FF:12123-128C8: Difference between revisions

Latest revision as of 18:31, 4 June 2020

Name:	granulocyte macrophage progenitor GMP, biol_rep1
Species:	Mouse (Mus musculus)
Library ID:	CNhs12206
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	granulocyte macrophage 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		SAMD00005912

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12206		CAGE		DRX008782		DRR009654

Accession ID Mm9

Library id		BAM		CTSS
CNhs12206		DRZ001079		DRZ002464

Accession ID Mm10

Library id		BAM		CTSS
CNhs12206		DRZ012429		DRZ013814

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

CNhs12206

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.116
1003	-0.175
1004	0
1005	0.168
1006	-0.241
1007	-0.375
1008	0
1009	-0.19
101	0.301
1010	0
1011	-0.108
1012	0
1013	-0.161
1014	-0.0874
1015	-0.0718
1016	-0.594
1017	0
1018	0
1019	0
102	0
1020	0
1021	-0.0487
1022	-0.309
1023	0.904
1024	0.402
1025	-0.0611
1026	0
1027	-0.048
1028	0
1029	-0.176
103	-0.0887
1030	0
1031	-0.917
1032	-0.391
1033	0
1034	0
1035	0
1036	0.393
1037	0
1038	-0.506
1039	-0.117
104	0
1040	-0.532
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: CNhs12206

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	2.34478e-7
MA0003.1	MA0003.1	0.833
MA0004.1	MA0004.1	0.0689
MA0006.1	MA0006.1	0.955
MA0007.1	MA0007.1	0.73
MA0009.1	MA0009.1	0.957
MA0014.1	MA0014.1	0.92
MA0017.1	MA0017.1	0.0587
MA0018.2	MA0018.2	0.00661
MA0019.1	MA0019.1	0.496
MA0024.1	MA0024.1	0.00271
MA0025.1	MA0025.1	0.242
MA0027.1	MA0027.1	0.387
MA0028.1	MA0028.1	2.3887e-5
MA0029.1	MA0029.1	0.237
MA0030.1	MA0030.1	0.188
MA0031.1	MA0031.1	0.992
MA0035.2	MA0035.2	0.882
MA0038.1	MA0038.1	0.0219
MA0039.2	MA0039.2	0.85
MA0040.1	MA0040.1	0.0485
MA0041.1	MA0041.1	0.745
MA0042.1	MA0042.1	0.63
MA0043.1	MA0043.1	5.36064e-4
MA0046.1	MA0046.1	7.22477e-9
MA0047.2	MA0047.2	0.826
MA0048.1	MA0048.1	0.0623
MA0050.1	MA0050.1	0.00243
MA0051.1	MA0051.1	0.0175
MA0052.1	MA0052.1	0.349
MA0055.1	MA0055.1	0.0257
MA0057.1	MA0057.1	0.489
MA0058.1	MA0058.1	0.0407
MA0059.1	MA0059.1	0.00109
MA0060.1	MA0060.1	0.0554
MA0061.1	MA0061.1	8.79012e-4
MA0062.2	MA0062.2	1.75276e-12
MA0065.2	MA0065.2	0.0248
MA0066.1	MA0066.1	0.052
MA0067.1	MA0067.1	0.0847
MA0068.1	MA0068.1	0.793
MA0069.1	MA0069.1	0.427
MA0070.1	MA0070.1	0.137
MA0071.1	MA0071.1	0.0836
MA0072.1	MA0072.1	0.499
MA0073.1	MA0073.1	0.737
MA0074.1	MA0074.1	0.183
MA0076.1	MA0076.1	1.46395e-5
MA0077.1	MA0077.1	0.636
MA0078.1	MA0078.1	0.297
MA0079.2	MA0079.2	0.0623
MA0080.2	MA0080.2	7.65085e-12
MA0081.1	MA0081.1	5.88254e-4
MA0083.1	MA0083.1	0.0038
MA0084.1	MA0084.1	0.708
MA0087.1	MA0087.1	0.642
MA0088.1	MA0088.1	0.14
MA0090.1	MA0090.1	0.0333
MA0091.1	MA0091.1	0.732
MA0092.1	MA0092.1	0.911
MA0093.1	MA0093.1	0.0697
MA0099.2	MA0099.2	9.26632e-8
MA0100.1	MA0100.1	2.62428e-4
MA0101.1	MA0101.1	4.79263e-6
MA0102.2	MA0102.2	3.13114e-4
MA0103.1	MA0103.1	0.826
MA0104.2	MA0104.2	0.0189
MA0105.1	MA0105.1	8.86864e-7
MA0106.1	MA0106.1	0.119
MA0107.1	MA0107.1	3.24543e-5
MA0108.2	MA0108.2	0.0938
MA0111.1	MA0111.1	0.73
MA0112.2	MA0112.2	0.00931
MA0113.1	MA0113.1	0.397
MA0114.1	MA0114.1	0.408
MA0115.1	MA0115.1	0.423
MA0116.1	MA0116.1	3.35907e-4
MA0117.1	MA0117.1	0.394
MA0119.1	MA0119.1	0.882
MA0122.1	MA0122.1	0.09
MA0124.1	MA0124.1	0.36
MA0125.1	MA0125.1	0.0298
MA0131.1	MA0131.1	0.405
MA0135.1	MA0135.1	0.0834
MA0136.1	MA0136.1	5.53065e-25
MA0137.2	MA0137.2	0.00327
MA0138.2	MA0138.2	0.0397
MA0139.1	MA0139.1	0.351
MA0140.1	MA0140.1	0.606
MA0141.1	MA0141.1	0.0564
MA0142.1	MA0142.1	0.588
MA0143.1	MA0143.1	0.686
MA0144.1	MA0144.1	0.0945
MA0145.1	MA0145.1	0.913
MA0146.1	MA0146.1	0.163
MA0147.1	MA0147.1	0.00915
MA0148.1	MA0148.1	0.963
MA0149.1	MA0149.1	0.0358
MA0150.1	MA0150.1	2.56621e-4
MA0152.1	MA0152.1	0.971
MA0153.1	MA0153.1	0.00173
MA0154.1	MA0154.1	0.0701
MA0155.1	MA0155.1	0.985
MA0156.1	MA0156.1	6.91019e-15
MA0157.1	MA0157.1	0.638
MA0159.1	MA0159.1	0.00682
MA0160.1	MA0160.1	0.0124
MA0162.1	MA0162.1	0.256
MA0163.1	MA0163.1	2.22617e-6
MA0164.1	MA0164.1	0.863
MA0258.1	MA0258.1	0.0294
MA0259.1	MA0259.1	0.165

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: CNhs12206

Novel motif	Logo	P-value
1	1	0.113
10	10	0.0314
100	100	0.808
101	101	0.662
102	102	0.572
103	103	0.025
104	104	0.575
105	105	0.868
106	106	0.243
107	107	0.891
108	108	0.906
109	109	0.0133
11	11	0.092
110	110	0.0932
111	111	0.0953
112	112	0.0457
113	113	0.933
114	114	0.7
115	115	0.452
116	116	0.492
117	117	0.00109
118	118	0.161
119	119	0.409
12	12	0.82
120	120	0.0927
121	121	0.295
122	122	0.627
123	123	0.833
124	124	0.729
125	125	0.259
126	126	0.47
127	127	0.261
128	128	0.357
129	129	0.237
13	13	0.0119
130	130	0.651
131	131	0.724
132	132	0.587
133	133	0.788
134	134	0.592
135	135	0.568
136	136	0.684
137	137	0.0237
138	138	0.149
139	139	0.0637
14	14	0.729
140	140	0.337
141	141	0.495
142	142	0.959
143	143	0.0521
144	144	0.704
145	145	0.0647
146	146	0.994
147	147	0.878
148	148	0.436
149	149	0.588
15	15	0.0205
150	150	0.828
151	151	0.481
152	152	0.865
153	153	0.48
154	154	0.756
155	155	0.57
156	156	0.397
157	157	0.629
158	158	0.0157
159	159	0.832
160	160	0.753
161	161	0.0384
162	162	0.581
163	163	0.316
164	164	0.0118
165	165	0.173
166	166	0.627
167	167	0.26
168	168	0.947
169	169	0.0126
17	17	0.352
18	18	0.227
19	19	0.995
2	2	0.34
20	20	0.071
21	21	0.275
22	22	0.601
23	23	0.735
24	24	0.0975
25	25	0.24
26	26	0.00264
27	27	0.78
28	28	0.687
29	29	0.00818
3	3	0.0901
30	30	0.333
31	31	0.951
32	32	0.935
33	33	0.0557
34	34	0.973
35	35	0.278
36	36	0.0169
37	37	0.0612
38	38	0.312
39	39	0.899
4	4	0.92
40	40	0.0986
41	41	0.025
42	42	0.269
43	43	0.237
44	44	0.472
45	45	0.957
46	46	0.134
47	47	0.355
48	48	0.174
49	49	0.177
5	5	0.204
50	50	0.682
51	51	0.741
52	52	0.621
53	53	0.709
54	54	0.819
55	55	0.326
56	56	0.535
57	57	0.225
58	58	0.12
59	59	0.316
6	6	0.815
60	60	0.356
61	61	0.155
62	62	0.0624
63	63	0.687
64	64	0.382
65	65	0.29
66	66	0.543
67	67	0.181
68	68	0.791
69	69	0.97
7	7	0.116
70	70	0.022
71	71	0.00796
72	72	0.154
73	73	0.104
74	74	0.45
75	75	0.0191
76	76	0.142
77	77	0.911
78	78	0.112
79	79	0.488
8	8	0.0108
80	80	0.375
81	81	0.669
82	82	0.465
83	83	0.0624
84	84	0.857
85	85	0.524
86	86	0.266
87	87	0.173
88	88	0.676
89	89	0.241
9	9	0.896
90	90	0.0126
91	91	0.93
92	92	0.346
93	93	0.0381
94	94	0.206
95	95	0.00699
96	96	0.453
97	97	0.961
98	98	0.134
99	99	0.652

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: CNhs12206

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000070 granulocyte macrophage progenitor cell 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)
0000763 (myeloid cell)
0002371 (somatic cell)
0000255 (eukaryotic cell)
0000557 (granulocyte monocyte progenitor cell)

UBERON: Anatomy
0000468 (multi-cellular organism)
0002371 (bone marrow)
0001474 (bone element)
0000479 (tissue)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0004765 (skeletal element)
0010317 (germ layer / neural crest derived structure)
0002204 (musculoskeletal system)
0001434 (skeletal system)
0002390 (hematopoietic system)
0002193 (hemolymphoid system)
0002405 (immune system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000070 (granulocyte macrophage progenitor cell 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@SAMD00005912
-|accession_numbers=CAGE;DRX008782;DRR009654;DRZ001079;DRZ002464
+|accession_numbers=CAGE;DRX008782;DRR009654;DRZ001079;DRZ002464;DRZ012429;DRZ013814
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002371,UBERON:0001474,UBERON:0000479,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0004765,UBERON:0010317,UBERON:0002204,UBERON:0001434,UBERON:0002390,UBERON:0002193,UBERON:0002405
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000988,CL:0000548,CL:0002032,CL:0000763,CL:0002371,CL:0000255,CL:0000557
@@ 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!2.12!177.66!Fosb;;chr1:193007123..193007139,-!p1@Atf3!1.66!237.35!Atf3;;chr2:90936901..90936945,+!p1@Sfpi1!1.58!186.79!Sfpi1;;chr11:16908650..16908690,-!p1@Plek!1.56!207.15!Plek;;chr2:90936978..90937023,+!p3@Sfpi1!1.55!63.90!Sfpi1;;chr2:90936947..90936977,+!p2@Sfpi1!1.53!63.90!Sfpi1;;chr7:19895384..19895399,-!p2@Fosb!1.52!44.94!Fosb;;chr8:123260252..123260264,+!p1@Irf8!1.50!205.05!Irf8;;chr10:20880731..20880775,-!p2@Myb!1.44!54.77!Myb;;chr11:11586218..11586285,+!p1@Ikzf1!1.43!81.46!Ikzf1;;chr16:92826249..92826325,-!p1@Runx1!1.36!53.37!Runx1;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.36!28.09!Zbtb11;;chr7:31206743..31206761,+!p1@Nfkbid!1.34!28.09!Nfkbid;;chr6:16848347..16848391,-!p1@Tfec!1.34!27.39!Tfec;;chr15:103085802..103085817,-!p4@Nfe2!1.34!25.98!Nfe2;;chr12:86814833..86814846,+!p1@Fos!1.32!450.12!Fos;;chr8:87225329..87225396,+!p1@Lyl1!1.32!73.03!Lyl1;;chr4:124805061..124805087,-!p1@Zc3h12a!1.31!58.99!Zc3h12a;;chr10:20880698..20880717,-!p3@Myb!1.27!27.39!Myb;;chr14:79915521..79915539,+!p5@Elf1!1.25!20.36!Elf1;;chr8:87502608..87502623,-!p1@Junb!1.21!240.16!Junb;;chr2:90922554..90922575,+!p4@Sfpi1!1.21!27.39!Sfpi1;;chr8:74842952..74842970,+!p1@Klf2!1.20!975.37!Klf2;;chr10:20880629..20880683,-!p1@Myb!1.19!41.43!Myb;;chr19:5447692..5447711,+!p2@Fosl1!1.18!14.04!Fosl1;;chr6:16848395..16848416,-!p2@Tfec!1.14!14.75!Tfec;;chr3:135271185..135271254,-!p4@Nfkb1!1.11!21.77!Nfkb1;;chr17:27693922..27693934,+!p10@Hmga1-rs1,p11@Hmga1!1.10!15.45!Hmga1;;chr14:79915502..79915514,+!p4@Elf1!1.06!16.15!Elf1;;chr10:126727842..126727859,+!p1@Ddit3!1.05!299.14!Ddit3;;chr11:23670750..23670789,-!p2@Rel!1.04!18.96!Rel;;chr5:92391466..92391471,+!p2@Thap6!1.04!14.75!Thap6;;chr1:38721792..38721845,-!p1@Aff3!1.02!11.94!Aff3;;chr2:90922519..90922544,+!p6@Sfpi1!1.02!10.53!Sfpi1;;chr15:101097270..101097290,+!p1@Nr4a1!1.01!97.61!Nr4a1;;chr12:56593574..56593592,-!p1@Nfkbia!0.99!456.44!Nfkbia;;chr12:87027598..87027652,+!p1@Batf!0.99!20.36!Batf;;chr1:52065454..52065495,+!p1@Stat4!0.99!14.75!Stat4;;chrX:137077608..137077619,-!p6@Tsc22d3!0.99!11.94!Tsc22d3;;chr16:55838757..55838774,-!p2@Nfkbiz!0.99!10.53!Nfkbiz;;chr11:80196900..80196917,+!p3@Zfp207!0.98!29.49!Zfp207;;chr14:79915425..79915501,+!p1@Elf1!0.96!73.73!Elf1;;chr19:5447886..5447905,+!p1@Fosl1!0.94!7.72!Fosl1;;chr15:103085690..103085710,-!p3@Nfe2!0.91!7.72!Nfe2;;chr16:55822241..55822258,-!p1@Nfkbiz!0.89!223.30!Nfkbiz;;chr13:83663902..83663927,+!p1@Mef2c!0.89!172.74!Mef2c;;chr19:37509324..37509337,+!p1@Hhex!0.89!50.56!Hhex;;chr8:87225670..87225697,+!p2@Lyl1!0.87!19.66!Lyl1;;chrX:137077653..137077669,-!p3@Tsc22d3!0.86!29.49!Tsc22d3;;chr8:77540128..77540145,+!p2@Hmgxb4!0.86!6.32!Hmgxb4;;chr19:46379199..46379301,+!p1@Nfkb2!0.85!37.22!Nfkb2;;chr15:80085920..80085941,+!p1@Atf4!0.84!721.17!Atf4;;chr4:134708451..134708469,+!p1@Runx3!0.83!10.53!Runx3;;chr11:23670953..23671028,-!p1@Rel!0.82!34.41!Rel;;chr6:29479308..29479325,+!p3@Irf5!0.82!5.62!Irf5;;chr17:88840082..88840127,+!p1@Foxn2!0.81!41.43!Foxn2;;chr11:100683839..100683890,-!p2@Stat5b!0.81!13.34!Stat5b;;chr7:133839456..133839523,+!p1@Bola2!0.80!282.99!Bola2;;chr17:27693887..27693908,+!p2@Hmga1-rs1,p2@Hmga1!0.80!41.43!Hmga1;;chr13:5860776..5860796,+!p1@Klf6!0.79!136.23!Klf6;;chr9:32348943..32349001,-!p1@Fli1!0.78!44.24!Fli1;;chrX:48559079..48559108,-!p2@Mbnl3!0.77!11.94!Mbnl3;;chr11:53583544..53583559,+!p1@Irf1!0.76!88.48!Irf1;;chr6:99216488..99216534,-!p2@Foxp1!0.75!14.04!Foxp1;;chr7:20162663..20162678,+!p1@Zfp296!0.75!6.32!Zfp296;;chr2:90936886..90936898,+!p5@Sfpi1!0.75!5.62!Sfpi1;;chr7:35904304..35904320,+!p1@Cebpa!0.74!102.52!Cebpa;;chr4:133801453..133801492,-!p1@Zfp593!0.74!41.43!Zfp593;;chr4:94718861..94718872,-!p2@Jun!0.74!37.22!Jun;;chr16:3744162..3744180,+!p2@Zfp263!0.74!13.34!Zfp263;;chr17:27693706..27693724,+!p4@Hmga1,p5@Hmga1-rs1!0.74!11.94!Hmga1;;chr4:94718879..94718898,-!p1@Jun!0.73!351.11!Jun;;chr13:83663868..83663894,+!p2@Mef2c!0.73!69.52!Mef2c;;chr4:124805092..124805135,-!p2@Zc3h12a!0.73!20.36!Zc3h12a;;chr5:140267510..140267555,+!p2@Mafk!0.73!11.24!Mafk;;chr1:36364590..36364608,+!p1@Arid5a!0.72!48.45!Arid5a;;chr6:131338363..131338383,-!p4@Csda!0.72!21.07!Csda;;chr7:29551464..29551487,-!p2@Nfkbib!0.72!18.26!Nfkbib;;chr8:87225702..87225726,+!p3@Lyl1!0.72!9.13!Lyl1;;chr7:19895546..19895577,-!p3@Fosb!0.72!4.21!Fosb;;chr17:45570455..45570479,-!p2@Cdc5l!0.71!16.85!Cdc5l;;chr17:45692676..45692695,+!p2@Nfkbie!0.71!9.13!Nfkbie;;chr4:55545337..55545357,-!p1@Klf4!0.70!66.71!Klf4;;chr5:22940353..22940372,+!p3@Mll5!0.70!8.43!Mll5;;chr15:103085660..103085681,-!p1@Nfe2!0.70!6.32!Nfe2;;chr14:32979290..32979309,+!p3@Gm6768,p3@Ncoa4!0.70!4.92!Ncoa4;;chr13:64254457..64254497,-!p1@Zfp367!0.69!19.66!Zfp367;;chr6:133985709..133985735,+!p5@Etv6!0.69!11.94!Etv6;;chr6:133986088..133986122,+!p4@Etv6!0.68!18.26!Etv6;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.68!6.32!Ncoa4;;chr5:31262543..31262555,-!p3@Preb!0.68!4.92!Preb;;chr5:147760339..147760350,+!p3@Gtf3a!0.67!11.94!Gtf3a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Jarid2!0.26!25.98!Jarid2;;chr11:4604645..4604705,+!p1@Zmat5!0.26!21.07!Zmat5;;chr2:84877605..84877687,+!p3@Ssrp1!0.26!9.13!Ssrp1;;chr19:5637528..5637548,+!p2@Rela!0.26!9.13!Rela;;chr10:13685585..13685645,+!p2@Hivep2!0.26!4.92!Hivep2;;chr1:52176378..52176401,+!p3@Stat1!0.26!4.21!Stat1;;chr8:47825203..47825225,+!p3@Irf2!0.26!1.40!Irf2;;chr16:11176363..11176458,-!p1@Zc3h7a!0.25!79.35!Zc3h7a;;chr6:47544966..47545046,-!p1@Ezh2!0.25!33.00!Ezh2;;chr13:42147384..42147441,+!p1@Hivep1!0.25!14.75!Hivep1;;chr7:56136362..56136400,-!p1@E2f8!0.25!9.83!E2f8;;chr8:72520139..72520157,-!p6@Gatad2a!0.25!5.62!Gatad2a;;chr15:100058289..100058300,+!p3@Atf1!0.25!3.51!Atf1;;chr8:13338745..13338756,+!p2@Tfdp1!0.25!2.81!Tfdp1;;chr5:107125778..107125803,-!p4@Zfp644!0.25!2.81!Zfp644;;chr5:147760297..147760304,+!p4@Gtf3a!0.25!2.11!Gtf3a;;chr6:108610766..108610781,+!p2@Bhlhe40!0.25!2.11!Bhlhe40;;chr11:69393784..69393805,+!p3@Trp53!0.25!1.40!Trp53;;chr2:84877326..84877362,+!p2@Ssrp1!0.24!33.71!Ssrp1;;chr3:51081233..51081365,-!p1@Elf2!0.24!32.30!Elf2;;chr4:40216811..40216882,-!p1@Topors!0.24!28.79!Topors;;chr17:48549054..48549091,-!p1@Nfya!0.24!27.39!Nfya;;chr7:134169762..134169795,-!p3@Maz!0.24!13.34!Maz;;chr16:17531086..17531109,-!p3@Thap7!0.24!4.21!Thap7;;chr10:114821393..114821431,-!p5@Thap2!0.24!3.51!Thap2;;chr1:162836606..162836631,+!p2@Rc3h1!0.24!3.51!Rc3h1;;chr1:95651267..95651284,-!p4@Thap4!0.24!2.11!Thap4;;chr7:74517982..74518012,-!p2@Mef2a!0.24!2.11!Mef2a;;chr4:126700576..126700598,+!p7@Sfpq!0.24!2.11!Sfpq;;chr15:100058302..100058309,+!p3@Gm1862,p5@Atf1!0.24!1.40!Atf1;;chr1:87546583..87546595,+!p1@Sp100!0.24!1.40!Sp100;;chr7:29551488..29551529,-!p1@Nfkbib!0.23!48.45!Nfkbib;;chr19:23215673..23215753,+!p1@Klf9!0.23!21.77!Klf9;;chr16:4559608..4559681,-!p1@Tfap4!0.23!11.94!Tfap4;;chr13:44826095..44826185,+!p4@Jarid2!0.23!7.02!Jarid2;;chr5:138186979..138187025,+!p4@Tsc22d4!0.23!4.92!Tsc22d4;;chr2:44965662..44965685,-!p9@Zeb2!0.23!2.81!Zeb2;;chr7:13420092..13420160,+!p2@Zfp110!0.23!2.11!Zfp110;;chr5:144951153..144951203,+!p1@Bhlha15!0.23!1.40!Bhlha15;;chr12:32635051..32635062,-!p2@Hbp1!0.23!1.40!Hbp1;;chr8:108583683..108583693,+!p3@Nfatc3!0.23!1.40!Nfatc3;;chr11:120494908..120494919,-!p4@Mafg!0.23!1.40!Mafg;;chr11:11585678..11585745,+!p5@Ikzf1!0.23!1.40!Ikzf1;;chr11:96684043..96684069,-!p9@Nfe2l1!0.23!0.70!Nfe2l1;;chr11:23670933..23670942,-!p4@Rel!0.23!0.70!Rel;;chr10:20881176..20881191,-!p6@Myb!0.23!0.70!Myb;;chr11:90249521..90249551,-!p3@Hlf!0.23!0.70!Hlf;;chr11:100683794..100683805,-!p4@Stat5b!0.23!0.70!Stat5b;;chr11:62272200..62272221,-!p11@Ncor1!0.23!0.70!Ncor1;;chr10:30375559..30375568,-!p9@Ncoa7!0.23!0.70!Ncoa7;;chr10:119913301..119913302,-!p11@Hmga2!0.23!0.70!Hmga2;;chr11:100721732..100721742,+!p3@Stat5a!0.23!0.70!Stat5a;;chr11:5420655..5420659,+!p3@Xbp1!0.23!0.70!Xbp1;;chr11:23978206..23978219,+!p12@Bcl11a!0.23!0.70!Bcl11a;;chr11:11590117..11590138,+!p4@Ikzf1!0.23!0.70!Ikzf1;;chr10:30375647..30375658,-!p7@Ncoa7!0.23!0.70!Ncoa7;;chr11:23671279..23671293,-!p8@Rel!0.23!0.70!Rel;;chr11:98601909..98601922,+!p11@Thra!0.23!0.70!Thra;;chr6:120314480..120314487,+!p6@Kdm5a!0.23!0.70!Kdm5a;;chr6:28348054..28348065,-!p7@Zfp800!0.23!0.70!Zfp800;;chr5:38611867..38611888,+!p2@Lyar!0.23!0.70!Lyar;;chr6:52663997..52664043,+!p2@Tax1bp1!0.23!0.70!Tax1bp1;;chr6:83020355..83020371,-!p1@Tlx2!0.23!0.70!Tlx2;;chr5:77695258..77695269,+!p12@Rest!0.23!0.70!Rest;;chr5:38611831..38611842,+!p3@Lyar!0.23!0.70!Lyar;;chr6:52176144..52176161,-!p2@Hoxa9!0.23!0.70!Hoxa9;;chr6:99385340..99385362,-!p11@Foxp1!0.23!0.70!Foxp1;;chr5:108698309..108698321,+!p8@Dr1!0.23!0.70!Dr1;;chr2:168781014..168781025,-!p4@LOC100502777,p4@Zfp64!0.23!0.70!Zfp64;;chr1:92949751..92949769,+!p5@Lrrfip1!0.23!0.70!Lrrfip1;;chr1:179374862..179374873,+!p6@Zfp238!0.23!0.70!Zfp238;;chr2:156665889..156665900,+!p8@Tgif2!0.23!0.70!Tgif2;;chr1:179372514..179372525,+!p7@Zfp238!0.23!0.70!Zfp238;;chr2:56967381..56967386,-!p8@Nr4a2!0.23!0.70!Nr4a2;;chr1:87497443..87497454,+!p3@Gm2427,p3@Sp140!0.23!0.70!Sp140;;chr2:32229906..32229942,+!p3@Ciz1!0.23!0.70!Ciz1;;chr1:64579145..64579168,+!p6@Creb1!0.23!0.70!Creb1;;chr2:56967159..56967191,-!p15@Nr4a2!0.23!0.70!Nr4a2;;chr1:52065530..52065548,+!p3@Stat4!0.23!0.70!Stat4;;chr18:3337249..3337274,-!p17@Crem!0.23!0.70!Crem;;chr16:11176149..11176163,-!p5@Zc3h7a!0.23!0.70!Zc3h7a;;chr18:76400957..76400968,+!p12@Smad2!0.23!0.70!Smad2;;chr17:44873311..44873322,-!p13@Runx2!0.23!0.70!Runx2;;chr19:46378880..46378896,+!p8@Nfkb2!0.23!0.70!Nfkb2;;chr17:44873235..44873245,-!p17@Runx2!0.23!0.70!Runx2;;chr17:51971991..51972003,-!p4@Satb1!0.23!0.70!Satb1;;chr19:12871044..12871058,-!p3@Zfp91!0.23!0.70!Zfp91;;chr19:37511111..37511115,+!p2@Hhex!0.23!0.70!Hhex;;chr17:71201572..71201601,-!p10@Tgif1!0.23!0.70!Tgif1;;chr18:3281015..3281028,-!p18@Crem!0.23!0.70!Crem;;chr16:55838779..55838788,-!p9@Nfkbiz!0.23!0.70!Nfkbiz;;chr17:44873599..44873623,-!p7@Runx2!0.23!0.70!Runx2;;chr16:55838743..55838754,-!p6@Nfkbiz!0.23!0.70!Nfkbiz;;chr15:79178559..79178584,+!p8@Maff!0.23!0.70!Maff;;chr17:51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2d!0.09!45.64!Mef2d;;chr4:141000572..141000629,+!p1@Zbtb17!0.09!20.36!Zbtb17;;chr8:109620410..109620462,-!p1@Terf2!0.09!9.83!Terf2;;chr5:137043177..137043190,-!p2@Cux1!0.09!8.43!Cux1;;chr17:27693788..27693803,+!p3@Hmga1,p4@Hmga1-rs1!0.09!4.21!Hmga1;;chrX:103123886..103123922,-!p3@Atrx!0.09!2.11!Atrx;;chr7:50568466..50568486,-!p2@Zfp715!0.09!2.11!Zfp715;;chr2:56967334..56967366,-!p1@Nr4a2!0.09!1.40!Nr4a2;;chr2:154395552..154395561,-!p3@E2f1!0.09!0.70!E2f1;;chr9:32348906..32348920,-!p3@Fli1!0.09!0.70!Fli1;;chr6:52167513..52167549,-!p2@Hoxa7!0.09!0.70!Hoxa7;;chr7:134169648..134169657,-!p14@Maz!0.09!0.70!Maz;;chr4:102786990..102786999,+!p11@Mier1!0.09!0.70!Mier1;;chr14:52640355..52640369,-!p9@Zfp219!0.09!0.70!Zfp219;;chr13:112476264..112476282,+!p3@Mier3!0.09!0.70!Mier3;;chr5:139060930..139060975,-!p1@Zfp68!0.08!38.62!Zfp68;;chr1:15795720..15795756,+!p1@Terf1!0.08!31.60!Terf1;;chr7:30553587..30553661,+!p1@Zfp84!0.08!25.28!Zfp84;;chr12:110031156..110031198,+!p2@Yy1!0.08!14.75!Yy1;;chr10:79862089..79862129,-!p2@Mbd3!0.08!11.24!Mbd3;;chr15:36937113..36937127,-!p3@Gm10193,p3@Zfp706!0.08!9.83!Zfp706;;chr17:88840054..88840081,+!p2@Foxn2!0.08!8.43!Foxn2;;chr3:95021853..95021911,-!p1@Gabpb2!0.08!7.72!Gabpb2;;chr13:67585161..67585205,-!p1@Zfp874b!0.08!4.92!Zfp874b;;chr8:124900576..124900601,+!p2@Zc3h18!0.08!4.21!Zc3h18;;chr2:83484738..83484749,+!p5@Zc3h15!0.08!3.51!Zc3h15;;chr7:87171047..87171078,+!p1@Zfp710!0.08!2.81!Zfp710;;chr8:83262929..83262957,-!p1@Smarca5!0.08!2.11!Smarca5;;chr2:166888481..166888548,-!p3@Znfx1!0.08!2.11!Znfx1;;chr10:127080141..127080160,+!p2@Stat6!0.08!2.11!Stat6;;chr11:23978111..23978134,+!p3@Bcl11a!0.08!1.40!Bcl11a;;chr5:145962744..145962760,-!p2@Zkscan14!0.08!1.40!Zkscan14;;chr6:53523332..53523343,+!p2@Creb5!0.08!0.70!Creb5;;chr11:11584970..11585030,+!p2@Ikzf1!0.08!0.70!Ikzf1;;chr4:87679181..87679192,-!p10@Mllt3!0.08!0.70!Mllt3;;chr2:162880306..162880319,+!p3@Mybl2!0.08!0.70!Mybl2;;chr13:29045131..29045159,-!p3@Sox4!0.08!0.70!Sox4;;chr13:59924319..59924331,-!p5@Zcchc6!0.08!0.70!Zcchc6;;chr11:102180255..102180318,-!p1@Ubtf!0.07!23.17!Ubtf;;chr10:33670996..33671069,-!p1@Zufsp!0.07!20.36!Zufsp;;chr12:72116953..72117050,+!p1@Arid4a!0.07!11.94!Arid4a;;chr9:71743854..71743909,-!p1@Tcf12!0.07!7.72!Tcf12;;chr13:65380118..65380146,+!p2@Zfp369!0.07!6.32!Zfp369;;chr7:28623579..28623631,+!p1@Zfp59!0.07!4.21!Zfp59;;chr7:30638630..30638702,-!p1@Zfp940!0.07!2.81!Zfp940;;chr5:107125838..107125858,-!p2@Zfp644!0.07!2.81!Zfp644;;chr3:95021663..95021687,-!p3@Gabpb2!0.07!2.81!Gabpb2;;chr7:30875418..30875454,-!p2@Zfp566,p2@Zfp82!0.07!2.11!Zfp566;;chr5:107125807..107125835,-!p3@Zfp644!0.07!2.11!Zfp644;;chr17:3557718..3557733,-!p2@Tfb1m!0.07!2.11!Tfb1m;;chr18:24113349..24113374,+!p2@Zfp397!0.07!1.40!Zfp397;;chr13:5860740..5860747,+!p4@Klf6!0.07!1.40!Klf6;;chr7:148514080..148514108,-!p4@Deaf1!0.07!1.40!Deaf1;;chr2:153067079..153067090,-!p2@Plagl2!0.07!1.40!Plagl2;;chr8:4613211..4613224,+!p3@Zfp958!0.07!1.40!Zfp958;;chr16:84835585..84835596,+!p9@Gabpa!0.07!0.70!Gabpa;;chr15:36937029..36937108,-!p1@Gm10193,p1@Zfp706!0.06!128.51!Zfp706;;chr5:106305551..106305604,+!p1@Zfp326!0.06!38.62!Zfp326;;chr3:19957802..19957857,+!p1@Hltf!0.06!17.56!Hltf;;chr19:38893646..38893732,-!p1@Noc3l!0.06!10.53!Noc3l;;chr17:47873985..47874056,+!p1@Tfeb!0.06!7.72!Tfeb;;chr19:5610038..5610066,-!p1@Kat5!0.06!4.21!Kat5;;chr2:83499707..83499708,+!p6@Zc3h15!0.06!2.81!Zc3h15;;chr7:19679964..19679982,+!p1@Six5!0.06!2.11!Six5;;chr6:140572352..140572382,+!p3@Aebp2!0.06!1.40!Aebp2;;chr10:75384291..75384298,-!p2@Smarcb1!0.06!1.40!Smarcb1;;chr6:108610513..108610528,+!p3@Bhlhe40!0.06!0.70!Bhlhe40;;chr14:65568651..65568657,-!p4@Hmbox1!0.06!0.70!Hmbox1;;chr13:83663600..83663625,+!p6@Mef2c!0.06!0.70!Mef2c;;chr12:119540395..119540415,-!p5@Sp4!0.06!0.70!Sp4;;chr13:64254502..64254515,-!p3@Zfp367!0.06!0.70!Zfp367;;chr4:48058047..48058062,+!p1@Nr4a3!0.06!0.70!Nr4a3;;chr18:74375851..74375891,+!p1@Cxxc1!0.05!39.32!Cxxc1;;chr6:28211907..28211943,-!p1@Zfp800!0.05!28.79!Zfp800;;chr15:57907747..57907798,-!p1@9130401M01Rik,p1@Zhx1!0.05!26.68!Zhx1;;chr1:182499095..182499141,+!p2@Parp1!0.05!16.85!Parp1;;chr13:96095213..96095255,+!p1@Zbed3!0.05!14.75!Zbed3;;chr3:51144550..51144603,-!p2@Elf2!0.05!14.75!Elf2;;chr6:86619130..86619158,-!p2@Mxd1!0.05!14.04!Mxd1;;chr11:101413151..101413207,-!p1@Brca1!0.05!9.13!Brca1;;chr19:40969182..40969226,+!p1@Zfp518a!0.05!7.72!Zfp518a;;chr6:47827619..47827639,+!p2@Zfp282!0.05!3.51!Zfp282;;chr9:20297135..20297154,-!p2@Zfp426!0.05!2.81!Zfp426;;chr2:164737086..164737108,-!p2@Zfp335!0.05!2.81!Zfp335;;chr1:133904901..133904934,+!p3@Elk4!0.05!2.11!Elk4;;chr7:135020324..135020368,-!p4@Zfp668!0.05!2.11!Zfp668;;chr19:53384965..53384984,+!p4@Mxi1!0.05!2.11!Mxi1;;chr18:74375772..74375799,+!p2@Cxxc1!0.05!2.11!Cxxc1;;chr11:53164533..53164548,+!p4@Aff4!0.05!2.11!Aff4;;chr8:107694596..107694619,+!p4@Cbfb!0.05!2.11!Cbfb;;chr18:76401789..76401814,+!p4@Smad2!0.05!1.40!Smad2;;chr11:98821937..98821987,+!p4@Rara!0.05!1.40!Rara;;chr10:13686815..13686846,+!p3@Hivep2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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs12206
-|library_id_phase_based=1:CNhs12206
+|library_id_phase_based=2:CNhs12206
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;12123
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;12123
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep1.CNhs12206.12123-128C8.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep1.CNhs12206.12123-128C8.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep1.CNhs12206.12123-128C8.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep1.CNhs12206.12123-128C8.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep1.CNhs12206.12123-128C8.mm9.nobarcode.rdna.fa.gz
 |name=granulocyte macrophage progenitor GMP, biol_rep1
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12206,LSID976,release010,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.57122867445654,0,0,0,0,-0.0843392403965415,0,0,0,0,0.502778385497195,0,-0.191893350882575,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.327408841583859,0,0,0,0,-0.0790779709937838,-0.0938157501257395,-0.21438160188137,-0.801219257799912,-0.984211366477826,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0,0,0.165008403176733,0,0,0,0,0,0,0,0,0,-0.0533965748852796,-0.243225778194271,-0.0796367065992133,-0.158091042771083,-0.140687683267293,0,-0.0780086007519514,-0.269419612201536,-0.302479435774764,0.381011483184416,0,-0.171003755956499,-0.2571792564979,-0.59591488074057,-0.0788315948399074,0,0,0,0,0,0,-0.276885342157295,-1.21825441571492,-0.269803002231399,0,0,0,0,0
@@ 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=table111:12123-128C8;search_select_hide=table117:12123-128C8
 }}

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FF:12123-128C8: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:31, 4 June 2020

CNhs12206

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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