FF:13063-139I3: Difference between revisions

Latest revision as of 18:50, 4 June 2020

Name:	J2E erythroblastic leukemia response to erythropoietin
Species:	Mouse (Mus musculus)
Library ID:	CNhs12449
Sample type:	time courses
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	blood
dev stage	NA
sex	NA
age	NA
cell type	erythroblast
cell line	J2E
company	NA
collaboration	Peter Klinken (Western Australian Institute of Medical Research)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	NA
extraction protocol (Details)	Repurified by minelute

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005952

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12449		CAGE		DRX008902		DRR009774 DRR009775 DRR009776

Accession ID Mm9

Library id		BAM		CTSS
CNhs12449		DRZ001199 DRZ001200 DRZ001201		DRZ002584

Accession ID Mm10

Library id		BAM		CTSS
CNhs12449		DRZ012549 DRZ012550 DRZ012551		DRZ013934

Download raw sequence, BAM & CTSS

Mm9

Fasta	BAM	CTSS
download	download	donwload

Mm10

BAM	CTSS
download	donwload

RNA-Seq Accession numbers

Method		Sample accession id
sRNA-Seq		SAMD00005952

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
SRhi10062.ATCACG		sRNA-Seq		DRX037390		DRR041756

Accession ID Mm9

Library id		BAM		CTSS
SRhi10062.ATCACG		DRZ007365

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

CNhs12449

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.116
1003	-0.0174
1004	0
1005	-0.409
1006	-0.143
1007	-0.188
1008	0
1009	-0.19
101	0.177
1010	0
1011	0.165
1012	0
1013	-0.0989
1014	-0.0874
1015	0.128
1016	-0.664
1017	0
1018	0
1019	0
102	0
1020	0.827
1021	0.613
1022	-0.0704
1023	0
1024	-0.14
1025	-0.0611
1026	0
1027	-0.048
1028	0
1029	-0.176
103	-0.0887
1030	0
1031	-0.941
1032	-0.32
1033	0.717
1034	0
1035	0
1036	1.059
1037	0
1038	-0.336
1039	-0.222
104	0
1040	-0.989
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: CNhs12449

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.206
MA0003.1	MA0003.1	0.656
MA0004.1	MA0004.1	0.0157
MA0006.1	MA0006.1	0.226
MA0007.1	MA0007.1	0.472
MA0009.1	MA0009.1	0.798
MA0014.1	MA0014.1	0.956
MA0017.1	MA0017.1	0.198
MA0018.2	MA0018.2	0.0826
MA0019.1	MA0019.1	0.617
MA0024.1	MA0024.1	1.41368e-5
MA0025.1	MA0025.1	0.156
MA0027.1	MA0027.1	0.433
MA0028.1	MA0028.1	4.07751e-8
MA0029.1	MA0029.1	0.716
MA0030.1	MA0030.1	0.385
MA0031.1	MA0031.1	0.0491
MA0035.2	MA0035.2	2.19245e-13
MA0038.1	MA0038.1	0.00232
MA0039.2	MA0039.2	0.821
MA0040.1	MA0040.1	0.366
MA0041.1	MA0041.1	0.208
MA0042.1	MA0042.1	0.496
MA0043.1	MA0043.1	0.0265
MA0046.1	MA0046.1	5.41426e-5
MA0047.2	MA0047.2	0.197
MA0048.1	MA0048.1	0.0174
MA0050.1	MA0050.1	9.97103e-4
MA0051.1	MA0051.1	0.0317
MA0052.1	MA0052.1	0.116
MA0055.1	MA0055.1	9.71852e-5
MA0057.1	MA0057.1	0.61
MA0058.1	MA0058.1	0.00554
MA0059.1	MA0059.1	1.37022e-4
MA0060.1	MA0060.1	8.73182e-6
MA0061.1	MA0061.1	0.595
MA0062.2	MA0062.2	1.10015e-10
MA0065.2	MA0065.2	0.0177
MA0066.1	MA0066.1	0.47
MA0067.1	MA0067.1	0.594
MA0068.1	MA0068.1	0.0969
MA0069.1	MA0069.1	0.566
MA0070.1	MA0070.1	0.709
MA0071.1	MA0071.1	0.0817
MA0072.1	MA0072.1	0.797
MA0073.1	MA0073.1	0.9
MA0074.1	MA0074.1	0.316
MA0076.1	MA0076.1	1.64026e-10
MA0077.1	MA0077.1	0.254
MA0078.1	MA0078.1	0.328
MA0079.2	MA0079.2	0.0406
MA0080.2	MA0080.2	0.384
MA0081.1	MA0081.1	0.0344
MA0083.1	MA0083.1	0.0157
MA0084.1	MA0084.1	0.738
MA0087.1	MA0087.1	0.775
MA0088.1	MA0088.1	0.0217
MA0090.1	MA0090.1	0.288
MA0091.1	MA0091.1	0.327
MA0092.1	MA0092.1	0.525
MA0093.1	MA0093.1	0.0172
MA0099.2	MA0099.2	0.0609
MA0100.1	MA0100.1	0.0192
MA0101.1	MA0101.1	0.355
MA0102.2	MA0102.2	0.291
MA0103.1	MA0103.1	0.681
MA0104.2	MA0104.2	9.99737e-5
MA0105.1	MA0105.1	0.0229
MA0106.1	MA0106.1	0.111
MA0107.1	MA0107.1	0.604
MA0108.2	MA0108.2	0.0231
MA0111.1	MA0111.1	0.803
MA0112.2	MA0112.2	0.134
MA0113.1	MA0113.1	0.82
MA0114.1	MA0114.1	0.212
MA0115.1	MA0115.1	0.0154
MA0116.1	MA0116.1	0.0181
MA0117.1	MA0117.1	0.494
MA0119.1	MA0119.1	0.988
MA0122.1	MA0122.1	0.813
MA0124.1	MA0124.1	0.375
MA0125.1	MA0125.1	0.468
MA0131.1	MA0131.1	0.293
MA0135.1	MA0135.1	0.411
MA0136.1	MA0136.1	1.01374e-5
MA0137.2	MA0137.2	0.161
MA0138.2	MA0138.2	0.11
MA0139.1	MA0139.1	0.285
MA0140.1	MA0140.1	2.4696e-22
MA0141.1	MA0141.1	0.0159
MA0142.1	MA0142.1	0.413
MA0143.1	MA0143.1	0.195
MA0144.1	MA0144.1	0.593
MA0145.1	MA0145.1	0.531
MA0146.1	MA0146.1	0.195
MA0147.1	MA0147.1	1.50097e-5
MA0148.1	MA0148.1	0.419
MA0149.1	MA0149.1	0.00813
MA0150.1	MA0150.1	0.0424
MA0152.1	MA0152.1	0.334
MA0153.1	MA0153.1	0.128
MA0154.1	MA0154.1	0.395
MA0155.1	MA0155.1	0.438
MA0156.1	MA0156.1	4.8328e-5
MA0157.1	MA0157.1	0.0175
MA0159.1	MA0159.1	0.0183
MA0160.1	MA0160.1	0.0546
MA0162.1	MA0162.1	0.892
MA0163.1	MA0163.1	3.63783e-4
MA0164.1	MA0164.1	0.467
MA0258.1	MA0258.1	0.266
MA0259.1	MA0259.1	0.0096

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: CNhs12449

Novel motif	Logo	P-value
1	1	0.166
10	10	0.0213
100	100	0.0586
101	101	0.38
102	102	0.239
103	103	0.0686
104	104	0.55
105	105	0.867
106	106	0.61
107	107	0.242
108	108	0.619
109	109	0.0484
11	11	0.189
110	110	0.0498
111	111	0.0046
112	112	0.4
113	113	0.242
114	114	0.837
115	115	0.681
116	116	0.166
117	117	3.09957e-4
118	118	0.408
119	119	0.396
12	12	0.564
120	120	0.283
121	121	0.456
122	122	0.54
123	123	0.414
124	124	0.0349
125	125	0.0106
126	126	0.061
127	127	0.166
128	128	0.577
129	129	0.815
13	13	0.00211
130	130	0.613
131	131	0.458
132	132	0.254
133	133	0.553
134	134	0.0188
135	135	0.075
136	136	0.197
137	137	0.805
138	138	0.464
139	139	0.987
14	14	0.578
140	140	0.888
141	141	0.815
142	142	0.227
143	143	0.658
144	144	0.923
145	145	0.103
146	146	0.863
147	147	0.867
148	148	0.131
149	149	0.0552
15	15	0.224
150	150	0.372
151	151	0.851
152	152	0.315
153	153	0.638
154	154	0.898
155	155	0.702
156	156	0.262
157	157	0.911
158	158	0.015
159	159	0.944
160	160	0.552
161	161	0.718
162	162	0.721
163	163	0.446
164	164	0.041
165	165	0.883
166	166	0.028
167	167	0.33
168	168	0.803
169	169	0.321
17	17	0.963
18	18	0.114
19	19	0.681
2	2	0.12
20	20	0.00316
21	21	0.195
22	22	0.907
23	23	0.426
24	24	0.28
25	25	0.201
26	26	0.00992
27	27	0.476
28	28	0.976
29	29	0.0029
3	3	0.0876
30	30	0.359
31	31	0.722
32	32	0.656
33	33	0.117
34	34	0.675
35	35	0.49
36	36	0.00929
37	37	0.283
38	38	0.627
39	39	0.495
4	4	0.318
40	40	0.0719
41	41	0.104
42	42	0.139
43	43	0.853
44	44	0.357
45	45	0.436
46	46	0.28
47	47	0.352
48	48	0.294
49	49	0.694
5	5	0.439
50	50	0.845
51	51	0.773
52	52	0.098
53	53	0.352
54	54	0.558
55	55	0.0193
56	56	0.994
57	57	0.158
58	58	0.985
59	59	0.88
6	6	0.801
60	60	0.948
61	61	0.564
62	62	0.422
63	63	0.826
64	64	0.573
65	65	0.894
66	66	0.151
67	67	0.0599
68	68	0.596
69	69	0.922
7	7	0.156
70	70	0.0868
71	71	0.00181
72	72	0.899
73	73	0.286
74	74	0.344
75	75	0.0332
76	76	0.16
77	77	0.935
78	78	0.102
79	79	0.873
8	8	0.0642
80	80	0.849
81	81	0.862
82	82	0.548
83	83	0.992
84	84	0.641
85	85	0.792
86	86	0.266
87	87	0.0894
88	88	0.612
89	89	0.228
9	9	0.523
90	90	0.0378
91	91	0.683
92	92	0.892
93	93	0.267
94	94	0.527
95	95	0.0679
96	96	0.445
97	97	0.987
98	98	0.382
99	99	0.411

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: CNhs12449

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000498 mouse J2E erythroblastic leukemia line 0min after treatment with erythropoietin 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)
0000764 (erythroid lineage cell)
0000548 (animal cell)
0000763 (myeloid cell)
0002371 (somatic cell)
0002242 (nucleate cell)
0000255 (eukaryotic cell)
0000765 (erythroblast)

DOID: Disease
4 (disease)
0050686 (organ system cancer)
162 (cancer)
2531 (hematologic cancer)
14566 (disease of cellular proliferation)
0060083 (immune system cancer)
1240 (leukemia)

FF: FANTOM5
0000102 (sample by type)
0000003 (cell line sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0100737 (leukemia cell line sample)
0000401 (erythroblastic leukemia cell line sample)
0000350 (experimentally modified sample)
0000344 (0 minute sample)
0000337 (erythropoietin treatment sample)
0000403 (mouse J2E erythroblastic leukemia cell line sample)
0101035 (hematopoietic cell line sample)
0000498 (mouse J2E erythroblastic leukemia line 0min after treatment with erythropoietin 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
-|ancestors_in_anatomy_facet=UBERON:0000061,UBERON:0000465,UBERON:0000479,UBERON:0001062,UBERON:0002384
+|DRA_sample_Accession=CAGE@SAMD00005952
-|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000004,CL:0000012,CL:0000034,CL:0000037,CL:0000038,CL:0000048,CL:0000049,CL:0000050,CL:0000063,CL:0000134,CL:0000144,CL:0000219,CL:0000255,CL:0000547,CL:0000548,CL:0000566,CL:0000723,CL:0000763,CL:0000764,CL:0000765,CL:0000837,CL:0000839,CL:0000988,CL:0002031,CL:0002032,CL:0002320,CL:0002371
+|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00005952
-|ancestors_in_disease_facet=DOID:0050686,DOID:0060083,DOID:1240,DOID:14566,DOID:162,DOID:2531,DOID:4
+|accession_numbers=CAGE;DRX008902;DRR009774,DRR009775,DRR009776;DRZ001199,DRZ001200,DRZ001201;DRZ002584;DRZ012549,DRZ012550,DRZ012551;DRZ013934
+|accession_numbers_RNASeq=sRNA-Seq;DRX037390;DRR041756;DRZ007365
+|ancestors_in_anatomy_facet=
+|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000988,CL:0000764,CL:0000548,CL:0000763,CL:0002371,CL:0002242,CL:0000255,CL:0000765
+|ancestors_in_disease_facet=DOID:4,DOID:0050686,DOID:162,DOID:2531,DOID:14566,DOID:0060083,DOID:1240
+|ancestors_in_ff_facet=FF:0000102,FF:0000003,FF:0000101,FF:0000103,FF:0000001,FF:0100737,FF:0000401,FF:0000350,FF:0000344,FF:0000337,FF:0000403,FF:0101035,FF:0000498
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
+|donor= biol_rep1
 |expression_enrichment_score=chrX:133654667..133654672,-!p1@Esx1!2.27!187.33!Esx1;;chrX:7544943..7545001,-!p1@Gata1!2.22!164.47!Gata1;;chr2:28477452..28477483,-!p1@Gfi1b!2.21!194.95!Gfi1b;;chrX:133654344..133654358,-!p2@Esx1!2.18!150.50!Esx1;;chr19:5447886..5447905,+!p1@Fosl1!1.96!90.17!Fosl1;;chr8:87225670..87225697,+!p2@Lyl1!1.95!245.76!Lyl1;;chr8:87425854..87425891,+!p1@Klf1!1.95!87.63!Klf1;;chr19:5447692..5447711,+!p2@Fosl1!1.85!70.49!Fosl1;;chr6:88148650..88148669,+!p1@Gata2!1.83!527.08!Gata2;;chr15:103082088..103082136,-!p2@Nfe2!1.82!64.77!Nfe2;;chrX:133654245..133654253,-!p3@Esx1!1.71!50.80!Esx1;;chr15:103085660..103085681,-!p1@Nfe2!1.69!71.12!Nfe2;;chr8:87225702..87225726,+!p3@Lyl1!1.64!84.46!Lyl1;;chr15:103085690..103085710,-!p3@Nfe2!1.58!40.64!Nfe2;;chr18:35020854..35020869,+!p1@Egr1!1.54!1230.05!Egr1;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.45!34.29!Zbtb11;;chr15:103170516..103170531,-!p2@Zfp385a!1.43!59.69!Zfp385a;;chr15:103170533..103170556,-!p1@Zfp385a!1.35!77.47!Zfp385a;;chr15:103085802..103085817,-!p4@Nfe2!1.35!26.67!Nfe2;;chr7:20162663..20162678,+!p1@Zfp296!1.30!24.77!Zfp296;;chr15:103085864..103085876,-!p5@Nfe2!1.26!17.15!Nfe2;;chr4:114730254..114730276,+!p2@Tal1!1.24!20.96!Tal1;;chr8:124806048..124806094,+!p1@Zfpm1!1.21!136.53!Zfpm1;;chr4:134708451..134708469,+!p1@Runx3!1.18!24.77!Runx3;;chr11:11584970..11585030,+!p2@Ikzf1!1.18!20.32!Ikzf1;;chr11:102177921..102177960,-!p9@Ubtf!1.15!19.05!Ubtf;;chr4:135728181..135728203,+!p2@E2f2!1.15!17.15!E2f2;;chr6:88143711..88143717,+!p2@Gata2!1.12!19.69!Gata2;;chr18:35020615..35020641,+!p2@Egr1!1.12!14.61!Egr1;;chr2:32219200..32219213,+!p5@Ciz1!1.11!15.24!Ciz1;;chr4:114732112..114732158,+!p1@Tal1!1.08!24.13!Tal1;;chr2:162880387..162880413,+!p1@Mybl2!1.07!67.31!Mybl2;;chr8:124806017..124806040,+!p2@Zfpm1!1.01!102.87!Zfpm1;;chr13:30077847..30077906,-!p1@E2f3!1.01!72.39!E2f3;;chr11:101646566..101646603,-!p1@Etv4!0.99!29.21!Etv4;;chr4:114730288..114730306,+!p8@Tal1!0.97!8.26!Tal1;;chr4:135728581..135728668,+!p1@E2f2!0.96!40.01!E2f2;;chr2:162880327..162880385,+!p2@Mybl2!0.95!53.98!Mybl2;;chr4:133312695..133312709,-!p19@Arid1a!0.95!9.53!Arid1a;;chr19:7342725..7342784,+!p1@Rcor2!0.94!32.39!Rcor2;;chr15:103085821..103085828,-!p6@Nfe2!0.90!6.99!Nfe2;;chrX:7544928..7544938,-!p2@Gata1!0.90!6.99!Gata1;;chr6:145813905..145813932,-!p2@Bhlhe41!0.89!13.34!Bhlhe41;;chr17:27693706..27693724,+!p4@Hmga1,p5@Hmga1-rs1!0.87!16.51!Hmga1;;chr4:133801432..133801448,-!p3@Zfp593!0.87!10.16!Zfp593;;chr4:133801453..133801492,-!p1@Zfp593!0.86!55.25!Zfp593;;chr7:30092993..30093076,+!p1@Dpf1!0.85!10.80!Dpf1;;chr11:102178005..102178022,-!p8@Ubtf!0.85!10.16!Ubtf;;chr11:60036258..60036276,-!p3@Srebf1!0.84!10.80!Srebf1;;chr19:37509324..37509337,+!p1@Hhex!0.83!43.82!Hhex;;chr7:17642177..17642223,-!p3@Hif3a!0.83!5.72!Hif3a;;chr6:88143570..88143590,+!p4@Gata2!0.83!5.72!Gata2;;chr6:88148324..88148328,+!p3@Gata2!0.83!5.72!Gata2;;chrX:108009761..108009788,+!p1@Pou3f4!0.83!5.72!Pou3f4;;chr4:135728282..135728310,+!p4@E2f2!0.82!6.35!E2f2;;chr18:74375772..74375799,+!p2@Cxxc1!0.80!16.51!Cxxc1;;chr4:114729646..114729665,+!p4@Tal1!0.80!7.62!Tal1;;chr17:23701084..23701128,-!p1@Zfp213!0.78!26.04!Zfp213;;chr8:87225329..87225396,+!p1@Lyl1!0.78!20.32!Lyl1;;chr7:52962498..52962512,+!p12@Dbp!0.78!5.08!Dbp;;chr19:5447859..5447866,+!p3@Fosl1!0.78!5.08!Fosl1;;chr15:103083199..103083215,-!p8@Nfe2!0.78!5.08!Nfe2;;chr14:47896467..47896523,-!p1@Wdhd1!0.76!63.50!Wdhd1;;chr11:11585678..11585745,+!p5@Ikzf1!0.75!6.99!Ikzf1;;chr18:74375754..74375763,+!p4@Cxxc1!0.75!5.72!Cxxc1;;chr8:87225806..87225809,+!p4@Lyl1!0.74!4.45!Lyl1;;chr10:80040030..80040072,-!p1@Klf16!0.73!97.79!Klf16;;chr15:76709732..76709764,+!p1@Zfp7!0.72!22.86!Zfp7;;chr8:72520225..72520248,-!p9@Gatad2a!0.72!12.70!Gatad2a;;chr16:4559721..4559747,-!p3@Tfap4!0.72!10.16!Tfap4;;chr1:193007123..193007139,-!p1@Atf3!0.71!26.04!Atf3;;chr10:127984472..127984504,-!p2@Zc3h10!0.71!14.61!Zc3h10;;chr15:103170561..103170572,-!p4@Zfp385a!0.71!6.35!Zfp385a;;chr19:7342786..7342803,+!p2@Rcor2!0.71!5.72!Rcor2;;chr8:124806111..124806122,+!p3@Zfpm1!0.70!5.08!Zfpm1;;chr14:52640355..52640369,-!p9@Zfp219!0.69!5.72!Zfp219;;chr18:3337339..3337397,-!p5@Crem!0.68!8.26!Crem;;chr11:101645830..101645881,-!p2@Etv4!0.68!7.62!Etv4;;chr4:135728473..135728494,+!p5@E2f2!0.68!3.81!E2f2;;chr17:27693558..27693580,+!p1@Hmga1-rs1,p1@Hmga1!0.67!198.13!Hmga1;;chr8:72520015..72520053,-!p2@Gatad2a!0.67!27.94!Gatad2a;;chr11:120491440..120491474,-!p3@Mafg!0.67!5.72!Mafg;;chr2:163028808..163028869,+!p1@Tox2!0.66!14.61!Tox2;;chr10:20880629..20880683,-!p1@Myb!0.66!11.43!Myb;;chr7:30094448..30094481,+!p4@Dpf1!0.66!4.45!Dpf1;;chr16:4559608..4559681,-!p1@Tfap4!0.65!33.02!Tfap4;;chr16:55966451..55966484,+!p3@Rpl24,p3@Zbtb11!0.65!23.50!Zbtb11;;chr11:102177974..102177992,-!p17@Ubtf!0.65!4.45!Ubtf;;chr8:87502608..87502623,-!p1@Junb!0.64!64.77!Junb;;chr7:19895384..19895399,-!p2@Fosb!0.64!5.08!Fosb;;chr18:3337307..3337326,-!p14@Crem!0.64!4.45!Crem;;chr2:181194069..181194144,-!p1@Zbtb46!0.63!21.59!Zbtb46;;chr13:64254502..64254515,-!p3@Zfp367!0.62!5.08!Zfp367;;chr2:166868994..166869023,-!p7@Znfx1!0.62!3.18!Znfx1;;chr17:84587167..84587239,-!p2@Zfp36l2!0.60!12.07!Zfp36l2;;chr10:41995430..41995458,-!p3@Foxo3!0.60!8.89!Foxo3;;chr16:55966407..55966447,+!p6@Rpl24,p6@Zbtb11!0.60!8.26!Zbtb11;;chr1:74634691..74634719,-!p2@Zfp142!0.59!8.26!Zfp142;;chr18:61336648..61336711,-!p1@Hmgxb3!0.58!65.41!Hmgxb3;;chr17:56970481..56970551,-!p2@Rfx2!0.58!10.16!Rfx2;;chr6:145814003..145814056,-!p1@Bhlhe41!0.58!9.53!Bhlhe41;;chr11:11585912..11585950,+!p6@Ikzf1!0.58!3.81!Ikzf1;;chr2:162880418..162880429,+!p4@Mybl2!0.58!3.81!Mybl2;;chr11:16908650..16908690,-!p1@Plek!0.57!20.32!Plek;;chr4:149611311..149611317,+!p2@Eno1!0.57!9.53!Eno1;;chr16:4559777..4559825,-!p2@Tfap4!0.56!14.61!Tfap4;;chr11:101646127..101646147,-!p5@Etv4!0.56!3.18!Etv4;;chr11:74644437..74644507,+!p1@Mnt!0.55!85.09!Mnt;;chr5:111082367..111082441,-!p1@Noc4l!0.55!74.93!Noc4l;;chr12:85534778..85534812,-!p3@C130039O16Rik!0.55!8.89!C130039O16Rik;;chr1:95651388..95651434,-!p2@Thap4!0.55!6.99!Thap4;;chr3:32264530..32264544,-!p2@Zmat3!0.55!4.45!Zmat3;;chr4:135728311..135728342,+!p3@E2f2!0.55!2.54!E2f2;;chr4:114729957..114730012,+!p3@Tal1!0.55!2.54!Tal1;;chr10:79884592..79884621,-!p5@Tcf3!0.55!2.54!Tcf3;;chr11:100721640..100721658,+!p2@Stat5a!0.55!2.54!Stat5a;;chrX:108009734..108009752,+!p2@Pou3f4!0.55!2.54!Pou3f4;;chr7:31065553..31065603,+!p@chr7:31065553..31065603,+!0.55!2.54!Thap8;;chr2:28477422..28477433,-!p2@Gfi1b!0.55!2.54!Gfi1b;;chr5:147760305..147760324,+!p2@Gtf3a!0.54!14.61!Gtf3a;;chr11:101646155..101646170,-!p3@Etv4!0.54!3.18!Etv4;;chr7:134169762..134169795,-!p3@Maz!0.53!27.31!Maz;;chr17:47874074..47874098,+!p3@Tfeb!0.53!5.08!Tfeb;;chr1:38721792..38721845,-!p1@Aff3!0.53!3.18!Aff3;;chr7:133839456..133839523,+!p1@Bola2!0.52!149.87!Bola2;;chr5:34163023..34163090,+!p2@Whsc1!0.52!19.05!Whsc1;;chr4:87452200..87452229,-!p2@Mllt3!0.52!5.72!Mllt3;;chr7:13420092..13420160,+!p2@Zfp110!0.52!5.08!Zfp110;;chr18:35721940..35721951,+!p5@Matr3!0.52!3.18!Matr3;;chr1:181733959..181733977,-!p4@Ahctf1!0.52!3.18!Ahctf1;;chr10:126727842..126727859,+!p1@Ddit3!0.51!85.09!Ddit3;;chr12:84828663..84828679,-!p1@Dpf3!0.51!22.23!Dpf3;;chr13:64254457..64254497,-!p1@Zfp367!0.51!12.70!Zfp367;;chr6:128312772..128312792,+!p2@Foxm1!0.51!4.45!Foxm1;;chr15:75771423..75771445,+!p2@Zfp623!0.51!3.81!Zfp623;;chr2:154395581..154395610,-!p1@E2f1!0.50!28.58!E2f1;;chr17:34169293..34169320,+!p3@Rxrb!0.50!8.26!Rxrb;;chr11:3190303..3190351,+!p3@Patz1!0.50!5.08!Patz1;;chr6:124662297..124662371,+!p1@Phb2!0.49!558.83!Phb2;;chr11:100721761..100721851,+!p1@Stat5a!0.49!20.32!Stat5a;;chr3:32264565..32264613,-!p1@Zmat3!0.48!29.85!Zmat3;;chr3:14578609..14578687,+!p1@E2f5!0.48!26.04!E2f5;;chr13:37949830..37949861,+!p7@Rreb1!0.48!4.45!Rreb1;;chr7:16986536..16986582,+!p1@Zc3h4!0.47!55.88!Zc3h4;;chr6:86619104..86619119,-!p1@Mxd1!0.47!21.59!Mxd1;;chr7:134169810..134169824,-!p7@Maz!0.47!9.53!Maz;;chr15:99532528..99532550,+!p3@Smarcd1!0.47!8.89!Smarcd1;;chr5:140267510..140267555,+!p2@Mafk!0.47!5.72!Mafk;;chr4:154335024..154335039,+!p1@Hes5!0.47!2.54!Hes5;;chr11:101413151..101413207,-!p1@Brca1!0.46!24.77!Brca1;;chr7:135020060..135020124,-!p2@Zfp668!0.46!10.80!Zfp668;;chr15:100058660..100058711,+!p1@Gm1862,p2@Atf1!0.46!8.26!Atf1;;chr6:124959016..124959061,+!p3@Zfp384!0.46!6.35!Zfp384;;chr4:87452180..87452196,-!p3@Mllt3!0.46!4.45!Mllt3;;chr13:30077917..30077928,-!p4@E2f3!0.46!2.54!E2f3;;chr12:77470660..77470671,-!p8@Zbtb25!0.46!1.91!Zbtb25;;chr15:100058744..100058772,+!p4@Gm1862,p6@Atf1!0.46!1.91!Atf1;;chr5:148081667..148081678,+!p3@Pdx1!0.46!1.91!Pdx1;;chr5:92391970..92391984,+!p5@Thap6!0.46!1.91!Thap6;;chr7:122989594..122989626,-!p1@Sox6!0.46!1.91!Sox6;;chr7:13563672..13563687,+!p5@Zfp446!0.46!1.91!Zfp446;;chr11:101645774..101645795,-!p9@Etv4!0.46!1.91!Etv4;;chr11:120624106..120624107,+!p13@Hmga1-rs1,p14@Hmga1!0.46!1.91!Hmga1;;chr7:30089006..30089022,+!p3@Dpf1!0.46!1.91!Dpf1;;chr8:73222425..73222444,+!p2@Jund!0.46!1.91!Jund;;chr7:52963182..52963199,+!p9@Dbp!0.46!1.91!Dbp;;chr5:77524250..77524300,-!p1@Hopx!0.45!52.07!Hopx;;chr7:56136362..56136400,-!p1@E2f8!0.45!15.88!E2f8;;chr7:133838869..133838945,+!p2@Bola2!0.45!10.16!Bola2;;chr5:77524231..77524245,-!p3@Hopx!0.45!5.72!Hopx;;chr12:119540395..119540415,-!p5@Sp4!0.45!3.18!Sp4;;chr16:55822638..55822669,-!p3@Nfkbiz!0.45!3.18!Nfkbiz;;chr1:33871240..33871251,-!p5@Zfp451!0.45!2.54!Zfp451;;chr11:120624132..120624143,+!p10@Hmga1,p9@Hmga1-rs1!0.45!2.54!Hmga1;;chr2:156665817..156665877,+!p1@Tgif2!0.44!15.24!Tgif2;;chr7:16986617..16986632,+!p2@Zc3h4!0.44!6.35!Zc3h4;;chr7:30691543..30691586,-!p2@Zfp27!0.44!5.08!Zfp27;;chr10:110182489..110182589,+!p1@E2f7!0.43!29.21!E2f7;;chr7:135019614..135019666,-!p1@Zfp668!0.43!19.69!Zfp668;;chr14:52640373..52640412,-!p1@Zfp219!0.43!13.97!Zfp219;;chr7:4866778..4866801,+!p3@Zfp628!0.43!8.26!Zfp628;;chr16:17531086..17531109,-!p3@Thap7!0.43!6.99!Thap7;;chr12:85534720..85534751,-!p4@C130039O16Rik!0.43!3.81!C130039O16Rik;;chr3:96001503..96001557,-!p1@Bola1!0.42!50.17!Bola1;;chr10:79862089..79862129,-!p2@Mbd3!0.42!25.40!Mbd3;;chr12:85534957..85535017,-!p2@C130039O16Rik!0.42!11.43!C130039O16Rik;;chr17:27693788..27693803,+!p3@Hmga1,p4@Hmga1-rs1!0.42!10.16!Hmga1;;chr3:94641302..94641341,+!p3@Pogz!0.42!8.89!Pogz;;chr7:135020324..135020368,-!p4@Zfp668!0.42!6.35!Zfp668;;chrX:34443339..34443348,-!p2@Nkrf!0.42!5.72!Nkrf;;chr7:56136974..56136989,-!p4@E2f8!0.42!3.18!E2f8;;chr5:65203599..65203617,+!p8@Klf3!0.42!3.18!Klf3;;chr11:69393784..69393805,+!p3@Trp53!0.42!2.54!Trp53;;chr13:64254437..64254453,-!p4@Zfp367!0.42!2.54!Zfp367;;chr9:20757246..20757278,-!p1@Dnmt1!0.41!67.31!Dnmt1;;chr11:3189883..3189925,+!p1@Patz1!0.41!31.75!Patz1;;chr9:57684520..57684612,-!p1@Arid3b!0.41!20.32!Arid3b;;chr5:140267476..140267493,+!p1@Mafk!0.41!12.70!Mafk;;chr8:72520162..72520197,-!p4@Gatad2a!0.41!11.43!Gatad2a;;chr12:77470372..77470456,-!p1@Zbtb25!0.41!9.53!Zbtb25;;chr7:25292076..25292114,+!p4@Zfp428!0.41!5.72!Zfp428;;chr14:52639709..52639753,-!p5@Zfp219!0.41!4.45!Zfp219;;chr11:3189171..3189197,+!p4@Patz1!0.41!3.81!Patz1;;chr3:51144740..51144743,-!p7@Elf2!0.41!3.18!Elf2;;chr8:107821563..107821642,+!p1@E2f4!0.40!64.77!E2f4;;chr1:36364590..36364608,+!p1@Arid5a!0.40!22.86!Arid5a;;chr9:44113678..44113771,-!p1@Hinfp!0.40!15.88!Hinfp;;chr3:95032558..95032641,-!p2@Mllt11!0.40!12.07!Mllt11;;chr19:5637489..5637500,+!p5@Rela!0.40!5.08!Rela;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!0.40!3.81!Hmga1;;chr3:94668075..94668087,+!p6@Pogz!0.40!2.54!Pogz;;chr17:32501375..32501433,-!p1@Wiz!0.39!52.07!Wiz;;chr4:133310237..133310293,-!p2@Arid1a!0.39!27.94!Arid1a;;chr15:81494344..81494388,+!p1@L3mbtl2!0.39!25.40!L3mbtl2;;chr8:108583550..108583595,+!p2@Nfatc3!0.39!9.53!Nfatc3;;chr6:47827619..47827639,+!p2@Zfp282!0.39!8.89!Zfp282;;chr9:21875812..21875860,-!p1@Zfp653!0.39!5.72!Zfp653;;chr16:44173384..44173407,+!p2@Gm608!0.39!5.08!Gm608;;chr8:87324292..87324303,-!p4@Nfix!0.39!4.45!Nfix;;chr7:148513637..148513648,-!p6@Deaf1!0.39!3.18!Deaf1;;chr5:138188180..138188203,+!p12@Tsc22d4!0.39!1.91!Tsc22d4;;chr8:72498160..72498214,-!p1@Gatad2a!0.38!27.94!Gatad2a;;chr8:72498217..72498232,-!p8@Gatad2a!0.38!7.62!Gatad2a;;chr4:118954858..118954885,-!p5@Ybx1!0.38!3.18!Ybx1;;chr12:85534895..85534915,-!p8@C130039O16Rik!0.38!2.54!C130039O16Rik;;chr2:163028888..163028905,+!p3@Tox2!0.38!1.91!Tox2;;chr4:149611320..149611348,+!p1@Eno1,p1@Gm5506,p1@LOC100045967,p1@LOC100503183!0.37!92.71!Eno1;;chr7:135056024..135056042,+!p1@Myst1!0.37!60.33!Myst1;;chr6:120314112..120314181,+!p1@Kdm5a!0.37!40.01!Kdm5a;;chr17:27110106..27110164,+!p1@Ggnbp1,p1@Zbtb9!0.37!34.93!Zbtb9;;chr11:100711801..100711910,-!p1@Stat5b!0.37!29.21!Stat5b;;chr6:124959279..124959335,+!p1@Zfp384!0.37!20.32!Zfp384;;chr10:70700755..70700772,-!p2@Tfam!0.37!9.53!Tfam;;chr12:77470507..77470572,-!p2@Zbtb25!0.37!7.62!Zbtb25;;chr9:20297135..20297154,-!p2@Zfp426!0.37!6.99!Zfp426;;chr7:148514080..148514108,-!p4@Deaf1!0.37!3.81!Deaf1;;chr2:153067079..153067090,-!p2@Plagl2!0.37!3.81!Plagl2;;chr1:9690474..9690493,-!p3@Mybl1!0.37!2.54!Mybl1;;chr15:80085678..80085693,+!p2@Atf4!0.37!2.54!Atf4;;chr17:27693622..27693635,+!p11@Hmga1-rs1,p12@Hmga1!0.37!1.91!Hmga1;;chr11:101646480..101646496,-!p4@Etv4!0.37!1.91!Etv4;;chr16:17531112..17531164,-!p1@Thap7!0.36!21.59!Thap7;;chr8:72519989..72520007,-!p5@Gatad2a!0.36!9.53!Gatad2a;;chr7:26067242..26067273,+!p3@Cic!0.36!8.26!Cic;;chr8:114167325..114167350,+!p2@Zfp1!0.36!6.99!Zfp1;;chr16:92826249..92826325,-!p1@Runx1!0.36!4.45!Runx1;;chr16:95923586..95923598,+!p5@Ets2!0.36!1.91!Ets2;;chr3:96002383..96002407,-!p4@Bola1!0.36!1.91!Bola1;;chr4:133312435..133312454,-!p22@Arid1a!0.36!1.27!Arid1a;;chr16:55838743..55838754,-!p6@Nfkbiz!0.36!1.27!Nfkbiz;;chr16:92826338..92826347,-!p6@Runx1!0.36!1.27!Runx1;;chr11:96684043..96684069,-!p9@Nfe2l1!0.36!1.27!Nfe2l1;;chr11:58717660..58717670,-!p4@Zfp39!0.36!1.27!Zfp39;;chr12:77278238..77278252,-!p1@Esr2!0.36!1.27!Esr2;;chr7:30088957..30088966,+!p6@Dpf1!0.36!1.27!Dpf1;;chr7:122989632..122989668,-!p2@Sox6!0.36!1.27!Sox6;;chr5:148081686..148081715,+!p1@Pdx1!0.36!1.27!Pdx1;;chr2:156665551..156665562,+!p6@Tgif2!0.36!1.27!Tgif2;;chr15:102300965..102300977,+!p1@Pcbp2!0.35!645.19!Pcbp2;;chr2:167514456..167514473,+!p1@Cebpb!0.35!90.17!Cebpb;;chr7:52253030..52253070,+!p1@Irf3!0.35!45.09!Irf3;;chr7:13595144..13595205,-!p1@Zbtb45!0.35!38.74!Zbtb45;;chr3:32409460..32409483,+!p2@Zfp639!0.35!8.89!Zfp639;;chr15:25914114..25914128,+!p2@Zfp622!0.35!7.62!Zfp622;;chr15:79177964..79177986,+!p1@Maff!0.35!6.35!Maff;;chr12:77471500..77471515,+!p2@Zbtb1!0.35!5.08!Zbtb1;;chr10:80598968..80599012,+!p5@Zbtb7a!0.35!1.91!Zbtb7a;;chr2:26236120..26236174,-!p1@Snapc4!0.34!47.63!Snapc4;;chr19:47125313..47125405,-!p1@Pcgf6!0.34!42.55!Pcgf6;;chr17:47873985..47874056,+!p1@Tfeb!0.34!15.88!Tfeb;;chr7:26052688..26052742,+!p1@Cic!0.34!13.34!Cic;;chr2:164737060..164737083,-!p1@Zfp335!0.34!8.89!Zfp335;;chr8:72498017..72498059,-!p13@Gatad2a!0.34!2.54!Gatad2a;;chr1:74634786..74634804,-!p5@Zfp142!0.34!1.91!Zfp142;;chr13:59924409..59924418,-!p6@Zcchc6!0.34!1.91!Zcchc6;;ch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+|ffid_belonging_in_development=CL:0000049,CL:0000134
 |fonse_cell_line=FF:0101035
 |fonse_cell_line_closure=FF:0101035
@@ Line 36: / Line 45: @@
 |has_quality=
 |id=FF:13063-139I3
-|is_a=EFO:0002091;;FF:0000103;;FF:0000498
+|is_a=EFO:0002091;;FF:0000498
-|name=J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep1
+|is_obsolete=
+|library_id=CNhs12449
+|library_id_phase_based=2:CNhs12449
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;13063
+|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/mouse#srna;sample;SRhi10062.ATCACG.13063
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;13063
+|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/mouse#srna;sample;SRhi10062.ATCACG.13063
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.timecourse.hCAGE/J2E%2520erythroblastic%2520leukemia%2520response%2520to%2520erythropoietin%252c%252000hr00min%252c%2520biol_rep1.CNhs12449.13063-139I3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.timecourse.hCAGE/J2E%2520erythroblastic%2520leukemia%2520response%2520to%2520erythropoietin%252c%252000hr00min%252c%2520biol_rep1.CNhs12449.13063-139I3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.timecourse.hCAGE/J2E%2520erythroblastic%2520leukemia%2520response%2520to%2520erythropoietin%252c%252000hr00min%252c%2520biol_rep1.CNhs12449.13063-139I3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.timecourse.hCAGE/J2E%2520erythroblastic%2520leukemia%2520response%2520to%2520erythropoietin%252c%252000hr00min%252c%2520biol_rep1.CNhs12449.13063-139I3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.timecourse.hCAGE/J2E%2520erythroblastic%2520leukemia%2520response%2520to%2520erythropoietin%252c%252000hr00min%252c%2520biol_rep1.CNhs12449.13063-139I3.mm9.nobarcode.rdna.fa.gz
+|name=J2E erythroblastic leukemia response to erythropoietin
 |namespace=FANTOM5
 |part_of=
 |profile_cagescan=,,,
 |profile_hcage=CNhs12449,LSID915,release011,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.95722412156211,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,0.357124963214864,0,0,0,0,0,0,0,0,0,0,0,0,1.15323004360804,-0.558422792324031,0,0.620672433196373,0,0,-0.06664137447931,-0.102559773239477,-0.169679798868993,-0.187015592526602,-0.984211366477826,-0.269868638010351,1.40021263177612,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0,0,0,-0.0696031033168343,-0.243225778194271,-0.310650657339386,-0.158091042771083,-0.140687683267293,0,-0.0780086007519514,-0.193049676202953,0,0,0,-0.168258108979698,-0.156173843174096,1.18265491920272,-0.0788315948399074,0,0,0,0,0,0,0.833393683364832,1.11107564169942,1.05352652730257,0,0,0,1.07171714465669,0
 |rna_box=139
 |rna_catalog_number=
-|rna_concentration=0.80
+|rna_concentration=0.8
 |rna_extraction_protocol=Repurified by minelute
 |rna_lot_number=
@@ Line 56: / Line 80: @@
 |rna_tube_id=139I3
 |rna_weight_ug=8.03
+|rnaseq_library_id=SRhi10062.ATCACG
 |sample_age=
+|sample_category=time courses
 |sample_cell_catalog=
 |sample_cell_line=J2E
@@ Line 75: / Line 101: @@
 |sample_strain=
 |sample_tissue=blood
+|time= 00hr00min
+|timecourse=J2E_erythrocytic_differentiation_(EPO)
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+|xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:13063-139I3;search_select_hide=table117:13063-139I3
 }}

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FF:13063-139I3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:50, 4 June 2020

CNhs12449

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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