FF:11812-124E3: Difference between revisions

Latest revision as of 18:21, 4 June 2020

Name:	neurospheres - enteric neuron derived, biol_rep3
Species:	Mouse (Mus musculus)
Library ID:	CNhs13089
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	NA
tissue	ANATOMICAL SYSTEM
dev stage	NA
sex	NA
age	NA
cell type	NA
cell line	NA
company	NA
collaboration	Hideki Enomoto (RIKEN CDB)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	EN3
catalog number	NA
sample type	total RNA
extraction protocol (Details)	OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005099

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13089		CAGE		DRX008864		DRR009736

Accession ID Mm9

Library id		BAM		CTSS
CNhs13089		DRZ001161		DRZ002546

Accession ID Mm10

Library id		BAM		CTSS
CNhs13089		DRZ012511		DRZ013896

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

CNhs13089

0	0
1	0.0847
10	0
100	0.0847
1000	-0.0355
1001	0.0179
1002	-0.102
1003	-0.0162
1004	0
1005	-0.0389
1006	0.127
1007	-0.0212
1008	0
1009	-0.0572
101	-0.0382
1010	0
1011	-0.0279
1012	0
1013	-0.0497
1014	-0.00982
1015	0.132
1016	0.382
1017	0
1018	0
1019	0
102	0
1020	0.528
1021	0.201
1022	-0.315
1023	0
1024	0
1025	-0.0611
1026	0
1027	0.468
1028	0
1029	-0.0213
103	-0.0719
1030	0
1031	0.359
1032	0.0414
1033	0.141
1034	0
1035	0
1036	0.0291
1037	0
1038	-0.00837
1039	-0.241
104	0
1040	0.243
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: CNhs13089

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	1.42633e-5
MA0003.1	MA0003.1	0.0215
MA0004.1	MA0004.1	0.903
MA0006.1	MA0006.1	0.371
MA0007.1	MA0007.1	0.469
MA0009.1	MA0009.1	0.108
MA0014.1	MA0014.1	0.677
MA0017.1	MA0017.1	3.81433e-6
MA0018.2	MA0018.2	0.00639
MA0019.1	MA0019.1	0.435
MA0024.1	MA0024.1	0.0022
MA0025.1	MA0025.1	0.629
MA0027.1	MA0027.1	0.19
MA0028.1	MA0028.1	0.799
MA0029.1	MA0029.1	0.178
MA0030.1	MA0030.1	0.548
MA0031.1	MA0031.1	0.103
MA0035.2	MA0035.2	8.35721e-4
MA0038.1	MA0038.1	0.0561
MA0039.2	MA0039.2	0.086
MA0040.1	MA0040.1	0.776
MA0041.1	MA0041.1	0.487
MA0042.1	MA0042.1	0.778
MA0043.1	MA0043.1	0.123
MA0046.1	MA0046.1	1.64183e-13
MA0047.2	MA0047.2	4.55204e-4
MA0048.1	MA0048.1	0.495
MA0050.1	MA0050.1	0.00453
MA0051.1	MA0051.1	0.0524
MA0052.1	MA0052.1	6.52843e-5
MA0055.1	MA0055.1	0.545
MA0057.1	MA0057.1	0.0923
MA0058.1	MA0058.1	0.843
MA0059.1	MA0059.1	0.351
MA0060.1	MA0060.1	3.58721e-6
MA0061.1	MA0061.1	0.0304
MA0062.2	MA0062.2	0.524
MA0065.2	MA0065.2	3.09663e-6
MA0066.1	MA0066.1	0.131
MA0067.1	MA0067.1	0.709
MA0068.1	MA0068.1	0.334
MA0069.1	MA0069.1	0.513
MA0070.1	MA0070.1	0.0356
MA0071.1	MA0071.1	0.131
MA0072.1	MA0072.1	0.508
MA0073.1	MA0073.1	0.919
MA0074.1	MA0074.1	0.554
MA0076.1	MA0076.1	0.551
MA0077.1	MA0077.1	0.0497
MA0078.1	MA0078.1	0.383
MA0079.2	MA0079.2	0.675
MA0080.2	MA0080.2	6.66875e-11
MA0081.1	MA0081.1	0.465
MA0083.1	MA0083.1	0.699
MA0084.1	MA0084.1	0.429
MA0087.1	MA0087.1	0.834
MA0088.1	MA0088.1	0.917
MA0090.1	MA0090.1	0.518
MA0091.1	MA0091.1	0.627
MA0092.1	MA0092.1	0.827
MA0093.1	MA0093.1	0.954
MA0099.2	MA0099.2	0.0166
MA0100.1	MA0100.1	0.524
MA0101.1	MA0101.1	0.157
MA0102.2	MA0102.2	0.676
MA0103.1	MA0103.1	0.0017
MA0104.2	MA0104.2	0.849
MA0105.1	MA0105.1	5.77945e-4
MA0106.1	MA0106.1	0.949
MA0107.1	MA0107.1	0.0616
MA0108.2	MA0108.2	0.00251
MA0111.1	MA0111.1	0.877
MA0112.2	MA0112.2	5.08362e-6
MA0113.1	MA0113.1	0.165
MA0114.1	MA0114.1	3.29012e-5
MA0115.1	MA0115.1	0.0148
MA0116.1	MA0116.1	0.00161
MA0117.1	MA0117.1	0.647
MA0119.1	MA0119.1	0.093
MA0122.1	MA0122.1	0.75
MA0124.1	MA0124.1	0.848
MA0125.1	MA0125.1	0.115
MA0131.1	MA0131.1	0.53
MA0135.1	MA0135.1	0.038
MA0136.1	MA0136.1	3.46439e-8
MA0137.2	MA0137.2	0.468
MA0138.2	MA0138.2	0.465
MA0139.1	MA0139.1	0.126
MA0140.1	MA0140.1	6.02301e-5
MA0141.1	MA0141.1	0.00276
MA0142.1	MA0142.1	0.058
MA0143.1	MA0143.1	0.398
MA0144.1	MA0144.1	0.248
MA0145.1	MA0145.1	0.0402
MA0146.1	MA0146.1	0.527
MA0147.1	MA0147.1	0.677
MA0148.1	MA0148.1	0.00427
MA0149.1	MA0149.1	0.962
MA0150.1	MA0150.1	0.0595
MA0152.1	MA0152.1	0.461
MA0153.1	MA0153.1	1.84587e-13
MA0154.1	MA0154.1	0.00356
MA0155.1	MA0155.1	0.512
MA0156.1	MA0156.1	1.59173e-4
MA0157.1	MA0157.1	0.044
MA0159.1	MA0159.1	0.0644
MA0160.1	MA0160.1	0.0221
MA0162.1	MA0162.1	0.185
MA0163.1	MA0163.1	0.00383
MA0164.1	MA0164.1	0.691
MA0258.1	MA0258.1	0.00605
MA0259.1	MA0259.1	0.955

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: CNhs13089

Novel motif	Logo	P-value
1	1	0.145
10	10	0.0923
100	100	0.961
101	101	0.72
102	102	0.987
103	103	0.128
104	104	0.577
105	105	0.045
106	106	0.0235
107	107	0.105
108	108	0.929
109	109	0.0419
11	11	0.121
110	110	0.13
111	111	0.00912
112	112	0.0262
113	113	0.553
114	114	0.0384
115	115	0.791
116	116	0.445
117	117	0.249
118	118	0.357
119	119	0.032
12	12	0.485
120	120	0.293
121	121	0.281
122	122	0.367
123	123	0.843
124	124	0.281
125	125	0.835
126	126	0.471
127	127	0.142
128	128	0.0645
129	129	0.153
13	13	0.0137
130	130	0.658
131	131	0.397
132	132	0.434
133	133	0.9
134	134	0.661
135	135	0.633
136	136	0.86
137	137	0.381
138	138	0.966
139	139	0.0593
14	14	0.553
140	140	0.0149
141	141	0.196
142	142	0.747
143	143	0.472
144	144	0.973
145	145	0.21
146	146	0.418
147	147	0.867
148	148	0.46
149	149	0.132
15	15	0.108
150	150	0.338
151	151	0.321
152	152	0.0813
153	153	0.873
154	154	0.87
155	155	0.685
156	156	7.07185e-14
157	157	0.31
158	158	0.608
159	159	0.405
160	160	0.148
161	161	0.113
162	162	0.899
163	163	0.896
164	164	0.109
165	165	0.0682
166	166	0.639
167	167	0.36
168	168	0.526
169	169	0.0123
17	17	0.0493
18	18	0.786
19	19	0.171
2	2	0.57
20	20	0.7
21	21	0.324
22	22	0.272
23	23	0.214
24	24	0.0953
25	25	0.395
26	26	0.0243
27	27	0.386
28	28	0.424
29	29	0.447
3	3	0.0738
30	30	0.666
31	31	0.782
32	32	0.102
33	33	0.471
34	34	0.295
35	35	0.901
36	36	0.552
37	37	0.0627
38	38	0.204
39	39	0.237
4	4	0.576
40	40	0.325
41	41	0.44
42	42	0.283
43	43	0.186
44	44	0.212
45	45	0.302
46	46	0.158
47	47	0.232
48	48	0.153
49	49	0.151
5	5	0.25
50	50	0.422
51	51	0.508
52	52	0.331
53	53	0.436
54	54	0.472
55	55	0.688
56	56	0.548
57	57	0.603
58	58	0.128
59	59	0.0337
6	6	0.615
60	60	0.0869
61	61	0.283
62	62	0.0602
63	63	0.0664
64	64	0.472
65	65	0.105
66	66	0.69
67	67	0.879
68	68	0.39
69	69	0.85
7	7	0.0561
70	70	0.00179
71	71	0.0737
72	72	0.304
73	73	0.115
74	74	0.848
75	75	0.134
76	76	0.623
77	77	0.14
78	78	0.0337
79	79	0.329
8	8	0.126
80	80	0.684
81	81	0.691
82	82	0.0522
83	83	0.102
84	84	0.961
85	85	0.139
86	86	0.232
87	87	0.719
88	88	0.671
89	89	0.025
9	9	0.414
90	90	0.51
91	91	0.342
92	92	0.211
93	93	0.578
94	94	0.518
95	95	0.111
96	96	0.554
97	97	0.727
98	98	0.189
99	99	0.268

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: CNhs13089

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011142 mouse neurospheres - enteric neuron derived sample

part_of relathionship
UBERON:0002005 enteric nervous system

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)
0000540 (neuron)
0000003 (native cell)
0000548 (animal cell)
0002371 (somatic cell)
0002319 (neural cell)
0000393 (electrically responsive cell)
0000211 (electrically active cell)
0000404 (electrically signaling cell)
0000255 (eukaryotic cell)
0000107 (autonomic neuron)

UBERON: Anatomy
0000468 (multi-cellular organism)
0004121 (ectoderm-derived structure)
0010314 (structure with developmental contribution from neural crest)
0011216 (organ system subdivision)
0002410 (autonomic nervous system)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0010313 (neural crest-derived structure)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0000010 (peripheral nervous system)
0002005 (enteric nervous system)
0001016 (nervous system)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000350 (experimentally modified sample)
0011142 (mouse neurospheres - enteric neuron derived 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:0000133 (neurectodermal cell)
CL:0000031 (neuroblast)
CL:0000221 (ectodermal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0000483,UBERON:0000479,UBERON:0002346,UBERON:0000073,UBERON:0002410,UBERON:0004121,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0002050,UBERON:0005423,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0005291,UBERON:0006598,UBERON:0005157,UBERON:0002532,UBERON:0001017,UBERON:0000010,UBERON:0002005,UBERON:0001016,UBERON:0000924,UBERON:0005743,UBERON:0003075,UBERON:0002342,UBERON:0006601,UBERON:0005428,UBERON:0005062,UBERON:0007284
+|DRA_sample_Accession=CAGE@SAMD00005099
-|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000540,CL:0000055,CL:0000047,CL:0000144,CL:0000723,CL:0000048,CL:0000548,CL:0000034,CL:0000012,CL:0002321,CL:0002371,CL:0002319,CL:0000221,CL:0000393,CL:0000220,CL:0000004,CL:0000031,CL:0000211,CL:0000404,CL:0000255,CL:0000107,CL:0000133
+|accession_numbers=CAGE;DRX008864;DRR009736;DRZ001161;DRZ002546;DRZ012511;DRZ013896
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0004121,UBERON:0010314,UBERON:0011216,UBERON:0002410,UBERON:0000061,UBERON:0000465,UBERON:0000477,UBERON:0000467,UBERON:0010313,UBERON:0001062,UBERON:0000480,UBERON:0010317,UBERON:0000010,UBERON:0002005,UBERON:0001016
+|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000540,CL:0000003,CL:0000548,CL:0002371,CL:0002319,CL:0000393,CL:0000211,CL:0000404,CL:0000255,CL:0000107
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000002,FF:0000101,FF:0000103,FF:0000001,FF:0000350,FF:0011142
 |comment=
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr8:59799772..59799789,+!p1@Hand2!2.48!818.82!Hand2;;chr10:86956396..86956411,-!p1@Ascl1!2.30!297.28!Ascl1;;chr5:67490284..67490302,-!p1@Phox2b!2.26!179.45!Phox2b;;chr11:96164821..96164865,+!p1@Hoxb5!1.97!92.85!Hoxb5;;chr2:74583776..74583815,+!p3@Hoxd3!1.94!86.82!Hoxd3;;chr15:78994907..78994926,-!p1@Sox10!1.91!198.40!Sox10;;chr7:108966820..108966835,+!p1@Phox2a!1.87!73.24!Phox2a;;chr2:146047829..146047847,+!p1@Insm1!1.79!106.63!Insm1;;chr6:52154414..52154462,-!p1@Hoxa5!1.78!79.71!Hoxa5;;chr6:52158644..52158677,-!p2@Hoxa6!1.77!58.38!Hoxa6;;chr4:99322820..99322845,+!p1@Foxd3!1.73!66.13!Foxd3;;chr6:52154386..52154407,-!p2@Hoxa5!1.72!64.20!Hoxa5;;chr11:96160426..96160443,+!p2@Hoxb6!1.67!46.10!Hoxb6;;chr12:39510206..39510249,+!p3@Etv1!1.65!44.16!Etv1;;chr15:102865131..102865151,+!p2@Hoxc4!1.55!38.56!Hoxc4;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!1.53!40.93!Pou3f3;;chrX:58146612..58146615,-!p1@Sox3!1.50!30.59!Sox3;;chr5:120120667..120120685,+!p3@Tbx3!1.49!56.66!Tbx3;;chr14:17407878..17407926,-!p1@Rarb!1.47!62.04!Rarb;;chr14:17407549..17407575,-!p3@Rarb!1.45!40.72!Rarb;;chr15:102865088..102865107,+!p1@Hoxc4!1.45!36.19!Hoxc4;;chr11:96143666..96143725,+!p1@Hoxb8!1.43!29.51!Hoxb8;;chr11:96164905..96164919,+!p2@Hoxb5!1.42!25.20!Hoxb5;;chr7:38557887..38557910,-!p5@Zfp536!1.37!22.62!Zfp536;;chr14:34791937..34791977,-!p1@Zfp488!1.36!21.76!Zfp488;;chr5:138199361..138199441,+!p2@Tsc22d4!1.34!38.78!Tsc22d4;;chr5:67490391..67490404,-!p3@Phox2b!1.34!20.90!Phox2b;;chr12:39510090..39510114,+!p6@Etv1!1.31!19.39!Etv1;;chr11:96160360..96160397,+!p3@Hoxb6!1.30!18.96!Hoxb6;;chr5:67490474..67490494,-!p2@Phox2b!1.27!17.45!Phox2b;;chr5:67490346..67490357,-!p4@Phox2b!1.26!17.02!Phox2b;;chr12:30213247..30213333,+!p1@Myt1l!1.25!16.80!Myt1l;;chr2:104966766..104966786,+!p1@Wt1!1.22!24.34!Wt1;;chr11:96145450..96145517,+!p2@Hoxb7!1.22!23.27!Hoxb7;;chr12:28027561..28027591,-!p1@Sox11!1.19!94.57!Sox11;;chr3:34548909..34548927,+!p1@Sox2!1.19!24.56!Sox2;;chr5:67490333..67490342,-!p5@Phox2b!1.18!14.22!Phox2b;;chr11:85646303..85646329,+!p1@Tbx2!1.17!90.05!Tbx2;;chr3:5218629..5218684,+!p1@Zfhx4!1.17!44.16!Zfhx4;;chr5:120121169..120121171,+!p4@Tbx3!1.16!24.13!Tbx3;;chr1:6724908..6724955,+!p2@St18!1.15!13.14!St18;;chr9:71743854..71743909,-!p1@Tcf12!1.14!101.03!Tcf12;;chr11:96160451..96160462,+!p5@Hoxb6!1.14!12.71!Hoxb6;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!1.13!21.54!Hoxb2;;chr3:34548946..34548972,+!p2@Sox2!1.13!14.00!Sox2;;chr8:111227641..111227672,+!p@chr8:111227641..111227672,+!1.12!32.31!Zfhx3;;chr11:96160403..96160416,+!p4@Hoxb6!1.12!12.06!Hoxb6;;chr3:95032091..95032183,-!p1@Mllt11!1.11!101.90!Mllt11;;chr2:163028808..163028869,+!p1@Tox2!1.11!42.87!Tox2;;chr15:102865048..102865073,+!p3@Hoxc4!1.10!14.86!Hoxc4;;chr17:25707623..25707639,-!p1@Sox8!1.09!48.47!Sox8;;chr6:52114821..52114828,-!p1@Hoxa2!1.09!17.02!Hoxa2;;chr1:6720216..6720232,+!p1@St18!1.09!11.42!St18;;chr13:44936126..44936164,+!p6@Jarid2!1.08!12.71!Jarid2;;chr4:22415443..22415506,-!p1@Pou3f2!1.06!10.56!Pou3f2;;chr2:74565306..74565327,+!p2@Hoxd4!1.05!10.34!Hoxd4;;chr12:39510290..39510309,+!p5@Etv1!1.05!10.12!Etv1;;chr6:52134126..52134150,-!p3@Hoxa3!1.05!10.12!Hoxa3;;chr11:85646263..85646278,+!p2@Tbx2!1.04!25.85!Tbx2;;chr18:69752912..69752928,+!p9@Tcf4!1.04!15.08!Tcf4;;chr1:179374784..179374800,+!p2@Zfp238!1.04!11.63!Zfp238;;chr11:96143843..96143868,+!p3@Hoxb8!1.01!9.26!Hoxb8;;chr6:52158693..52158704,-!p3@Hoxa6!1.01!9.26!Hoxa6;;chr11:96143962..96144035,+!p2@Hoxb8!1.00!9.05!Hoxb8;;chr12:12948633..12948651,-!p1@Mycn!0.99!87.03!Mycn;;chr2:71384802..71384815,-!p1@Dlx2!0.99!10.99!Dlx2;;chr14:17407857..17407875,-!p4@Rarb!0.98!8.62!Rarb;;chr6:52167513..52167549,-!p2@Hoxa7!0.97!12.06!Hoxa7;;chr10:30562571..30562597,-!p1@Hey2!0.96!19.39!Hey2;;chr10:129717274..129717298,-!p1@Neurod4!0.95!7.97!Neurod4;;chr11:85646341..85646352,+!p3@Tbx2!0.94!15.73!Tbx2;;chr11:96164887..96164894,+!p4@Hoxb5!0.94!7.76!Hoxb5;;chr4:150503457..150503498,-!p3@Camta1!0.93!8.40!Camta1;;chr5:120121020..120121049,+!p1@Tbx3!0.92!46.10!Tbx3;;chr11:96145393..96145407,+!p3@Hoxb7!0.92!7.32!Hoxb7;;chr5:67490412..67490421,-!p6@Phox2b!0.91!7.11!Phox2b;;chr5:120121446..120121461,+!p2@Tbx3!0.90!24.13!Tbx3;;chr18:84255841..84255883,-!p1@Tshz1!0.89!49.98!Tshz1;;chr11:96213183..96213188,+!p@chr11:96213183..96213188,+!0.89!6.68!Hoxb2;;chr2:81893535..81893548,+!p1@Zfp804a!0.89!6.68!Zfp804a;;chr19:7342725..7342784,+!p1@Rcor2!0.88!28.65!Rcor2;;chr7:144506077..144506128,-!p1@Ebf3!0.88!15.73!Ebf3;;chr10:76424613..76424689,-!p1@Pcbp3!0.87!144.12!Pcbp3;;chr9:106356211..106356242,+!p1@Pcbp4!0.87!132.70!Pcbp4;;chr7:116154364..116154444,+!p1@Tub!0.86!11.20!Tub;;chr11:96147952..96147967,+!p1@Hoxb7!0.86!7.97!Hoxb7;;chr11:96180069..96180089,+!p3@Hoxb4!0.86!6.25!Hoxb4;;chr9:96653072..96653154,-!p1@Zbtb38!0.85!17.23!Zbtb38;;chr11:85646469..85646488,+!p5@Tbx2!0.85!9.48!Tbx2;;chr1:179374820..179374831,+!p3@Zfp238!0.85!6.03!Zfp238;;chr12:39507680..39507715,+!p2@Etv1!0.84!12.28!Etv1;;chr11:96213434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fp41;;chr3:5218516..5218544,+!p2@Zfhx4!0.59!4.74!Zfhx4;;chr19:55816546..55816556,+!p3@Tcf7l2!0.58!12.71!Tcf7l2;;chrX:34442872..34442899,-!p1@Nkrf!0.58!3.88!Nkrf;;chr1:179374862..179374873,+!p6@Zfp238!0.58!2.80!Zfp238;;chr2:181501822..181501834,+!p8@Myt1!0.58!2.80!Myt1;;chr13:44936106..44936121,+!p13@Jarid2!0.58!2.80!Jarid2;;chr11:96143728..96143745,+!p4@Hoxb8!0.58!2.80!Hoxb8;;chr18:69753015..69753104,+!p1@Tcf4!0.57!45.02!Tcf4;;chr13:22036953..22037009,+!p1@Zfp184!0.57!8.40!Zfp184;;chr14:65568567..65568588,-!p3@Hmbox1!0.57!4.52!Hmbox1;;chr1:92949999..92950097,+!p1@Lrrfip1!0.56!88.32!Lrrfip1;;chr4:128483534..128483613,-!p1@Zfp362!0.56!22.62!Zfp362;;chr12:3891753..3891801,+!p4@Dnmt3a!0.56!4.74!Dnmt3a;;chr4:114581524..114581551,-!p1@Foxd2!0.56!4.31!Foxd2;;chr2:17976799..17976829,+!p5@Mllt10!0.56!3.45!Mllt10;;chr7:38557752..38557793,-!p3@Zfp536!0.56!3.23!Zfp536;;chr16:22439681..22439698,-!p1@Etv5!0.55!56.44!Etv5;;chr5:22940353..22940372,+!p3@Mll5!0.55!5.60!Mll5;;chr6:144157968..144157989,-!p7@Sox5!0.55!2.59!Sox5;;chr2:71384458..71384526,-!p2@Dlx2!0.55!2.59!Dlx2;;chr1:92950128..92950139,+!p4@Lrrfip1!0.55!2.59!Lrrfip1;;chr2:181501710..181501742,+!p2@Myt1!0.55!2.59!Myt1;;chr15:97738692..97738747,-!p1@Vdr!0.54!16.80!Vdr;;chr2:169458519..169458555,+!p2@Tshz2!0.54!12.28!Tshz2;;chr9:106356265..106356276,+!p4@Pcbp4!0.54!4.52!Pcbp4;;chr9:21420812..21420815,+!p6@Smarca4!0.54!4.09!Smarca4;;chr10:62328047..62328076,-!p3@Tet1!0.54!4.09!Tet1;;chr1:92950099..92950109,+!p3@Lrrfip1!0.54!3.02!Lrrfip1;;chr13:29045559..29045574,-!p1@Sox4!0.53!255.71!Sox4;;chr2:130120884..130120972,+!p1@Ebf4!0.53!17.45!Ebf4;;chr2:44968721..44968734,-!p6@Zeb2!0.53!10.99!Zeb2;;chr18:79306603..79306620,-!p4@Setbp1!0.53!4.31!Setbp1;;chr1:91827728..91827743,-!p2@Gbx2!0.53!2.37!Gbx2;;chr2:104966662..104966673,+!p4@Wt1!0.53!2.37!Wt1;;chr2:154395524..154395535,-!p5@E2f1!0.53!2.37!E2f1;;chr2:163028876..163028885,+!p7@Tox2!0.53!2.37!Tox2;;chr5:120120708..120120713,+!p12@Tbx3!0.53!2.37!Tbx3;;chr15:102844431..102844445,+!p1@Hoxc5!0.53!2.37!Hoxc5;;chr4:135840573..135840601,+!p1@Zfp46!0.51!22.83!Zfp46;;chr17:37139472..37139514,+!p1@Zfp57!0.51!19.39!Zfp57;;chr16:22439654..22439676,-!p2@Etv5!0.51!16.80!Etv5;;chr7:5003165..5003203,+!p2@Zfp580!0.51!15.73!Zfp580;;chr10:114821393..114821431,-!p5@Thap2!0.51!7.54!Thap2;;chr8:87297878..87297935,-!p3@Nfix!0.51!5.82!Nfix;;chr18:79306577..79306592,-!p3@Setbp1!0.51!5.17!Setbp1;;chr15:99532709..99532743,+!p1@Smarcd1!0.50!73.67!Smarcd1;;chr1:93309740..93309811,-!p1@Hes6!0.50!57.52!Hes6;;chr12:39506873..39506913,+!p1@Etv1!0.50!29.30!Etv1;;chr2:44968737..44968758,-!p2@Zeb2!0.50!15.94!Zeb2;;chr18:3281750..3281776,-!p2@Crem!0.50!5.17!Crem;;chr10:119913792..119913820,-!p5@Hmga2!0.50!4.31!Hmga2;;chr5:125342568..125342602,+!p2@Zfp664!0.50!4.09!Zfp664;;chr11:98826125..98826141,+!p12@Rara!0.50!2.15!Rara;;chr13:40825465..40825469,-!p2@Tfap2a!0.50!2.15!Tfap2a;;chr1:92895299..92895373,+!p2@Lrrfip1!0.49!57.73!Lrrfip1;;chr11:18918917..18918944,-!p1@Meis1!0.49!36.19!Meis1;;chr18:55150011..55150059,-!p3@Zfp608!0.49!8.62!Zfp608;;chr8:111227738..111227793,+!p@chr8:111227738..111227793,+!0.49!6.25!Zfhx3;;chr19:7342786..7342803,+!p2@Rcor2!0.49!3.02!Rcor2;;chr10:62328027..62328038,-!p6@Tet1!0.49!2.59!Tet1;;chr16:43503720..43503739,+!p18@Zbtb20!0.49!2.37!Zbtb20;;chr2:169458192..169458247,+!p1@Tshz2!0.48!24.13!Tshz2;;chr18:55150248..55150308,-!p6@Zfp608!0.48!6.03!Zfp608;;chr4:54957886..54957907,+!p3@Zfp462!0.48!4.09!Zfp462;;chr9:63605740..63605771,-!p1@Smad3!0.47!38.56!Smad3;;chr15:81575602..81575618,+!p3@Zc3h7b!0.47!6.46!Zc3h7b;;chr15:102034510..102034549,+!p4@Zfp740!0.47!5.82!Zfp740;;chr1:57029281..57029326,-!p1@Satb2!0.47!3.45!Satb2;;chr2:181501988..181502026,+!p3@Myt1!0.47!1.94!Myt1;;chr1:6720186..6720198,+!p5@St18!0.47!1.94!St18;;chr12:3806003..3806031,+!p11@Dnmt3a!0.47!1.94!Dnmt3a;;chr6:144157991..144158007,-!p9@Sox5!0.47!1.94!Sox5;;chr3:34548845..34548856,+!p4@Sox2!0.47!1.94!Sox2;;chr13:83663902..83663927,+!p1@Mef2c!0.46!62.69!Mef2c;;chr13:30077847..30077906,-!p1@E2f3!0.46!20.03!E2f3;;chr7:25292141..25292158,+!p2@Zfp428!0.46!8.62!Zfp428;;chr6:53523332..53523343,+!p2@Creb5!0.46!3.02!Creb5;;chr11:101413151..101413207,-!p1@Brca1!0.45!24.34!Brca1;;chrX:108810678..108810736,-!p1@Hdx!0.45!8.19!Hdx;;chr2:44965662..44965685,-!p9@Zeb2!0.45!5.39!Zeb2;;chr16:43503493..43503570,+!p9@Zbtb20!0.45!3.66!Zbtb20;;chr13:78339476..78339515,-!p1@Nr2f1!0.45!3.23!Nr2f1;;chr16:43503594..43503634,+!p15@Zbtb20!0.45!2.37!Zbtb20;;chr13:44826722..44826742,+!p1@Jarid2!0.44!39.85!Jarid2;;chr7:5003205..5003234,+!p3@Zfp580!0.44!6.46!Zfp580;;chr7:148008023..148008092,-!p1@Zfp941!0.44!5.39!Zfp941;;chr7:135019147..135019187,-!p3@Zfp668!0.44!4.74!Zfp668;;chr9:72380594..72380635,+!p3@Rfx7!0.44!3.66!Rfx7;;chr18:83079981..83080037,+!p6@Zfp516!0.44!3.66!Zfp516;;chr2:156666727..156666753,+!p2@Tgif2!0.44!3.02!Tgif2;;chr10:62328079..62328093,-!p5@Tet1!0.44!2.80!Tet1;;chr11:96160119..96160135,+!p7@Hoxb6!0.44!1.72!Hoxb6;;chr10:129717308..129717319,-!p2@Neurod4!0.44!1.72!Neurod4;;chr18:328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1.29!Hlf;;chr7:91558537..91558558,-!p4@Arnt2!0.28!1.29!Arnt2;;chr15:81641878..81641921,+!p1@Tef!0.27!42.87!Tef;;chr17:35653725..35653780,-!p1@Tcf19!0.27!28.01!Tcf19;;chr5:138596922..138596968,-!p1@Zfp113!0.27!15.94!Zfp113;;chr8:112229478..112229536,+!p1@Zfp821!0.27!14.22!Zfp821;;chr10:119913310..119913366,-!p1@Hmga2!0.27!12.71!Hmga2;;chr19:28085628..28085671,-!p1@Rfx3!0.27!10.99!Rfx3;;chrX:132420399..132420436,+!p1@Bhlhb9!0.27!9.48!Bhlhb9;;chr8:97856080..97856150,-!p2@Zfp319!0.27!9.05!Zfp319;;chr17:51952617..51952680,-!p3@Satb1!0.27!7.76!Satb1;;chr1:138521574..138521597,+!p3@Zfp281!0.27!3.23!Zfp281;;chr15:50721544..50721558,-!p5@Trps1!0.27!3.02!Trps1;;chr11:18918982..18918993,-!p5@Meis1!0.27!2.80!Meis1;;chr6:38204274..38204327,-!p3@D630045J12Rik!0.27!2.59!D630045J12Rik;;chr17:27693746..27693759,+!p6@Hmga1-rs1,p7@Hmga1!0.27!2.59!Hmga1;;chr13:59924173..59924194,-!p4@Zcchc6!0.27!2.15!Zcchc6;;chr16:4594853..4594884,+!p3@Glis2!0.27!1.94!Glis2;;chr1:38684383..38684394,-!p4@Aff3!0.27!1.51!Aff3;;chr13:78339428..78339466,-!p2@Nr2f1!0.27!1.51!Nr2f1;;chr10:67375223..67375240,-!p4@Zfp365!0.27!1.08!Zfp365;;chr11:96160098..96160112,+!p8@Hoxb6!0.27!0.86!Hoxb6;;chr11:96184567..96184569,+!p8@Hoxb3!0.27!0.86!Hoxb3;;chr12:28027256..28027282,-!p2@Sox11!0.27!0.86!Sox11;;chr13:40829337..40829360,-!p5@Tfap2a!0.27!0.86!Tfap2a;;chr18:84256138..84256150,-!p7@Tshz1!0.27!0.86!Tshz1;;chr2:74560109..74560131,+!p1@Hoxd4!0.27!0.86!Hoxd4;;chr4:99323019..99323031,+!p4@Foxd3!0.27!0.86!Foxd3;;chr3:34549096..34549111,+!p3@Sox2!0.27!0.86!Sox2;;chr4:84192360..84192376,-!p8@Bnc2!0.27!0.86!Bnc2;;chr4:89354785..89354801,+!p2@Dmrta1!0.27!0.86!Dmrta1;;chr19:55969923..55969944,+!p6@Tcf7l2!0.27!0.86!Tcf7l2;;chr2:104967357..104967379,+!p9@Wt1!0.27!0.86!Wt1;;chr2:104966909..104966920,+!p8@Wt1!0.27!0.86!Wt1;;chr2:104966465..104966479,+!p6@Wt1!0.27!0.86!Wt1;;chr2:105002682..105002691,+!p10@Wt1!0.27!0.86!Wt1;;chr6:144158183..144158210,-!p11@Sox5!0.27!0.86!Sox5;;chr5:120130275..120130296,+!p11@Tbx3!0.27!0.86!Tbx3;;chr6:144157960..144157967,-!p20@Sox5!0.27!0.86!Sox5;;chr7:38559002..38559009,-!p15@Zfp536!0.27!0.86!Zfp536;;chr5:138558139..138558214,+!p1@Zscan21!0.26!45.02!Zscan21;;chr1:179372411..179372509,+!p1@Zfp238!0.26!20.47!Zfp238;;chr11:115891618..115891699,+!p1@Unk!0.26!19.82!Unk;;chr7:24993112..24993158,-!p1@Zfp111!0.26!16.37!Zfp111;;chr1:191994550..191994623,-!p1@Prox1!0.26!10.77!Prox1;;chr8:107694661..107694713,+!p2@Cbfb!0.26!10.34!Cbfb;;chr7:31741761..31741800,-!p2@LOC100504922,p2@Usf2!0.26!9.69!Usf2;;chr14:55711198..55711258,-!p1@Zfhx2!0.26!8.83!Zfhx2;;chrX:109714331..109714347,+!p1@Zfp711!0.26!6.03!Zfp711;;chr10:30523091..30523182,-!p4@Ncoa7!0.26!4.95!Ncoa7;;chr13:58503894..58503895,-!p4@Hnrnpk!0.26!4.74!Hnrnpk;;chr2:115891409..115891425,-!p2@Meis2!0.26!4.09!Meis2;;chr19:41557591..41557634,+!p3@Lcor!0.26!3.45!Lcor;;chr8:92872242..92872285,-!p1@Tox3!0.26!3.45!Tox3;;chr11:98821858..98821907,+!p6@Rara!0.26!1.94!Rara;;chr11:96153767..96153822,+!p1@Hoxb6!0.26!1.72!Hoxb6;;chr4:122911056..122911065,+!p2@Heyl!0.26!1.72!Heyl;;chr9:21420674..21420725,+!p1@Smarca4!0.25!126.67!Smarca4;;chr5:106305551..106305604,+!p1@Zfp326!0.25!59.46!Zfp326;;chr16:55822241..55822258,-!p1@Nfkbiz!0.25!50.19!Nfkbiz;;chr5:143996822..143996930,+!p1@Zfp12!0.25!32.31!Zfp12;;chr5:34163344..34163484,+!p1@Whsc1!0.25!24.99!Whsc1;;chr3:52072329..52072346,+!p1@Foxo1!0.25!24.13!Foxo1;;chr7:120351014..120351109,+!p1@Arntl!0.25!21.33!Arntl;;chr17:31701694..31701799,+!p1@Pknox1!0.25!17.02!Pknox1;;chr4:97444590..97444607,+!p6@Nfia!0.25!11.20!Nfia;;chr8:72498134..72498156,-!p7@Gatad2a!0.25!5.39!Gatad2a;;chr17:21520689..21520730,+!p1@Zfp677!0.25!4.95!Zfp677;;chr18:84255804..84255832,-!p2@Tshz1!0.25!4.95!Tshz1;;chr2:115891454..115891471,-!p3@Meis2!0.25!4.09!Meis2;;chrX:92907025..92907051,+!p1@Zc3h12b!0.25!3.88!Zc3h12b;;chr3:94641455..94641486,+!p4@Pogz!0.25!3.45!Pogz;;chr11:87881818..87881834,+!p4@Vezf1!0.25!3.23!Vezf1;;chr11:98821937..98821987,+!p4@Rara!0.25!2.80!Rara;;chr5:65213356..65213412,+!p6@Klf3!0.25!2.59!Klf3;;chr4:119406412..119406439,+!p2@Hivep3!0.25!2.37!Hivep3;;chr4:45024818..45024846,-!p4@Zbtb5!0.25!2.15!Zbtb5;;chr7:13404215..13404220,-!p2@Zfp329!0.25!1.94!Zfp329;;chr7:30092993..30093076,+!p1@Dpf1!0.25!1.94!Dpf1;;chr11:18918434..18918489,-!p3@Meis1!0.25!1.72!Meis1;;chr19:53385060..53385069,+!p6@Mxi1!0.25!1.51!Mxi1;;chr1:69732511..69732540,-!p2@Ikzf2!0.25!1.29!Ikzf2;;chr8:73905967..73905978,-!p4@Nr2f6!0.25!1.08!Nr2f6;;chr16:20141134..20141213,+!p1@Yeats2!0.24!40.50!Yeats2;;chr9:20264394..20264448,-!p1@Zfp26!0.24!28.01!Zfp26;;chr3:51144550..51144603,-!p2@Elf2!0.24!23.05!Elf2;;chr6:120314411..120314466,+!p2@Kdm5a!0.24!10.56!Kdm5a;;chr13:21622917..21622952,-!p1@Zfp192!0.24!9.91!Zfp192;;chr18:35721834..35721851,+!p2@Matr3!0.24!7.54!Matr3;;chr8:108583550..108583595,+!p2@Nfatc3!0.24!6.46!Nfatc3;;chr7:30638630..30638702,-!p1@Zfp940!0.24!4.52!Zfp940;;chr11:87881803..87881817,+!p3@Vezf1!0.24!4.31!Vezf1;;chr4:45025159..45025197,-!p1@Zbtb5!0.24!4.09!Zbtb5;;chr13:15555035..15555073,+!p4@Gli3!0.24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+|ffid_belonging_in_development=CL:0000133,CL:0000031,CL:0000221
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 39: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011142
 |is_obsolete=
+|library_id=CNhs13089
+|library_id_phase_based=2:CNhs13089
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11812
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11812
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520enteric%2520neuron%2520derived%252c%2520biol_rep3.CNhs13089.11812-124E3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520enteric%2520neuron%2520derived%252c%2520biol_rep3.CNhs13089.11812-124E3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520enteric%2520neuron%2520derived%252c%2520biol_rep3.CNhs13089.11812-124E3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520enteric%2520neuron%2520derived%252c%2520biol_rep3.CNhs13089.11812-124E3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.hCAGE/neurospheres%2520-%2520enteric%2520neuron%2520derived%252c%2520biol_rep3.CNhs13089.11812-124E3.mm9.nobarcode.rdna.fa.gz
 |name=neurospheres - enteric neuron derived, biol_rep3
 |namespace=
@@ Line 44: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13089,LSID1000,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.368803267831325,0,0,0,0,0,0.147716545197649,0,0,0,0,0.00038835216143622,0,0,0,0,0,0,0.0780148527670059,0,0,0,0,0,0,0,0,0,0,0,0,0.511335269748878,-0.402829657128792,0,0,0,0,0,-0.0537295903005866,0.0847275925579778,-0.045193904970334,-0.209348697794588,-0.0533675229390075,0.155593135195239,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0,0,0.082054103971623,0.16917122780019,0.498893905636353,0,-2.11188338080023e-05,-0.310650657339386,0.340802862865271,0.0353005627637096,0.0847275925579778,-0.0780086007519514,0.0878533343613977,0,0,0,0.0483317379971679,0.129460855411982,0.450381223156782,0.00589599771807031,0,0,0,0,0,0,0.125030886830367,0.104460517240425,0.102240427448375,0,0,0.0847275925579778,0.461382784323023,0
 |rna_box=124
 |rna_catalog_number=
@@ Line 56: / Line 73: @@
 |rna_rin=
 |rna_sample_type=total RNA
-|rna_tube_id=124E3
+|rna_tube_id=1.24E+05
 |rna_weight_ug=12
 |sample_age=
+|sample_category=primary cells
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 79: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11812-124E3;search_select_hide=table117:11812-124E3
 }}

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FF:11812-124E3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:21, 4 June 2020

CNhs13089

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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