FF:12161-128H1: Difference between revisions

Latest revision as of 18:32, 4 June 2020

Name:	MC1+Gr1+ myeloid-derived suppressor cells cancer, donor2 (0127 3LL)
Species:	Mouse (Mus musculus)
Library ID:	CNhs12198
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		SAMD00004935

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12198		CAGE		DRX008773		DRR009645

Accession ID Mm9

Library id		BAM		CTSS
CNhs12198		DRZ001070		DRZ002455

Accession ID Mm10

Library id		BAM		CTSS
CNhs12198		DRZ012420		DRZ013805

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

CNhs12198

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.116
1003	-0.175
1004	0
1005	1.157
1006	-0.143
1007	-0.277
1008	0
1009	-0.2
101	-0.243
1010	0
1011	-0.132
1012	0
1013	0.0704
1014	-0.0874
1015	-0.18
1016	-0.594
1017	0
1018	0
1019	0
102	0
1020	0
1021	-0.0487
1022	-0.315
1023	0.572
1024	-0.14
1025	-0.0611
1026	0
1027	0
1028	0
1029	-0.176
103	-0.0887
1030	0
1031	-0.911
1032	-0.655
1033	0.184
1034	0
1035	0
1036	0.12
1037	0
1038	-0.569
1039	-0.531
104	0
1040	-0.593
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: CNhs12198

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	3.04236e-11
MA0003.1	MA0003.1	0.988
MA0004.1	MA0004.1	0.951
MA0006.1	MA0006.1	0.231
MA0007.1	MA0007.1	0.346
MA0009.1	MA0009.1	0.495
MA0014.1	MA0014.1	0.137
MA0017.1	MA0017.1	0.211
MA0018.2	MA0018.2	0.216
MA0019.1	MA0019.1	0.963
MA0024.1	MA0024.1	0.733
MA0025.1	MA0025.1	0.022
MA0027.1	MA0027.1	0.392
MA0028.1	MA0028.1	1.32689e-5
MA0029.1	MA0029.1	0.655
MA0030.1	MA0030.1	0.77
MA0031.1	MA0031.1	0.172
MA0035.2	MA0035.2	0.726
MA0038.1	MA0038.1	0.34
MA0039.2	MA0039.2	0.037
MA0040.1	MA0040.1	0.0527
MA0041.1	MA0041.1	0.497
MA0042.1	MA0042.1	0.907
MA0043.1	MA0043.1	9.81432e-4
MA0046.1	MA0046.1	2.3079e-9
MA0047.2	MA0047.2	0.137
MA0048.1	MA0048.1	0.139
MA0050.1	MA0050.1	1.59624e-4
MA0051.1	MA0051.1	0.00151
MA0052.1	MA0052.1	0.00788
MA0055.1	MA0055.1	0.0802
MA0057.1	MA0057.1	0.972
MA0058.1	MA0058.1	0.798
MA0059.1	MA0059.1	0.758
MA0060.1	MA0060.1	0.668
MA0061.1	MA0061.1	0.0167
MA0062.2	MA0062.2	5.66825e-19
MA0065.2	MA0065.2	0.114
MA0066.1	MA0066.1	0.225
MA0067.1	MA0067.1	0.0203
MA0068.1	MA0068.1	0.496
MA0069.1	MA0069.1	0.546
MA0070.1	MA0070.1	0.274
MA0071.1	MA0071.1	0.276
MA0072.1	MA0072.1	0.148
MA0073.1	MA0073.1	0.618
MA0074.1	MA0074.1	0.345
MA0076.1	MA0076.1	1.90445e-6
MA0077.1	MA0077.1	0.152
MA0078.1	MA0078.1	0.742
MA0079.2	MA0079.2	0.274
MA0080.2	MA0080.2	1.77081e-15
MA0081.1	MA0081.1	1.81931e-4
MA0083.1	MA0083.1	0.521
MA0084.1	MA0084.1	0.72
MA0087.1	MA0087.1	0.73
MA0088.1	MA0088.1	0.621
MA0090.1	MA0090.1	0.0313
MA0091.1	MA0091.1	0.758
MA0092.1	MA0092.1	0.546
MA0093.1	MA0093.1	0.93
MA0099.2	MA0099.2	0.00219
MA0100.1	MA0100.1	0.0242
MA0101.1	MA0101.1	0.0169
MA0102.2	MA0102.2	1.90909e-8
MA0103.1	MA0103.1	0.953
MA0104.2	MA0104.2	0.307
MA0105.1	MA0105.1	1.26111e-4
MA0106.1	MA0106.1	0.559
MA0107.1	MA0107.1	0.0242
MA0108.2	MA0108.2	0.202
MA0111.1	MA0111.1	0.69
MA0112.2	MA0112.2	0.00171
MA0113.1	MA0113.1	0.364
MA0114.1	MA0114.1	0.611
MA0115.1	MA0115.1	0.486
MA0116.1	MA0116.1	0.00107
MA0117.1	MA0117.1	0.199
MA0119.1	MA0119.1	0.655
MA0122.1	MA0122.1	0.7
MA0124.1	MA0124.1	0.834
MA0125.1	MA0125.1	0.0116
MA0131.1	MA0131.1	0.555
MA0135.1	MA0135.1	0.877
MA0136.1	MA0136.1	1.21268e-30
MA0137.2	MA0137.2	0.00335
MA0138.2	MA0138.2	0.235
MA0139.1	MA0139.1	0.486
MA0140.1	MA0140.1	0.864
MA0141.1	MA0141.1	0.202
MA0142.1	MA0142.1	0.337
MA0143.1	MA0143.1	0.149
MA0144.1	MA0144.1	0.0303
MA0145.1	MA0145.1	0.27
MA0146.1	MA0146.1	0.0573
MA0147.1	MA0147.1	0.285
MA0148.1	MA0148.1	0.216
MA0149.1	MA0149.1	0.316
MA0150.1	MA0150.1	1.48743e-5
MA0152.1	MA0152.1	0.341
MA0153.1	MA0153.1	0.00787
MA0154.1	MA0154.1	0.0396
MA0155.1	MA0155.1	0.935
MA0156.1	MA0156.1	1.47119e-27
MA0157.1	MA0157.1	0.31
MA0159.1	MA0159.1	0.00626
MA0160.1	MA0160.1	0.146
MA0162.1	MA0162.1	0.342
MA0163.1	MA0163.1	0.00784
MA0164.1	MA0164.1	0.485
MA0258.1	MA0258.1	0.0121
MA0259.1	MA0259.1	0.624

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: CNhs12198

Novel motif	Logo	P-value
1	1	0.155
10	10	0.0505
100	100	0.717
101	101	0.654
102	102	0.401
103	103	0.0924
104	104	0.854
105	105	0.476
106	106	0.0794
107	107	0.912
108	108	0.838
109	109	0.028
11	11	0.0602
110	110	0.163
111	111	0.416
112	112	0.0208
113	113	0.892
114	114	0.209
115	115	0.738
116	116	0.843
117	117	5.10109e-4
118	118	0.369
119	119	0.46
12	12	0.576
120	120	0.08
121	121	0.614
122	122	0.634
123	123	0.544
124	124	0.989
125	125	0.23
126	126	0.435
127	127	0.214
128	128	0.219
129	129	0.401
13	13	0.0525
130	130	0.669
131	131	0.625
132	132	0.99
133	133	0.0306
134	134	0.751
135	135	0.537
136	136	0.41
137	137	0.0455
138	138	0.307
139	139	0.109
14	14	0.433
140	140	0.521
141	141	0.636
142	142	0.0501
143	143	0.00173
144	144	0.821
145	145	0.102
146	146	0.975
147	147	0.439
148	148	0.16
149	149	0.98
15	15	0.0433
150	150	0.315
151	151	0.279
152	152	0.231
153	153	0.552
154	154	0.869
155	155	0.492
156	156	0.746
157	157	0.855
158	158	0.0434
159	159	0.593
160	160	0.843
161	161	0.0727
162	162	0.73
163	163	0.335
164	164	0.0247
165	165	0.144
166	166	0.853
167	167	0.712
168	168	0.281
169	169	0.00458
17	17	0.113
18	18	0.127
19	19	0.65
2	2	0.34
20	20	0.0531
21	21	0.491
22	22	0.379
23	23	0.485
24	24	0.0881
25	25	0.159
26	26	0.0912
27	27	0.661
28	28	0.181
29	29	0.00852
3	3	0.0561
30	30	0.475
31	31	0.718
32	32	0.809
33	33	0.118
34	34	0.831
35	35	0.512
36	36	0.0797
37	37	0.0655
38	38	0.253
39	39	0.908
4	4	0.584
40	40	0.147
41	41	0.0115
42	42	0.259
43	43	0.171
44	44	0.797
45	45	0.891
46	46	0.309
47	47	0.226
48	48	0.152
49	49	0.124
5	5	0.17
50	50	0.816
51	51	0.716
52	52	0.733
53	53	0.654
54	54	0.713
55	55	0.278
56	56	0.296
57	57	0.769
58	58	0.188
59	59	0.347
6	6	0.609
60	60	0.21
61	61	0.174
62	62	0.0944
63	63	0.592
64	64	0.474
65	65	0.218
66	66	0.567
67	67	0.19
68	68	0.785
69	69	0.619
7	7	0.0892
70	70	0.0822
71	71	0.0375
72	72	0.131
73	73	0.0395
74	74	0.107
75	75	0.00489
76	76	0.191
77	77	0.863
78	78	0.0898
79	79	0.471
8	8	0.205
80	80	0.0627
81	81	0.571
82	82	0.537
83	83	0.386
84	84	0.946
85	85	0.291
86	86	0.16
87	87	0.0975
88	88	0.455
89	89	0.662
9	9	0.455
90	90	0.125
91	91	0.533
92	92	0.397
93	93	0.352
94	94	0.0969
95	95	0.00888
96	96	0.817
97	97	0.841
98	98	0.362
99	99	0.351

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: CNhs12198

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
+|DRA_sample_Accession=CAGE@SAMD00004935
+|accession_numbers=CAGE;DRX008773;DRR009645;DRZ001070;DRZ002455;DRZ012420;DRZ013805
 |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
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr2:90936901..90936945,+!p1@Sfpi1!2.12!643.82!Sfpi1;;chr6:86619104..86619119,-!p1@Mxd1!2.09!922.76!Mxd1;;chr15:103085802..103085817,-!p4@Nfe2!2.03!131.26!Nfe2;;chr2:90936947..90936977,+!p2@Sfpi1!2.00!188.30!Sfpi1;;chr2:90936978..90937023,+!p3@Sfpi1!1.93!155.49!Sfpi1;;chr12:86814833..86814846,+!p1@Fos!1.92!1787.70!Fos;;chr11:11586218..11586285,+!p1@Ikzf1!1.88!229.71!Ikzf1;;chr14:55330976..55330990,-!p1@Cebpe!1.79!60.94!Cebpe;;chr5:92391466..92391471,+!p2@Thap6!1.78!84.38!Thap6;;chr15:103085660..103085681,-!p1@Nfe2!1.77!85.17!Nfe2;;chr2:90922554..90922575,+!p4@Sfpi1!1.73!93.76!Sfpi1;;chr19:5447692..5447711,+!p2@Fosl1!1.71!50.79!Fosl1;;chr11:16908650..16908690,-!p1@Plek!1.67!267.22!Plek;;chr2:173044380..173044432,-!p1@Zbp1!1.59!87.51!Zbp1;;chr4:63064364..63064384,-!p1@Akna!1.52!90.63!Akna;;chr8:87502608..87502623,-!p1@Junb!1.50!478.96!Junb;;chr13:59923965..59924003,-!p2@Zcchc6!1.48!35.16!Zcchc6;;chr2:90936886..90936898,+!p5@Sfpi1!1.40!28.13!Sfpi1;;chr14:55330957..55330971,-!p2@Cebpe!1.39!23.44!Cebpe;;chr4:124805061..124805087,-!p1@Zc3h12a!1.37!67.19!Zc3h12a;;chr17:33766353..33766393,+!p2@Zfp414!1.37!60.94!Zfp414;;chr6:86619130..86619158,-!p2@Mxd1!1.35!294.56!Mxd1;;chr15:103085864..103085876,-!p5@Nfe2!1.34!21.10!Nfe2;;chr12:78063057..78063070,-!p3@Max!1.33!42.19!Max;;chr16:15887371..15887385,+!p1@Cebpd!1.32!650.07!Cebpd;;chr8:87225329..87225396,+!p1@Lyl1!1.32!74.23!Lyl1;;chr2:90936867..90936874,+!p7@Sfpi1!1.31!19.53!Sfpi1;;chr15:103085690..103085710,-!p3@Nfe2!1.29!20.31!Nfe2;;chr16:92826249..92826325,-!p1@Runx1!1.27!42.97!Runx1;;chr2:90922519..90922544,+!p6@Sfpi1!1.27!19.53!Sfpi1;;chr11:120491440..120491474,-!p3@Mafg!1.26!25.00!Mafg;;chr12:87027598..87027652,+!p1@Batf!1.24!37.50!Batf;;chr19:37511197..37511206,+!p3@Hhex!1.20!14.85!Hhex;;chr11:120491830..120491851,-!p10@Mafg!1.20!14.85!Mafg;;chr1:52065508..52065522,+!p2@Stat4!1.19!17.19!Stat4;;chr16:55822241..55822258,-!p1@Nfkbiz!1.18!435.99!Nfkbiz;;chr1:52065454..52065495,+!p1@Stat4!1.18!23.44!Stat4;;chr15:103083199..103083215,-!p8@Nfe2!1.18!14.06!Nfe2;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.16!17.19!Zbtb11;;chr6:16848395..16848416,-!p2@Tfec!1.16!15.63!Tfec;;chr8:74842952..74842970,+!p1@Klf2!1.15!866.50!Klf2;;chr9:32348943..32349001,-!p1@Fli1!1.15!107.04!Fli1;;chr11:100683839..100683890,-!p2@Stat5b!1.15!30.47!Stat5b;;chr1:87546583..87546595,+!p1@Sp100!1.15!18.75!Sp100;;chr12:78063032..78063043,-!p4@Max!1.15!17.97!Max;;chr4:63064395..63064410,-!p2@Akna!1.13!21.88!Akna;;chr2:167514456..167514473,+!p1@Cebpb!1.10!510.99!Cebpb;;chr6:29476690..29476724,+!p1@Irf5!1.09!52.35!Irf5;;chr6:16848347..16848391,-!p1@Tfec!1.09!14.85!Tfec;;chr13:5860872..5860883,+!p3@Klf6!1.08!21.88!Klf6;;chr14:55331167..55331204,-!p3@Cebpe!1.08!10.94!Cebpe;;chr13:5860776..5860796,+!p1@Klf6!1.07!261.75!Klf6;;chr5:140267510..140267555,+!p2@Mafk!1.07!25.78!Mafk;;chr7:31206743..31206761,+!p1@Nfkbid!1.07!14.85!Nfkbid;;chrX:137077608..137077619,-!p6@Tsc22d3!1.06!14.06!Tsc22d3;;chr7:148452314..148452329,-!p1@Irf7!1.05!71.10!Irf7;;chr2:173044357..173044377,-!p2@Zbp1!1.05!14.85!Zbp1;;chr15:103085821..103085828,-!p6@Nfe2!1.05!10.16!Nfe2;;chr19:37509324..37509337,+!p1@Hhex!1.04!71.10!Hhex;;chr12:78063146..78063159,-!p2@Max!1.03!25.78!Max;;chr5:77524231..77524245,-!p3@Hopx!1.03!24.22!Hopx;;chr1:186556410..186556424,-!p1@Hlx!1.02!30.47!Hlx;;chr15:25914114..25914128,+!p2@Zfp622!1.00!37.50!Zfp622;;chr5:32438831..32438878,+!p1@Fosl2!0.98!91.42!Fosl2;;chr5:92391970..92391984,+!p5@Thap6!0.98!8.59!Thap6;;chr5:108155037..108155060,-!p2@Gfi1!0.98!8.59!Gfi1;;chr14:98568502..98568516,-!p7@Dach1!0.98!8.59!Dach1;;chr2:91490176..91490193,-!p2@Zfp408!0.97!10.94!Zfp408;;chr14:98568532..98568561,-!p4@Dach1!0.96!12.50!Dach1;;chrX:137077716..137077734,-!p1@Tsc22d3!0.95!58.60!Tsc22d3;;chr10:79389784..79389833,+!p1@Arid3a!0.95!42.97!Arid3a;;chrX:137077653..137077669,-!p3@Tsc22d3!0.95!36.72!Tsc22d3;;chr11:11585678..11585745,+!p5@Ikzf1!0.95!11.72!Ikzf1;;chr7:19895354..19895369,-!p1@Fosb!0.95!10.94!Fosb;;chr14:55331234..55331245,-!p4@Cebpe!0.95!7.81!Cebpe;;chr3:89191054..89191070,-!p5@Zbtb7b!0.95!7.81!Zbtb7b;;chr12:86940338..86940357,+!p1@Jdp2!0.94!78.13!Jdp2;;chr5:145962698..145962742,-!p1@Zkscan14!0.94!36.72!Zkscan14;;chr2:120996813..120996829,-!p2@Zscan29!0.94!13.28!Zscan29;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.92!11.72!Ncoa4;;chr12:56593574..56593592,-!p1@Nfkbia!0.91!385.20!Nfkbia;;chr14:56223010..56223067,+!p1@Irf9!0.90!57.82!Irf9;;chr1:87497610..87497645,+!p1@Gm2427,p1@Sp140!0.90!7.03!Sp140;;chr18:3337249..3337274,-!p17@Crem!0.90!7.03!Crem;;chr1:92949999..92950097,+!p1@Lrrfip1!0.89!185.96!Lrrfip1;;chr1:36364590..36364608,+!p1@Arid5a!0.89!72.66!Arid5a;;chr5:32438894..32438908,+!p2@Fosl2!0.87!14.06!Fosl2;;chrX:137077636..137077647,-!p7@Tsc22d3!0.87!7.81!Tsc22d3;;chr19:5447886..5447905,+!p1@Fosl1!0.86!6.25!Fosl1;;chr5:77524250..77524300,-!p1@Hopx!0.85!130.48!Hopx;;chr8:125778192..125778217,+!p2@Zfp276!0.85!17.97!Zfp276;;chr11:98821937..98821987,+!p4@Rara!0.85!14.06!Rara;;chr7:20408047..20408125,-!p1@Bcl3!0.84!72.66!Bcl3;;chr14:79915502..79915514,+!p4@Elf1!0.84!9.38!Elf1;;chr12:113916993..113917009,+!p2@Zbtb42!0.83!10.16!Zbtb42;;chr1:52176315..52176343,+!p1@Stat1!0.82!86.73!Stat1;;chr7:31208285..31208312,+!p3@Nfkbid!0.82!6.25!Nfkbid;;chr16:95680889..95680991,-!p1@Erg!0.81!47.66!Erg;;chr16:92826232..92826245,-!p4@Runx1!0.81!5.47!Runx1;;chr7:56137011..56137041,-!p2@E2f8!0.80!10.94!E2f8;;chr4:135728581..135728668,+!p1@E2f2!0.79!26.57!E2f2;;chr10:80870405..80870428,-!p4@Nfic!0.79!14.85!Nfic;;chr13:37870307..37870337,+!p5@Rreb1!0.79!12.50!Rreb1;;chr3:135354349..135354371,-!p6@Nfkb1!0.78!10.94!Nfkb1;;chr5:138187195..138187255,+!p1@Tsc22d4!0.77!226.59!Tsc22d4;;chr11:23670953..23671028,-!p1@Rel!0.76!29.69!Rel;;chr2:126501847..126501876,-!p5@Gabpb1!0.76!5.47!Gabpb1;;chr11:100800671..100800770,-!p1@Stat3!0.75!164.86!Stat3;;chr12:113917014..113917034,+!p1@Zbtb42!0.75!8.59!Zbtb42;;chr1:87495371..87495397,-!p1@Sp110!0.75!4.69!Sp110;;chr1:52065530..52065548,+!p3@Stat4!0.75!4.69!Stat4;;chr8:123260252..123260264,+!p1@Irf8!0.74!35.16!Irf8;;chr11:53583544..53583559,+!p1@Irf1!0.73!82.82!Irf1;;chr14:79915425..79915501,+!p1@Elf1!0.73!42.97!Elf1;;chr13:55431084..55431137,-!p1@Mxd3!0.73!38.29!Mxd3;;chr7:87170879..87170914,+!p2@Zfp710!0.73!10.94!Zfp710;;chr13:67461490..67461531,-!p1@Zfp595,p1@Zfp953!0.71!18.75!Zfp953;;chr11:98821858..98821907,+!p6@Rara!0.70!7.03!Rara;;chr2:169956656..169956684,-!p1@Zfp217!0.69!29.69!Zfp217;;chr1:74634786..74634804,-!p5@Zfp142!0.69!5.47!Zfp142;;chr1:87546572..87546579,+!p4@Sp100!0.69!3.91!Sp100;;chr12:87027663..87027678,+!p2@Batf!0.69!3.91!Batf;;chr6:29479308..29479325,+!p3@Irf5!0.69!3.91!Irf5;;chr4:134708909..134708939,+!p3@Runx3!0.69!3.91!Runx3;;chr19:53384985..53385042,+!p1@Mxi1!0.68!133.61!Mxi1;;chr16:23988711..23988727,-!p1@Bcl6!0.68!51.57!Bcl6;;chr17:88840082..88840127,+!p1@Foxn2!0.68!30.47!Foxn2;;chr16:3872286..3872315,-!p3@Zfp597!0.68!7.81!Zfp597;;chr18:70727922..70728052,+!p1@Mbd2!0.67!153.14!Mbd2;;chr4:94718861..94718872,-!p2@Jun!0.67!32.03!Jun;;chr10:79390075..79390115,+!p2@Arid3a!0.67!14.06!Arid3a;;chrX:7339829..7339855,+!p3@Tfe3!0.67!10.94!Tfe3;;chr5:22940353..22940372,+!p3@Mll5!0.67!7.81!Mll5;;chr13:53076382..53076393,-!p2@Nfil3!0.67!6.25!Nfil3;;chr3:135354375..135354381,-!p10@Nfkb1!0.67!4.69!Nfkb1;;chr19:26681226..26681299,+!p7@Smarca2!0.66!9.38!Smarca2;;chr13:53076396..53076452,-!p1@Nfil3!0.65!73.45!Nfil3;;chrX:45807329..45807370,-!p1@Elf4!0.65!28.13!Elf4;;chr17:45692676..45692695,+!p2@Nfkbie!0.65!7.81!Nfkbie;;chr2:72817045..72817123,-!p1@Sp3!0.64!127.36!Sp3;;chr11:49016816..49016846,+!p2@Zfp62!0.64!10.94!Zfp62;;chr13:5860749..5860772,+!p2@Klf6!0.63!37.50!Klf6;;chr7:71083729..71083742,-!p4@Klf13!0.63!6.25!Klf13;;chr10:127080031..127080090,+!p1@Stat6!0.62!81.26!Stat6;;chr4:43575544..43575565,+!p2@Creb3!0.62!21.88!Creb3;;chr6:124959131..124959160,+!p4@Zfp384!0.62!10.16!Zfp384;;chr6:16848443..16848459,-!p3@Tfec!0.62!3.13!Tfec;;chr5:108155007..108155034,-!p1@Gfi1!0.62!3.13!Gfi1;;chr11:98822047..98822072,+!p9@Rara!0.62!3.13!Rara;;chr10:77517570..77517581,+!p1@Dnmt3l!0.62!3.13!Dnmt3l;;chr15:103083245..103083260,-!p7@Nfe2!0.62!3.13!Nfe2;;chr2:126501799..126501832,-!p4@Gabpb1!0.62!3.13!Gabpb1;;chr16:92826180..92826191,-!p5@Runx1!0.62!3.13!Runx1;;chr18:80904854..80904919,-!p2@Nfatc1!0.61!43.75!Nfatc1;;chr17:88840054..88840081,+!p2@Foxn2!0.61!31.25!Foxn2;;chr15:76181718..76181729,+!p3@Maf1!0.61!8.59!Maf1;;chr12:25780945..25780961,-!p1@Id2!0.60!614.91!Id2;;chr2:152561980..152561997,+!p1@Id1!0.60!106.26!Id1;;chr14:98568971..98569025,-!p1@Dach1!0.60!27.35!Dach1;;chr4:124805092..124805135,-!p2@Zc3h12a!0.60!14.85!Zc3h12a;;chr8:87225670..87225697,+!p2@Lyl1!0.60!10.16!Lyl1;;chr18:83080278..83080293,+!p5@Zfp516!0.60!7.81!Zfp516;;chrX:48559079..48559108,-!p2@Mbnl3!0.60!7.81!Mbnl3;;chr13:59924433..59924504,-!p1@Zcchc6!0.59!78.13!Zcchc6;;chr17:21625946..21626024,+!p1@Zfp53!0.59!38.29!Zfp53;;chr11:98821749..98821799,+!p2@Rara!0.59!21.88!Rara;;chr10:82226833..82226864,-!p3@Nfyb!0.59!17.97!Nfyb;;chr7:25917492..25917512,-!p1@Pou2f2!0.59!5.47!Pou2f2;;chr8:107694628..107694659,+!p1@Cbfb!0.58!30.47!Cbfb;;chr3:135354289..135354334,-!p3@Nfkb1!0.58!17.19!Nfkb1;;chr18:3337339..3337397,-!p5@Crem!0.58!6.25!Crem;;chr10:88145766..88145770,-!p1@Spic!0.58!3.91!Spic;;chrX:48559029..48559051,-!p7@Mbnl3!0.58!3.91!Mbnl3;;chr7:20162663..20162678,+!p1@Zfp296!0.58!3.91!Zfp296;;chr6:29476741..29476752,+!p4@Irf5!0.58!3.13!Irf5;;chr17:47873985..47874056,+!p1@Tfeb!0.57!27.35!Tfeb;;chr16:23988686..23988693,-!p2@Bcl6!0.57!6.25!Bcl6;;chrX:137077682..137077692,-!p5@Tsc22d3!0.57!4.69!Tsc22d3;;chr18:80904923..80904933,-!p3@Nfatc1!0.57!3.91!Nfatc1;;chr11:100948597..100948637,+!p1@Mlx!0.56!78.13!Mlx;;chr8:72520139..72520157,-!p6@Gatad2a!0.56!12.50!Gatad2a;;chr12:85559762..85559778,-!p5@C130039O16Rik!0.56!4.69!C130039O16Rik;;chr17:51971932..51971958,-!p2@Satb1!0.56!3.91!Satb1;;chr12:72116953..72117050,+!p1@Arid4a!0.55!38.29!Arid4a;;chr8:72663098..72663160,-!p2@LOC100048268,p2@Rfxank!0.55!15.63!Rfxank;;chr14:7988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+|ffid_belonging_in_development=CL:0000355
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 40: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000268
 |is_obsolete=
+|library_id=CNhs12198
+|library_id_phase_based=2:CNhs12198
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;12161
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;12161
+|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%2520donor2%2520%25280127%25203LL%2529.CNhs12198.12161-128H1.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%2520donor2%2520%25280127%25203LL%2529.CNhs12198.12161-128H1.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%2520donor2%2520%25280127%25203LL%2529.CNhs12198.12161-128H1.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%2520donor2%2520%25280127%25203LL%2529.CNhs12198.12161-128H1.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%2520donor2%2520%25280127%25203LL%2529.CNhs12198.12161-128H1.mm9.nobarcode.rdna.fa.gz
 |name=MC1+Gr1+ myeloid-derived suppressor cells cancer, donor2 (0127 3LL)
 |namespace=FANTOM5
@@ Line 45: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12198,LSID976,release010,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.346821001189179,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.558422792324031,0,0,0,0,-0.0380569402921788,-0.209322725495826,-0.221348944226812,0.0958529111042259,-0.984211366477826,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0.615459892883158,0.109040984486684,0,-0.00532372290983685,0,0,0,-0.117852935653321,0.0980421442728005,-0.158091042771083,-0.0770135788839859,0,0,-0.188533191709379,-0.179310411421406,0,0,-0.164906430868337,0.070018536168711,-0.59591488074057,0.171914090241992,0,0,0,0,0,0,-0.234576517650013,-0.723659654005111,-0.269803002231399,0,0,0,0,0
 |rna_box=128
 |rna_catalog_number=
@@ Line 60: / Line 76: @@
 |rna_weight_ug=1.148
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 80: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:12161-128H1;search_select_hide=table117:12161-128H1
 }}

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FF:12161-128H1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:32, 4 June 2020

CNhs12198

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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