.19!47.45!Tfdp1;;chr15:81702313..81702346,-!p1@Phf5a!0.19!41.70!Phf5a;;chr13:14156043..14156089,+!p1@Arid4b!0.19!33.67!Arid4b;;chrX:91368426..91368498,-!p1@Zfx!0.19!24.80!Zfx;;chr13:96095213..96095255,+!p1@Zbed3!0.19!20.73!Zbed3;;chr3:51144550..51144603,-!p2@Elf2!0.19!20.37!Elf2;;chr4:124479787..124479832,+!p1@Mtf1!0.19!12.94!Mtf1;;chr4:116480179..116480222,-!p2@Toe1!0.19!6.95!Toe1;;chr5:104121391..104121450,+!p3@Aff1!0.19!6.59!Aff1;;chr9:96159665..96159680,+!p3@Tfdp2!0.19!5.63!Tfdp2;;chr9:63605978..63605997,-!p2@Smad3!0.19!4.67!Smad3;;chrX:45807450..45807478,-!p3@Elf4!0.19!3.95!Elf4;;chr6:133985971..133985991,+!p6@Etv6!0.19!3.00!Etv6;;chr15:81575602..81575618,+!p3@Zc3h7b!0.19!2.88!Zc3h7b;;chr6:116578939..116578952,-!p2@Zfp422!0.19!2.52!Zfp422;;chr6:92041489..92041500,+!p4@Nr2c2!0.19!1.68!Nr2c2;;chr8:72356384..72356434,+!p2@Pbx4!0.19!1.32!Pbx4;;chr4:32325445..32325468,+!p4@Bach2!0.19!1.20!Bach2;;chr11:120494908..120494919,-!p4@Mafg!0.19!1.20!Mafg;;chr3:87329568..87329589,+!p2@Etv3!0.19!1.08!Etv3;;chr18:35721940..35721951,+!p5@Matr3!0.19!0.96!Matr3;;chr2:25562241..25562250,+!p4@Bmyc!0.19!0.72!Bmyc;;chr6:28211907..28211943,-!p1@Zfp800!0.18!39.30!Zfp800;;chr10:22451112..22451136,-!p1@Tbpl1!0.18!32.71!Tbpl1;;chr5:77694479..77694574,+!p1@Rest!0.18!29.00!Rest;;chr11:49016967..49017026,+!p1@Zfp62!0.18!23.72!Zfp62;;chr4:151235807..151235870,-!p1@Camta1!0.18!21.57!Camta1;;chr12:86940338..86940357,+!p1@Jdp2!0.18!12.94!Jdp2;;chr17:34169016..34169068,+!p2@Rxrb!0.18!9.23!Rxrb;;chr10:92773818..92773906,-!p2@Elk3!0.18!5.75!Elk3;;chr14:52634412..52634500,-!p2@Zfp219!0.18!5.51!Zfp219;;chr9:69137672..69137702,+!p2@Rora!0.18!5.03!Rora;;chr15:50721616..50721632,-!p4@Trps1!0.18!2.88!Trps1;;chr6:92042363..92042413,+!p3@Nr2c2!0.18!2.52!Nr2c2;;chr2:153067079..153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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs12550
-|library_id_phase_based=1:CNhs12550
+|library_id_phase_based=2:CNhs12550
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;12122
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;12122
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep1.CNhs12550.12122-128C7.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep1.CNhs12550.12122-128C7.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep1.CNhs12550.12122-128C7.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep1.CNhs12550.12122-128C7.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep1.CNhs12550.12122-128C7.mm9.nobarcode.rdna.fa.gz
 |name=common myeloid progenitor CMP, biol_rep1
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12550,LSID921,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.177716048515837,0,0,0,0,-0.0843392403965415,0,0,0,0,0.23247134051283,0,-0.0585315898280848,0,0.182553565335306,0,0,0,0,0,0,0,0,0,0,0.0245731644447729,-0.0934801112983716,0,0,0,0,-0.010243253224698,0.0405575428272529,-0.129969038085221,-0.0689054467726224,-0.984211366477826,-0.220722309120805,0.0491463288895459,0,0,0,0,0,0,0,0,0,0,0,0.0673562134910494,0,0,0,0,0.00629937380667114,0,0,0,0.0491463288895459,0,-0.0928166384635535,0.188578833875486,-0.158091042771083,-0.069468436225311,0,0,-0.145309149361067,-0.024889004373263,0.546063393855665,0,-0.0968419714006337,-0.185776478687287,-0.546768551851024,0.185680668067117,0,0,0,0,0,0,-0.207747912185859,-0.622360125579676,-0.245229837786626,0,0,0,0,0
@@ 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=table111:12122-128C7;search_select_hide=table117:12122-128C7
 }}

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FF:12122-128C7: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:31, 4 June 2020

CNhs12550

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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