FF:12159-128G8: Difference between revisions

Latest revision as of 18:32, 4 June 2020

Name:	MC1+Gr1+ myeloid-derived suppressor cells cancer, donor1 (10,11,12 3LL)
Species:	Mouse (Mus musculus)
Library ID:	CNhs12539
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	bone marrow
dev stage	NA
sex	NA
age	NA
cell type	stem cell
cell line	NA
company	NA
collaboration	Hozumi Motohashi (Tohoku University Graduate School of Medicine)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

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

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005037

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12539		CAGE		DRX008772		DRR009644

Accession ID Mm9

Library id		BAM		CTSS
CNhs12539		DRZ001069		DRZ002454

Accession ID Mm10

Library id		BAM		CTSS
CNhs12539		DRZ012419		DRZ013804

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

CNhs12539

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.116
1003	-0.175
1004	0
1005	1.213
1006	-0.143
1007	-0.137
1008	0
1009	-0.2
101	-0.304
1010	0
1011	-0.122
1012	0.101
1013	-0.0649
1014	-0.0851
1015	-0.151
1016	-0.594
1017	0
1018	0
1019	0
102	0
1020	0
1021	-0.0487
1022	-0.315
1023	0.678
1024	-0.14
1025	-0.0611
1026	0
1027	-0.048
1028	0
1029	-0.0989
103	-0.0887
1030	0
1031	-0.911
1032	-0.687
1033	-0.0118
1034	0
1035	0
1036	0.137
1037	0
1038	-0.48
1039	-0.417
104	0
1040	-0.355
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: CNhs12539

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	7.61519e-12
MA0003.1	MA0003.1	0.801
MA0004.1	MA0004.1	0.569
MA0006.1	MA0006.1	0.146
MA0007.1	MA0007.1	0.579
MA0009.1	MA0009.1	0.61
MA0014.1	MA0014.1	0.217
MA0017.1	MA0017.1	0.467
MA0018.2	MA0018.2	0.146
MA0019.1	MA0019.1	0.958
MA0024.1	MA0024.1	0.48
MA0025.1	MA0025.1	0.0167
MA0027.1	MA0027.1	0.525
MA0028.1	MA0028.1	4.43894e-6
MA0029.1	MA0029.1	0.729
MA0030.1	MA0030.1	0.901
MA0031.1	MA0031.1	0.0438
MA0035.2	MA0035.2	0.868
MA0038.1	MA0038.1	0.164
MA0039.2	MA0039.2	0.00971
MA0040.1	MA0040.1	0.0752
MA0041.1	MA0041.1	0.669
MA0042.1	MA0042.1	0.939
MA0043.1	MA0043.1	1.07844e-4
MA0046.1	MA0046.1	2.65495e-10
MA0047.2	MA0047.2	0.0479
MA0048.1	MA0048.1	0.181
MA0050.1	MA0050.1	7.60248e-6
MA0051.1	MA0051.1	2.15609e-4
MA0052.1	MA0052.1	0.00304
MA0055.1	MA0055.1	0.167
MA0057.1	MA0057.1	0.92
MA0058.1	MA0058.1	0.772
MA0059.1	MA0059.1	0.357
MA0060.1	MA0060.1	0.461
MA0061.1	MA0061.1	0.0161
MA0062.2	MA0062.2	1.54276e-21
MA0065.2	MA0065.2	0.267
MA0066.1	MA0066.1	0.16
MA0067.1	MA0067.1	0.0171
MA0068.1	MA0068.1	0.383
MA0069.1	MA0069.1	0.509
MA0070.1	MA0070.1	0.397
MA0071.1	MA0071.1	0.418
MA0072.1	MA0072.1	0.214
MA0073.1	MA0073.1	0.558
MA0074.1	MA0074.1	0.517
MA0076.1	MA0076.1	3.60152e-7
MA0077.1	MA0077.1	0.136
MA0078.1	MA0078.1	0.971
MA0079.2	MA0079.2	0.652
MA0080.2	MA0080.2	1.67736e-15
MA0081.1	MA0081.1	2.07396e-4
MA0083.1	MA0083.1	0.477
MA0084.1	MA0084.1	0.894
MA0087.1	MA0087.1	0.211
MA0088.1	MA0088.1	0.902
MA0090.1	MA0090.1	0.0225
MA0091.1	MA0091.1	0.89
MA0092.1	MA0092.1	0.716
MA0093.1	MA0093.1	0.558
MA0099.2	MA0099.2	0.00142
MA0100.1	MA0100.1	0.0335
MA0101.1	MA0101.1	0.0176
MA0102.2	MA0102.2	2.93223e-9
MA0103.1	MA0103.1	0.876
MA0104.2	MA0104.2	0.071
MA0105.1	MA0105.1	6.73137e-4
MA0106.1	MA0106.1	0.883
MA0107.1	MA0107.1	0.0152
MA0108.2	MA0108.2	0.0274
MA0111.1	MA0111.1	0.645
MA0112.2	MA0112.2	0.00188
MA0113.1	MA0113.1	0.487
MA0114.1	MA0114.1	0.937
MA0115.1	MA0115.1	0.473
MA0116.1	MA0116.1	0.00198
MA0117.1	MA0117.1	0.118
MA0119.1	MA0119.1	0.562
MA0122.1	MA0122.1	0.616
MA0124.1	MA0124.1	0.613
MA0125.1	MA0125.1	0.0252
MA0131.1	MA0131.1	0.54
MA0135.1	MA0135.1	0.763
MA0136.1	MA0136.1	6.42253e-32
MA0137.2	MA0137.2	0.0301
MA0138.2	MA0138.2	0.184
MA0139.1	MA0139.1	0.611
MA0140.1	MA0140.1	0.579
MA0141.1	MA0141.1	0.309
MA0142.1	MA0142.1	0.351
MA0143.1	MA0143.1	0.0498
MA0144.1	MA0144.1	0.0503
MA0145.1	MA0145.1	0.194
MA0146.1	MA0146.1	0.0386
MA0147.1	MA0147.1	0.0599
MA0148.1	MA0148.1	0.165
MA0149.1	MA0149.1	0.3
MA0150.1	MA0150.1	6.60405e-6
MA0152.1	MA0152.1	0.318
MA0153.1	MA0153.1	0.0135
MA0154.1	MA0154.1	0.0594
MA0155.1	MA0155.1	0.754
MA0156.1	MA0156.1	1.40605e-29
MA0157.1	MA0157.1	0.17
MA0159.1	MA0159.1	0.0148
MA0160.1	MA0160.1	0.262
MA0162.1	MA0162.1	0.619
MA0163.1	MA0163.1	0.055
MA0164.1	MA0164.1	0.565
MA0258.1	MA0258.1	0.0115
MA0259.1	MA0259.1	0.411

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: CNhs12539

Novel motif	Logo	P-value
1	1	0.171
10	10	0.0553
100	100	0.705
101	101	0.729
102	102	0.263
103	103	0.193
104	104	0.746
105	105	0.496
106	106	0.0565
107	107	0.779
108	108	0.846
109	109	0.0485
11	11	0.0896
110	110	0.271
111	111	0.43
112	112	0.0564
113	113	0.926
114	114	0.0977
115	115	0.996
116	116	0.894
117	117	4.04043e-4
118	118	0.42
119	119	0.587
12	12	0.427
120	120	0.0376
121	121	0.67
122	122	0.496
123	123	0.314
124	124	0.835
125	125	0.26
126	126	0.487
127	127	0.21
128	128	0.152
129	129	0.45
13	13	0.09
130	130	0.367
131	131	0.601
132	132	0.913
133	133	0.0526
134	134	0.766
135	135	0.436
136	136	0.286
137	137	0.0549
138	138	0.388
139	139	0.0728
14	14	0.379
140	140	0.63
141	141	0.735
142	142	0.0161
143	143	0.00103
144	144	0.928
145	145	0.109
146	146	0.976
147	147	0.656
148	148	0.163
149	149	0.993
15	15	0.051
150	150	0.42
151	151	0.194
152	152	0.167
153	153	0.361
154	154	0.697
155	155	0.557
156	156	0.812
157	157	0.902
158	158	0.0545
159	159	0.631
160	160	0.681
161	161	0.097
162	162	0.529
163	163	0.381
164	164	0.0332
165	165	0.256
166	166	0.696
167	167	0.988
168	168	0.194
169	169	0.0162
17	17	0.234
18	18	0.108
19	19	0.635
2	2	0.298
20	20	0.036
21	21	0.426
22	22	0.394
23	23	0.276
24	24	0.144
25	25	0.216
26	26	0.13
27	27	0.676
28	28	0.0977
29	29	0.0172
3	3	0.0577
30	30	0.441
31	31	0.68
32	32	0.873
33	33	0.194
34	34	0.807
35	35	0.684
36	36	0.155
37	37	0.0675
38	38	0.348
39	39	0.827
4	4	0.63
40	40	0.214
41	41	0.0114
42	42	0.268
43	43	0.145
44	44	0.767
45	45	0.809
46	46	0.361
47	47	0.294
48	48	0.207
49	49	0.13
5	5	0.135
50	50	0.757
51	51	0.736
52	52	0.895
53	53	0.549
54	54	0.676
55	55	0.458
56	56	0.293
57	57	0.967
58	58	0.174
59	59	0.484
6	6	0.563
60	60	0.201
61	61	0.278
62	62	0.0898
63	63	0.693
64	64	0.676
65	65	0.323
66	66	0.544
67	67	0.212
68	68	0.954
69	69	0.495
7	7	0.155
70	70	0.08
71	71	0.0692
72	72	0.148
73	73	0.0267
74	74	0.19
75	75	0.00498
76	76	0.189
77	77	0.976
78	78	0.11
79	79	0.511
8	8	0.447
80	80	0.0399
81	81	0.523
82	82	0.498
83	83	0.492
84	84	0.958
85	85	0.209
86	86	0.0888
87	87	0.0951
88	88	0.476
89	89	0.996
9	9	0.526
90	90	0.17
91	91	0.558
92	92	0.681
93	93	0.406
94	94	0.142
95	95	0.00589
96	96	0.9
97	97	0.874
98	98	0.344
99	99	0.159

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: CNhs12539

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000268 cancer related muscle derived stem cell (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)
0000723 (somatic stem cell)
0000048 (multi fate stem cell)
0002371 (somatic cell)
0000034 (stem cell)
0000355 (multi-potent skeletal muscle stem cell)

DOID: Disease
4 (disease)
0050686 (organ system cancer)
162 (cancer)
14566 (disease of cellular proliferation)
0060100 (musculoskeletal system cancer)
4045 (muscle cancer)

UBERON: Anatomy
0000468 (multi-cellular organism)
0001134 (skeletal muscle tissue)
0000479 (tissue)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002036 (striated muscle tissue)
0002385 (muscle tissue)
0010317 (germ layer / neural crest derived structure)
0001015 (musculature)
0002204 (musculoskeletal system)
0000383 (musculature of body)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000267 (mouse muscle derived stem cell sample)
0000268 (cancer related muscle derived stem cell (Mouse) 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:0000355 (multi-potent skeletal muscle stem cell)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0001134,UBERON:0002100,UBERON:0000483,UBERON:0000926,UBERON:0000479,UBERON:0000475,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0002050,UBERON:0005423,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0000490,UBERON:0005291,UBERON:0002036,UBERON:0002385,UBERON:0000486,UBERON:0003104,UBERON:0000914,UBERON:0005256,UBERON:0006598,UBERON:0001015,UBERON:0002532,UBERON:0002329,UBERON:0002204,UBERON:0000383,UBERON:0003077,UBERON:0004290,UBERON:0009142,UBERON:0006603,UBERON:0003082,UBERON:0003059,UBERON:0007282,UBERON:0009618,UBERON:0007285
+|DRA_sample_Accession=CAGE@SAMD00005037
-|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000144,CL:0000723,CL:0000048,CL:0000034,CL:0000012,CL:0002371,CL:0000355
+|accession_numbers=CAGE;DRX008772;DRR009644;DRZ001069;DRZ002454;DRZ012419;DRZ013804
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0001134,UBERON:0000479,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0002036,UBERON:0002385,UBERON:0010317,UBERON:0001015,UBERON:0002204,UBERON:0000383
+|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000723,CL:0000048,CL:0002371,CL:0000034,CL:0000355
 |ancestors_in_disease_facet=DOID:4,DOID:0050686,DOID:162,DOID:14566,DOID:0060100,DOID:4045
+|ancestors_in_ff_facet=FF:0000102,FF:0000002,FF:0000101,FF:0000103,FF:0000001,FF:0000267,FF:0000268
 |comment=Previously: MDSC (MC1-positiveGr1-positive) cancer, rep1 (10,11,12 3LL). TODO: full classification
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr6:86619104..86619119,-!p1@Mxd1!2.27!1404.17!Mxd1;;chr15:103085802..103085817,-!p4@Nfe2!2.21!196.71!Nfe2;;chr14:55330976..55330990,-!p1@Cebpe!2.16!142.30!Cebpe;;chr2:90936901..90936945,+!p1@Sfpi1!2.15!694.34!Sfpi1;;chr2:90936947..90936977,+!p2@Sfpi1!2.11!246.10!Sfpi1;;chr11:11586218..11586285,+!p1@Ikzf1!2.05!341.94!Ikzf1;;chr15:103085660..103085681,-!p1@Nfe2!2.00!145.23!Nfe2;;chr11:16908650..16908690,-!p1@Plek!1.99!552.88!Plek;;chr2:90936978..90937023,+!p3@Sfpi1!1.96!166.99!Sfpi1;;chr4:63064364..63064384,-!p1@Akna!1.81!179.55!Akna;;chr13:59923965..59924003,-!p2@Zcchc6!1.81!76.17!Zcchc6;;chr2:90922554..90922575,+!p4@Sfpi1!1.78!104.21!Sfpi1;;chr12:86814833..86814846,+!p1@Fos!1.76!1225.46!Fos;;chr5:92391466..92391471,+!p2@Thap6!1.74!76.59!Thap6;;chr19:5447692..5447711,+!p2@Fosl1!1.69!47.71!Fosl1;;chr17:33766353..33766393,+!p2@Zfp414!1.66!120.12!Zfp414;;chr15:103085864..103085876,-!p5@Nfe2!1.66!45.20!Nfe2;;chr14:55330957..55330971,-!p2@Cebpe!1.65!43.95!Cebpe;;chr15:103085690..103085710,-!p3@Nfe2!1.60!42.27!Nfe2;;chr1:87546583..87546595,+!p1@Sp100!1.58!52.32!Sp100;;chr16:92826249..92826325,-!p1@Runx1!1.53!79.10!Runx1;;chr12:78063057..78063070,-!p3@Max!1.53!67.38!Max;;chr1:52065454..52065495,+!p1@Stat4!1.53!53.15!Stat4;;chr1:52065508..52065522,+!p2@Stat4!1.49!34.74!Stat4;;chr6:86619130..86619158,-!p2@Mxd1!1.46!385.05!Mxd1;;chr8:87502608..87502623,-!p1@Junb!1.45!420.21!Junb;;chr8:87225329..87225396,+!p1@Lyl1!1.43!94.59!Lyl1;;chr4:124805061..124805087,-!p1@Zc3h12a!1.43!78.68!Zc3h12a;;chr12:78063032..78063043,-!p4@Max!1.43!35.16!Max;;chr11:120491440..120491474,-!p3@Mafg!1.40!34.74!Mafg;;chr11:100683839..100683890,-!p2@Stat5b!1.38!53.15!Stat5b;;chr2:90922519..90922544,+!p6@Sfpi1!1.37!25.11!Sfpi1;;chr16:15887371..15887385,+!p1@Cebpd!1.36!720.71!Cebpd;;chr2:90936886..90936898,+!p5@Sfpi1!1.36!25.95!Sfpi1;;chr1:186556410..186556424,-!p1@Hlx!1.33!62.36!Hlx;;chr12:78063146..78063159,-!p2@Max!1.33!51.90!Max;;chr2:173044380..173044432,-!p1@Zbp1!1.33!47.71!Zbp1;;chr16:55822241..55822258,-!p1@Nfkbiz!1.32!599.34!Nfkbiz;;chr19:37509324..37509337,+!p1@Hhex!1.31!132.26!Hhex;;chr8:74842952..74842970,+!p1@Klf2!1.29!1206.63!Klf2;;chr9:32348943..32349001,-!p1@Fli1!1.29!146.90!Fli1;;chr4:63064395..63064410,-!p2@Akna!1.26!29.72!Akna;;chr19:37511197..37511206,+!p3@Hhex!1.26!17.16!Hhex;;chr2:90936867..90936874,+!p7@Sfpi1!1.24!16.32!Sfpi1;;chr10:80870405..80870428,-!p4@Nfic!1.23!43.11!Nfic;;chr14:98568502..98568516,-!p7@Dach1!1.19!14.65!Dach1;;chr14:55331167..55331204,-!p3@Cebpe!1.19!14.65!Cebpe;;chr13:5860872..5860883,+!p3@Klf6!1.18!28.04!Klf6;;chr1:87497610..87497645,+!p1@Gm2427,p1@Sp140!1.17!13.81!Sp140;;chr8:87425854..87425891,+!p1@Klf1!1.17!13.81!Klf1;;chr5:32438831..32438878,+!p1@Fosl2!1.15!134.77!Fosl2;;chr5:140267510..140267555,+!p2@Mafk!1.15!30.97!Mafk;;chr11:120491830..120491851,-!p10@Mafg!1.15!12.97!Mafg;;chr15:25914114..25914128,+!p2@Zfp622!1.14!52.32!Zfp622;;chr7:87170879..87170914,+!p2@Zfp710!1.14!29.72!Zfp710;;chr7:31206743..31206761,+!p1@Nfkbid!1.14!17.58!Nfkbid;;chr13:5860776..5860796,+!p1@Klf6!1.13!297.58!Klf6;;chr5:32438894..32438908,+!p2@Fosl2!1.12!25.53!Fosl2;;chr12:86940338..86940357,+!p1@Jdp2!1.10!113.84!Jdp2;;chr16:95680889..95680991,-!p1@Erg!1.10!93.75!Erg;;chr7:148452314..148452329,-!p1@Irf7!1.10!81.20!Irf7;;chr10:79389784..79389833,+!p1@Arid3a!1.10!61.11!Arid3a;;chr7:19895354..19895369,-!p1@Fosb!1.10!15.90!Fosb;;chr15:103083199..103083215,-!p8@Nfe2!1.10!11.72!Nfe2;;chr14:98568532..98568561,-!p4@Dach1!1.09!17.58!Dach1;;chr12:87027598..87027652,+!p1@Batf!1.08!25.53!Batf;;chr2:120996813..120996829,-!p2@Zscan29!1.08!18.42!Zscan29;;chrX:137077653..137077669,-!p3@Tsc22d3!1.07!49.39!Tsc22d3;;chr5:108155037..108155060,-!p2@Gfi1!1.07!10.88!Gfi1;;chr15:103085821..103085828,-!p6@Nfe2!1.07!10.88!Nfe2;;chr11:11585678..11585745,+!p5@Ikzf1!1.06!15.49!Ikzf1;;chr16:23988711..23988727,-!p1@Bcl6!1.02!113.42!Bcl6;;chr2:167514456..167514473,+!p1@Cebpb!1.01!410.58!Cebpb;;chr5:138187195..138187255,+!p1@Tsc22d4!1.01!398.44!Tsc22d4;;chr1:92949999..92950097,+!p1@Lrrfip1!1.01!246.93!Lrrfip1;;chr1:52065530..52065548,+!p3@Stat4!1.01!9.21!Stat4;;chr8:125778192..125778217,+!p2@Zfp276!1.00!25.95!Zfp276;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!1.00!14.23!Ncoa4;;chrX:137077608..137077619,-!p6@Tsc22d3!1.00!12.14!Tsc22d3;;chr7:31208285..31208312,+!p3@Nfkbid!1.00!10.04!Nfkbid;;chr14:55331234..55331245,-!p4@Cebpe!0.97!8.37!Cebpe;;chr1:36364590..36364608,+!p1@Arid5a!0.96!85.80!Arid5a;;chr19:53384910..53384937,+!p3@Mxi1!0.96!23.44!Mxi1;;chr12:56593574..56593592,-!p1@Nfkbia!0.93!398.86!Nfkbia;;chr19:53384985..53385042,+!p1@Mxi1!0.93!239.40!Mxi1;;chr15:103083245..103083260,-!p7@Nfe2!0.93!7.53!Nfe2;;chr14:79915425..79915501,+!p1@Elf1!0.92!68.22!Elf1;;chr11:23670953..23671028,-!p1@Rel!0.92!43.53!Rel;;chr5:145962698..145962742,-!p1@Zkscan14!0.92!35.16!Zkscan14;;chr2:91490176..91490193,-!p2@Zfp408!0.92!9.63!Zfp408;;chrX:137077716..137077734,-!p1@Tsc22d3!0.91!53.99!Tsc22d3;;chr4:135728581..135728668,+!p1@E2f2!0.91!35.16!E2f2;;chr10:79390075..79390115,+!p2@Arid3a!0.91!25.11!Arid3a;;chr11:98822081..98822092,+!p14@Rara!0.91!7.12!Rara;;chr3:89191054..89191070,-!p5@Zbtb7b!0.91!7.12!Zbtb7b;;chr5:92391970..92391984,+!p5@Thap6!0.91!7.12!Thap6;;chr14:56223010..56223067,+!p1@Irf9!0.90!56.92!Irf9;;chr19:26681226..26681299,+!p7@Smarca2!0.90!16.74!Smarca2;;chr3:135354349..135354371,-!p6@Nfkb1!0.90!14.65!Nfkb1;;chr9:57684520..57684612,-!p1@Arid3b!0.89!63.20!Arid3b;;chr10:127080031..127080090,+!p1@Stat6!0.88!149.83!Stat6;;chr1:52176315..52176343,+!p1@Stat1!0.88!98.77!Stat1;;chr7:20408047..20408125,-!p1@Bcl3!0.88!79.10!Bcl3;;chr5:77524231..77524245,-!p3@Hopx!0.88!17.16!Hopx;;chr3:89197216..89197258,-!p3@Zbtb7b!0.88!14.23!Zbtb7b;;chr16:3872286..3872315,-!p3@Zfp597!0.88!12.97!Zfp597;;chr18:3337339..3337397,-!p5@Crem!0.87!13.39!Crem;;chr14:79915502..79915514,+!p4@Elf1!0.87!10.04!Elf1;;chr16:8672238..8672254,-!p2@Carhsp1,p2@Gm9791!0.87!9.21!Carhsp1;;chr17:51972530..51972571,-!p7@Satb1!0.86!6.28!Satb1;;chr16:92826180..92826191,-!p5@Runx1!0.86!6.28!Runx1;;chr11:62272200..62272221,-!p11@Ncor1!0.86!6.28!Ncor1;;chr18:70727922..70728052,+!p1@Mbd2!0.85!234.38!Mbd2;;chr11:100800671..100800770,-!p1@Stat3!0.85!208.43!Stat3;;chr18:83080255..83080277,+!p4@Zfp516!0.85!15.90!Zfp516;;chr12:113916993..113917009,+!p2@Zbtb42!0.85!10.88!Zbtb42;;chr2:72818978..72818997,-!p4@Sp3!0.84!27.62!Sp3;;chr18:83080305..83080335,+!p2@Zfp516!0.84!19.67!Zfp516;;chr2:173044357..173044377,-!p2@Zbp1!0.84!8.79!Zbp1;;chr15:103085858..103085863,-!p11@Nfe2!0.84!5.86!Nfe2;;chr18:83080278..83080293,+!p5@Zfp516!0.83!13.81!Zfp516;;chr18:80904854..80904919,-!p2@Nfatc1!0.82!71.99!Nfatc1;;chr17:88840082..88840127,+!p1@Foxn2!0.82!42.27!Foxn2;;chrX:45807329..45807370,-!p1@Elf4!0.82!42.27!Elf4;;chr2:169956656..169956684,-!p1@Zfp217!0.82!41.02!Zfp217;;chr8:72520139..72520157,-!p6@Gatad2a!0.82!23.44!Gatad2a;;chr5:22940353..22940372,+!p3@Mll5!0.82!11.30!Mll5;;chr11:100800641..100800669,-!p3@Stat3!0.82!10.04!Stat3;;chr2:72817045..72817123,-!p1@Sp3!0.81!191.69!Sp3;;chr3:89191004..89191022,-!p4@Zbtb7b!0.81!5.44!Zbtb7b;;chr4:135728473..135728494,+!p5@E2f2!0.81!5.44!E2f2;;chr11:98822093..98822104,+!p16@Rara!0.81!5.44!Rara;;chr1:87495371..87495397,-!p1@Sp110!0.81!5.44!Sp110;;chr18:3337249..3337274,-!p17@Crem!0.81!5.44!Crem;;chr16:55973950..55973977,+!p4@Rpl24,p4@Zbtb11!0.79!25.95!Zbtb11;;chr11:53583544..53583559,+!p1@Irf1!0.78!92.91!Irf1;;chr18:83079981..83080037,+!p6@Zfp516!0.78!9.21!Zfp516;;chr19:5447886..5447905,+!p1@Fosl1!0.78!5.02!Fosl1;;chr16:92826232..92826245,-!p4@Runx1!0.78!5.02!Runx1;;chr14:98568971..98569025,-!p1@Dach1!0.77!41.02!Dach1;;chr6:92042363..92042413,+!p3@Nr2c2!0.77!12.56!Nr2c2;;chr6:16848347..16848391,-!p1@Tfec!0.77!6.70!Tfec;;chr12:113917014..113917034,+!p1@Zbtb42!0.76!8.79!Zbtb42;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!0.76!6.28!Zbtb11;;chr13:59924433..59924504,-!p1@Zcchc6!0.75!112.59!Zcchc6;;chr13:67461490..67461531,-!p1@Zfp595,p1@Zfp953!0.75!20.93!Zfp953;;chr5:138186979..138187025,+!p4@Tsc22d4!0.75!18.42!Tsc22d4;;chr5:92391948..92391968,+!p3@Thap6!0.75!7.53!Thap6;;chr5:38611621..38611635,-!p2@Zbtb49!0.75!7.12!Zbtb49;;chr2:28477452..28477483,-!p1@Gfi1b!0.75!5.86!Gfi1b;;chr6:16848395..16848416,-!p2@Tfec!0.75!5.44!Tfec;;chr11:98822047..98822072,+!p9@Rara!0.75!4.60!Rara;;chr5:77524250..77524300,-!p1@Hopx!0.74!102.12!Hopx;;chr8:87225670..87225697,+!p2@Lyl1!0.74!14.23!Lyl1;;chr11:98821937..98821987,+!p4@Rara!0.74!10.88!Rara;;chr1:74634786..74634804,-!p5@Zfp142!0.74!6.28!Zfp142;;chr1:64167972..64168026,-!p1@Klf7!0.73!116.35!Klf7;;chr13:5860749..5860772,+!p2@Klf6!0.73!47.29!Klf6;;chr17:47873985..47874056,+!p1@Tfeb!0.73!39.76!Tfeb;;chrX:137077636..137077647,-!p7@Tsc22d3!0.73!5.44!Tsc22d3;;chr2:126501847..126501876,-!p5@Gabpb1!0.73!5.02!Gabpb1;;chr1:170362273..170362317,-!p1@Pbx1!0.72!136.86!Pbx1;;chr14:99697871..99697934,+!p1@Klf5!0.72!95.01!Klf5;;chr8:72663098..72663160,-!p2@LOC100048268,p2@Rfxank!0.72!23.44!Rfxank;;chr1:95651388..95651434,-!p2@Thap4!0.72!10.88!Thap4;;chr18:39650303..39650371,-!p1@Nr3c1!0.71!53.57!Nr3c1;;chr10:82226833..82226864,-!p3@Nfyb!0.71!23.86!Nfyb;;chrX:7339829..7339855,+!p3@Tfe3!0.71!12.14!Tfe3;;chrX:103123886..103123922,-!p3@Atrx!0.71!12.14!Atrx;;chr13:53076396..53076452,-!p1@Nfil3!0.70!82.03!Nfil3;;chr12:85559785..85559840,-!p1@C130039O16Rik!0.70!60.27!C130039O16Rik;;chr4:43575544..43575565,+!p2@Creb3!0.70!26.37!Creb3;;chr5:65194720..65194738,+!p2@Klf3!0.70!24.69!Klf3;;chr16:55973994..55974005,+!p8@Rpl24,p8@Zbtb11!0.70!5.02!Zbtb11;;chr4:94718879..94718898,-!p1@Jun!0.69!324.78!Jun;;chr9:32503590..32503680,+!p1@Ets1!0.69!161.13!Ets1;;chr4:94718861..94718872,-!p2@Jun!0.69!33.48!Jun;;chr2:48805015..48805042,+!p2@Mbd5!0.69!26.79!Mbd5;;chr8:72520162..72520197,-!p4@Gatad2a!0.69!22.60!Gatad2a;;chr3:135354289..135354334,-!p3@Nfkb1!0.69!22.18!Nfkb1;;chr19:28086045..28086080,-!p4@Rfx3!0.69!20.93!Rfx3;;chr2:72817659..72817725,-!p5@Sp3!0.68!18.00!Sp3;;chr16:3872255..3872283,-!p4@Zfp597!0.68!5.86!Zfp597;;chr7:122989594..122989626,-!p1@Sox6!0.68!3.77!Sox6;;chr8:108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Gabpb2!0.35!15.07!Gabpb2;;chr18:55147667..55147746,-!p2@Zfp608!0.35!8.79!Zfp608;;chr5:65194602..65194613,+!p3@Klf3!0.35!8.37!Klf3;;chr7:133838869..133838945,+!p2@Bola2!0.35!7.95!Bola2;;chr2:166888058..166888105,-!p2@Znfx1!0.35!5.86!Znfx1;;chr7:135020469..135020485,+!p4@Zfp646!0.35!2.93!Zfp646;;chr13:37870253..37870272,+!p13@Rreb1!0.35!2.09!Rreb1;;chr5:138188180..138188203,+!p12@Tsc22d4!0.35!1.67!Tsc22d4;;chr6:52664406..52664434,+!p3@Tax1bp1!0.35!1.67!Tax1bp1;;chr18:35020615..35020641,+!p2@Egr1!0.35!1.67!Egr1;;chr17:51972017..51972022,-!p17@Satb1!0.35!1.26!Satb1;;chr17:44873311..44873322,-!p13@Runx2!0.35!1.26!Runx2;;chr17:51972575..51972595,-!p13@Satb1!0.35!1.26!Satb1;;chr19:46379320..46379329,+!p9@Nfkb2!0.35!1.26!Nfkb2;;chr1:87497225..87497236,+!p6@Gm2427,p6@Sp140!0.35!1.26!Sp140;;chr8:87502423..87502439,-!p4@Junb!0.35!1.26!Junb;;chr7:31210542..31210567,+!p14@Nfkbid!0.35!1.26!Nfkbid;;chr6:29479277..29479296,+!p2@Irf5!0.35!1.26!Irf5;;chr12:87027663..87027678,+!p2@Batf!0.35!1.26!Batf;;chr15:103082088..103082136,-!p2@Nfe2!0.35!1.26!Nfe2;;chr14:32978944..32978953,+!p8@Gm6768,p8@Ncoa4!0.35!1.26!Ncoa4;;chr14:32979060..32979091,+!p4@Gm6768,p4@Ncoa4!0.35!1.26!Ncoa4;;chr10:77517570..77517581,+!p1@Dnmt3l!0.35!1.26!Dnmt3l;;chr7:35841486..35841575,-!p1@Cebpg!0.34!50.64!Cebpg;;chr6:133985839..133985915,+!p1@Etv6!0.34!33.48!Etv6;;chr15:76181777..76181802,+!p2@Maf1!0.34!32.23!Maf1;;chr15:102076870..102076941,-!p1@Rarg!0.34!21.35!Rarg;;chr2:126501197..126501245,-!p1@Gabpb1!0.34!14.65!Gabpb1;;chr14:14845141..14845207,+!p1@Atxn7!0.34!13.39!Atxn7;;chr6:72849893..72849945,-!p3@Kcmf1!0.34!10.04!Kcmf1;;chr10:80600749..80600766,+!p2@Zbtb7a!0.34!9.63!Zbtb7a;;chr13:30076168..30076222,-!p2@E2f3!0.34!8.37!E2f3;;chr17:47874074..47874098,+!p3@Tfeb!0.34!2.93!Tfeb;;chr5:65203599..65203617,+!p8@Klf3!0.34!2.51!Klf3;;chrX:66613569..66613586,+!p2@Aff2!0.34!1.67!Aff2;;chr4:102787067..102787080,+!p10@Mier1!0.34!1.67!Mier1;;chr18:73863393..73863460,-!p1@Smad4!0.33!175.78!Smad4;;chr1:64579394..64579433,+!p1@Creb1!0.33!69.48!Creb1;;chr6:90319480..90319651,+!p1@Zxdc!0.33!50.22!Zxdc;;chr3:51081233..51081365,-!p1@Elf2!0.33!40.18!Elf2;;chr8:28087578..28087599,+!p2@Zfp703!0.33!18.00!Zfp703;;chr13:5860740..5860747,+!p4@Klf6!0.33!3.35!Klf6;;chr19:5423800..5423821,-!p5@Drap1!0.33!2.09!Drap1;;chr3:19957878..19957885,+!p2@Hltf!0.33!1.67!Hltf;;chr3:133207232..133207277,-!p1@Tet2!0.32!51.48!Tet2;;chr17:34168732..34168766,+!p1@Rxrb!0.32!50.22!Rxrb;;chr15:101097270..101097290,+!p1@Nr4a1!0.32!18.83!Nr4a1;;chr1:64579364..64579389,+!p2@Creb1!0.32!16.32!Creb1;;chr2:72817320..72817399,-!p2@Sp3!0.32!15.90!Sp3;;chr8:72498266..72498306,-!p3@Gatad2a!0.32!12.14!Gatad2a;;chr1:138521528..138521572,+!p1@Zfp281!0.32!10.46!Zfp281;;chr1:133904670..133904731,+!p2@Elk4!0.32!9.21!Elk4;;chr7:31742079..31742108,-!p4@LOC100504922,p4@Usf2!0.32!5.02!Usf2;;chr12:72117645..72117677,+!p3@Arid4a!0.32!3.35!Arid4a;;chr18:3337465..3337498,-!p6@Crem!0.32!2.93!Crem;;chr5:104183477..104183548,+!p6@Aff1!0.32!2.93!Aff1;;chr17:84587077..84587097,-!p4@Zfp36l2!0.32!1.67!Zfp36l2;;chrX:48559055..48559077,-!p6@Mbnl3!0.32!1.67!Mbnl3;;chr11:5420973..5420992,+!p1@Xbp1!0.31!195.87!Xbp1;;chr12:32635078..32635111,-!p1@Hbp1!0.31!38.92!Hbp1;;chr19:41557122..41557178,+!p1@Lcor!0.31!38.50!Lcor;;chr8:27268658..27268724,+!p1@Thap1!0.31!21.35!Thap1;;chr11:95574298..95574344,+!p1@Zfp652,p4@Phospho1!0.31!15.90!Zfp652;;chr11:100800771..100800798,-!p2@Stat3!0.31!11.72!Stat3;;chr10:127707562..127707597,+!p2@Stat2!0.31!8.79!Stat2;;chr17:56970481..56970551,-!p2@Rfx2!0.31!5.02!Rfx2;;chr16:84835570..84835584,+!p4@Gabpa!0.31!5.02!Gabpa;;chr10:20880629..20880683,-!p1@Myb!0.31!4.60!Myb;;chr2:128793085..128793116,+!p2@Zc3h6!0.31!3.77!Zc3h6;;chr15:50721670..50721684,-!p8@Trps1!0.31!2.51!Trps1;;chrX:7339674..7339688,+!p6@Tfe3!0.31!2.09!Tfe3;;chr1:64168030..64168037,-!p9@Klf7!0.31!1.67!Klf7;;chr4:135728181..135728203,+!p2@E2f2!0.31!1.67!E2f2;;chr6:29476741..29476752,+!p4@Irf5!0.31!1.26!Irf5;;chr17:4995902..4995959,+!p1@Arid1b!0.30!41.85!Arid1b;;chr6:120314112..120314181,+!p1@Kdm5a!0.30!34.32!Kdm5a;;chr2:155299524..155299571,-!p1@Ncoa6!0.30!31.39!Ncoa6;;chr8:34496298..34496366,+!p1@Purg!0.30!14.65!Purg;;chr1:74634691..74634719,-!p2@Zfp142!0.30!3.77!Zfp142;;chr5:145962744..145962760,-!p2@Zkscan14!0.30!2.93!Zkscan14;;chr6:39068181..39068206,-!p3@Parp12!0.30!2.93!Parp12;;chr8:72663049..72663061,-!p4@LOC100048268,p4@Rfxank!0.30!2.51!Rfxank;;chr3:30993616..30993634,+!p3@Skil!0.30!2.51!Skil;;chr8:73222830..73222844,+!p1@Jund!0.29!449.92!Jund;;chr5:25004592..25004630,-!p2@Mll3!0.29!35.58!Mll3;;chr1:95651138..95651255,-!p1@Thap4!0.29!25.11!Thap4;;chr11:5420954..5420969,+!p2@Xbp1!0.29!21.35!Xbp1;;chr16:55973924..55973943,+!p1@Rpl24,p1@Zbtb11!0.29!20.51!Zbtb11;;chr7:4967068..4967111,+!p1@Zfp524!0.29!18.83!Zfp524;;chrX:7339778..7339815,+!p2@Tfe3!0.29!11.30!Tfe3;;chr11:62272010..62272050,-!p2@Ncor1!0.29!5.02!Ncor1;;chrX:48559079..48559108,-!p2@Mbnl3!0.29!3.35!Mbnl3;;chr8:112229401..112229419,+!p3@Zfp821!0.29!1.67!Zfp821;;chr12:77470718..77470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+|ffid_belonging_in_development=CL:0000355
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 39: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000268
 |is_obsolete=
+|library_id=CNhs12539
+|library_id_phase_based=2:CNhs12539
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;12159
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;12159
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/MC1%252bGr1%252b%2520myeloid-derived%2520suppressor%2520cells%2520cancer%252c%2520donor1%2520%252810%252c11%252c12%25203LL%2529.CNhs12539.12159-128G8.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/MC1%252bGr1%252b%2520myeloid-derived%2520suppressor%2520cells%2520cancer%252c%2520donor1%2520%252810%252c11%252c12%25203LL%2529.CNhs12539.12159-128G8.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/MC1%252bGr1%252b%2520myeloid-derived%2520suppressor%2520cells%2520cancer%252c%2520donor1%2520%252810%252c11%252c12%25203LL%2529.CNhs12539.12159-128G8.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/MC1%252bGr1%252b%2520myeloid-derived%2520suppressor%2520cells%2520cancer%252c%2520donor1%2520%252810%252c11%252c12%25203LL%2529.CNhs12539.12159-128G8.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/MC1%252bGr1%252b%2520myeloid-derived%2520suppressor%2520cells%2520cancer%252c%2520donor1%2520%252810%252c11%252c12%25203LL%2529.CNhs12539.12159-128G8.mm9.nobarcode.rdna.fa.gz
 |name=MC1+Gr1+ myeloid-derived suppressor cells cancer, donor1 (10,11,12 3LL)
 |namespace=FANTOM5
@@ Line 44: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12539,LSID920,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.270761605207394,0,0,0,0,-0.0843392403965415,0,0,0,0,0.213590975755815,0,-0.0400543266468328,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.205161689865426,0,0,0,0,0,0.0993698817404741,-0.110092081565646,0.166951817516729,-0.984211366477826,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0.714775253753999,0,0,0,0,0.151839024235742,0,-0.0703803646901827,0.179681260667909,-0.158091042771083,-0.140687683267293,0,0,-0.147550511820338,0,0,0,-0.104416417223718,0.316011482238334,-0.59591488074057,-0.0788315948399074,0,0,0,0,0,0,-0.142671721075526,-0.348079282869258,-0.193883490113528,0,0,0,0,0
 |rna_box=128
 |rna_catalog_number=
@@ Line 59: / Line 76: @@
 |rna_weight_ug=0.897
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 79: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:12159-128G8;search_select_hide=table117:12159-128G8
 }}

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FF:12159-128G8: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:32, 4 June 2020

CNhs12539

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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