FF:12125-128D1: Difference between revisions

Latest revision as of 18:31, 4 June 2020

Name:	common myeloid progenitor CMP, biol_rep2
Species:	Mouse (Mus musculus)
Library ID:	CNhs12203
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	rep2
catalog number	NA
sample type	total RNA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005084

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12203		CAGE		DRX008780		DRR009652

Accession ID Mm9

Library id		BAM		CTSS
CNhs12203		DRZ001077		DRZ002462

Accession ID Mm10

Library id		BAM		CTSS
CNhs12203		DRZ012427		DRZ013812

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

CNhs12203

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.116
1003	-0.175
1004	0
1005	0.163
1006	-0.18
1007	-0.472
1008	0
1009	-0.0572
101	0.234
1010	0
1011	-0.133
1012	0
1013	-0.0822
1014	-0.0874
1015	0.0104
1016	-0.46
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	-0.198
1023	0.914
1024	0.409
1025	-0.0611
1026	0
1027	-0.048
1028	0
1029	-0.176
103	-0.0887
1030	0
1031	-0.889
1032	-0.315
1033	0.204
1034	0
1035	0
1036	0.583
1037	0
1038	-0.519
1039	0.0382
104	0
1040	-0.22
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: CNhs12203

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	2.6399e-7
MA0003.1	MA0003.1	0.987
MA0004.1	MA0004.1	0.079
MA0006.1	MA0006.1	0.889
MA0007.1	MA0007.1	0.566
MA0009.1	MA0009.1	0.951
MA0014.1	MA0014.1	0.884
MA0017.1	MA0017.1	0.227
MA0018.2	MA0018.2	3.5854e-7
MA0019.1	MA0019.1	0.887
MA0024.1	MA0024.1	2.35336e-4
MA0025.1	MA0025.1	0.0221
MA0027.1	MA0027.1	0.602
MA0028.1	MA0028.1	8.39657e-9
MA0029.1	MA0029.1	0.206
MA0030.1	MA0030.1	0.692
MA0031.1	MA0031.1	0.255
MA0035.2	MA0035.2	0.913
MA0038.1	MA0038.1	0.0678
MA0039.2	MA0039.2	0.857
MA0040.1	MA0040.1	0.0209
MA0041.1	MA0041.1	0.654
MA0042.1	MA0042.1	0.797
MA0043.1	MA0043.1	1.14945e-6
MA0046.1	MA0046.1	7.70224e-11
MA0047.2	MA0047.2	0.579
MA0048.1	MA0048.1	0.01
MA0050.1	MA0050.1	1.72402e-4
MA0051.1	MA0051.1	0.00183
MA0052.1	MA0052.1	0.184
MA0055.1	MA0055.1	5.59975e-4
MA0057.1	MA0057.1	0.656
MA0058.1	MA0058.1	0.0285
MA0059.1	MA0059.1	0.00412
MA0060.1	MA0060.1	0.404
MA0061.1	MA0061.1	1.26877e-6
MA0062.2	MA0062.2	2.77349e-19
MA0065.2	MA0065.2	0.0473
MA0066.1	MA0066.1	0.139
MA0067.1	MA0067.1	0.00939
MA0068.1	MA0068.1	0.927
MA0069.1	MA0069.1	0.582
MA0070.1	MA0070.1	0.134
MA0071.1	MA0071.1	0.164
MA0072.1	MA0072.1	0.833
MA0073.1	MA0073.1	0.665
MA0074.1	MA0074.1	0.259
MA0076.1	MA0076.1	4.90704e-10
MA0077.1	MA0077.1	0.954
MA0078.1	MA0078.1	0.326
MA0079.2	MA0079.2	0.092
MA0080.2	MA0080.2	1.90147e-12
MA0081.1	MA0081.1	3.26091e-5
MA0083.1	MA0083.1	0.0356
MA0084.1	MA0084.1	0.169
MA0087.1	MA0087.1	0.457
MA0088.1	MA0088.1	0.248
MA0090.1	MA0090.1	0.0127
MA0091.1	MA0091.1	0.531
MA0092.1	MA0092.1	0.554
MA0093.1	MA0093.1	0.0668
MA0099.2	MA0099.2	3.67506e-15
MA0100.1	MA0100.1	1.6226e-4
MA0101.1	MA0101.1	2.30999e-11
MA0102.2	MA0102.2	1.23121e-4
MA0103.1	MA0103.1	0.338
MA0104.2	MA0104.2	0.0281
MA0105.1	MA0105.1	3.37495e-7
MA0106.1	MA0106.1	0.214
MA0107.1	MA0107.1	2.01382e-10
MA0108.2	MA0108.2	0.55
MA0111.1	MA0111.1	0.894
MA0112.2	MA0112.2	0.0614
MA0113.1	MA0113.1	0.34
MA0114.1	MA0114.1	0.942
MA0115.1	MA0115.1	0.706
MA0116.1	MA0116.1	0.00194
MA0117.1	MA0117.1	0.12
MA0119.1	MA0119.1	0.475
MA0122.1	MA0122.1	0.147
MA0124.1	MA0124.1	0.489
MA0125.1	MA0125.1	0.0696
MA0131.1	MA0131.1	0.0986
MA0135.1	MA0135.1	0.311
MA0136.1	MA0136.1	2.51879e-29
MA0137.2	MA0137.2	6.05948e-4
MA0138.2	MA0138.2	0.00364
MA0139.1	MA0139.1	0.591
MA0140.1	MA0140.1	0.569
MA0141.1	MA0141.1	0.28
MA0142.1	MA0142.1	0.914
MA0143.1	MA0143.1	0.501
MA0144.1	MA0144.1	0.0645
MA0145.1	MA0145.1	0.998
MA0146.1	MA0146.1	0.161
MA0147.1	MA0147.1	0.0185
MA0148.1	MA0148.1	0.968
MA0149.1	MA0149.1	0.0877
MA0150.1	MA0150.1	9.31657e-6
MA0152.1	MA0152.1	0.999
MA0153.1	MA0153.1	0.00271
MA0154.1	MA0154.1	0.251
MA0155.1	MA0155.1	0.724
MA0156.1	MA0156.1	2.11871e-21
MA0157.1	MA0157.1	0.231
MA0159.1	MA0159.1	0.0258
MA0160.1	MA0160.1	0.0381
MA0162.1	MA0162.1	0.348
MA0163.1	MA0163.1	1.62159e-6
MA0164.1	MA0164.1	0.798
MA0258.1	MA0258.1	0.122
MA0259.1	MA0259.1	0.254

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: CNhs12203

Novel motif	Logo	P-value
1	1	0.276
10	10	0.0611
100	100	0.886
101	101	0.958
102	102	0.811
103	103	0.136
104	104	0.569
105	105	0.6
106	106	0.15
107	107	0.634
108	108	0.702
109	109	0.0519
11	11	0.161
110	110	0.105
111	111	0.278
112	112	0.104
113	113	0.623
114	114	0.479
115	115	0.479
116	116	0.597
117	117	3.4265e-4
118	118	0.273
119	119	0.981
12	12	0.656
120	120	0.213
121	121	0.63
122	122	0.501
123	123	0.528
124	124	0.453
125	125	0.447
126	126	0.435
127	127	0.647
128	128	0.481
129	129	0.42
13	13	0.00416
130	130	0.965
131	131	0.624
132	132	0.326
133	133	0.159
134	134	0.518
135	135	0.778
136	136	0.231
137	137	0.0115
138	138	0.305
139	139	0.4
14	14	0.585
140	140	0.91
141	141	0.978
142	142	0.982
143	143	0.0435
144	144	0.872
145	145	0.132
146	146	0.906
147	147	0.768
148	148	0.404
149	149	0.29
15	15	0.0289
150	150	0.651
151	151	0.858
152	152	0.516
153	153	0.619
154	154	0.927
155	155	0.802
156	156	0.223
157	157	0.642
158	158	0.0224
159	159	0.624
160	160	0.751
161	161	0.0617
162	162	0.623
163	163	0.0929
164	164	0.0119
165	165	0.129
166	166	0.166
167	167	0.274
168	168	0.724
169	169	0.0149
17	17	0.458
18	18	0.394
19	19	0.614
2	2	0.153
20	20	0.0181
21	21	0.377
22	22	0.68
23	23	0.367
24	24	0.0355
25	25	0.268
26	26	0.00775
27	27	0.429
28	28	0.723
29	29	0.0149
3	3	0.114
30	30	0.258
31	31	0.722
32	32	0.595
33	33	0.0784
34	34	0.929
35	35	0.35
36	36	0.0309
37	37	0.0642
38	38	0.378
39	39	0.655
4	4	0.727
40	40	0.0683
41	41	0.0152
42	42	0.378
43	43	0.567
44	44	0.387
45	45	0.795
46	46	0.337
47	47	0.756
48	48	0.265
49	49	0.469
5	5	0.563
50	50	0.679
51	51	0.874
52	52	0.427
53	53	0.689
54	54	0.824
55	55	0.57
56	56	0.692
57	57	0.436
58	58	0.178
59	59	0.447
6	6	0.637
60	60	0.389
61	61	0.148
62	62	0.175
63	63	0.9
64	64	0.51
65	65	0.716
66	66	0.263
67	67	0.376
68	68	0.592
69	69	0.562
7	7	0.221
70	70	0.0857
71	71	0.0111
72	72	0.0932
73	73	0.0342
74	74	0.331
75	75	0.0103
76	76	0.13
77	77	0.284
78	78	0.193
79	79	0.734
8	8	0.0593
80	80	0.443
81	81	0.939
82	82	0.425
83	83	0.00824
84	84	0.995
85	85	0.757
86	86	0.22
87	87	0.0276
88	88	0.529
89	89	0.63
9	9	0.913
90	90	0.0321
91	91	0.931
92	92	0.696
93	93	0.0537
94	94	0.449
95	95	0.00154
96	96	0.931
97	97	0.898
98	98	0.268
99	99	0.334

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: CNhs12203

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@SAMD00005084
+|accession_numbers=CAGE;DRX008780;DRR009652;DRZ001077;DRZ002462;DRZ012427;DRZ013812
 |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 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr7:19895354..19895369,-!p1@Fosb!2.25!239.36!Fosb;;chr1:193007123..193007139,-!p1@Atf3!1.93!439.73!Atf3;;chr7:31206743..31206761,+!p1@Nfkbid!1.67!62.39!Nfkbid;;chr2:90936978..90937023,+!p3@Sfpi1!1.64!79.19!Sfpi1;;chr7:19895384..19895399,-!p2@Fosb!1.64!59.39!Fosb;;chr2:90936901..90936945,+!p1@Sfpi1!1.61!201.57!Sfpi1;;chr12:86814833..86814846,+!p1@Fos!1.59!829.07!Fos;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.57!46.19!Zbtb11;;chr2:90936947..90936977,+!p2@Sfpi1!1.50!59.99!Sfpi1;;chr15:101097270..101097290,+!p1@Nr4a1!1.49!291.55!Nr4a1;;chr8:123260252..123260264,+!p1@Irf8!1.47!194.37!Irf8;;chr11:16908650..16908690,-!p1@Plek!1.43!154.77!Plek;;chr1:38721792..38721845,-!p1@Aff3!1.43!31.79!Aff3;;chr4:124805061..124805087,-!p1@Zc3h12a!1.40!72.59!Zc3h12a;;chr5:92391466..92391471,+!p2@Thap6!1.40!34.79!Thap6;;chr8:87502608..87502623,-!p1@Junb!1.38!362.34!Junb;;chr16:92826249..92826325,-!p1@Runx1!1.35!52.19!Runx1;;chr11:11586218..11586285,+!p1@Ikzf1!1.32!62.39!Ikzf1;;chr10:20880731..20880775,-!p2@Myb!1.32!41.39!Myb;;chr8:74842952..74842970,+!p1@Klf2!1.28!1180.01!Klf2;;chr16:55838757..55838774,-!p2@Nfkbiz!1.27!21.00!Nfkbiz;;chr10:20880629..20880683,-!p1@Myb!1.26!48.59!Myb;;chr2:90922554..90922575,+!p4@Sfpi1!1.25!30.00!Sfpi1;;chr15:103085802..103085817,-!p4@Nfe2!1.24!20.40!Nfe2;;chr8:87225329..87225396,+!p1@Lyl1!1.22!58.79!Lyl1;;chr4:134708451..134708469,+!p1@Runx3!1.22!27.60!Runx3;;chr6:16848347..16848391,-!p1@Tfec!1.17!18.00!Tfec;;chr12:56593574..56593592,-!p1@Nfkbia!1.13!635.90!Nfkbia;;chr14:79915502..79915514,+!p4@Elf1!1.12!18.60!Elf1;;chr19:5447692..5447711,+!p2@Fosl1!1.11!12.00!Fosl1;;chr10:20880698..20880717,-!p3@Myb!1.09!18.00!Myb;;chr14:79915521..79915539,+!p5@Elf1!1.09!13.80!Elf1;;chr10:126727842..126727859,+!p1@Ddit3!1.07!313.15!Ddit3;;chr14:79915425..79915501,+!p1@Elf1!1.05!92.39!Elf1;;chr5:140267510..140267555,+!p2@Mafk!1.05!24.60!Mafk;;chr16:55822241..55822258,-!p1@Nfkbiz!1.04!314.95!Nfkbiz;;chr17:27693922..27693934,+!p10@Hmga1-rs1,p11@Hmga1!1.04!13.20!Hmga1;;chr19:46379199..46379301,+!p1@Nfkb2!1.02!55.19!Nfkb2;;chr13:5860776..5860796,+!p1@Klf6!1.00!218.96!Klf6;;chr19:37509324..37509337,+!p1@Hhex!1.00!64.79!Hhex;;chr8:87225670..87225697,+!p2@Lyl1!1.00!27.00!Lyl1;;chr11:23670750..23670789,-!p2@Rel!1.00!17.40!Rel;;chr7:19895546..19895577,-!p3@Fosb!1.00!9.00!Fosb;;chr3:135271185..135271254,-!p4@Nfkb1!0.99!16.20!Nfkb1;;chr15:79177964..79177986,+!p1@Maff!0.98!30.00!Maff;;chr13:59923965..59924003,-!p2@Zcchc6!0.98!10.20!Zcchc6;;chr13:5860872..5860883,+!p3@Klf6!0.97!16.80!Klf6;;chr1:52065454..52065495,+!p1@Stat4!0.95!13.20!Stat4;;chr11:53583544..53583559,+!p1@Irf1!0.94!134.38!Irf1;;chr17:27693887..27693908,+!p2@Hmga1-rs1,p2@Hmga1!0.94!57.59!Hmga1;;chrX:137077653..137077669,-!p3@Tsc22d3!0.93!34.79!Tsc22d3;;chr17:45692676..45692695,+!p2@Nfkbie!0.93!15.60!Nfkbie;;chr4:94718861..94718872,-!p2@Jun!0.91!56.39!Jun;;chr2:90922519..90922544,+!p6@Sfpi1!0.90!7.80!Sfpi1;;chr7:29551464..29551487,-!p2@Nfkbib!0.89!27.00!Nfkbib;;chr7:20162663..20162678,+!p1@Zfp296!0.89!9.00!Zfp296;;chr15:80085920..80085941,+!p1@Atf4!0.88!789.47!Atf4;;chr15:25914114..25914128,+!p2@Zfp622!0.88!28.20!Zfp622;;chr8:87225702..87225726,+!p3@Lyl1!0.88!13.80!Lyl1;;chr6:16848395..16848416,-!p2@Tfec!0.88!7.80!Tfec;;chr19:5447886..5447905,+!p1@Fosl1!0.88!6.60!Fosl1;;chr7:133839456..133839523,+!p1@Bola2!0.87!332.35!Bola2;;chr11:100683839..100683890,-!p2@Stat5b!0.87!15.60!Stat5b;;chr4:94718879..94718898,-!p1@Jun!0.86!474.52!Jun;;chr11:23670953..23671028,-!p1@Rel!0.86!37.79!Rel;;chr6:52176164..52176195,-!p1@Hoxa9!0.86!7.80!Hoxa9;;chr4:55545337..55545357,-!p1@Klf4!0.83!91.79!Klf4;;chr13:64254457..64254497,-!p1@Zfp367!0.83!27.60!Zfp367;;chr1:36364590..36364608,+!p1@Arid5a!0.82!60.59!Arid5a;;chr16:3744162..3744180,+!p2@Zfp263!0.82!16.20!Zfp263;;chr18:75527210..75527215,+!p4@Smad7!0.81!9.60!Smad7;;chr6:108610428..108610440,+!p4@Bhlhe40!0.81!7.80!Bhlhe40;;chr6:52176144..52176161,-!p2@Hoxa9!0.81!5.40!Hoxa9;;chr16:92826232..92826245,-!p4@Runx1!0.81!5.40!Runx1;;chr19:12871064..12871095,-!p2@Zfp91!0.81!5.40!Zfp91;;chr6:99216488..99216534,-!p2@Foxp1!0.80!16.20!Foxp1;;chr15:79178060..79178074,+!p2@Maff!0.80!7.20!Maff;;chr4:133801453..133801492,-!p1@Zfp593!0.79!46.79!Zfp593;;chr9:32348943..32349001,-!p1@Fli1!0.79!45.59!Fli1;;chr19:5637528..5637548,+!p2@Rela!0.78!32.39!Rela;;chr10:13685585..13685645,+!p2@Hivep2!0.78!18.60!Hivep2;;chr4:133801432..133801448,-!p3@Zfp593!0.77!7.80!Zfp593;;chr15:103085821..103085828,-!p6@Nfe2!0.76!4.80!Nfe2;;chr6:29479277..29479296,+!p2@Irf5!0.76!4.80!Irf5;;chr8:73222425..73222444,+!p2@Jund!0.76!4.80!Jund;;chr7:19895122..19895142,-!p4@Fosb!0.76!4.80!Fosb;;chr7:20214704..20214800,-!p1@Relb!0.74!16.20!Relb;;chr11:80196900..80196917,+!p3@Zfp207!0.74!16.20!Zfp207;;chr6:133986042..133986052,+!p7@Etv6!0.74!6.00!Etv6;;chr13:83663902..83663927,+!p1@Mef2c!0.73!117.58!Mef2c;;chr12:87027598..87027652,+!p1@Batf!0.73!10.80!Batf;;chrX:48559079..48559108,-!p2@Mbnl3!0.73!10.80!Mbnl3;;chr15:25914217..25914232,+!p3@Zfp622!0.73!9.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182499141,+!p2@Parp1!0.06!17.40!Parp1;;chr17:35653725..35653780,-!p1@Tcf19!0.06!16.80!Tcf19;;chr2:33324013..33324092,-!p1@Zbtb43!0.06!13.20!Zbtb43;;chr9:30838206..30838285,+!p2@Zbtb44!0.06!12.60!Zbtb44;;chr14:79880971..79880992,+!p2@Elf1!0.06!12.60!Elf1;;chr11:115891618..115891699,+!p1@Unk!0.06!12.00!Unk;;chr16:87699237..87699279,+!p1@Bach1!0.06!10.20!Bach1;;chr17:47873985..47874056,+!p1@Tfeb!0.06!7.80!Tfeb;;chr5:146041333..146041379,+!p@chr5:146041333..146041379,+!0.06!7.20!Zfp498;;chr5:34163023..34163090,+!p2@Whsc1!0.06!6.00!Whsc1;;chr18:24178808..24178865,-!p2@Zfp191!0.06!4.80!Zfp191;;chr2:181022721..181022746,-!p2@Gmeb2!0.06!4.80!Gmeb2;;chr2:164737060..164737083,-!p1@Zfp335!0.06!4.20!Zfp335;;chr11:99092233..99092273,-!p2@Smarce1!0.06!4.20!Smarce1;;chr9:69137672..69137702,+!p2@Rora!0.06!3.60!Rora;;chr5:138186979..138187025,+!p4@Tsc22d4!0.06!3.00!Tsc22d4;;chr9:21420610..21420621,+!p5@Smarca4!0.06!2.40!Smarca4;;chr17:56970339..56970428,-!p1@Rfx2!0.06!2.40!Rfx2;;chr4:151401710..151401733,-!p2@Zbtb48!0.06!2.40!Zbtb48;;chr7:35841581..35841605,-!p2@Cebpg!0.06!1.80!Cebpg;;chr5:34530277..34530292,-!p3@Mxd4!0.06!1.80!Mxd4;;chr17:31701800..31701818,+!p2@Pknox1!0.06!1.80!Pknox1;;chr2:168032375..168032388,-!p4@Adnp!0.06!1.80!Adnp;;chr13:96095124..96095144,+!p3@Zbed3!0.06!1.20!Zbed3;;chr18:60720468..60720472,+!p2@Rbm22!0.06!1.20!Rbm22;;chr18:69753108..69753139,+!p8@Tcf4!0.06!1.20!Tcf4;;chr6:47545052..47545064,-!p2@Ezh2!0.06!1.20!Ezh2;;chr11:3190303..3190351,+!p3@Patz1!0.06!1.20!Patz1;;chr11:96180045..96180059,+!p1@Hoxb4!0.06!0.60!Hoxb4;;chr7:25292310..25292329,+!p5@Zfp428!0.06!0.60!Zfp428;;chr7:51787434..51787448,-!p1@Spib!0.06!0.60!Spib;;chr7:87171081..87171101,+!p6@Zfp710!0.06!0.60!Zfp710;;chr4:63071739..63071760,-!p5@Akna!0.06!0.60!Akna;;chr6:92041506..92041517,+!p5@Nr2c2!0.06!0.60!Nr2c2;;chr6:53523332..53523343,+!p2@Creb5!0.06!0.60!Creb5;;chr14:52640355..52640369,-!p9@Zfp219!0.06!0.60!Zfp219;;chr17:46693053..46693064,-!p4@Srf!0.06!0.60!Srf;;chr17:79336371..79336414,-!p1@Cebpz!0.05!48.59!Cebpz;;chr4:117354838..117354884,-!p1@Dmap1!0.05!13.80!Dmap1;;chr7:48888915..48888973,+!p1@Zfp788!0.05!12.00!Zfp788;;chr10:79862223..79862261,-!p4@Mbd3!0.05!9.00!Mbd3;;chr14:56223010..56223067,+!p1@Irf9!0.05!7.20!Irf9;;chr5:139060892..139060911,-!p2@Zfp68!0.05!4.20!Zfp68;;chr7:134169810..134169824,-!p7@Maz!0.05!3.00!Maz;;chr7:46773114..46773155,+!p1@Zfp619!0.05!3.00!Zfp619;;chr11:62272010..62272050,-!p2@Ncor1!0.05!2.40!Ncor1;;chr10:127984472..127984504,-!p2@Zc3h10!0.05!2.40!Zc3h10;;chr10:41995430..41995458,-!p3@Foxo3!0.05!1.80!Foxo3;;chr5:138187181..138187192,+!p5@Tsc22d4!0.05!1.80!Tsc22d4;;chr8:124900562..124900573,+!p3@Zc3h18!0.05!1.80!Zc3h18;;chr18:74427866..74427881,+!p3@Mbd1!0.05!1.80!Mbd1;;chr12:78063146..78063159,-!p2@Max!0.05!1.80!Max;;chr19:26681721..26681746,+!p9@Smarca2!0.05!1.20!Smarca2;;chr5:143942477..143942493,-!p2@Rbak!0.05!1.20!Rbak;;chr5:130175978..130175990,-!p2@Zfp11!0.05!0.60!Zfp11;;chr5:144951153..144951203,+!p1@Bhlha15!0.05!0.60!Bhlha15;;chr6:115311270..115311298,+!p1@Pparg!0.05!0.60!Pparg;;chr11:120494908..120494919,-!p4@Mafg!0.05!0.60!Mafg;;chr10:127080091..127080100,+!p4@Stat6!0.05!0.60!Stat6;;chr10:44178474..44178487,-!p4@Prdm1!0.05!0.60!Prdm1;;chr2:156666727..156666753,+!p2@Tgif2!0.05!0.60!Tgif2;;chr7:51809271..51809325,-!p1@Nr1h2!0.04!55.79!Nr1h2;;chr9:110034519..110034606,+!p1@Smarcc1!0.04!42.59!Smarcc1;;chr8:108378986..108379049,+!p1@Thap11!0.04!22.80!Thap11;;chr1:162836503..162836591,+!p1@Rc3h1!0.04!16.80!Rc3h1;;chr15:100058266..100058287,+!p1@Atf1!0.04!15.00!Atf1;;chr11:18918959..18918976,-!p2@Meis1!0.04!12.60!Meis1;;chr11:18918917..18918944,-!p1@Meis1!0.04!12.00!Meis1;;chr3:100773567..100773599,-!p1@Ttf2!0.04!10.20!Ttf2;;chr15:96117968..96118035,+!p1@Arid2!0.04!8.40!Arid2;;chr10:114821444..114821491,-!p1@Thap2!0.04!7.20!Thap2;;chr14:19071466..19071550,-!p1@Nr1d2!0.04!6.00!Nr1d2;;
@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000041;;FF:0000103
 |is_obsolete=
+|library_id=CNhs12203
+|library_id_phase_based=2:CNhs12203
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;12125
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;12125
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep2.CNhs12203.12125-128D1.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_rep2.CNhs12203.12125-128D1.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_rep2.CNhs12203.12125-128D1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep2.CNhs12203.12125-128D1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/common%2520myeloid%2520progenitor%2520CMP%252c%2520biol_rep2.CNhs12203.12125-128D1.mm9.nobarcode.rdna.fa.gz
 |name=common myeloid progenitor CMP, biol_rep2
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12203,LSID976,release010,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.554163838987345,0,0,0,0,-0.0843392403965415,0,0,0,0,0.357973236902877,0,0.0122002288502694,0,0.102046789866422,0,0,0,0,0,0,0,0,0,0,0,-0.216038516284232,0,0,0,0,-0.0670132089181356,-0.0381305874759262,-0.234412337159702,-0.519528012875991,-0.984211366477826,-0.0657750582775072,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,-0.0286497755843647,0,0,-0.0505333231410966,-0.141178988327849,0.136462110866177,-0.158091042771083,-0.0386408934008709,0,-0.0780086007519514,-0.188217720531627,-0.286703494995991,0.447112768205563,0,-0.161584336179705,-0.29302884253867,-0.59591488074057,-0.0788315948399074,0,0,0,0,0,0,-0.304797380326681,-1.82269730270068,-0.269803002231399,0,0,0,0,0
 |rna_box=128
 |rna_catalog_number=
@@ Line 61: / Line 76: @@
 |rna_weight_ug=2.29196
 |sample_age=9-10weeks
+|sample_category=primary cells
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 81: / Line 97: @@
 |top_motifs=NFE2:2.9661891662;FOXP3:2.68332478357;NFKB1_REL_RELA:2.48021982531;ATF4:2.45898947854;YY1:2.14777868083;PAX8:2.05487159799;RUNX1..3:1.97845664493;BACH2:1.96491834458;CREB1:1.9476411524;ELK1,4_GABP{A,B1}:1.92139453861;SPI1:1.91918965186;FOS_FOS{B,L1}_JUN{B,D}:1.86625839879;SPIB:1.80827050865;ELF1,2,4:1.75782269039;ATF5_CREB3:1.75249744162;bHLH_family:1.72235479528;E2F1..5:1.69756385079;PAX2:1.59566028835;MYB:1.55842308369;DMAP1_NCOR{1,2}_SMARC:1.53644028992;ETS1,2:1.51838987944;CEBPA,B_DDIT3:1.18603701857;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.17518440253;HMX1:1.15415211233;FOX{I1,J2}:0.991300228284;BPTF:0.963155844788;POU2F1..3:0.92154382653;HES1:0.874679185266;ALX4:0.857028073889;HLF:0.717742813964;STAT1,3:0.697277252171;NFY{A,B,C}:0.637924105928;NFIL3:0.636735856144;ALX1:0.56554743588;PPARG:0.564727427668;RXR{A,B,G}:0.54316696894;NFE2L1:0.524950235202;FOSL2:0.508978372618;HSF1,2:0.496297777349;IRF1,2:0.494499634557;ATF2:0.486323488916;ZBTB16:0.45379676819;NANOG{mouse}:0.44102580536;FOXL1:0.411430320962;TLX2:0.37211857655;AIRE:0.363679065858;NANOG:0.333464788944;STAT2,4,6:0.322972352244;TP53:0.30365469255;NR5A1,2:0.29248345989;NFATC1..3:0.288816764007;JUN:0.275546965002;AR:0.272620950404;SOX17:0.224927486556;SPZ1:0.193908573025;POU5F1:0.182413074503;NKX6-1,2:0.154751846158;NKX2-2,8:0.148902317658;PBX1:0.126023195613;STAT5{A,B}:0.125137116151;FOXQ1:0.0734090938454;ZNF384:0.0140863191505;IRF7:0.0089799944667;TBP:0.00537878529039;GFI1:-0.060132385848;NR6A1:-0.0812274855223;AHR_ARNT_ARNT2:-0.102289526472;FOXO1,3,4:-0.1145369459;RORA:-0.134439665577;PAX6:-0.159392662764;GATA6:-0.159678487501;ESRRA:-0.167111022217;ATF6:-0.169141255373;MEF2{A,B,C,D}:-0.184480245161;NRF1:-0.210792495477;RFX2..5_RFXANK_RFXAP:-0.228627088922;FOX{D1,D2}:-0.2522777641;SOX2:-0.267719659051;RFX1:-0.275811534424;TEF:-0.292026624781;NFE2L2:-0.297964250835;ZNF143:-0.300129793754;FOXN1:-0.303612827102;SREBF1,2:-0.349224082255;IKZF2:-0.354929477991;CRX:-0.368551370913;TFDP1:-0.370056754978;NKX3-1:-0.379989605903;PAX1,9:-0.433174778108;SRF:-0.433999726251;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.449804344207;BREu{core}:-0.460793551548;SOX{8,9,10}:-0.463985841778;EP300:-0.508283918152;DBP:-0.509399245518;RXRA_VDR{dimer}:-0.509882243589;PRRX1,2:-0.510296036948;FOX{F1,F2,J1}:-0.545586304665;NR1H4:-0.552264556198;HOX{A4,D4}:-0.562980450933;HNF4A_NR2F1,2:-0.5727650234;ARID5B:-0.576730288436;OCT4_SOX2{dimer}:-0.582901425112;PITX1..3:-0.590037895633;CDC5L:-0.599641444922;ZIC1..3:-0.602560006007;FOXD3:-0.6040202408;ONECUT1,2:-0.610280671161;NKX2-3_NKX2-5:-0.613323819188;LMO2:-0.639142673974;HNF1A:-0.654361389069;EN1,2:-0.667243122396;POU1F1:-0.668277383656;NFIX:-0.687870880796;PAX5:-0.687953274542;CUX2:-0.712537602129;ZNF148:-0.715736142566;VSX1,2:-0.721411966018;FOXA2:-0.728918088697;MTF1:-0.734957210191;ESR1:-0.735601024783;GATA4:-0.754859417871;ZBTB6:-0.769323568387;PRDM1:-0.78468511218;NR3C1:-0.785772019748;MYOD1:-0.805044808788;LEF1_TCF7_TCF7L1,2:-0.841505481186;ZEB1:-0.847544188458;HIF1A:-0.902237705193;REST:-0.909568606603;TBX4,5:-0.91633580419;NHLH1,2:-0.922732059359;EGR1..3:-0.935996480505;ZNF423:-0.95446019272;PAX4:-0.967141757102;PDX1:-0.967686064499;ZFP161:-1.01505831189;TGIF1:-1.02019211601;ADNP_IRX_SIX_ZHX:-1.02820032421;HBP1_HMGB_SSRP1_UBTF:-1.0352934719;MAFB:-1.06439156152;EBF1:-1.07947544997;UFEwm:-1.09978747434;ZNF238:-1.10437824081;POU3F1..4:-1.1137404359;SOX5:-1.12149058661;GZF1:-1.13849146086;NKX2-1,4:-1.14776498165;CDX1,2,4:-1.19769560986;FOXP1:-1.20482580504;SNAI1..3:-1.21665142132;POU6F1:-1.23504478381;GLI1..3:-1.23521566535;TFCP2:-1.23648862523;GCM1,2:-1.25570016523;MED-1{core}:-1.26983610641;T:-1.27908766757;MZF1:-1.35543920344;LHX3,4:-1.36911549817;RBPJ:-1.3716517794;MYFfamily:-1.3853621492;TFAP2{A,C}:-1.43579965139;MYBL2:-1.44007169881;HOX{A5,B5}:-1.45113763291;GTF2A1,2:-1.47443034779;TEAD1:-1.4809483907;TAL1_TCF{3,4,12}:-1.48891951081;MTE{core}:-1.53935822238;KLF4:-1.5508875324;GFI1B:-1.5747525116;TFAP2B:-1.59081704071;RREB1:-1.60419585199;TOPORS:-1.6069688664;TFAP4:-1.60973231369;SMAD1..7,9:-1.62145458302;TLX1..3_NFIC{dimer}:-1.63189516992;HAND1,2:-1.64966980509;XCPE1{core}:-1.6894444903;HIC1:-1.73366603297;GTF2I:-1.73494547215;EVI1:-1.77252294363;SP1:-1.79117596006;IKZF1:-1.83076064235;PATZ1:-1.95403747025;MAZ:-1.97227972869;FOXM1:-2.14677817952;NKX3-2:-2.21950011541;HMGA1,2:-2.26180261246;HOXA9_MEIS1:-2.29940422114
 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:12125-128D1;search_select_hide=table117:12125-128D1
 }}

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FF:12125-128D1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:31, 4 June 2020

CNhs12203

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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