FF:10253-104C1: Difference between revisions

Latest revision as of 13:57, 3 June 2020

Name:	Ileum epithelium, pool2
Species:	Mouse (Mus musculus)
Library ID:	CNhs13232
Sample type:	tissues
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	Balb/c
tissue	ileum
dev stage	NA
sex	female
age	NA
cell type	CELL MIXTURE - tissue sample
cell line	NA
company	NA
collaboration	Shinji Fukuda (RCAI)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	Cont_ileum_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		SAMD00004676

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13232		CAGE		DRX008768		DRR009640

Accession ID Mm9

Library id		BAM		CTSS
CNhs13232		DRZ001065		DRZ002450

Accession ID Mm10

Library id		BAM		CTSS
CNhs13232		DRZ012415		DRZ013800

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

CNhs13232

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.116
1003	-0.175
1004	0
1005	0.177
1006	-0.351
1007	-0.117
1008	1.964
1009	-0.19
101	-0.172
1010	0
1011	-0.298
1012	0
1013	0.266
1014	-0.0874
1015	-0.424
1016	-0.594
1017	0
1018	0.245
1019	0
102	0
1020	0
1021	0
1022	-0.0264
1023	0
1024	-0.307
1025	0
1026	0
1027	-0.048
1028	0
1029	-0.176
103	-0.0887
1030	0
1031	-0.911
1032	0.751
1033	-0.00394
1034	0.156
1035	0
1036	-0.111
1037	0
1038	0.0793
1039	0.198
104	0
1040	-0.546
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: CNhs13232

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00226
MA0003.1	MA0003.1	0.294
MA0004.1	MA0004.1	0.532
MA0006.1	MA0006.1	0.0824
MA0007.1	MA0007.1	0.188
MA0009.1	MA0009.1	0.371
MA0014.1	MA0014.1	0.0526
MA0017.1	MA0017.1	3.8895e-28
MA0018.2	MA0018.2	0.279
MA0019.1	MA0019.1	0.176
MA0024.1	MA0024.1	0.175
MA0025.1	MA0025.1	0.355
MA0027.1	MA0027.1	0.348
MA0028.1	MA0028.1	0.00404
MA0029.1	MA0029.1	0.467
MA0030.1	MA0030.1	0.739
MA0031.1	MA0031.1	0.468
MA0035.2	MA0035.2	4.63856e-5
MA0038.1	MA0038.1	0.881
MA0039.2	MA0039.2	8.36757e-5
MA0040.1	MA0040.1	0.006
MA0041.1	MA0041.1	0.333
MA0042.1	MA0042.1	0.436
MA0043.1	MA0043.1	0.108
MA0046.1	MA0046.1	8.96583e-53
MA0047.2	MA0047.2	0.0066
MA0048.1	MA0048.1	0.3
MA0050.1	MA0050.1	7.09907e-7
MA0051.1	MA0051.1	3.73292e-7
MA0052.1	MA0052.1	9.54187e-4
MA0055.1	MA0055.1	0.299
MA0057.1	MA0057.1	0.136
MA0058.1	MA0058.1	0.61
MA0059.1	MA0059.1	0.651
MA0060.1	MA0060.1	0.484
MA0061.1	MA0061.1	0.457
MA0062.2	MA0062.2	1.38613e-6
MA0065.2	MA0065.2	5.02225e-14
MA0066.1	MA0066.1	0.112
MA0067.1	MA0067.1	0.451
MA0068.1	MA0068.1	0.214
MA0069.1	MA0069.1	0.635
MA0070.1	MA0070.1	0.0893
MA0071.1	MA0071.1	0.114
MA0072.1	MA0072.1	0.892
MA0073.1	MA0073.1	0.805
MA0074.1	MA0074.1	0.224
MA0076.1	MA0076.1	0.0122
MA0077.1	MA0077.1	0.869
MA0078.1	MA0078.1	0.755
MA0079.2	MA0079.2	0.74
MA0080.2	MA0080.2	1.51114e-6
MA0081.1	MA0081.1	0.822
MA0083.1	MA0083.1	0.00288
MA0084.1	MA0084.1	0.26
MA0087.1	MA0087.1	0.408
MA0088.1	MA0088.1	0.181
MA0090.1	MA0090.1	0.87
MA0091.1	MA0091.1	0.744
MA0092.1	MA0092.1	0.891
MA0093.1	MA0093.1	0.613
MA0099.2	MA0099.2	1.37367e-5
MA0100.1	MA0100.1	0.717
MA0101.1	MA0101.1	0.395
MA0102.2	MA0102.2	0.468
MA0103.1	MA0103.1	4.3532e-7
MA0104.2	MA0104.2	0.549
MA0105.1	MA0105.1	0.543
MA0106.1	MA0106.1	0.485
MA0107.1	MA0107.1	0.471
MA0108.2	MA0108.2	0.373
MA0111.1	MA0111.1	0.892
MA0112.2	MA0112.2	6.73084e-4
MA0113.1	MA0113.1	0.208
MA0114.1	MA0114.1	2.75598e-31
MA0115.1	MA0115.1	5.45715e-13
MA0116.1	MA0116.1	0.289
MA0117.1	MA0117.1	0.654
MA0119.1	MA0119.1	0.0909
MA0122.1	MA0122.1	0.757
MA0124.1	MA0124.1	0.181
MA0125.1	MA0125.1	0.74
MA0131.1	MA0131.1	0.693
MA0135.1	MA0135.1	0.405
MA0136.1	MA0136.1	9.74748e-12
MA0137.2	MA0137.2	0.0373
MA0138.2	MA0138.2	0.996
MA0139.1	MA0139.1	0.0804
MA0140.1	MA0140.1	0.0131
MA0141.1	MA0141.1	4.6358e-7
MA0142.1	MA0142.1	0.232
MA0143.1	MA0143.1	0.0975
MA0144.1	MA0144.1	0.0112
MA0145.1	MA0145.1	0.0161
MA0146.1	MA0146.1	0.131
MA0147.1	MA0147.1	0.67
MA0148.1	MA0148.1	0.00685
MA0149.1	MA0149.1	0.00656
MA0150.1	MA0150.1	0.0557
MA0152.1	MA0152.1	0.0799
MA0153.1	MA0153.1	1.2829e-41
MA0154.1	MA0154.1	0.119
MA0155.1	MA0155.1	0.517
MA0156.1	MA0156.1	1.25198e-7
MA0157.1	MA0157.1	0.95
MA0159.1	MA0159.1	2.2059e-4
MA0160.1	MA0160.1	1.10584e-4
MA0162.1	MA0162.1	0.65
MA0163.1	MA0163.1	0.141
MA0164.1	MA0164.1	0.792
MA0258.1	MA0258.1	0.0376
MA0259.1	MA0259.1	0.828

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: CNhs13232

Novel motif	Logo	P-value
1	1	0.126
10	10	0.105
100	100	0.733
101	101	0.76
102	102	0.568
103	103	0.227
104	104	0.894
105	105	0.216
106	106	0.0465
107	107	0.246
108	108	0.943
109	109	0.0357
11	11	0.109
110	110	0.224
111	111	0.294
112	112	0.0218
113	113	0.456
114	114	0.0593
115	115	0.832
116	116	0.223
117	117	0.0247
118	118	0.381
119	119	0.259
12	12	0.674
120	120	0.531
121	121	0.584
122	122	0.824
123	123	0.0431
124	124	0.1
125	125	0.169
126	126	0.0412
127	127	0.212
128	128	0.355
129	129	0.254
13	13	9.35114e-5
130	130	0.642
131	131	0.627
132	132	0.524
133	133	0.81
134	134	0.999
135	135	0.154
136	136	0.0219
137	137	0.756
138	138	0.0852
139	139	0.0866
14	14	0.727
140	140	0.208
141	141	0.222
142	142	1
143	143	0.236
144	144	0.318
145	145	0.0907
146	146	0.292
147	147	0.96
148	148	0.624
149	149	0.989
15	15	0.0901
150	150	0.372
151	151	0.637
152	152	0.0737
153	153	0.848
154	154	0.833
155	155	0.291
156	156	0.0586
157	157	0.461
158	158	0.624
159	159	0.655
160	160	0.716
161	161	0.657
162	162	0.911
163	163	0.299
164	164	0.0792
165	165	0.295
166	166	0.748
167	167	0.618
168	168	0.883
169	169	0.0428
17	17	0.0413
18	18	0.909
19	19	0.247
2	2	0.725
20	20	0.437
21	21	0.878
22	22	0.33
23	23	0.957
24	24	0.546
25	25	0.344
26	26	0.00915
27	27	0.736
28	28	0.334
29	29	0.0839
3	3	0.174
30	30	0.454
31	31	0.958
32	32	0.2
33	33	0.164
34	34	0.933
35	35	0.635
36	36	0.406
37	37	0.0389
38	38	0.52
39	39	0.289
4	4	0.476
40	40	0.137
41	41	0.249
42	42	0.645
43	43	0.359
44	44	0.138
45	45	0.488
46	46	0.272
47	47	0.335
48	48	0.184
49	49	0.278
5	5	0.444
50	50	0.62
51	51	0.744
52	52	0.184
53	53	0.445
54	54	0.598
55	55	0.619
56	56	0.606
57	57	0.958
58	58	0.279
59	59	0.265
6	6	0.544
60	60	0.0474
61	61	0.22
62	62	0.229
63	63	0.189
64	64	0.557
65	65	0.326
66	66	0.829
67	67	0.291
68	68	0.195
69	69	0.851
7	7	0.0525
70	70	0.0173
71	71	0.0995
72	72	0.245
73	73	0.0371
74	74	0.682
75	75	0.0296
76	76	0.648
77	77	0.192
78	78	0.0144
79	79	0.69
8	8	0.148
80	80	0.603
81	81	0.884
82	82	0.132
83	83	0.0467
84	84	0.125
85	85	0.131
86	86	0.0649
87	87	0.00766
88	88	0.28
89	89	0.181
9	9	0.914
90	90	0.111
91	91	0.613
92	92	0.469
93	93	0.516
94	94	0.451
95	95	0.00528
96	96	0.877
97	97	0.932
98	98	0.517
99	99	0.264

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: CNhs13232

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0000002 in vivo cell sample
FF:0011274 mouse Ileum epithelium 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)

UBERON: Anatomy
0000468 (multi-cellular organism)
0007023 (adult organism)
0002108 (small intestine)
0000160 (intestine)
0000331 (ileal mucosa)
0000483 (epithelium)
0002116 (ileum)
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)
0004923 (organ component layer)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0001204 (mucosa of small intestine)
0000467 (anatomical system)
0000060 (anatomical wall)
0001062 (anatomical entity)
0000480 (anatomical group)
0000119 (cell layer)
0001262 (wall of intestine)
0004786 (gastrointestinal system mucosa)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0005409 (gastrointestinal system)
0001168 (wall of small intestine)

FF: FANTOM5
0000102 (sample by type)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011274 (mouse Ileum epithelium 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
UBERON:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0010316 (germ layer / neural crest)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00004676
+|accession_numbers=CAGE;DRX008768;DRR009640;DRZ001065;DRZ002450;DRZ012415;DRZ013800
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0002108,UBERON:0000160,UBERON:0000331,UBERON:0000483,UBERON:0002116,UBERON:0001242,UBERON:0000479,UBERON:0001007,UBERON:0000344,UBERON:0000064,UBERON:0004119,UBERON:0011216,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0004923,UBERON:0004921,UBERON:0000477,UBERON:0001204,UBERON:0000467,UBERON:0000060,UBERON:0001062,UBERON:0000480,UBERON:0000119,UBERON:0001262,UBERON:0004786,UBERON:0010317,UBERON:0001555,UBERON:0005409,UBERON:0001168
 |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003
@@ Line 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr3:3634145..3634161,+!p1@Hnf4g!2.69!492.72!Hnf4g;;chr10:80555320..80555378,-!p1@Creb3l3!2.29!222.79!Creb3l3;;chr2:163372884..163372904,+!p1@Hnf4a!2.24!173.14!Hnf4a;;chr5:148118639..148118715,-!p1@Cdx2!2.24!170.88!Cdx2;;chr10:88969376..88969395,-!p1@Nr1h4!1.98!94.76!Nr1h4;;chr6:86619104..86619119,-!p1@Mxd1!1.87!556.23!Mxd1;;chr2:163332558..163332596,+!p2@Hnf4a!1.81!64.27!Hnf4a;;chr16:38294860..38294924,-!p1@Nr1i2!1.80!62.00!Nr1i2;;chr1:137155026..137155042,-!p1@Elf3!1.74!298.66!Elf3;;chr3:3508024..3508069,+!p2@Hnf4g!1.68!47.38!Hnf4g;;chr17:27865882..27865901,-!p1@Spdef!1.66!44.61!Spdef;;chr2:103123925..103123959,-!p3@Ehf!1.63!41.84!Ehf;;chr15:97738692..97738747,-!p1@Vdr!1.62!214.73!Vdr;;chr18:61195843..61195864,-!p2@Cdx1!1.62!40.58!Cdx1;;chr5:148118840..148118857,-!p2@Cdx2!1.62!40.32!Cdx2;;chr5:120121169..120121171,+!p4@Tbx3!1.60!67.80!Tbx3;;chr2:180069370..180069409,-!p1@Gata5!1.60!45.11!Gata5;;chr2:173044380..173044432,-!p1@Zbp1!1.59!86.95!Zbp1;;chr18:61195865..61195880,-!p1@Cdx1!1.58!37.30!Cdx1;;chr6:64679112..64679126,+!p1@Atoh1!1.53!32.51!Atoh1;;chr2:173044357..173044377,-!p2@Zbp1!1.51!44.61!Zbp1;;chr8:77396591..77396639,+!p1@Isx!1.45!26.97!Isx;;chr15:35225845..35225867,+!p1@Osr2!1.43!63.76!Osr2;;chr14:99697871..99697934,+!p1@Klf5!1.39!450.88!Klf5;;chr6:39068163..39068176,-!p2@Parp12!1.39!43.10!Parp12;;chr2:103143336..103143367,-!p1@Ehf!1.37!36.29!Ehf;;chr5:135582751..135582788,+!p1@Mlxipl!1.35!83.93!Mlxipl;;chr19:5560600..5560617,-!p1@Ovol1!1.33!24.70!Ovol1;;chr5:148118792..148118806,-!p3@Cdx2!1.33!20.16!Cdx2;;chr8:123260252..123260264,+!p1@Irf8!1.31!132.06!Irf8;;chr14:63864056..63864102,-!p1@Gata4!1.31!33.27!Gata4;;chr7:19608891..19608895,-!p1@Foxa3!1.30!24.45!Foxa3;;chr11:70500401..70500460,-!p3@Camta2!1.30!19.15!Camta2;;chr4:124805061..124805087,-!p1@Zc3h12a!1.28!54.94!Zc3h12a;;chr5:115421065..115421088,-!p1@Hnf1a!1.28!17.89!Hnf1a;;chr1:194979315..194979359,+!p1@Irf6!1.27!104.84!Irf6;;chr9:31720843..31720888,-!p1@Barx2!1.27!19.41!Barx2;;chr8:77397095..77397127,+!p2@Isx!1.26!17.39!Isx;;chr8:118231678..118231692,-!p2@Maf!1.24!144.67!Maf;;chr11:53583544..53583559,+!p1@Irf1!1.21!249.01!Irf1;;chr19:6996243..6996293,-!p1@Esrra!1.21!165.84!Esrra;;chr5:148118809..148118832,-!p5@Cdx2!1.17!13.86!Cdx2;;chr9:31720903..31720918,-!p2@Barx2!1.17!13.86!Barx2;;chr14:76887526..76887555,+!p10@Tsc22d1!1.14!12.85!Tsc22d1;;chr1:173144100..173144138,+!p2@Nr1i3!1.13!12.35!Nr1i3;;chr2:163372869..163372882,+!p3@Hnf4a!1.11!11.85!Hnf4a;;chr17:28409136..28409150,+!p3@Ppard!1.11!11.85!Ppard;;chr3:90046995..90047031,-!p2@Creb3l4!1.09!14.11!Creb3l4;;chr5:148118614..148118625,-!p4@Cdx2!1.08!11.09!Cdx2;;chr11:98636531..98636559,-!p1@Nr1d1!1.06!60.99!Nr1d1;;chr10:20880629..20880683,-!p1@Myb!1.05!29.49!Myb;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!1.05!10.33!Ppard;;chr7:20213752..20213778,-!p2@Relb!1.05!10.33!Relb;;chr12:78063146..78063159,-!p2@Max!1.04!26.46!Max;;chr3:89197057..89197114,-!p1@Zbtb7b!1.03!33.52!Zbtb7b;;chr1:138857048..138857071,-!p2@Nr5a2!1.02!9.58!Nr5a2;;chr2:103143315..103143328,-!p2@Ehf!1.00!9.07!Ehf;;chr7:148452314..148452329,-!p1@Irf7!0.99!62.25!Irf7;;chr3:30039329..30039355,-!p5@Mecom!0.99!8.82!Mecom;;chr8:77397492..77397514,+!p3@Isx!0.99!8.82!Isx;;chr8:118231705..118231722,-!p3@Maf!0.98!70.06!Maf;;chr8:79426176..79426275,+!p1@Nr3c2!0.98!44.11!Nr3c2;;chr4:148178559..148178603,+!p1@Casz1!0.98!25.20!Casz1;;chr8:77397190..77397202,+!p5@Isx!0.97!8.32!Isx;;chr3:128918394..128918413,+!p5@Pitx2!0.96!8.06!Pitx2;;chr3:3508005..3508021,+!p3@Hnf4g!0.95!7.81!Hnf4g;;chr10:80555398..80555409,-!p2@Creb3l3!0.95!7.81!Creb3l3;;chr3:128918433..128918448,+!p8@Pitx2!0.92!7.31!Pitx2;;chr2:180069640..180069660,-!p4@Gata5!0.92!7.31!Gata5;;chr11:98636400..98636418,-!p4@Nr1d1!0.91!9.58!Nr1d1;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!0.91!9.33!Zbtb11;;chr11:100948597..100948637,+!p1@Mlx!0.89!167.35!Mlx;;chr14:76887566..76887579,+!p18@Tsc22d1!0.89!6.80!Tsc22d1;;chr2:166888058..166888105,-!p2@Znfx1!0.88!22.18!Znfx1;;chr11:98636508..98636524,-!p3@Nr1d1!0.88!8.32!Nr1d1;;chr19:53384910..53384937,+!p3@Mxi1!0.86!18.65!Mxi1;;chr2:77357622..77357704,-!p1@Zfp385b!0.86!17.39!Zfp385b;;chr10:88996336..88996380,-!p2@Nr1h4!0.86!7.81!Nr1h4;;chr8:77397169..77397182,+!p7@Isx!0.86!6.30!Isx;;chr1:52176315..52176343,+!p1@Stat1!0.85!94.01!Stat1;;chr12:58646974..58647003,-!p1@Foxa1!0.85!8.32!Foxa1;;chr4:55545337..55545357,-!p1@Klf4!0.84!93.76!Klf4;;chr5:120121020..120121049,+!p1@Tbx3!0.83!37.80!Tbx3;;chr6:39068210..39068251,-!p1@Parp12!0.83!28.23!Parp12;;chr4:87452180..87452196,-!p3@Mllt3!0.83!11.85!Mllt3;;chr8:77396650..77396662,+!p4@Isx!0.83!5.80!Isx;;chr19:55816546..55816556,+!p3@Tcf7l2!0.82!22.68!Tcf7l2;;chr15:85566184..85566238,+!p1@Ppara!0.82!8.57!Ppara;;chr1:138846079..138846103,-!p6@Nr5a2!0.82!5.54!Nr5a2;;chr3:94176733..94176794,+!p1@Rorc!0.81!45.11!Rorc;;chr6:39068181..39068206,-!p3@Parp12!0.81!11.85!Parp12;;chr7:134519473..134519502,-!p3@Zfp747!0.81!7.56!Zfp747;;chr8:87502608..87502623,-!p1@Junb!0.80!94.51!Junb;;chr1:57029281..57029326,-!p1@Satb2!0.80!8.57!Satb2;;chr19:5560570..5560582,-!p2@Ovol1!0.80!5.29!Ovol1;;chr17:34784073..34784118,+!p2@Atf6b!0.79!22.43!Atf6b;;chr8:73905344..73905381,-!p2@Nr2f6!0.79!13.11!Nr2f6;;chr19:6996294..6996324,-!p2@Esrra!0.78!36.29!Esrra;;chr4:135700687..135700719,+!p2@Id3!0.78!8.06!Id3;;chr2:79296783..79296801,-!p1@Neurod1!0.78!5.04!Neurod1;;chr1:194979361..194979373,+!p2@Irf6!0.77!6.80!Irf6;;chr2:91035254..91035271,-!p3@Nr1h3!0.76!6.05!Nr1h3;;chr19:6164433..6164446,+!p2@Batf2!0.76!4.79!Batf2;;chr7:52960555..52960662,+!p1@Dbp!0.74!42.59!Dbp;;chr18:11052606..11052633,+!p4@Gata6!0.74!12.35!Gata6;;chr8:87643578..87643593,-!p1@Zfp791!0.74!10.08!Zfp791;;chr15:35225873..35225889,+!p2@Osr2!0.74!4.54!Osr2;;chr10:80555285..80555291,-!p4@Creb3l3!0.74!4.54!Creb3l3;;chr7:134519511..134519534,-!p2@Zfp747!0.73!8.57!Zfp747;;chr19:53384985..53385042,+!p1@Mxi1!0.72!147.19!Mxi1;;chr3:14578786..14578807,+!p2@E2f5!0.72!17.64!E2f5;;chr11:98636373..98636387,-!p5@Nr1d1!0.72!5.04!Nr1d1;;chr11:98822047..98822072,+!p9@Rara!0.72!4.28!Rara;;chr10:80555299..80555306,-!p3@Creb3l3!0.72!4.28!Creb3l3;;chr13:44825008..44825066,+!p5@Jarid2!0.71!8.82!Jarid2;;chr5:144951153..144951203,+!p1@Bhlha15!0.71!6.30!Bhlha15;;chr5:77524250..77524300,-!p1@Hopx!0.70!91.74!Hopx;;chr15:85566051..85566080,+!p4@Ppara!0.70!4.79!Ppara;;chr1:194979383..194979393,+!p3@Irf6!0.70!4.03!Irf6;;chr2:133377954..133377973,+!p1@Bmp2!0.69!13.86!Bmp2;;chr5:138187181..138187192,+!p5@Tsc22d4!0.69!11.09!Tsc22d4;;chr6:86619130..86619158,-!p2@Mxd1!0.68!62.25!Mxd1;;chr18:11052485..11052508,+!p2@Gata6!0.68!11.85!Gata6;;chr8:77397026..77397036,+!p6@Isx!0.68!3.78!Isx;;chr4:148178529..148178548,+!p3@Casz1!0.66!9.33!Casz1;;chr2:91035197..91035237,-!p1@Nr1h3!0.66!8.06!Nr1h3;;chr11:53164556..53164567,+!p5@Aff4!0.66!6.05!Aff4;;chr1:165219345..165219366,-!p7@Prrx1!0.66!3.53!Prrx1;;chr18:36441119..36441158,+!p2@Pura!0.65!9.33!Pura;;chr7:20408047..20408125,-!p1@Bcl3!0.64!44.86!Bcl3;;chr18:11052642..11052659,+!p1@Gata6!0.64!19.66!Gata6;;chr15:85566014..85566045,+!p3@Ppara!0.64!4.79!Ppara;;chr15:85565338..85565355,+!p7@Ppara!0.63!3.28!Ppara;;chr3:89197216..89197258,-!p3@Zbtb7b!0.62!7.31!Zbtb7b;;chr13:5860776..5860796,+!p1@Klf6!0.61!89.72!Klf6;;chr1:135320989..135321043,-!p1@Sox13!0.61!41.08!Sox13;;chr1:133904946..133904974,+!p7@Elk4!0.61!5.04!Elk4;;chr12:109242266..109242295,-!p1@Bcl11b!0.60!29.74!Bcl11b;;chr16:87699206..87699229,+!p3@Bach1!0.60!19.15!Bach1;;chr8:47825166..47825178,+!p2@Irf2!0.60!5.04!Irf2;;chr1:138857076..138857105,-!p1@Nr5a2!0.60!3.02!Nr5a2;;chr2:180069410..180069421,-!p3@Gata5!0.60!3.02!Gata5;;chr5:65194752..65194769,+!p1@Klf3!0.59!118.45!Klf3;;chr5:140267476..140267493,+!p1@Mafk!0.59!19.66!Mafk;;chr14:19071567..19071612,-!p2@Nr1d2!0.59!13.11!Nr1d2;;chr12:86814833..86814846,+!p1@Fos!0.58!81.41!Fos;;chr10:88996295..88996335,-!p3@Nr1h4!0.58!3.53!Nr1h4;;chr11:98407264..98407295,-!p1@Ikzf3!0.58!2.77!Ikzf3;;chr2:180069423..180069434,-!p2@Gata5!0.58!2.77!Gata5;;chr9:31721051..31721068,-!p3@Barx2!0.58!2.77!Barx2;;chr17:28409059..28409076,+!p6@Ppard!0.58!2.77!Ppard;;chr10:107769168..107769215,+!p1@Pawr!0.57!33.77!Pawr;;chr4:43575544..43575565,+!p2@Creb3!0.57!19.15!Creb3;;chr10:80600749..80600766,+!p2@Zbtb7a!0.57!17.39!Zbtb7a;;chr10:127095407..127095440,+!p3@Stat6!0.57!3.53!Stat6;;chr13:37918094..37918119,+!p6@Rreb1!0.56!6.55!Rreb1;;chr16:55822638..55822669,-!p3@Nfkbiz!0.56!4.28!Nfkbiz;;chr1:194979301..194979310,+!p4@Irf6!0.56!3.28!Irf6;;chr1:138846009..138846038,-!p3@Nr5a2!0.56!3.02!Nr5a2;;chr16:55822241..55822258,-!p1@Nfkbiz!0.55!100.56!Nfkbiz;;chr4:148275237..148275311,+!p2@Casz1!0.55!12.85!Casz1;;chr2:24278519..24278530,-!p3@Pax8!0.55!2.52!Pax8;;chr1:57029027..57029056,-!p7@Satb2!0.55!2.52!Satb2;;chr1:138846117..138846129,-!p8@Nr5a2!0.55!2.52!Nr5a2;;chr10:79884592..79884621,-!p5@Tcf3!0.55!2.52!Tcf3;;chr11:98614335..98614349,+!p8@Thra!0.55!2.52!Thra;;chr2:152561980..152561997,+!p1@Id1!0.54!91.74!Id1;;chr1:135320962..135320981,-!p2@Sox13!0.54!10.08!Sox13;;chr8:47825203..47825225,+!p3@Irf2!0.54!3.53!Irf2;;chr5:104182694..104182724,+!p8@Aff1!0.54!3.28!Aff1;;chr2:160192793..160192809,-!p1@Mafb!0.52!45.11!Mafb;;chr1:39250584..39250643,+!p1@Npas2!0.52!14.62!Npas2;;chr18:75527009..75527027,+!p1@Smad7!0.51!61.50!Smad7;;chr19:46379199..46379301,+!p1@Nfkb2!0.51!16.13!Nfkb2;;chr10:80598209..80598236,+!p4@Zbtb7a!0.51!4.28!Zbtb7a;;chr1:138846047..138846074,-!p5@Nr5a2!0.51!2.52!Nr5a2;;chr1:194982959..194983007,+!p5@Irf6!0.51!2.27!Irf6;;chr16:87699237..87699279,+!p1@Bach1!0.50!29.74!Bach1;;chr4:135728581..135728668,+!p1@E2f2!0.50!13.11!E2f2;;chr4:87452200..87452229,-!p2@Mllt3!0.50!5.54!Mllt3;;chr11:53583960..53584007,+!p2@Irf1!0.50!5.54!Irf1;;chr2:146047829..146047847,+!p1@Insm1!0.50!4.54!Insm1;;chr5:120121262..120121282,+!p6@Tbx3!0.50!2.52!Tbx3;;chr6:37391910..37391928,-!p3@Creb3l2!0.50!2.52!Creb3l2;;chr7:35904304..35904320,+!p1@Cebpa!0.49!57.21!Cebpa;;chr8:72519989..72520007,-!p5@Gatad2a!0.49!13.11!Gatad2a;;chr5:77524231..77524245,-!p3@Hopx!0.49!6.30!Hopx;;ch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lf13!0.09!7.81!Klf13;;chr10:127707562..127707597,+!p2@Stat2!0.09!4.79!Stat2;;chr5:104121453..104121479,+!p4@Aff1!0.09!4.28!Aff1;;chr18:55147667..55147746,-!p2@Zfp608!0.09!4.28!Zfp608;;chr16:33380881..33380909,+!p1@Zfp148!0.09!4.03!Zfp148;;chr13:67461490..67461531,-!p1@Zfp595,p1@Zfp953!0.09!3.78!Zfp953;;chr15:38230415..38230426,-!p2@Klf10!0.09!3.02!Klf10;;chr7:13063643..13063662,+!p2@Zfp606!0.09!2.02!Zfp606;;chr8:92872242..92872285,-!p1@Tox3!0.09!2.02!Tox3;;chr15:57526316..57526332,+!p4@Zhx2!0.09!1.76!Zhx2;;chr7:13420092..13420160,+!p2@Zfp110!0.09!1.26!Zfp110;;chr7:135381498..135381509,-!p2@9130023H24Rik!0.09!1.01!9130023H24Rik;;chr9:63869834..63869849,-!p5@Smad6!0.09!1.01!Smad6;;chr2:120996813..120996829,-!p2@Zscan29!0.09!1.01!Zscan29;;chr8:108583683..108583693,+!p3@Nfatc3!0.09!0.76!Nfatc3;;chr5:110539135..110539159,+!p4@Zfp605!0.09!0.76!Zfp605;;chr12:109242296..109242307,-!p3@Bcl11b!0.09!0.76!Bcl11b;;chr10:44178474..44178487,-!p4@Prdm1!0.09!0.76!Prdm1;;chr11:102177921..102177960,-!p9@Ubtf!0.09!0.76!Ubtf;;chr3:9610233..9610247,-!p4@Zfp704!0.09!0.76!Zfp704;;chr4:87678639..87678653,-!p11@Mllt3!0.09!0.50!Mllt3;;chr3:133207214..133207228,-!p2@Tet2!0.09!0.50!Tet2;;chr1:38721792..38721845,-!p1@Aff3!0.09!0.50!Aff3;;chr7:25292033..25292043,+!p9@Zfp428!0.09!0.50!Zfp428;;chr10:107769219..107769226,+!p5@Pawr!0.09!0.50!Pawr;;chr13:44825963..44825967,+!p12@Jarid2!0.09!0.50!Jarid2;;chr7:133839456..133839523,+!p1@Bola2!0.08!53.18!Bola2;;chr5:21290933..21291050,-!p1@Dnajc2!0.08!40.32!Dnajc2;;chr12:4484016..4484074,-!p1@Ncoa1!0.08!17.14!Ncoa1;;chr17:24806629..24806672,+!p1@Zfp598!0.08!11.34!Zfp598;;chr17:35372700..35372762,-!p1@Nfkbil1!0.08!11.09!Nfkbil1;;chr5:145992626..145992652,+!p2@Zfp655!0.08!6.80!Zfp655;;chr3:95021612..95021650,-!p2@Gabpb2!0.08!4.79!Gabpb2;;chr5:92391901..92391936,+!p1@Thap6!0.08!4.54!Thap6;;chr8:125778131..125778178,+!p1@Zfp276!0.08!4.28!Zfp276;;chr16:33380851..33380873,+!p3@Zfp148!0.08!3.02!Zfp148;;chr18:84255804..84255832,-!p2@Tshz1!0.08!3.02!Tshz1;;chr17:34169293..34169320,+!p3@Rxrb!0.08!2.52!Rxrb;;chr1:181476392..181476407,-!p2@Tfb2m!0.08!2.02!Tfb2m;;chr10:41995430..41995458,-!p3@Foxo3!0.08!2.02!Foxo3;;chr2:48805633..48805648,+!p5@Mbd5!0.08!1.26!Mbd5;;chr6:72849280..72849297,-!p6@Kcmf1!0.08!1.26!Kcmf1;;chr10:22451765..22451795,-!p6@Tbpl1!0.08!0.76!Tbpl1;;chr12:77470573..77470585,-!p6@Zbtb25!0.08!0.76!Zbtb25;;chr12:3806513..3806527,+!p9@Dnmt3a!0.08!0.76!Dnmt3a;;chrX:137077699..137077705,-!p8@Tsc22d3!0.08!0.50!Tsc22d3;;chr1:181733959..181733977,-!p4@Ahctf1!0.08!0.50!Ahctf1;;chr5:65213459..65213485,+!p12@Klf3!0.08!0.50!Klf3;;chr5:53981578..53981590,+!p4@Rbpj!0.08!0.50!Rbpj;;chr2:168055853..168055886,-!p1@Adnp,p1@Dpm1!0.07!70.82!Adnp;;chr13:44826722..44826742,+!p1@Jarid2!0.07!16.63!Jarid2;;chr12:86940338..86940357,+!p1@Jdp2!0.07!9.83!Jdp2;;chr3:14578609..14578687,+!p1@E2f5!0.07!9.33!E2f5;;chr16:55966451..55966484,+!p3@Rpl24,p3@Zbtb11!0.07!5.54!Zbtb11;;chr12:100631123..100631206,-!p3@Foxn3!0.07!5.29!Foxn3;;chr7:6124098..6124133,+!p1@Zfp444!0.07!4.03!Zfp444;;chr4:82151622..82151643,-!p4@Nfib!0.07!3.53!Nfib;;chr11:97524415..97524455,+!p2@Mllt6!0.07!3.28!Mllt6;;chr9:20297135..20297154,-!p2@Zfp426!0.07!3.02!Zfp426;;chrX:45807489..45807502,-!p2@Elf4!0.07!2.52!Elf4;;chr10:41996471..41996487,-!p4@Foxo3!0.07!2.27!Foxo3;;chr19:53384965..53384984,+!p4@Mxi1!0.07!2.27!Mxi1;;chr1:52176406..52176433,+!p2@Stat1!0.07!1.76!Stat1;;chr18:76401789..76401814,+!p4@Smad2!0.07!1.51!Smad2;;chr16:4559721..4559747,-!p3@Tfap4!0.07!1.51!Tfap4;;chr3:152058408..152058453,+!p5@Gm8261,p5@Zzz3!0.07!1.51!Zzz3;;chr4:126700650..126700678,+!p5@Sfpq!0.07!1.26!Sfpq;;chr6:47545052..47545064,-!p2@Ezh2!0.07!1.26!Ezh2;;chr4:134708451..134708469,+!p1@Runx3!0.07!1.01!Runx3;;chr15:75771423..75771445,+!p2@Zfp623!0.07!0.76!Zfp623;;chr13:72766250..72766273,+!p1@Irx2!0.07!0.76!Irx2;;chr19:10315252..10315266,-!p2@Gm98!0.07!0.76!Gm98;;chr10:127176667..127176679,+!p2@Zbtb39!0.07!0.76!Zbtb39;;chr11:96153767..96153822,+!p1@Hoxb6!0.07!0.76!Hoxb6;;chr11:96691273..96691286,-!p6@Nfe2l1!0.07!0.50!Nfe2l1;;chr3:96002383..96002407,-!p4@Bola1!0.07!0.50!Bola1;;chr15:79178060..79178074,+!p2@Maff!0.07!0.50!Maff;;chr6:133985790..133985801,+!p8@Etv6!0.07!0.50!Etv6;;chr6:48395677..48395688,-!p7@Zfp467!0.07!0.50!Zfp467;;chr12:85534937..85534948,-!p10@C130039O16Rik!0.07!0.50!C130039O16Rik;;chr14:47896863..47896886,-!p5@Wdhd1!0.07!0.25!Wdhd1;;chr12:109241728..109241781,-!p2@Bcl11b!0.07!0.25!Bcl11b;;chr2:27532912..27532923,+!p9@Rxra!0.07!0.25!Rxra;;chrX:148667771..148667803,+!p1@Kdm5c!0.06!56.96!Kdm5c;;chr6:83299445..83299490,+!p1@Bola3!0.06!43.10!Bola3;;chr2:165818125..165818167,+!p1@Ncoa3!0.06!26.97!Ncoa3;;chr2:84877326..84877362,+!p2@Ssrp1!0.06!21.67!Ssrp1;;chr6:47544966..47545046,-!p1@Ezh2!0.06!20.92!Ezh2;;chr4:97444446..97444470,+!p3@Nfia!0.06!9.07!Nfia;;chr7:105851601..105851647,+!p2@Prkrir!0.06!8.82!Prkrir;;chr3:95021853..95021911,-!p1@Gabpb2!0.06!7.31!Gabpb2;;chr8:118230866..118230891,-!p4@Maf!0.06!6.05!Maf;;chr11:70577930..70577985,+!p1@Zfp3!0.06!5.29!Zfp3;;chr17:28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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0000002;;FF:0011274
 |is_obsolete=
+|library_id=CNhs13232
+|library_id_phase_based=2:CNhs13232
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;10253
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;10253
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/Ileum%2520epithelium%252c%2520pool2.CNhs13232.10253-104C1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.primary_cell.LQhCAGE/Ileum%2520epithelium%252c%2520pool2.CNhs13232.10253-104C1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/Ileum%2520epithelium%252c%2520pool2.CNhs13232.10253-104C1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/Ileum%2520epithelium%252c%2520pool2.CNhs13232.10253-104C1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.primary_cell.LQhCAGE/Ileum%2520epithelium%252c%2520pool2.CNhs13232.10253-104C1.mm9.nobarcode.rdna.fa.gz
 |name=Ileum epithelium, pool2
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13232,LSID1006,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.0822298478454525,0,0,0,0,0,-0.497453041177005,0,0,0,0,-0.0843392403965415,0,0,0,0,0.0886326182118205,0,-0.191893350882575,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.38115755590039,0,0,0,0,-0.00970287220376229,-0.120690107284006,-0.0869183944166835,0.0940963699509363,-0.984211366477826,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0.0976147801771522,0,-0.122238570723291,0,0,-0.0200716156083788,-0.117389802908326,-0.310650657339386,-0.158091042771083,-0.0520550650554724,0,-0.0780086007519514,-0.098159946211252,-0.2481904685864,0,0,-0.0830631906659118,-0.066171801118691,-0.418649644316929,-0.0788315948399074,0,0,0,0,0,0.0976147801771522,-0.206814654737266,-1.13384382175846,-0.269803002231399,0,0,0,0,0
@@ Line 83: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:10253-104C1;search_select_hide=table117:10253-104C1
 }}

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FF:10253-104C1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 13:57, 3 June 2020

CNhs13232

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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