FF:11851-124I6: Difference between revisions

Latest revision as of 18:23, 4 June 2020

Name:	CD326+ enterocyte isolated from mice, treated with RANKL, day03, pool2
Species:	Mouse (Mus musculus)
Library ID:	CNhs13233
Sample type:	primary cells
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	Balb/c
tissue	ileum
dev stage	adult
sex	male
age	NA
cell type	enterocyte
cell line	NA
company	NA
collaboration	Shinji Fukuda (RCAI)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	RANKL_Ep+_b
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		SAMD00004692

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13233		CAGE		DRX008763		DRR009635

Accession ID Mm9

Library id		BAM		CTSS
CNhs13233		DRZ001060		DRZ002445

Accession ID Mm10

Library id		BAM		CTSS
CNhs13233		DRZ012410		DRZ013795

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

CNhs13233

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0631
1002	-0.116
1003	-0.175
1004	0
1005	1.037
1006	-0.269
1007	0.134
1008	0.893
1009	-0.19
101	-0.478
1010	0
1011	-0.298
1012	0
1013	0.406
1014	-0.0874
1015	-0.479
1016	-0.465
1017	0
1018	0.744
1019	0
102	0
1020	0
1021	0
1022	-0.0704
1023	0
1024	-0.307
1025	0
1026	0
1027	-0.048
1028	0
1029	-0.176
103	-0.0887
1030	0
1031	-0.819
1032	1.16
1033	0
1034	0
1035	0
1036	-0.254
1037	0
1038	0.19
1039	-0.1
104	0
1040	-0.687
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: CNhs13233

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0209
MA0003.1	MA0003.1	0.462
MA0004.1	MA0004.1	0.994
MA0006.1	MA0006.1	0.0305
MA0007.1	MA0007.1	0.25
MA0009.1	MA0009.1	0.082
MA0014.1	MA0014.1	0.045
MA0017.1	MA0017.1	3.35925e-31
MA0018.2	MA0018.2	0.126
MA0019.1	MA0019.1	0.0332
MA0024.1	MA0024.1	4.64553e-6
MA0025.1	MA0025.1	0.371
MA0027.1	MA0027.1	0.827
MA0028.1	MA0028.1	0.19
MA0029.1	MA0029.1	0.946
MA0030.1	MA0030.1	0.344
MA0031.1	MA0031.1	0.155
MA0035.2	MA0035.2	7.34492e-6
MA0038.1	MA0038.1	0.324
MA0039.2	MA0039.2	1.36521e-5
MA0040.1	MA0040.1	0.0695
MA0041.1	MA0041.1	0.217
MA0042.1	MA0042.1	0.255
MA0043.1	MA0043.1	0.247
MA0046.1	MA0046.1	4.217e-52
MA0047.2	MA0047.2	0.0184
MA0048.1	MA0048.1	0.29
MA0050.1	MA0050.1	1.54369e-4
MA0051.1	MA0051.1	2.14905e-6
MA0052.1	MA0052.1	0.925
MA0055.1	MA0055.1	0.268
MA0057.1	MA0057.1	0.083
MA0058.1	MA0058.1	0.834
MA0059.1	MA0059.1	0.227
MA0060.1	MA0060.1	0.12
MA0061.1	MA0061.1	0.00428
MA0062.2	MA0062.2	8.47813e-4
MA0065.2	MA0065.2	6.45114e-16
MA0066.1	MA0066.1	0.16
MA0067.1	MA0067.1	0.373
MA0068.1	MA0068.1	0.114
MA0069.1	MA0069.1	0.647
MA0070.1	MA0070.1	0.459
MA0071.1	MA0071.1	0.0206
MA0072.1	MA0072.1	0.71
MA0073.1	MA0073.1	0.98
MA0074.1	MA0074.1	0.318
MA0076.1	MA0076.1	0.285
MA0077.1	MA0077.1	0.481
MA0078.1	MA0078.1	0.745
MA0079.2	MA0079.2	0.0715
MA0080.2	MA0080.2	1.02959e-4
MA0081.1	MA0081.1	0.792
MA0083.1	MA0083.1	0.82
MA0084.1	MA0084.1	0.216
MA0087.1	MA0087.1	0.362
MA0088.1	MA0088.1	0.94
MA0090.1	MA0090.1	0.384
MA0091.1	MA0091.1	0.0418
MA0092.1	MA0092.1	0.524
MA0093.1	MA0093.1	0.951
MA0099.2	MA0099.2	1.00415e-13
MA0100.1	MA0100.1	0.589
MA0101.1	MA0101.1	6.29262e-6
MA0102.2	MA0102.2	0.78
MA0103.1	MA0103.1	1.36819e-6
MA0104.2	MA0104.2	0.0238
MA0105.1	MA0105.1	0.723
MA0106.1	MA0106.1	0.592
MA0107.1	MA0107.1	3.08643e-6
MA0108.2	MA0108.2	2.58478e-4
MA0111.1	MA0111.1	0.289
MA0112.2	MA0112.2	0.0193
MA0113.1	MA0113.1	0.952
MA0114.1	MA0114.1	3.87727e-40
MA0115.1	MA0115.1	4.89658e-18
MA0116.1	MA0116.1	0.757
MA0117.1	MA0117.1	0.178
MA0119.1	MA0119.1	0.114
MA0122.1	MA0122.1	0.857
MA0124.1	MA0124.1	0.451
MA0125.1	MA0125.1	0.86
MA0131.1	MA0131.1	0.466
MA0135.1	MA0135.1	0.173
MA0136.1	MA0136.1	2.06075e-7
MA0137.2	MA0137.2	0.0393
MA0138.2	MA0138.2	0.932
MA0139.1	MA0139.1	0.495
MA0140.1	MA0140.1	0.116
MA0141.1	MA0141.1	1.14424e-7
MA0142.1	MA0142.1	0.0246
MA0143.1	MA0143.1	0.0603
MA0144.1	MA0144.1	0.00392
MA0145.1	MA0145.1	0.00589
MA0146.1	MA0146.1	0.0577
MA0147.1	MA0147.1	0.0206
MA0148.1	MA0148.1	0.0282
MA0149.1	MA0149.1	0.0438
MA0150.1	MA0150.1	0.00436
MA0152.1	MA0152.1	0.202
MA0153.1	MA0153.1	3.47036e-40
MA0154.1	MA0154.1	0.0887
MA0155.1	MA0155.1	0.739
MA0156.1	MA0156.1	2.17193e-4
MA0157.1	MA0157.1	0.992
MA0159.1	MA0159.1	0.00187
MA0160.1	MA0160.1	5.94681e-6
MA0162.1	MA0162.1	0.866
MA0163.1	MA0163.1	0.7
MA0164.1	MA0164.1	0.815
MA0258.1	MA0258.1	0.149
MA0259.1	MA0259.1	0.343

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: CNhs13233

Novel motif	Logo	P-value
1	1	0.274
10	10	0.596
100	100	0.994
101	101	0.893
102	102	0.894
103	103	0.98
104	104	0.713
105	105	0.0999
106	106	0.0104
107	107	0.162
108	108	0.566
109	109	0.112
11	11	0.23
110	110	0.64
111	111	0.132
112	112	0.0421
113	113	0.26
114	114	0.12
115	115	0.634
116	116	0.103
117	117	0.109
118	118	0.544
119	119	0.119
12	12	0.663
120	120	0.667
121	121	0.339
122	122	0.689
123	123	0.112
124	124	0.196
125	125	0.585
126	126	0.0971
127	127	0.212
128	128	0.0367
129	129	0.199
13	13	5.08485e-5
130	130	0.755
131	131	0.969
132	132	0.453
133	133	0.484
134	134	0.735
135	135	0.151
136	136	0.00725
137	137	0.615
138	138	0.139
139	139	0.468
14	14	0.577
140	140	0.806
141	141	0.136
142	142	0.579
143	143	0.126
144	144	0.255
145	145	0.165
146	146	0.241
147	147	0.58
148	148	0.922
149	149	0.945
15	15	0.208
150	150	0.269
151	151	0.986
152	152	0.0188
153	153	0.643
154	154	0.546
155	155	0.512
156	156	0.136
157	157	0.399
158	158	0.379
159	159	0.685
160	160	0.498
161	161	0.83
162	162	0.913
163	163	0.0308
164	164	0.268
165	165	0.243
166	166	0.823
167	167	0.908
168	168	0.927
169	169	0.0848
17	17	0.0363
18	18	0.848
19	19	0.358
2	2	0.607
20	20	0.295
21	21	0.938
22	22	0.215
23	23	0.168
24	24	0.894
25	25	0.534
26	26	0.0436
27	27	0.629
28	28	0.204
29	29	0.367
3	3	0.296
30	30	0.222
31	31	0.821
32	32	0.258
33	33	0.282
34	34	0.856
35	35	0.881
36	36	0.732
37	37	0.0211
38	38	0.401
39	39	0.462
4	4	0.362
40	40	0.377
41	41	0.16
42	42	0.871
43	43	0.338
44	44	0.28
45	45	0.209
46	46	0.613
47	47	0.8
48	48	0.442
49	49	0.445
5	5	0.907
50	50	0.359
51	51	0.643
52	52	0.096
53	53	0.514
54	54	0.317
55	55	0.374
56	56	0.569
57	57	0.542
58	58	0.309
59	59	0.305
6	6	0.707
60	60	0.0237
61	61	0.632
62	62	0.326
63	63	0.119
64	64	0.912
65	65	0.324
66	66	0.858
67	67	0.364
68	68	0.0364
69	69	0.973
7	7	0.0707
70	70	0.018
71	71	0.476
72	72	0.368
73	73	0.0103
74	74	0.635
75	75	0.0572
76	76	0.876
77	77	0.0488
78	78	0.0276
79	79	0.804
8	8	0.77
80	80	0.989
81	81	0.768
82	82	0.0982
83	83	0.712
84	84	0.059
85	85	0.119
86	86	0.144
87	87	0.0104
88	88	0.203
89	89	0.522
9	9	0.983
90	90	0.774
91	91	0.854
92	92	0.623
93	93	0.248
94	94	0.648
95	95	0.00832
96	96	0.823
97	97	0.807
98	98	0.671
99	99	0.601

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: CNhs13233

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011113 mouse CD326-positive enterocyte isolated from mice- treated with RANKL- day03 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)
0000548 (animal cell)
0000075 (columnar/cuboidal epithelial cell)
0000066 (epithelial cell)
0002371 (somatic cell)
0002563 (intestinal epithelial cell)
0000255 (eukaryotic cell)
0000239 (brush border epithelial cell)
0000677 (gut absorptive cell)
0000212 (absorptive cell)
0002076 (endo-epithelial cell)
0002251 (epithelial cell of alimentary canal)
0000584 (enterocyte)

UBERON: Anatomy
0000468 (multi-cellular organism)
0000160 (intestine)
0000483 (epithelium)
0001242 (intestinal mucosa)
0000479 (tissue)
0001007 (digestive system)
0000344 (mucosa)
0000064 (organ part)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0005911 (endo-epithelium)
0004923 (organ component layer)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0000467 (anatomical system)
0000060 (anatomical wall)
0001062 (anatomical entity)
0000480 (anatomical group)
0000119 (cell layer)
0000490 (unilaminar epithelium)
0001262 (wall of intestine)
0004786 (gastrointestinal system mucosa)
0000485 (simple columnar epithelium)
0003350 (epithelium of mucosa)
0003929 (gut epithelium)
0004808 (gastrointestinal system epithelium)
0001277 (intestinal epithelium)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0005409 (gastrointestinal 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)
0000383 (3 days sample)
0000627 (RANK ligand treatment sample)
0011113 (mouse CD326-positive enterocyte isolated from mice- treated with RANKL- day03 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:0000223 (endodermal cell)

@@ Line 1: / Line 1: @@
 {{f5samples
 |DRA_sample_Accession=CAGE@SAMD00004692
-|accession_numbers=CAGE;DRX008763;DRR009635;DRZ001060;DRZ002445
+|accession_numbers=CAGE;DRX008763;DRR009635;DRZ001060;DRZ002445;DRZ012410;DRZ013795
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000160,UBERON:0000483,UBERON:0001242,UBERON:0000479,UBERON:0001007,UBERON:0000344,UBERON:0000064,UBERON:0004119,UBERON:0011216,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0005911,UBERON:0004923,UBERON:0004921,UBERON:0000477,UBERON:0000467,UBERON:0000060,UBERON:0001062,UBERON:0000480,UBERON:0000119,UBERON:0000490,UBERON:0001262,UBERON:0004786,UBERON:0000485,UBERON:0003350,UBERON:0003929,UBERON:0004808,UBERON:0001277,UBERON:0010317,UBERON:0001555,UBERON:0005409
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000075,CL:0000066,CL:0002371,CL:0002563,CL:0000255,CL:0000239,CL:0000677,CL:0000212,CL:0002076,CL:0002251,CL:0000584
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr10:80555320..80555378,-!p1@Creb3l3!2.97!1079.71!Creb3l3;;chr7:51787434..51787448,-!p1@Spib!2.63!596.50!Spib;;chr2:163372884..163372904,+!p1@Hnf4a!2.49!309.85!Hnf4a;;chr6:86619104..86619119,-!p1@Mxd1!2.47!2225.86!Mxd1;;chr3:3634145..3634161,+!p1@Hnf4g!2.46!285.74!Hnf4g;;chr5:148118639..148118715,-!p1@Cdx2!2.11!126.49!Cdx2;;chr16:38294860..38294924,-!p1@Nr1i2!2.04!107.83!Nr1i2;;chr1:193007123..193007139,-!p1@Atf3!1.98!503.23!Atf3;;chr10:88969376..88969395,-!p1@Nr1h4!1.85!69.61!Nr1h4;;chr10:80555398..80555409,-!p2@Creb3l3!1.80!61.88!Creb3l3;;chr12:86814833..86814846,+!p1@Fos!1.77!1258.53!Fos;;chr14:63864056..63864102,-!p1@Gata4!1.76!96.00!Gata4;;chr1:137155026..137155042,-!p1@Elf3!1.74!298.93!Elf3;;chr4:122673187..122673201,+!p2@Mycl1!1.74!94.18!Mycl1;;chr5:115421065..115421088,-!p1@Hnf1a!1.74!54.14!Hnf1a;;chr2:133377954..133377973,+!p1@Bmp2!1.66!139.68!Bmp2;;chr18:64499674..64499696,+!p1@Onecut2!1.66!75.98!Onecut2;;chr1:173144100..173144138,+!p2@Nr1i3!1.65!43.68!Nr1i3;;chr2:163332558..163332596,+!p2@Hnf4a!1.64!42.77!Hnf4a;;chr5:135582751..135582788,+!p1@Mlxipl!1.63!160.61!Mlxipl;;chr4:124805061..124805087,-!p1@Zc3h12a!1.61!117.84!Zc3h12a;;chr5:120121169..120121171,+!p4@Tbx3!1.60!68.70!Tbx3;;chr18:61195843..61195864,-!p2@Cdx1!1.60!38.67!Cdx1;;chr2:180069370..180069409,-!p1@Gata5!1.58!42.77!Gata5;;chr6:39068163..39068176,-!p2@Parp12!1.57!66.88!Parp12;;chr18:61195865..61195880,-!p1@Cdx1!1.57!36.40!Cdx1;;chr8:77396591..77396639,+!p1@Isx!1.56!35.49!Isx;;chr1:194979315..194979359,+!p1@Irf6!1.53!190.19!Irf6;;chr7:19895384..19895399,-!p2@Fosb!1.53!46.41!Fosb;;chr8:87502608..87502623,-!p1@Junb!1.51!490.03!Junb;;chr19:6996243..6996293,-!p1@Esrra!1.48!310.31!Esrra;;chr15:97738692..97738747,-!p1@Vdr!1.48!154.24!Vdr;;chr7:19895354..19895369,-!p1@Fosb!1.48!39.58!Fosb;;chr1:39250584..39250643,+!p1@Npas2!1.46!134.22!Npas2;;chr18:64499706..64499721,+!p2@Onecut2!1.45!37.76!Onecut2;;chr14:99697871..99697934,+!p1@Klf5!1.44!496.40!Klf5;;chr15:79177964..79177986,+!p1@Maff!1.44!87.81!Maff;;chr2:163372869..163372882,+!p3@Hnf4a!1.44!26.84!Hnf4a;;chr17:25707623..25707639,-!p1@Sox8!1.41!103.74!Sox8;;chr7:20214704..20214800,-!p1@Relb!1.41!78.26!Relb;;chr12:56593574..56593592,-!p1@Nfkbia!1.39!1165.71!Nfkbia;;chr19:5560600..5560617,-!p1@Ovol1!1.38!27.75!Ovol1;;chr7:20213752..20213778,-!p2@Relb!1.35!21.38!Relb;;chr11:53583544..53583559,+!p1@Irf1!1.34!340.79!Irf1;;chr3:94176733..94176794,+!p1@Rorc!1.32!150.60!Rorc;;chr4:55545337..55545357,-!p1@Klf4!1.31!277.55!Klf4;;chr19:55816546..55816556,+!p3@Tcf7l2!1.31!72.34!Tcf7l2;;chr8:77397492..77397514,+!p3@Isx!1.30!19.11!Isx;;chr3:3508024..3508069,+!p2@Hnf4g!1.30!19.11!Hnf4g;;chr12:78063146..78063159,-!p2@Max!1.29!47.32!Max;;chr3:135354384..135354443,-!p1@Nfkb1!1.26!102.83!Nfkb1;;chr6:37391910..37391928,-!p3@Creb3l2!1.25!18.65!Creb3l2;;chr10:80555299..80555306,-!p3@Creb3l3!1.25!16.83!Creb3l3;;chr5:148118840..148118857,-!p2@Cdx2!1.24!16.38!Cdx2;;chr8:77396650..77396662,+!p4@Isx!1.24!16.38!Isx;;chr1:173144144..173144176,+!p1@Nr1i3!1.23!15.92!Nr1i3;;chr5:140267510..140267555,+!p2@Mafk!1.22!36.40!Mafk;;chr8:87643578..87643593,-!p1@Zfp791!1.22!32.30!Zfp791;;chr1:194979361..194979373,+!p2@Irf6!1.22!20.93!Irf6;;chr4:133109285..133109308,+!p1@Nr0b2!1.20!15.01!Nr0b2;;chr11:70500401..70500460,-!p3@Camta2!1.20!15.01!Camta2;;chr19:46380235..46380277,+!p3@Nfkb2!1.19!31.39!Nfkb2;;chr18:35020854..35020869,+!p1@Egr1!1.18!530.07!Egr1;;chr8:77397095..77397127,+!p2@Isx!1.18!14.10!Isx;;chr10:80555285..80555291,-!p4@Creb3l3!1.17!13.65!Creb3l3;;chr13:5860776..5860796,+!p1@Klf6!1.16!321.23!Klf6;;chr6:86619130..86619158,-!p2@Mxd1!1.16!191.55!Mxd1;;chr19:53384910..53384937,+!p3@Mxi1!1.16!37.76!Mxi1;;chr6:39068181..39068206,-!p3@Parp12!1.15!26.84!Parp12;;chr8:77397190..77397202,+!p5@Isx!1.15!13.19!Isx;;chr3:89197057..89197114,-!p1@Zbtb7b!1.14!43.68!Zbtb7b;;chr2:28477452..28477483,-!p1@Gfi1b!1.14!15.92!Gfi1b;;chr16:55822241..55822258,-!p1@Nfkbiz!1.13!388.11!Nfkbiz;;chr7:20408047..20408125,-!p1@Bcl3!1.13!140.59!Bcl3;;chr4:148178559..148178603,+!p1@Casz1!1.13!35.94!Casz1;;chr1:120524520..120524528,+!p1@Tfcp2l1!1.13!35.94!Tfcp2l1;;chr11:98636508..98636524,-!p3@Nr1d1!1.13!15.47!Nr1d1;;chr14:76887526..76887555,+!p10@Tsc22d1!1.12!12.28!Tsc22d1;;chr7:31206743..31206761,+!p1@Nfkbid!1.11!16.38!Nfkbid;;chr5:148081686..148081715,+!p1@Pdx1!1.11!11.83!Pdx1;;chr10:80600749..80600766,+!p2@Zbtb7a!1.09!58.69!Zbtb7a;;chr6:39068210..39068251,-!p1@Parp12!1.09!52.78!Parp12;;chr5:148118792..148118806,-!p3@Cdx2!1.09!11.37!Cdx2;;chr4:148178459..148178482,+!p4@Casz1!1.09!11.37!Casz1;;chr1:135320989..135321043,-!p1@Sox13!1.08!121.48!Sox13;;chr15:35225845..35225867,+!p1@Osr2!1.08!28.21!Osr2;;chr5:76733981..76734018,-!p3@Clock!1.08!23.66!Clock;;chr4:94718861..94718872,-!p2@Jun!1.07!80.53!Jun;;chr8:123260252..123260264,+!p1@Irf8!1.07!76.44!Irf8;;chr7:148452314..148452329,-!p1@Irf7!1.07!75.53!Irf7;;chr19:6996294..6996324,-!p2@Esrra!1.07!72.34!Esrra;;chr5:140267476..140267493,+!p1@Mafk!1.07!60.51!Mafk;;chr7:19608891..19608895,-!p1@Foxa3!1.07!14.10!Foxa3;;chr19:46379199..46379301,+!p1@Nfkb2!1.06!60.06!Nfkb2;;chr8:125778192..125778217,+!p2@Zfp276!1.06!29.57!Zfp276;;chr19:53384985..53385042,+!p1@Mxi1!1.05!320.77!Mxi1;;chr5:148081722..148081744,+!p2@Pdx1!1.04!10.01!Pdx1;;chr12:85657780..85657815,+!p2@Zfp410!1.03!25.93!Zfp410;;chr18:11052642..11052659,+!p1@Gata6!1.02!48.68!Gata6;;chr12:58646974..58647003,-!p1@Foxa1!1.02!12.74!Foxa1;;chr7:29551464..29551487,-!p2@Nfkbib!1.01!36.40!Nfkbib;;chr11:53164556..53164567,+!p5@Aff4!1.01!14.56!Aff4;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!1.00!9.10!Ppard;;chr14:19071567..19071612,-!p2@Nr1d2!0.99!34.58!Nr1d2;;chr13:30076280..30076334,-!p3@E2f3!0.98!26.39!E2f3;;chr2:103123925..103123959,-!p3@Ehf!0.98!8.64!Ehf;;chr8:118231678..118231692,-!p2@Maf!0.97!77.35!Maf;;chr8:79426176..79426275,+!p1@Nr3c2!0.97!42.31!Nr3c2;;chr8:124806048..124806094,+!p1@Zfpm1!0.96!75.98!Zfpm1;;chr13:112476433..112476448,+!p2@Mier3!0.96!15.47!Mier3;;chr11:98636400..98636418,-!p4@Nr1d1!0.96!10.92!Nr1d1;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.95!12.74!Ncoa4;;chr5:65194752..65194769,+!p1@Klf3!0.94!268.45!Klf3;;chr7:29551488..29551529,-!p1@Nfkbib!0.94!257.07!Nfkbib;;chr3:89197216..89197258,-!p3@Zbtb7b!0.94!16.38!Zbtb7b;;chr1:194979383..194979393,+!p3@Irf6!0.94!7.73!Irf6;;chr4:94718879..94718898,-!p1@Jun!0.93!561.47!Jun;;chr5:32438831..32438878,+!p1@Fosl2!0.93!80.53!Fosl2;;chr2:173044380..173044432,-!p1@Zbp1!0.92!18.20!Zbp1;;chr7:134519473..134519502,-!p3@Zfp747!0.92!10.01!Zfp747;;chr5:148081667..148081678,+!p3@Pdx1!0.92!7.28!Pdx1;;chr19:5560570..5560582,-!p2@Ovol1!0.92!7.28!Ovol1;;chr5:120121020..120121049,+!p1@Tbx3!0.91!45.50!Tbx3;;chr11:98636531..98636559,-!p1@Nr1d1!0.91!42.77!Nr1d1;;chr17:45692676..45692695,+!p2@Nfkbie!0.91!15.01!Nfkbie;;chr18:36953486..36953503,+!p2@Zmat2!0.91!12.28!Zmat2;;chr18:75527009..75527027,+!p1@Smad7!0.90!152.88!Smad7;;chr2:160192793..160192809,-!p1@Mafb!0.90!108.74!Mafb;;chr17:45692642..45692663,+!p1@Nfkbie!0.89!22.75!Nfkbie;;chr11:96690797..96690813,-!p1@Nfe2l1!0.88!131.49!Nfe2l1;;chr18:11052485..11052508,+!p2@Gata6!0.88!19.56!Gata6;;chr3:135354452..135354475,-!p5@Nfkb1!0.88!17.29!Nfkb1;;chr6:140572352..140572382,+!p3@Aebp2!0.88!15.01!Aebp2;;chr11:100948597..100948637,+!p1@Mlx!0.87!159.70!Mlx;;chr17:27865882..27865901,-!p1@Spdef!0.87!6.37!Spdef;;chr9:31720903..31720918,-!p2@Barx2!0.87!6.37!Barx2;;chr10:126727842..126727859,+!p1@Ddit3!0.86!189.73!Ddit3;;chr1:135320962..135320981,-!p2@Sox13!0.86!22.29!Sox13;;chr18:11052606..11052633,+!p4@Gata6!0.86!16.38!Gata6;;chr18:36441119..36441158,+!p2@Pura!0.86!15.92!Pura;;chr5:104182694..104182724,+!p8@Aff1!0.85!7.73!Aff1;;chr8:118231705..118231722,-!p3@Maf!0.84!50.05!Maf;;chr7:87170879..87170914,+!p2@Zfp710!0.84!14.56!Zfp710;;chr15:85566184..85566238,+!p1@Ppara!0.84!9.10!Ppara;;chr1:189433521..189433548,+!p5@Esrrg!0.84!5.91!Esrrg;;chr8:73222425..73222444,+!p2@Jund!0.84!5.91!Jund;;chr14:79880971..79880992,+!p2@Elf1!0.83!79.17!Elf1;;chr7:134519511..134519534,-!p2@Zfp747!0.82!10.92!Zfp747;;chr17:24806675..24806697,+!p2@Zfp598!0.81!30.03!Zfp598;;chr5:148118809..148118832,-!p5@Cdx2!0.81!5.46!Cdx2;;chr4:148178529..148178548,+!p3@Casz1!0.80!13.19!Casz1;;chr15:85566051..85566080,+!p4@Ppara!0.80!6.37!Ppara;;chr1:194979301..194979310,+!p4@Irf6!0.80!6.37!Irf6;;chr19:10315179..10315241,-!p1@Gm98!0.79!58.24!Gm98;;chr10:80598209..80598236,+!p4@Zbtb7a!0.79!9.10!Zbtb7a;;chr2:152561980..152561997,+!p1@Id1!0.78!159.70!Id1;;chr18:75527030..75527055,+!p2@Smad7!0.78!34.58!Smad7;;chr5:104121453..104121479,+!p4@Aff1!0.78!25.02!Aff1;;chr17:34784073..34784118,+!p2@Atf6b!0.78!21.84!Atf6b;;chr5:32438894..32438908,+!p2@Fosl2!0.78!11.37!Fosl2;;chr3:30993616..30993634,+!p3@Skil!0.78!9.55!Skil;;chr8:47825166..47825178,+!p2@Irf2!0.78!8.19!Irf2;;chr8:118231350..118231385,-!p7@Maf!0.78!7.73!Maf;;chr13:112476264..112476282,+!p3@Mier3!0.78!7.28!Mier3;;chr10:44178493..44178520,-!p3@Prdm1!0.78!7.28!Prdm1;;chr2:180069410..180069421,-!p3@Gata5!0.78!5.00!Gata5;;chr2:180069640..180069660,-!p4@Gata5!0.78!5.00!Gata5;;chr16:87699206..87699229,+!p3@Bach1!0.77!29.12!Bach1;;chrX:7339938..7339963,+!p1@Tfe3!0.77!26.84!Tfe3;;chr8:72519989..72520007,-!p5@Gatad2a!0.77!25.93!Gatad2a;;chr4:148275237..148275311,+!p2@Casz1!0.77!21.84!Casz1;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!0.77!6.37!Zbtb11;;chr7:52960555..52960662,+!p1@Dbp!0.76!44.13!Dbp;;chr5:138187181..138187192,+!p5@Tsc22d4!0.76!13.19!Tsc22d4;;chr7:20162663..20162678,+!p1@Zfp296!0.76!6.37!Zfp296;;chr8:73222830..73222844,+!p1@Jund!0.75!1301.30!Jund;;chr11:53164533..53164548,+!p4@Aff4!0.75!14.56!Aff4;;chr19:53385060..53385069,+!p6@Mxi1!0.75!6.82!Mxi1;;chr3:52072329..52072346,+!p1@Foxo1!0.74!76.89!Foxo1;;chr17:48061381..48061399,-!p1@Foxp4!0.74!56.87!Foxp4;;chr4:43575544..43575565,+!p2@Creb3!0.74!29.12!Creb3;;chr3:87329568..87329589,+!p2@Etv3!0.74!6.37!Etv3;;chr3:3508005..3508021,+!p3@Hnf4g!0.74!4.55!Hnf4g;;chr18:64499879..64499895,+!p3@Onecut2!0.74!4.55!Onecut2;;chr17:28409136..28409150,+!p3@Ppard!0.74!4.55!Ppard;;chr19:54476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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs13233
-|library_id_phase_based=1:CNhs13233
+|library_id_phase_based=2:CNhs13233
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;11851
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;11851
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/CD326%252b%2520enterocyte%2520isolated%2520from%2520mice%252c%2520treated%2520with%2520RANKL%252c%2520day03%252c%2520pool2.CNhs13233.11851-124I6.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/CD326%252b%2520enterocyte%2520isolated%2520from%2520mice%252c%2520treated%2520with%2520RANKL%252c%2520day03%252c%2520pool2.CNhs13233.11851-124I6.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/CD326%252b%2520enterocyte%2520isolated%2520from%2520mice%252c%2520treated%2520with%2520RANKL%252c%2520day03%252c%2520pool2.CNhs13233.11851-124I6.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/CD326%252b%2520enterocyte%2520isolated%2520from%2520mice%252c%2520treated%2520with%2520RANKL%252c%2520day03%252c%2520pool2.CNhs13233.11851-124I6.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/CD326%252b%2520enterocyte%2520isolated%2520from%2520mice%252c%2520treated%2520with%2520RANKL%252c%2520day03%252c%2520pool2.CNhs13233.11851-124I6.mm9.nobarcode.rdna.fa.gz
 |name=CD326+ enterocyte isolated from mice, treated with RANKL, day03, pool2
 |namespace=
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13233,LSID1006,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.069119766685487,0,0,0,0,0,-0.109111830177157,0,0,0,0,-0.0843392403965415,0,0,0,0,0.353571802418294,0,-0.191893350882575,0,0,0,0.281033021353425,0,0,0,0,0,0,0,0,0,-0.558422792324031,0,0.515210800008536,0,0,0,0.015801594387893,-0.143307567793531,0.368974497170017,-0.984211366477826,-0.107005871718675,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0.13932832075821,0,-0.130696565450787,0,0,-0.00336631083942764,-0.243225778194271,-0.310650657339386,-0.158091042771083,-0.140687683267293,0,-0.0148250452003048,-0.0760168881589905,-0.279559504296028,0,0,0,0.189558961749357,-0.314881859387145,-0.0788315948399074,0,0,0,0,0,0,-0.0843878890072914,-0.530973139023784,-0.129286491554687,0,0,0,0,0
@@ Line 88: / Line 97: @@
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+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:11851-124I6;search_select_hide=table117:11851-124I6
 }}

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FF:11851-124I6: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:23, 4 June 2020

CNhs13233

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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