FF:11717-123C7: Difference between revisions

Latest revision as of 18:16, 4 June 2020

Name:	Mouse Mesenchymal stem cells - bone marrow derived, donor1
Species:	Mouse (Mus musculus)
Library ID:	CNhs12628
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	mesenchymal stem cell
cell line	NA
company	Sciencell/3H
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	RNAMCS1
catalog number	custom
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005198

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs12628		CAGE		DRX008825		DRR009697

Accession ID Mm9

Library id		BAM		CTSS
CNhs12628		DRZ001122		DRZ002507

Accession ID Mm10

Library id		BAM		CTSS
CNhs12628		DRZ012472		DRZ013857

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

CNhs12628

0	0
1	0
10	0
100	0
1000	0.0678
1001	-0.0749
1002	0.168
1003	-0.0137
1004	0
1005	0
1006	0.304
1007	-0.451
1008	0
1009	-0.00295
101	-0.507
1010	0
1011	0.00323
1012	0
1013	0.175
1014	-0.0874
1015	0.0682
1016	-0.187
1017	0
1018	0
1019	0
102	0
1020	0.447
1021	0.279
1022	-0.124
1023	0
1024	-0.14
1025	-0.0611
1026	0
1027	0
1028	0
1029	-0.176
103	0.0455
1030	0
1031	-0.18
1032	-0.177
1033	-0.0382
1034	0
1035	0
1036	-0.0244
1037	0
1038	-0.0333
1039	-5.195984e-4
104	0
1040	-0.0413
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: CNhs12628

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	8.47186e-6
MA0003.1	MA0003.1	0.135
MA0004.1	MA0004.1	0.302
MA0006.1	MA0006.1	0.528
MA0007.1	MA0007.1	0.609
MA0009.1	MA0009.1	0.385
MA0014.1	MA0014.1	0.704
MA0017.1	MA0017.1	0.248
MA0018.2	MA0018.2	0.0973
MA0019.1	MA0019.1	0.592
MA0024.1	MA0024.1	0.00552
MA0025.1	MA0025.1	0.694
MA0027.1	MA0027.1	0.703
MA0028.1	MA0028.1	0.846
MA0029.1	MA0029.1	0.821
MA0030.1	MA0030.1	0.335
MA0031.1	MA0031.1	0.84
MA0035.2	MA0035.2	0.232
MA0038.1	MA0038.1	7.88839e-5
MA0039.2	MA0039.2	0.812
MA0040.1	MA0040.1	0.606
MA0041.1	MA0041.1	0.466
MA0042.1	MA0042.1	0.92
MA0043.1	MA0043.1	0.141
MA0046.1	MA0046.1	1.94943e-7
MA0047.2	MA0047.2	0.939
MA0048.1	MA0048.1	0.536
MA0050.1	MA0050.1	1.72552e-7
MA0051.1	MA0051.1	6.99951e-5
MA0052.1	MA0052.1	0.051
MA0055.1	MA0055.1	0.729
MA0057.1	MA0057.1	0.23
MA0058.1	MA0058.1	0.139
MA0059.1	MA0059.1	0.232
MA0060.1	MA0060.1	9.6513e-14
MA0061.1	MA0061.1	0.0305
MA0062.2	MA0062.2	0.097
MA0065.2	MA0065.2	0.0102
MA0066.1	MA0066.1	0.0164
MA0067.1	MA0067.1	0.816
MA0068.1	MA0068.1	0.483
MA0069.1	MA0069.1	0.986
MA0070.1	MA0070.1	0.237
MA0071.1	MA0071.1	0.0996
MA0072.1	MA0072.1	0.271
MA0073.1	MA0073.1	0.683
MA0074.1	MA0074.1	0.0346
MA0076.1	MA0076.1	0.502
MA0077.1	MA0077.1	0.581
MA0078.1	MA0078.1	0.601
MA0079.2	MA0079.2	0.689
MA0080.2	MA0080.2	2.26373e-13
MA0081.1	MA0081.1	8.84382e-4
MA0083.1	MA0083.1	0.342
MA0084.1	MA0084.1	0.75
MA0087.1	MA0087.1	0.54
MA0088.1	MA0088.1	0.317
MA0090.1	MA0090.1	0.815
MA0091.1	MA0091.1	0.327
MA0092.1	MA0092.1	0.453
MA0093.1	MA0093.1	0.295
MA0099.2	MA0099.2	1.76179e-4
MA0100.1	MA0100.1	0.884
MA0101.1	MA0101.1	0.0935
MA0102.2	MA0102.2	0.549
MA0103.1	MA0103.1	0.968
MA0104.2	MA0104.2	0.806
MA0105.1	MA0105.1	0.00866
MA0106.1	MA0106.1	0.21
MA0107.1	MA0107.1	0.0671
MA0108.2	MA0108.2	0.0673
MA0111.1	MA0111.1	0.308
MA0112.2	MA0112.2	7.36373e-5
MA0113.1	MA0113.1	0.331
MA0114.1	MA0114.1	0.334
MA0115.1	MA0115.1	0.573
MA0116.1	MA0116.1	0.0026
MA0117.1	MA0117.1	0.719
MA0119.1	MA0119.1	0.295
MA0122.1	MA0122.1	0.5
MA0124.1	MA0124.1	0.76
MA0125.1	MA0125.1	0.0698
MA0131.1	MA0131.1	0.153
MA0135.1	MA0135.1	0.219
MA0136.1	MA0136.1	2.53605e-12
MA0137.2	MA0137.2	0.973
MA0138.2	MA0138.2	0.644
MA0139.1	MA0139.1	0.123
MA0140.1	MA0140.1	0.18
MA0141.1	MA0141.1	0.0159
MA0142.1	MA0142.1	0.818
MA0143.1	MA0143.1	0.0965
MA0144.1	MA0144.1	0.448
MA0145.1	MA0145.1	0.0367
MA0146.1	MA0146.1	0.00674
MA0147.1	MA0147.1	0.793
MA0148.1	MA0148.1	0.667
MA0149.1	MA0149.1	0.232
MA0150.1	MA0150.1	0.00547
MA0152.1	MA0152.1	0.363
MA0153.1	MA0153.1	4.37683e-5
MA0154.1	MA0154.1	0.00494
MA0155.1	MA0155.1	0.403
MA0156.1	MA0156.1	1.76814e-4
MA0157.1	MA0157.1	0.535
MA0159.1	MA0159.1	0.00733
MA0160.1	MA0160.1	0.0992
MA0162.1	MA0162.1	0.182
MA0163.1	MA0163.1	6.19654e-6
MA0164.1	MA0164.1	0.863
MA0258.1	MA0258.1	0.00814
MA0259.1	MA0259.1	0.599

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: CNhs12628

Novel motif	Logo	P-value
1	1	0.103
10	10	0.0593
100	100	0.787
101	101	0.803
102	102	0.591
103	103	0.113
104	104	0.916
105	105	0.444
106	106	0.0215
107	107	0.352
108	108	0.561
109	109	0.0204
11	11	0.055
110	110	0.1
111	111	0.0211
112	112	0.0711
113	113	0.759
114	114	0.0176
115	115	0.388
116	116	0.146
117	117	0.0289
118	118	0.297
119	119	0.229
12	12	0.674
120	120	0.0439
121	121	0.383
122	122	0.911
123	123	0.644
124	124	0.824
125	125	0.174
126	126	0.526
127	127	0.276
128	128	0.0501
129	129	0.192
13	13	0.0926
130	130	0.509
131	131	0.0933
132	132	0.535
133	133	0.129
134	134	0.722
135	135	0.923
136	136	0.604
137	137	0.462
138	138	0.379
139	139	0.188
14	14	0.568
140	140	0.0653
141	141	0.191
142	142	0.327
143	143	0.0108
144	144	0.89
145	145	0.151
146	146	0.673
147	147	0.801
148	148	0.15
149	149	0.0146
15	15	0.0894
150	150	0.136
151	151	0.237
152	152	0.0951
153	153	0.854
154	154	0.519
155	155	0.396
156	156	0.314
157	157	0.588
158	158	0.391
159	159	0.739
160	160	0.468
161	161	0.0826
162	162	0.825
163	163	0.913
164	164	0.139
165	165	0.101
166	166	0.629
167	167	0.392
168	168	0.51
169	169	0.00462
17	17	0.0319
18	18	0.117
19	19	0.134
2	2	0.693
20	20	0.268
21	21	0.34
22	22	0.114
23	23	0.113
24	24	0.124
25	25	0.849
26	26	0.00947
27	27	0.656
28	28	0.734
29	29	0.0855
3	3	0.0204
30	30	0.725
31	31	0.298
32	32	0.119
33	33	0.313
34	34	0.403
35	35	0.62
36	36	0.0173
37	37	0.0401
38	38	0.15
39	39	0.669
4	4	0.316
40	40	0.0641
41	41	0.276
42	42	0.238
43	43	0.0444
44	44	0.0475
45	45	0.504
46	46	0.0695
47	47	0.252
48	48	0.234
49	49	0.075
5	5	0.206
50	50	0.454
51	51	0.738
52	52	0.446
53	53	0.945
54	54	0.695
55	55	0.589
56	56	0.145
57	57	0.551
58	58	0.385
59	59	0.00514
6	6	1
60	60	0.114
61	61	0.331
62	62	0.123
63	63	0.105
64	64	0.324
65	65	0.0472
66	66	0.779
67	67	0.179
68	68	0.0536
69	69	0.208
7	7	0.469
70	70	2.89002e-4
71	71	0.0313
72	72	0.11
73	73	0.034
74	74	0.837
75	75	0.074
76	76	0.337
77	77	0.117
78	78	0.0305
79	79	0.729
8	8	0.0625
80	80	0.852
81	81	0.166
82	82	0.213
83	83	0.936
84	84	0.539
85	85	0.06
86	86	0.442
87	87	0.143
88	88	0.954
89	89	0.0809
9	9	0.479
90	90	0.51
91	91	0.2
92	92	0.0753
93	93	0.239
94	94	0.894
95	95	0.039
96	96	0.888
97	97	0.876
98	98	0.123
99	99	0.747

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: CNhs12628

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000112 mouse mesenchymal stem cell of bone marrow 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)
0000548 (animal cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000219 (motile cell)
0000134 (mesenchymal cell)
0000255 (eukaryotic cell)
0000034 (stem cell)
0002092 (bone marrow cell)
0002540 (mesenchymal stem cell of the bone marrow)

UBERON: Anatomy
0000468 (multi-cellular organism)
0002371 (bone marrow)
0001474 (bone element)
0002384 (connective tissue)
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)
0000112 (mouse mesenchymal stem cell of bone marrow 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:0000134 (mesenchymal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002371,UBERON:0001474,UBERON:0002384,UBERON:0000926,UBERON:0000479,UBERON:0000062,UBERON:0004765,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0002050,UBERON:0005423,UBERON:0000467,UBERON:0001062,UBERON:0005291,UBERON:0006598,UBERON:0002532,UBERON:0002204,UBERON:0001434,UBERON:0002390,UBERON:0002193,UBERON:0002405,UBERON:0003081,UBERON:0006603,UBERON:0003061
+|DRA_sample_Accession=CAGE@SAMD00005198
-|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000144,CL:0000723,CL:0000048,CL:0000548,CL:0000034,CL:0000012,CL:0002320,CL:0000063,CL:0002371,CL:0000219,CL:0000004,CL:0000134,CL:0000255,CL:0002092,CL:0002540
+|accession_numbers=CAGE;DRX008825;DRR009697;DRZ001122;DRZ002507;DRZ012472;DRZ013857
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002371,UBERON:0001474,UBERON:0002384,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:0000723,CL:0000048,CL:0000548,CL:0002320,CL:0002371,CL:0000219,CL:0000134,CL:0000255,CL:0000034,CL:0002092,CL:0002540
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000002,FF:0000101,FF:0000103,FF:0000001,FF:0000112
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr2:90936901..90936945,+!p1@Sfpi1!2.07!583.14!Sfpi1;;chr2:90936947..90936977,+!p2@Sfpi1!1.83!127.79!Sfpi1;;chr6:29476690..29476724,+!p1@Irf5!1.67!202.48!Irf5;;chr2:90936978..90937023,+!p3@Sfpi1!1.67!84.59!Sfpi1;;chr19:5447886..5447905,+!p1@Fosl1!1.61!40.05!Fosl1;;chr1:193007123..193007139,-!p1@Atf3!1.54!182.23!Atf3;;chr2:173044380..173044432,-!p1@Zbp1!1.54!77.39!Zbp1;;chr7:148452314..148452329,-!p1@Irf7!1.51!207.43!Irf7;;chr7:35904304..35904320,+!p1@Cebpa!1.47!553.44!Cebpa;;chr2:90922554..90922575,+!p4@Sfpi1!1.47!50.39!Sfpi1;;chr2:160192793..160192809,-!p1@Mafb!1.34!302.82!Mafb;;chr8:87225329..87225396,+!p1@Lyl1!1.33!75.59!Lyl1;;chr7:87170879..87170914,+!p2@Zfp710!1.33!46.34!Zfp710;;chrX:7341077..7341091,+!p5@Tfe3!1.32!33.75!Tfe3;;chr8:123260252..123260264,+!p1@Irf8!1.31!134.54!Irf8;;chrX:7339938..7339963,+!p1@Tfe3!1.25!82.79!Tfe3;;chr6:145814003..145814056,-!p1@Bhlhe41!1.24!47.24!Bhlhe41;;chr2:90922519..90922544,+!p6@Sfpi1!1.24!18.00!Sfpi1;;chr17:27693887..27693908,+!p2@Hmga1-rs1,p2@Hmga1!1.22!111.14!Hmga1;;chr2:90936886..90936898,+!p5@Sfpi1!1.22!18.45!Sfpi1;;chr12:87027598..87027652,+!p1@Batf!1.20!34.20!Batf;;chr11:5761979..5761992,+!p2@Aebp1!1.20!29.70!Aebp1;;chr2:91034924..91034946,-!p2@Nr1h3!1.19!18.00!Nr1h3;;chr7:25917492..25917512,-!p1@Pou2f2!1.16!22.95!Pou2f2;;chr2:167514456..167514473,+!p1@Cebpb!1.09!495.39!Cebpb;;chr11:11586218..11586285,+!p1@Ikzf1!1.09!36.00!Ikzf1;;chr10:67000609..67000625,+!p1@Egr2!1.09!26.55!Egr2;;chr16:15887371..15887385,+!p1@Cebpd!1.08!371.66!Cebpd;;chr2:173044357..173044377,-!p2@Zbp1!1.08!15.75!Zbp1;;chr1:186556410..186556424,-!p1@Hlx!1.07!34.20!Hlx;;chr8:87502608..87502623,-!p1@Junb!1.06!172.33!Junb;;chr19:46379199..46379301,+!p1@Nfkb2!1.06!60.29!Nfkb2;;chr7:52960555..52960662,+!p1@Dbp!1.05!87.74!Dbp;;chr6:145813905..145813932,-!p2@Bhlhe41!1.04!19.35!Bhlhe41;;chr19:5447692..5447711,+!p2@Fosl1!1.04!9.90!Fosl1;;chr12:86814833..86814846,+!p1@Fos!1.03!229.47!Fos;;chr19:37509324..37509337,+!p1@Hhex!1.03!69.74!Hhex;;chr16:92826249..92826325,-!p1@Runx1!1.03!24.30!Runx1;;chr1:186556375..186556404,-!p3@Hlx!1.02!17.10!Hlx;;chr9:32348943..32349001,-!p1@Fli1!1.00!75.59!Fli1;;chr15:103170533..103170556,-!p1@Zfp385a!1.00!34.20!Zfp385a;;chr7:20214704..20214800,-!p1@Relb!1.00!30.15!Relb;;chr2:27532479..27532509,+!p3@Rxra!0.99!18.45!Rxra;;chr6:145813964..145813994,-!p3@Bhlhe41!0.99!11.25!Bhlhe41;;chr17:45692676..45692695,+!p2@Nfkbie!0.98!17.55!Nfkbie;;chr11:5761889..5761969,+!p1@Aebp1!0.97!360.41!Aebp1;;chr7:26067619..26067702,+!p2@Cic!0.97!48.59!Cic;;chr7:20408047..20408125,-!p1@Bcl3!0.94!90.44!Bcl3;;chr8:118230866..118230891,-!p4@Maf!0.94!52.64!Maf;;chr17:34784132..34784161,+!p1@Atf6b!0.94!45.44!Atf6b;;chr15:103170516..103170531,-!p2@Zfp385a!0.93!18.45!Zfp385a;;chr16:92697560..92697592,-!p2@Runx1!0.92!47.69!Runx1;;chr17:27693922..27693934,+!p10@Hmga1-rs1,p11@Hmga1!0.91!9.45!Hmga1;;chr15:79178060..79178074,+!p2@Maff!0.91!9.45!Maff;;chr2:30700881..30700916,+!p1@Prrx2!0.90!13.50!Prrx2;;chr6:39068181..39068206,-!p3@Parp12!0.89!14.40!Parp12;;chr2:91035197..91035237,-!p1@Nr1h3!0.89!14.40!Nr1h3;;chr2:168415815..168415872,-!p1@Nfatc2!0.88!37.35!Nfatc2;;chr7:31206743..31206761,+!p1@Nfkbid!0.87!9.00!Nfkbid;;chr4:135699731..135699747,+!p1@Id3!0.86!740.17!Id3;;chr13:37870307..37870337,+!p5@Rreb1!0.86!14.85!Rreb1;;chr2:90936867..90936874,+!p7@Sfpi1!0.86!6.30!Sfpi1;;chr17:71201096..71201114,-!p6@Tgif1!0.85!7.20!Tgif1;;chr8:118231723..118231740,-!p1@Maf!0.84!140.83!Maf;;chr11:16908650..16908690,-!p1@Plek!0.84!38.70!Plek;;chr1:186556323..186556370,-!p2@Hlx!0.84!17.10!Hlx;;chr8:118231350..118231385,-!p7@Maf!0.84!9.00!Maf;;chrX:7339915..7339935,+!p4@Tfe3!0.83!13.50!Tfe3;;chr2:27532513..27532525,+!p8@Rxra!0.83!6.75!Rxra;;chr17:71202822..71202877,-!p3@Tgif1!0.82!17.55!Tgif1;;chr13:31898637..31898653,+!p2@Foxc1!0.82!10.35!Foxc1;;chr17:71200529..71200556,-!p1@Tgif1!0.80!91.79!Tgif1;;chr8:118231705..118231722,-!p3@Maf!0.80!45.89!Maf;;chr6:97757008..97757061,+!p1@Mitf!0.80!24.30!Mitf;;chr4:124805092..124805135,-!p2@Zc3h12a!0.80!24.30!Zc3h12a;;chr10:119913278..119913298,-!p2@Hmga2!0.80!12.60!Hmga2;;chr19:5423800..5423821,-!p5@Drap1!0.80!8.10!Drap1;;chr3:89197057..89197114,-!p1@Zbtb7b!0.77!18.00!Zbtb7b;;chr17:27693818..27693830,+!p7@Hmga1-rs1,p8@Hmga1!0.77!11.70!Hmga1;;chr6:29476741..29476752,+!p4@Irf5!0.77!5.40!Irf5;;chr6:52190467..52190500,-!p1@Hoxa10!0.77!4.95!Hoxa10;;chr15:102828658..102828678,+!p1@Hoxc6!0.77!4.95!Hoxc6;;chr5:53981592..53981616,+!p3@Rbpj!0.76!9.45!Rbpj;;chr11:11585678..11585745,+!p5@Ikzf1!0.76!7.20!Ikzf1;;chr8:107793688..107793736,+!p1@Hsf4!0.76!6.30!Hsf4;;chr7:133839456..133839523,+!p1@Bola2!0.75!253.32!Bola2;;chr16:22439681..22439698,-!p1@Etv5!0.75!89.54!Etv5;;chr7:52071956..52071978,-!p1@Atf5!0.74!162.88!Atf5;;chr7:31741846..31741930,-!p1@LOC100504922,p1@Usf2!0.74!127.79!Usf2;;chr7:133838869..133838945,+!p2@Bola2!0.74!20.70!Bola2;;chr17:47873985..47874056,+!p1@Tfeb!0.73!40.05!Tfeb;;chr3:135354384..135354443,-!p1@Nfkb1!0.73!29.70!Nfkb1;;chr19:5637501..5637517,+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+|ffid_belonging_in_development=CL:0000134
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 38: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000112
 |is_obsolete=
+|library_id=CNhs12628
+|library_id_phase_based=2:CNhs12628
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11717
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11717
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Mesenchymal%2520stem%2520cells%2520-%2520bone%2520marrow%2520derived%252c%2520donor1.CNhs12628.11717-123C7.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/Mouse%2520Mesenchymal%2520stem%2520cells%2520-%2520bone%2520marrow%2520derived%252c%2520donor1.CNhs12628.11717-123C7.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Mesenchymal%2520stem%2520cells%2520-%2520bone%2520marrow%2520derived%252c%2520donor1.CNhs12628.11717-123C7.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Mesenchymal%2520stem%2520cells%2520-%2520bone%2520marrow%2520derived%252c%2520donor1.CNhs12628.11717-123C7.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/Mouse%2520Mesenchymal%2520stem%2520cells%2520-%2520bone%2520marrow%2520derived%252c%2520donor1.CNhs12628.11717-123C7.mm9.nobarcode.rdna.fa.gz
 |name=Mouse Mesenchymal stem cells - bone marrow derived, donor1
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs12628,LSID952,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0,0,0,0,-0.477724963287337,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0,0,0,0,0,0,0,0.362928799806109,-0.279692114203156,0,0,0,0,0,-0.128646233513573,-0.0599308268594139,-0.268459380661064,-0.984211366477826,-0.269868638010351,0.278730678120876,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0,0,0,-0.0502874647232902,-0.243225778194271,-0.310650657339386,-0.158091042771083,-0.140687683267293,0,-0.0780086007519514,-0.0663257857930777,0,0,0,-0.0936805152503294,-0.034987140368652,0.692958819115021,-0.0788315948399074,0,0,0,0,0,0,0.431315700338875,0.324813255836507,0.323285884954866,0,0,0,0.27582678692238,0
 |rna_box=123
 |rna_catalog_number=custom
@@ Line 58: / Line 76: @@
 |rna_weight_ug=10
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 78: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11717-123C7;search_select_hide=table117:11717-123C7
 }}

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FF:11717-123C7: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:16, 4 June 2020

CNhs12628

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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