FF:12126-128D2: Difference between revisions

Latest revision as of 18:31, 4 June 2020

Name:	granulocyte macrophage progenitor GMP, biol_rep2
Species:	Mouse (Mus musculus)
Library ID:	CNhs12202
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	rep2
catalog number	NA
sample type	total RNA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00004987

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12202		CAGE		DRX008783		DRR009655

Accession ID Mm9

Library id		BAM		CTSS
CNhs12202		DRZ001080		DRZ002465

Accession ID Mm10

Library id		BAM		CTSS
CNhs12202		DRZ012430		DRZ013815

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

CNhs12202

0	0
1	0
10	0
100	0
1000	0
1001	-0.0749
1002	-0.116
1003	-0.123
1004	0
1005	0.18
1006	-0.162
1007	-0.307
1008	0
1009	-0.19
101	0.282
1010	0
1011	-0.108
1012	0
1013	0.0479
1014	-0.0874
1015	-0.0147
1016	-0.484
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	-0.124
1023	0.824
1024	0.358
1025	-0.0611
1026	0
1027	-0.048
1028	0
1029	-0.176
103	-0.0887
1030	0
1031	-0.956
1032	-0.556
1033	0.0886
1034	0
1035	0
1036	0.343
1037	0
1038	-0.354
1039	0.00502
104	0
1040	-0.343
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: CNhs12202

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	7.5987e-6
MA0003.1	MA0003.1	0.993
MA0004.1	MA0004.1	0.0424
MA0006.1	MA0006.1	0.939
MA0007.1	MA0007.1	0.719
MA0009.1	MA0009.1	0.746
MA0014.1	MA0014.1	0.978
MA0017.1	MA0017.1	0.109
MA0018.2	MA0018.2	4.37527e-4
MA0019.1	MA0019.1	0.705
MA0024.1	MA0024.1	0.00149
MA0025.1	MA0025.1	0.0478
MA0027.1	MA0027.1	0.488
MA0028.1	MA0028.1	3.83408e-8
MA0029.1	MA0029.1	0.267
MA0030.1	MA0030.1	0.405
MA0031.1	MA0031.1	0.626
MA0035.2	MA0035.2	0.887
MA0038.1	MA0038.1	0.0336
MA0039.2	MA0039.2	0.788
MA0040.1	MA0040.1	0.115
MA0041.1	MA0041.1	0.566
MA0042.1	MA0042.1	0.91
MA0043.1	MA0043.1	7.30284e-7
MA0046.1	MA0046.1	1.55133e-10
MA0047.2	MA0047.2	0.822
MA0048.1	MA0048.1	0.0178
MA0050.1	MA0050.1	2.49745e-4
MA0051.1	MA0051.1	0.00404
MA0052.1	MA0052.1	0.197
MA0055.1	MA0055.1	0.0016
MA0057.1	MA0057.1	0.678
MA0058.1	MA0058.1	0.0152
MA0059.1	MA0059.1	0.00206
MA0060.1	MA0060.1	0.552
MA0061.1	MA0061.1	2.16211e-4
MA0062.2	MA0062.2	2.47989e-17
MA0065.2	MA0065.2	0.063
MA0066.1	MA0066.1	0.223
MA0067.1	MA0067.1	0.0257
MA0068.1	MA0068.1	0.936
MA0069.1	MA0069.1	0.526
MA0070.1	MA0070.1	0.0987
MA0071.1	MA0071.1	0.156
MA0072.1	MA0072.1	0.726
MA0073.1	MA0073.1	0.632
MA0074.1	MA0074.1	0.16
MA0076.1	MA0076.1	1.75614e-9
MA0077.1	MA0077.1	0.706
MA0078.1	MA0078.1	0.533
MA0079.2	MA0079.2	0.0898
MA0080.2	MA0080.2	2.42269e-12
MA0081.1	MA0081.1	9.0918e-5
MA0083.1	MA0083.1	0.00555
MA0084.1	MA0084.1	0.727
MA0087.1	MA0087.1	0.933
MA0088.1	MA0088.1	0.119
MA0090.1	MA0090.1	0.0249
MA0091.1	MA0091.1	0.851
MA0092.1	MA0092.1	0.694
MA0093.1	MA0093.1	0.0352
MA0099.2	MA0099.2	4.58458e-11
MA0100.1	MA0100.1	8.63912e-5
MA0101.1	MA0101.1	8.77923e-8
MA0102.2	MA0102.2	5.30246e-6
MA0103.1	MA0103.1	0.483
MA0104.2	MA0104.2	0.0213
MA0105.1	MA0105.1	6.86915e-6
MA0106.1	MA0106.1	0.188
MA0107.1	MA0107.1	9.5441e-7
MA0108.2	MA0108.2	0.31
MA0111.1	MA0111.1	0.896
MA0112.2	MA0112.2	0.0422
MA0113.1	MA0113.1	0.447
MA0114.1	MA0114.1	0.722
MA0115.1	MA0115.1	0.486
MA0116.1	MA0116.1	0.00123
MA0117.1	MA0117.1	0.338
MA0119.1	MA0119.1	0.638
MA0122.1	MA0122.1	0.233
MA0124.1	MA0124.1	0.429
MA0125.1	MA0125.1	0.103
MA0131.1	MA0131.1	0.163
MA0135.1	MA0135.1	0.384
MA0136.1	MA0136.1	5.46861e-28
MA0137.2	MA0137.2	5.93632e-4
MA0138.2	MA0138.2	0.00677
MA0139.1	MA0139.1	0.295
MA0140.1	MA0140.1	0.374
MA0141.1	MA0141.1	0.151
MA0142.1	MA0142.1	0.766
MA0143.1	MA0143.1	0.392
MA0144.1	MA0144.1	0.0766
MA0145.1	MA0145.1	0.926
MA0146.1	MA0146.1	0.193
MA0147.1	MA0147.1	0.0124
MA0148.1	MA0148.1	0.922
MA0149.1	MA0149.1	0.0715
MA0150.1	MA0150.1	2.90256e-5
MA0152.1	MA0152.1	0.973
MA0153.1	MA0153.1	0.00294
MA0154.1	MA0154.1	0.175
MA0155.1	MA0155.1	0.757
MA0156.1	MA0156.1	7.60856e-20
MA0157.1	MA0157.1	0.432
MA0159.1	MA0159.1	0.00988
MA0160.1	MA0160.1	0.0457
MA0162.1	MA0162.1	0.286
MA0163.1	MA0163.1	2.88525e-6
MA0164.1	MA0164.1	0.827
MA0258.1	MA0258.1	0.109
MA0259.1	MA0259.1	0.147

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: CNhs12202

Novel motif	Logo	P-value
1	1	0.247
10	10	0.0409
100	100	0.806
101	101	0.816
102	102	0.623
103	103	0.0674
104	104	0.791
105	105	0.624
106	106	0.286
107	107	0.8
108	108	0.761
109	109	0.0238
11	11	0.151
110	110	0.0814
111	111	0.296
112	112	0.109
113	113	0.536
114	114	0.723
115	115	0.672
116	116	0.413
117	117	3.18966e-4
118	118	0.266
119	119	0.751
12	12	0.85
120	120	0.129
121	121	0.434
122	122	0.614
123	123	0.366
124	124	0.243
125	125	0.386
126	126	0.392
127	127	0.357
128	128	0.42
129	129	0.428
13	13	0.00256
130	130	0.84
131	131	0.284
132	132	0.57
133	133	0.543
134	134	0.753
135	135	0.506
136	136	0.265
137	137	0.0239
138	138	0.35
139	139	0.17
14	14	0.555
140	140	0.719
141	141	0.945
142	142	0.968
143	143	0.111
144	144	0.66
145	145	0.086
146	146	0.905
147	147	0.826
148	148	0.431
149	149	0.265
15	15	0.0305
150	150	0.678
151	151	0.8
152	152	0.717
153	153	0.694
154	154	0.929
155	155	0.763
156	156	0.272
157	157	0.735
158	158	0.0448
159	159	0.679
160	160	0.691
161	161	0.207
162	162	0.328
163	163	0.408
164	164	0.00425
165	165	0.138
166	166	0.493
167	167	0.344
168	168	0.6
169	169	0.0202
17	17	0.417
18	18	0.306
19	19	0.798
2	2	0.169
20	20	0.0202
21	21	0.297
22	22	0.781
23	23	0.359
24	24	0.0458
25	25	0.216
26	26	0.00393
27	27	0.551
28	28	0.797
29	29	0.00536
3	3	0.12
30	30	0.25
31	31	0.82
32	32	0.626
33	33	0.0696
34	34	0.85
35	35	0.506
36	36	0.0292
37	37	0.0432
38	38	0.379
39	39	0.73
4	4	0.955
40	40	0.0794
41	41	0.0141
42	42	0.381
43	43	0.456
44	44	0.434
45	45	0.842
46	46	0.252
47	47	0.562
48	48	0.213
49	49	0.379
5	5	0.416
50	50	0.702
51	51	0.948
52	52	0.419
53	53	0.582
54	54	0.889
55	55	0.509
56	56	0.764
57	57	0.447
58	58	0.2
59	59	0.452
6	6	0.81
60	60	0.47
61	61	0.154
62	62	0.128
63	63	0.911
64	64	0.575
65	65	0.556
66	66	0.236
67	67	0.222
68	68	0.64
69	69	0.676
7	7	0.121
70	70	0.0284
71	71	0.00731
72	72	0.103
73	73	0.0499
74	74	0.332
75	75	0.00731
76	76	0.0904
77	77	0.487
78	78	0.0685
79	79	0.451
8	8	0.0368
80	80	0.611
81	81	0.844
82	82	0.827
83	83	0.0132
84	84	0.963
85	85	0.827
86	86	0.286
87	87	0.035
88	88	0.556
89	89	0.463
9	9	0.936
90	90	0.0139
91	91	0.927
92	92	0.7
93	93	0.0302
94	94	0.303
95	95	0.00175
96	96	0.964
97	97	0.924
98	98	0.295
99	99	0.371

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: CNhs12202

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@SAMD00004987
-|accession_numbers=CAGE;DRX008783;DRR009655;DRZ001080;DRZ002465
+|accession_numbers=CAGE;DRX008783;DRR009655;DRZ001080;DRZ002465;DRZ012430;DRZ013815
 |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!2.25!236.76!Fosb;;chr2:90936978..90937023,+!p3@Sfpi1!1.62!74.89!Sfpi1;;chr1:193007123..193007139,-!p1@Atf3!1.60!208.45!Atf3;;chr7:19895384..19895399,-!p2@Fosb!1.60!54.04!Fosb;;chr2:90936901..90936945,+!p1@Sfpi1!1.58!187.86!Sfpi1;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.54!42.98!Zbtb11;;chr12:86814833..86814846,+!p1@Fos!1.49!660.61!Fos;;chr2:90936947..90936977,+!p2@Sfpi1!1.48!56.62!Sfpi1;;chr6:16848347..16848391,-!p1@Tfec!1.47!37.06!Tfec;;chr8:123260252..123260264,+!p1@Irf8!1.44!181.69!Irf8;;chr10:20880629..20880683,-!p1@Myb!1.44!74.12!Myb;;chr10:20880731..20880775,-!p2@Myb!1.43!53.79!Myb;;chr11:16908650..16908690,-!p1@Plek!1.42!149.78!Plek;;chr8:87225329..87225396,+!p1@Lyl1!1.37!82.35!Lyl1;;chr7:31206743..31206761,+!p1@Nfkbid!1.37!30.37!Nfkbid;;chr11:11586218..11586285,+!p1@Ikzf1!1.35!66.40!Ikzf1;;chr10:20880698..20880717,-!p3@Myb!1.31!29.85!Myb;;chr15:103085802..103085817,-!p4@Nfe2!1.30!23.68!Nfe2;;chr16:92826249..92826325,-!p1@Runx1!1.28!43.49!Runx1;;chr8:74842952..74842970,+!p1@Klf2!1.26!1113.80!Klf2;;chr5:92391466..92391471,+!p2@Thap6!1.24!23.42!Thap6;;chr6:16848395..16848416,-!p2@Tfec!1.19!16.73!Tfec;;chr8:87502608..87502623,-!p1@Junb!1.17!221.58!Junb;;chr4:124805061..124805087,-!p1@Zc3h12a!1.16!41.18!Zc3h12a;;chr3:135271185..135271254,-!p4@Nfkb1!1.15!23.68!Nfkb1;;chr2:90922554..90922575,+!p4@Sfpi1!1.12!22.39!Sfpi1;;chr10:126727842..126727859,+!p1@Ddit3!1.09!325.80!Ddit3;;chr17:27693922..27693934,+!p10@Hmga1-rs1,p11@Hmga1!1.09!14.93!Hmga1;;chr14:79915521..79915539,+!p5@Elf1!1.08!13.38!Elf1;;chr14:79915425..79915501,+!p1@Elf1!1.07!94.96!Elf1;;chr14:79915502..79915514,+!p4@Elf1!1.06!15.96!Elf1;;chr11:23670750..23670789,-!p2@Rel!1.04!19.04!Rel;;chr19:5447692..5447711,+!p2@Fosl1!1.04!10.04!Fosl1;;chr8:87225670..87225697,+!p2@Lyl1!1.02!28.05!Lyl1;;chr1:38721792..38721845,-!p1@Aff3!1.00!11.32!Aff3;;chr12:56593574..56593592,-!p1@Nfkbia!0.99!458.85!Nfkbia;;chr13:5860776..5860796,+!p1@Klf6!0.99!216.43!Klf6;;chr15:101097270..101097290,+!p1@Nr4a1!0.99!92.65!Nr4a1;;chr19:37509324..37509337,+!p1@Hhex!0.98!61.76!Hhex;;chr1:52065454..52065495,+!p1@Stat4!0.98!14.15!Stat4;;chr19:5447886..5447905,+!p1@Fosl1!0.98!8.49!Fosl1;;chr2:90922519..90922544,+!p6@Sfpi1!0.96!9.01!Sfpi1;;chr11:80196900..80196917,+!p3@Zfp207!0.94!26.51!Zfp207;;chr13:5860872..5860883,+!p3@Klf6!0.93!15.44!Klf6;;chr4:134708451..134708469,+!p1@Runx3!0.93!13.64!Runx3;;chr11:53583544..53583559,+!p1@Irf1!0.92!127.64!Irf1;;chr17:27693887..27693908,+!p2@Hmga1-rs1,p2@Hmga1!0.91!53.79!Hmga1;;chr19:46379199..46379301,+!p1@Nfkb2!0.91!41.95!Nfkb2;;chr7:35904304..35904320,+!p1@Cebpa!0.90!147.20!Cebpa;;chr16:55822241..55822258,-!p1@Nfkbiz!0.85!203.05!Nfkbiz;;chr15:103085690..103085710,-!p3@Nfe2!0.84!6.43!Nfe2;;chr15:80085920..80085941,+!p1@Atf4!0.82!695.87!Atf4;;chr4:94718879..94718898,-!p1@Jun!0.82!434.66!Jun;;chr10:5734525..5734569,-!p3@Esr1!0.82!9.52!Esr1;;chr11:100683839..100683890,-!p2@Stat5b!0.81!13.64!Stat5b;;chr15:103085660..103085681,-!p1@Nfe2!0.81!8.49!Nfe2;;chr6:29479308..29479325,+!p3@Irf5!0.81!5.40!Irf5;;chr8:77540128..77540145,+!p2@Hmgxb4!0.81!5.40!Hmgxb4;;chr9:32348943..32349001,-!p1@Fli1!0.80!47.35!Fli1;;chr11:3191741..3191769,+!p5@Patz1!0.80!6.95!Patz1;;chr16:55838757..55838774,-!p2@Nfkbiz!0.80!6.43!Nfkbiz;;chr10:20881239..20881254,-!p5@Myb!0.79!5.15!Myb;;chr7:19895122..19895142,-!p4@Fosb!0.79!5.15!Fosb;;chr7:133839456..133839523,+!p1@Bola2!0.78!272.79!Bola2;;chr8:87225702..87225726,+!p3@Lyl1!0.78!10.81!Lyl1;;chr13:59923965..59924003,-!p2@Zcchc6!0.78!6.18!Zcchc6;;chr14:32979290..32979309,+!p3@Gm6768,p3@Ncoa4!0.77!5.92!Ncoa4;;chr2:90936867..90936874,+!p7@Sfpi1!0.77!4.89!Sfpi1;;chr5:108155007..108155034,-!p1@Gfi1!0.77!4.89!Gfi1;;chr6:28347999..28348023,-!p3@Zfp800!0.77!4.89!Zfp800;;chr19:12871064..12871095,-!p2@Zfp91!0.77!4.89!Zfp91;;chr5:140267510..140267555,+!p2@Mafk!0.76!12.10!Mafk;;chr12:87027598..87027652,+!p1@Batf!0.76!11.84!Batf;;chr2:127347094..127347111,-!p2@Kcnip3!0.76!8.24!Kcnip3;;chr7:20162663..20162678,+!p1@Zfp296!0.76!6.43!Zfp296;;chr4:94718861..94718872,-!p2@Jun!0.75!38.09!Jun;;chrX:48559055..48559077,-!p6@Mbnl3!0.75!6.18!Mbnl3;;chr11:23670953..23671028,-!p1@Rel!0.74!28.57!Rel;;chr5:104121453..104121479,+!p4@Aff1!0.74!22.65!Aff1;;chrX:137077653..137077669,-!p3@Tsc22d3!0.74!22.13!Tsc22d3;;chr6:133986088..133986122,+!p4@Etv6!0.74!21.10!Etv6;;chr15:25914114..25914128,+!p2@Zfp622!0.73!19.56!Zfp622;;chr7:29551464..29551487,-!p2@Nfkbib!0.73!18.53!Nfkbib;;chr17:45692676..45692695,+!p2@Nfkbie!0.73!9.52!Nfkbie;;chr16:92826232..92826245,-!p4@Runx1!0.73!4.37!Runx1;;chr4:55545337..55545357,-!p1@Klf4!0.71!68.20!Klf4;;chr4:133801453..133801492,-!p1@Zfp593!0.70!37.83!Zfp593;;chr6:99216488..99216534,-!p2@Foxp1!0.70!12.61!Foxp1;;chr16:3744162..3744180,+!p2@Zfp263!0.70!12.10!Zfp263;;chr2:127347067..127347093,-!p1@Kcnip3!0.69!6.95!Kcnip3;;chrX:48559079..48559108,-!p2@Mbnl3!0.68!9.52!Mbnl3;;chr6:133986042..133986052,+!p7@Etv6!0.68!5.15!Etv6;;chr13:83663902..83663927,+!p1@Mef2c!0.67!102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Arid4a!0.16!14.93!Arid4a;;chr16:95680889..95680991,-!p1@Erg!0.16!10.04!Erg;;chr8:108583550..108583595,+!p2@Nfatc3!0.16!5.15!Nfatc3;;chr6:47827619..47827639,+!p2@Zfp282!0.16!4.89!Zfp282;;chr15:100058660..100058711,+!p1@Gm1862,p2@Atf1!0.16!3.60!Atf1;;chrX:98449805..98449834,+!p3@Foxo4!0.16!2.83!Foxo4;;chr18:3337339..3337397,-!p5@Crem!0.16!1.80!Crem;;chr4:133310214..133310231,-!p11@Arid1a!0.16!1.29!Arid1a;;chr4:63071739..63071760,-!p5@Akna!0.16!1.03!Akna;;chr18:61336630..61336641,-!p3@Hmgxb3!0.16!0.77!Hmgxb3;;chr5:77695181..77695196,+!p6@Rest!0.16!0.77!Rest;;chr11:95171500..95171527,-!p1@Myst2!0.15!77.98!Myst2;;chr7:56136362..56136400,-!p1@E2f8!0.15!7.46!E2f8;;chr12:75009172..75009223,+!p3@Hif1a!0.15!2.32!Hif1a;;chr7:134550321..134550345,-!p2@Zfp764!0.15!2.06!Zfp764;;chr9:72122680..72122693,+!p2@Zfp280d!0.15!2.06!Zfp280d;;chr8:72520121..72520135,-!p12@Gatad2a!0.15!1.80!Gatad2a;;chr11:23978111..23978134,+!p3@Bcl11a!0.15!1.80!Bcl11a;;chr7:134519511..134519534,-!p2@Zfp747!0.15!1.54!Zfp747;;chr7:134592574..134592591,-!p2@Zfp689!0.15!1.03!Zfp689;;chr5:38611621..38611635,-!p2@Zbtb49!0.15!1.03!Zbtb49;;chr15:50721777..50721803,-!p11@Trps1!0.15!1.03!Trps1;;chr11:120494908..120494919,-!p4@Mafg!0.15!1.03!Mafg;;chr11:120624132..120624143,+!p10@Hmga1,p9@Hmga1-rs1!0.15!0.77!Hmga1;;chr7:30553662..30553669,+!p2@Zfp84!0.15!0.77!Zfp84;;chr3:133207369..133207376,-!p3@Tet2!0.15!0.77!Tet2;;chr13:67433434..67433446,-!p3@Zfp595!0.15!0.77!Zfp595;;chrX:137077134..137077143,-!p10@Tsc22d3!0.15!0.51!Tsc22d3;;chr2:72817045..72817123,-!p1@Sp3!0.14!40.40!Sp3;;chr3:96001503..96001557,-!p1@Bola1!0.14!26.25!Bola1;;chr5:53981912..53981942,+!p1@Rbpj!0.14!23.42!Rbpj;;chr18:74427905..74427991,+!p1@Mbd1!0.14!23.42!Mbd1;;chr17:34169016..34169068,+!p2@Rxrb!0.14!8.49!Rxrb;;chr4:118967125..118967143,-!p2@Ybx1!0.14!7.21!Ybx1;;chr11:99092233..99092273,-!p2@Smarce1!0.14!5.15!Smarce1;;chr16:84835570..84835584,+!p4@Gabpa!0.14!3.09!Gabpa;;chr9:21420610..21420621,+!p5@Smarca4!0.14!3.09!Smarca4;;chr6:124959250..124959271,+!p6@Zfp384!0.14!2.57!Zfp384;;chr11:87881818..87881834,+!p4@Vezf1!0.14!2.32!Vezf1;;chr6:99471044..99471066,-!p4@Foxp1!0.14!1.80!Foxp1;;chr5:104182963..104182982,+!p5@Aff1!0.14!1.80!Aff1;;chr2:165818178..165818187,+!p3@Ncoa3!0.14!1.80!Ncoa3;;chr2:153067079..153067090,-!p2@Plagl2!0.14!1.80!Plagl2;;chr19:9016651..9016662,+!p3@Mta2!0.14!1.54!Mta2;;chr17:21145981..21145998,+!p2@Zfp160!0.14!1.54!Zfp160;;chr6:128312772..128312792,+!p2@Foxm1!0.14!1.29!Foxm1;;chr10:119913792..119913820,-!p5@Hmga2!0.14!1.29!Hmga2;;chr14:47896526..47896539,-!p2@Wdhd1!0.14!1.29!Wdhd1;;chr13:64254502..64254515,-!p3@Zfp367!0.14!1.03!Zfp367;;chr6:99471223..99471254,-!p7@Foxp1!0.14!1.03!Foxp1;;chr19:28754655..28754673,-!p3@Glis3!0.14!1.03!Glis3;;chr17:35031524..35031539,+!p4@Zbtb12!0.14!0.77!Zbtb12;;chr11:98636400..98636418,-!p4@Nr1d1!0.14!0.77!Nr1d1;;chr3:96002383..96002407,-!p4@Bola1!0.14!0.77!Bola1;;chr6:124662297..124662371,+!p1@Phb2!0.13!239.85!Phb2;;chr6:47870583..47870635,+!p1@Zfp212!0.13!14.41!Zfp212;;chr9:20189534..20189590,-!p1@Zfp560!0.13!11.58!Zfp560;;chr11:101413151..101413207,-!p1@Brca1!0.13!11.07!Brca1;;chr16:4559608..4559681,-!p1@Tfap4!0.13!9.26!Tfap4;;chr10:79862134..79862173,-!p3@Mbd3!0.13!9.01!Mbd3;;chr7:30906934..30907020,+!p1@Zfp382!0.13!7.46!Zfp382;;chr8:4613182..4613207,+!p2@Zfp958!0.13!4.12!Zfp958;;chr6:117813087..117813121,+!p1@Zfp239!0.13!3.86!Zfp239;;chr2:164737086..164737108,-!p2@Zfp335!0.13!3.60!Zfp335;;chrX:98449898..98449913,+!p2@Foxo4!0.13!3.09!Foxo4;;chr5:107125807..107125835,-!p3@Zfp644!0.13!2.57!Zfp644;;chr7:30875418..30875454,-!p2@Zfp566,p2@Zfp82!0.13!2.57!Zfp566;;chr1:95651388..95651434,-!p2@Thap4!0.13!2.06!Thap4;;chr12:85658041..85658051,+!p3@Zfp410!0.13!2.06!Zfp410;;chr13:96095124..96095144,+!p3@Zbed3!0.13!1.54!Zbed3;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!0.13!1.54!Hmga1;;chr13:96095097..96095114,+!p5@Zbed3!0.13!1.29!Zbed3;;chr13:67476665..67476693,-!p2@Zfp456!0.13!1.03!Zfp456;;chr17:15636925..15636940,+!p2@Tbp!0.13!1.03!Tbp;;chr5:34530519..34530545,-!p4@Mxd4!0.13!1.03!Mxd4;;chr5:138187411..138187422,+!p8@Tsc22d4!0.13!1.03!Tsc22d4;;chr6:47785785..47785796,+!p4@Zfp398!0.13!1.03!Zfp398;;chr5:53981661..53981672,+!p5@Rbpj!0.13!0.77!Rbpj;;chr13:59924409..59924418,-!p6@Zcchc6!0.13!0.77!Zcchc6;;chr6:37391910..37391928,-!p3@Creb3l2!0.13!0.51!Creb3l2;;chr2:44965718..44965727,-!p24@Zeb2!0.13!0.51!Zeb2;;chr19:28754622..28754633,-!p4@Glis3!0.13!0.51!Glis3;;chr11:100800671..100800770,-!p1@Stat3!0.12!38.60!Stat3;;chr10:79862223..79862261,-!p4@Mbd3!0.12!10.81!Mbd3;;chr11:53164378..53164392,+!p2@Aff4!0.12!9.78!Aff4;;chr16:87699149..87699204,+!p2@Bach1!0.12!9.01!Bach1;;chr9:96620228..96620308,-!p3@Zbtb38!0.12!4.89!Zbtb38;;chr9:96159665..96159680,+!p3@Tfdp2!0.12!4.63!Tfdp2;;chr8:114167325..114167350,+!p2@Zfp1!0.12!3.60!Zfp1;;chr8:124900562..124900573,+!p3@Zc3h18!0.12!2.32!Zc3h18;;chr15:81575602..81575618,+!p3@Zc3h7b!0.12!2.32!Zc3h7b;;chr18:84255649..84255661,-!p4@Tshz1!0.12!2.32!Tshz1;;chr15:76181718..76181729,+!p3@Maf1!0.12!2.06!Maf1;;chr15:10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3687,+!p5@Zfp446!0.10!0.26!Zfp446;;chr7:17200127..17200137,-!p11@Grlf1!0.10!0.26!Grlf1;;chr7:19895040..19895049,-!p5@Fosb!0.10!0.26!Fosb;;chr7:13420597..13420610,+!p5@Zfp110!0.10!0.26!Zfp110;;chr19:43686789..43686811,+!p1@Nkx2-3!0.10!0.26!Nkx2-3;;chr19:37511197..37511206,+!p3@Hhex!0.10!0.26!Hhex;;chr16:11176149..11176163,-!p5@Zc3h7a!0.10!0.26!Zc3h7a;;chr17:51972603..51972624,-!p9@Satb1!0.10!0.26!Satb1;;chr16:55819071..55819073,-!p11@Nfkbiz!0.10!0.26!Nfkbiz;;chr16:50331100..50331130,-!p3@Bbx!0.10!0.26!Bbx;;chr17:34784066..34784067,+!p5@Atf6b!0.10!0.26!Atf6b;;chr16:55838743..55838754,-!p6@Nfkbiz!0.10!0.26!Nfkbiz;;chr15:96117679..96117696,+!p6@Arid2!0.10!0.26!Arid2;;chr19:46380346..46380360,+!p6@Nfkb2!0.10!0.26!Nfkb2;;chr17:35031631..35031645,+!p5@Zbtb12!0.10!0.26!Zbtb12;;chr17:44873235..44873245,-!p17@Runx2!0.10!0.26!Runx2;;chr2:156665889..156665900,+!p8@Tgif2!0.10!0.26!Tgif2;;chr2:163372869..163372882,+!p3@Hnf4a!0.10!0.26!Hnf4a;;chr2:166885917..166885930,-!p9@Znfx1!0.10!0.26!Znfx1;;chr2:168780729..168780740,-!p3@LOC100502777,p3@Zfp64!0.10!0.26!Zfp64;;chr2:154395524..154395535,-!p5@E2f1!0.10!0.26!E2f1;;chr1:167865149..167865167,-!p3@Pou2f1!0.10!0.26!Pou2f1;;chr1:87497590..87497593,+!p9@Gm2427,p9@Sp140!0.10!0.26!Sp140;;chr1:87546572..87546579,+!p4@Sp100!0.10!0.26!Sp100;;chr2:56967381..56967386,-!p8@Nr4a2!0.10!0.26!Nr4a2;;chr1:87546619..87546627,+!p3@Sp100!0.10!0.26!Sp100;;chr2:127347042..127347058,-!p3@Kcnip3!0.10!0.26!Kcnip3;;chr1:64579184..64579194,+!p7@Creb1!0.10!0.26!Creb1;;chr2:28477422..28477433,-!p2@Gfi1b!0.10!0.26!Gfi1b;;chr1:87497247..87497279,+!p2@Gm2427,p2@Sp140!0.10!0.26!Sp140;;chr2:56967316..56967327,-!p3@Nr4a2!0.10!0.26!Nr4a2;;chr1:87495371..87495397,-!p1@Sp110!0.10!0.26!Sp110;;chr1:179374820..179374831,+!p3@Zfp238!0.10!0.26!Zfp238;;chr1:38721767..38721778,-!p5@Aff3!0.10!0.26!Aff3;;chr1:57029027..57029056,-!p7@Satb2!0.10!0.26!Satb2;;chr1:33871436..33871445,-!p6@Zfp451!0.10!0.26!Zfp451;;chr4:108132386..108132400,+!p14@Zcchc11!0.10!0.26!Zcchc11;;chr4:61869681..61869704,-!p3@Zfp37!0.10!0.26!Zfp37;;chr4:48058252..48058261,+!p6@Nr4a3!0.10!0.26!Nr4a3;;chr4:133801376..133801385,-!p5@Zfp593!0.10!0.26!Zfp593;;chr2:91077026..91077029,-!p5@Ddb2!0.10!0.26!Ddb2;;chr3:128916838..128916856,+!p4@Pitx2!0.10!0.26!Pitx2;;chr4:133312435..133312454,-!p22@Arid1a!0.10!0.26!Arid1a;;chr4:48058196..48058205,+!p4@Nr4a3!0.10!0.26!Nr4a3;;chr4:133109285..133109308,+!p1@Nr0b2!0.10!0.26!Nr0b2;;chr5:104182999..104183006,+!p18@Aff1!0.10!0.26!Aff1;;chr13:58503480..58503510,-!p3@Hnrnpk!0.09!57.65!Hnrnpk;;chr2:153067094..153067130,-!p1@Plagl2!0.09!26.76!Plagl2;;chr7:134170081..134170122,-!p2@Maz!0.09!19.82!Maz;;chr1:182499095..182499141,+!p2@Parp1!0.09!18.53!Parp1;;chr17:21625946..21626024,+!p1@Zfp53!0.09!11.32!Zfp53;;chr17:25152711..25152736,-!p1@Cramp1l!0.09!10.55!Cramp1l;;chr17:47873985..47874056,+!p1@Tfeb!0.09!8.49!Tfeb;;chr4:108131994..108132056,+!p2@Zcchc11!0.09!2.83!Zcchc11;;chr4:151401710..151401733,-!p2@Zbtb48!0.09!2.57!Zbtb48;;chr11:74644716..74644780,+!p2@Mnt!0.09!2.57!Mnt;;chr5:138187181..138187192,+!p5@Tsc22d4!0.09!2.06!Tsc22d4;;chr1:181476392..181476407,-!p2@Tfb2m!0.09!2.06!Tfb2m;;chr10:85379814..85379844,-!p2@Prdm4!0.09!1.80!Prdm4;;chr7:134550289..134550313,-!p1@Zfp764!0.09!1.80!Zfp764;;chr19:46380235..46380277,+!p3@Nfkb2!0.09!1.54!Nfkb2;;chr9:48644429..48644462,-!p3@Zbtb16!0.09!1.29!Zbtb16;;chr2:44972869..44972895,-!p12@Zeb2!0.09!1.29!Zeb2;;chr4:48058016..48058032,+!p3@Nr4a3!0.09!1.03!Nr4a3;;chr12:113916993..113917009,+!p2@Zbtb42!0.09!1.03!Zbtb42;;chr1:133903955..133903969,+!p10@Elk4!0.09!0.51!Elk4;;chr5:138187466..138187477,+!p11@Tsc22d4!0.09!0.51!Tsc22d4;;chr13:30077917..30077928,-!p4@E2f3!0.09!0.51!E2f3;;chr15:102300965..102300977,+!p1@Pcbp2!0.08!350.25!Pcbp2;;chr5:137043112..137043157,-!p1@Cux1!0.08!101.65!Cux1;;chr5:31262609..31262693,-!p1@Preb!0.08!55.07!Preb;;chr6:83299445..83299490,+!p1@Bola3!0.08!45.81!Bola3;;chr8:26951227..26951266,-!p1@Ash2l!0.08!43.23!Ash2l;;chr7:29551488..29551529,-!p1@Nfkbib!0.08!34.74!Nfkbib;;chr3:51081233..51081365,-!p1@Elf2!0.08!21.87!Elf2;;chr1:93309740..93309811,-!p1@Hes6!0.08!21.10!Hes6;;chr2:25562346..25562433,+!p1@Bmyc!0.08!19.30!Bmyc;;chr8:72520162..72520197,-!p4@Gatad2a!0.08!4.89!Gatad2a;;chr7:6124098..6124133,+!p1@Zfp444!0.08!4.12!Zfp444;;chr14:52634412..52634500,-!p2@Zfp219!0.08!4.12!Zfp219;;chr19:55816546..55816556,+!p3@Tcf7l2!0.08!3.35!Tcf7l2;;chr2:25562315..25562344,+!p3@Bmyc!0.08!2.83!Bmyc;;chr19:53384965..53384984,+!p4@Mxi1!0.08!2.32!Mxi1;;chr3:90097217..90097233,+!p3@Gatad2b!0.08!1.80!Gatad2b;;chr2:91077034..91077078,-!p2@Ddb2!0.08!1.54!Ddb2;;chr14:52639709..52639753,-!p5@Zfp219!0.08!1.54!Zfp219;;chr15:61818965..61819046,+!p3@Myc!0.08!1.03!Myc;;chr4:63064395..63064410,-!p2@Akna!0.08!1.03!Akna;;chr10:80600465..80600489,+!p7@Zbtb7a!0.08!1.03!Zbtb7a;;chr18:39648811..39648818,-!p4@Nr3c1!0.08!1.03!Nr3c1;;chr12:119540395..119540415,-!p5@Sp4!0.08!0.77!Sp4;;chr18:35721940..35721951,+!p5@Matr3!0.08!0.51!Matr3;;chr10:119913839..119913869,-!p7@Hmga2!0.08!0.51!Hmga2;;chr5:53981578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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs12202
-|library_id_phase_based=1:CNhs12202
+|library_id_phase_based=2:CNhs12202
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;12126
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;12126
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep2.CNhs12202.12126-128D2.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_rep2.CNhs12202.12126-128D2.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_rep2.CNhs12202.12126-128D2.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep2.CNhs12202.12126-128D2.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/granulocyte%2520macrophage%2520progenitor%2520GMP%252c%2520biol_rep2.CNhs12202.12126-128D2.mm9.nobarcode.rdna.fa.gz
 |name=granulocyte macrophage progenitor GMP, biol_rep2
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12202,LSID976,release010,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.529272322666855,0,0,0,0,-0.0843392403965415,0,0,0,0,0.470269129772763,0,-0.0115679256123871,0,0.0497277316172017,0,0,0,0,0,0,0,0,0,0,0,-0.458967329089628,0,0,0,0,-0.0692120080088753,-0.159594993878624,-0.173546239342886,-0.519201965794099,-0.984211366477826,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0,0,0.114319877706747,0,0,0,0,0,0,0,0,0,-0.0523689113779175,-0.206639190523749,-0.310650657339386,-0.158091042771083,-0.140687683267293,0,0,-0.228734207387588,-0.389238269960119,0.180325425270187,0,-0.181214850113748,-0.255725535138073,-0.496459417506166,-0.0788315948399074,0,0,0,0,0,0,-0.358149767376248,-1.90357493841139,-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=table111:12126-128D2;search_select_hide=table117:12126-128D2
 }}

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FF:12126-128D2: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:31, 4 June 2020

CNhs12202

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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