FF:10252-104B9: Difference between revisions

Latest revision as of 13:57, 3 June 2020

Name:	Ileum epithelium, pool1
Species:	Mouse (Mus musculus)
Library ID:	CNhs13199
Sample type:	developmental
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_a
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		SAMD00005822

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs13199		CAGE		DRX008923		DRR009797

Accession ID Mm9

Library id		BAM		CTSS
CNhs13199		DRZ001222		DRZ002605

Accession ID Mm10

Library id		BAM		CTSS
CNhs13199		DRZ012572		DRZ013955

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

CNhs13199

0	0
1	0
10	0
100	0
1000	-0.0355
1001	-0.0749
1002	-0.107
1003	-0.123
1004	0
1005	0.328
1006	-0.183
1007	-0.201
1008	2.597
1009	-0.19
101	-0.203
1010	0
1011	-0.262
1012	0
1013	0.369
1014	-0.0874
1015	-0.327
1016	-0.589
1017	0
1018	0.401
1019	0
102	0
1020	0.0756
1021	0.221
1022	-0.124
1023	0
1024	-0.307
1025	0
1026	0
1027	-0.048
1028	0
1029	-0.1
103	-0.0887
1030	0
1031	-0.911
1032	0.768
1033	-0.0713
1034	0.0433
1035	0
1036	-0.184
1037	0
1038	0.0794
1039	0.0446
104	0.0756
1040	-0.216
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: CNhs13199

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0159
MA0003.1	MA0003.1	0.226
MA0004.1	MA0004.1	0.765
MA0006.1	MA0006.1	0.105
MA0007.1	MA0007.1	0.212
MA0009.1	MA0009.1	0.21
MA0014.1	MA0014.1	0.0751
MA0017.1	MA0017.1	4.25996e-24
MA0018.2	MA0018.2	0.0429
MA0019.1	MA0019.1	0.479
MA0024.1	MA0024.1	0.0582
MA0025.1	MA0025.1	0.1
MA0027.1	MA0027.1	0.569
MA0028.1	MA0028.1	0.0318
MA0029.1	MA0029.1	0.428
MA0030.1	MA0030.1	0.93
MA0031.1	MA0031.1	0.624
MA0035.2	MA0035.2	8.83498e-4
MA0038.1	MA0038.1	0.406
MA0039.2	MA0039.2	6.50169e-4
MA0040.1	MA0040.1	0.0251
MA0041.1	MA0041.1	0.346
MA0042.1	MA0042.1	0.582
MA0043.1	MA0043.1	0.00359
MA0046.1	MA0046.1	7.98585e-48
MA0047.2	MA0047.2	0.0148
MA0048.1	MA0048.1	0.436
MA0050.1	MA0050.1	1.05993e-4
MA0051.1	MA0051.1	2.81571e-5
MA0052.1	MA0052.1	3.66086e-4
MA0055.1	MA0055.1	0.578
MA0057.1	MA0057.1	0.0943
MA0058.1	MA0058.1	0.775
MA0059.1	MA0059.1	0.494
MA0060.1	MA0060.1	0.0131
MA0061.1	MA0061.1	0.335
MA0062.2	MA0062.2	5.11138e-4
MA0065.2	MA0065.2	6.81693e-13
MA0066.1	MA0066.1	0.0947
MA0067.1	MA0067.1	0.354
MA0068.1	MA0068.1	0.0602
MA0069.1	MA0069.1	0.417
MA0070.1	MA0070.1	0.0421
MA0071.1	MA0071.1	0.0927
MA0072.1	MA0072.1	0.961
MA0073.1	MA0073.1	0.638
MA0074.1	MA0074.1	0.179
MA0076.1	MA0076.1	0.0746
MA0077.1	MA0077.1	0.503
MA0078.1	MA0078.1	0.93
MA0079.2	MA0079.2	0.288
MA0080.2	MA0080.2	1.04047e-4
MA0081.1	MA0081.1	0.839
MA0083.1	MA0083.1	0.00502
MA0084.1	MA0084.1	0.32
MA0087.1	MA0087.1	0.598
MA0088.1	MA0088.1	0.236
MA0090.1	MA0090.1	0.791
MA0091.1	MA0091.1	0.906
MA0092.1	MA0092.1	0.688
MA0093.1	MA0093.1	0.83
MA0099.2	MA0099.2	7.30199e-5
MA0100.1	MA0100.1	0.856
MA0101.1	MA0101.1	0.509
MA0102.2	MA0102.2	0.273
MA0103.1	MA0103.1	3.9961e-7
MA0104.2	MA0104.2	0.559
MA0105.1	MA0105.1	0.141
MA0106.1	MA0106.1	0.339
MA0107.1	MA0107.1	0.679
MA0108.2	MA0108.2	0.146
MA0111.1	MA0111.1	0.971
MA0112.2	MA0112.2	5.96042e-5
MA0113.1	MA0113.1	0.453
MA0114.1	MA0114.1	6.9978e-25
MA0115.1	MA0115.1	5.71046e-13
MA0116.1	MA0116.1	0.163
MA0117.1	MA0117.1	0.609
MA0119.1	MA0119.1	0.0587
MA0122.1	MA0122.1	0.707
MA0124.1	MA0124.1	0.167
MA0125.1	MA0125.1	0.618
MA0131.1	MA0131.1	0.957
MA0135.1	MA0135.1	0.494
MA0136.1	MA0136.1	1.74432e-8
MA0137.2	MA0137.2	0.0712
MA0138.2	MA0138.2	0.581
MA0139.1	MA0139.1	0.0465
MA0140.1	MA0140.1	0.0584
MA0141.1	MA0141.1	3.22529e-7
MA0142.1	MA0142.1	0.171
MA0143.1	MA0143.1	0.0745
MA0144.1	MA0144.1	0.0122
MA0145.1	MA0145.1	0.0217
MA0146.1	MA0146.1	0.205
MA0147.1	MA0147.1	0.696
MA0148.1	MA0148.1	0.00396
MA0149.1	MA0149.1	0.00466
MA0150.1	MA0150.1	0.0836
MA0152.1	MA0152.1	0.0291
MA0153.1	MA0153.1	3.0645e-42
MA0154.1	MA0154.1	0.0836
MA0155.1	MA0155.1	0.809
MA0156.1	MA0156.1	7.23276e-5
MA0157.1	MA0157.1	0.945
MA0159.1	MA0159.1	1.89953e-4
MA0160.1	MA0160.1	7.24291e-4
MA0162.1	MA0162.1	0.403
MA0163.1	MA0163.1	0.02
MA0164.1	MA0164.1	0.67
MA0258.1	MA0258.1	0.0143
MA0259.1	MA0259.1	0.742

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: CNhs13199

Novel motif	Logo	P-value
1	1	0.0934
10	10	0.0734
100	100	0.616
101	101	0.831
102	102	0.74
103	103	0.15
104	104	0.866
105	105	0.474
106	106	0.0655
107	107	0.258
108	108	0.76
109	109	0.0412
11	11	0.112
110	110	0.145
111	111	0.123
112	112	0.0226
113	113	0.488
114	114	0.017
115	115	0.603
116	116	0.12
117	117	0.0296
118	118	0.393
119	119	0.105
12	12	0.569
120	120	0.308
121	121	0.665
122	122	0.927
123	123	0.0861
124	124	0.278
125	125	0.211
126	126	0.0508
127	127	0.276
128	128	0.184
129	129	0.161
13	13	1.50135e-4
130	130	0.646
131	131	0.603
132	132	0.537
133	133	0.962
134	134	0.876
135	135	0.107
136	136	0.0238
137	137	0.528
138	138	0.205
139	139	0.0489
14	14	0.726
140	140	0.0923
141	141	0.0692
142	142	0.842
143	143	0.457
144	144	0.25
145	145	0.0914
146	146	0.362
147	147	0.963
148	148	0.44
149	149	0.795
15	15	0.148
150	150	0.311
151	151	0.497
152	152	0.0885
153	153	0.655
154	154	0.967
155	155	0.172
156	156	0.0905
157	157	0.38
158	158	0.949
159	159	0.54
160	160	0.332
161	161	0.483
162	162	0.779
163	163	0.408
164	164	0.0888
165	165	0.166
166	166	0.646
167	167	0.445
168	168	0.532
169	169	0.029
17	17	0.0453
18	18	0.973
19	19	0.166
2	2	0.799
20	20	0.48
21	21	0.777
22	22	0.35
23	23	0.836
24	24	0.675
25	25	0.378
26	26	0.00774
27	27	0.731
28	28	0.407
29	29	0.0602
3	3	0.154
30	30	0.628
31	31	0.843
32	32	0.112
33	33	0.168
34	34	0.986
35	35	0.507
36	36	0.362
37	37	0.0454
38	38	0.585
39	39	0.235
4	4	0.381
40	40	0.168
41	41	0.358
42	42	0.599
43	43	0.29
44	44	0.103
45	45	0.599
46	46	0.232
47	47	0.288
48	48	0.186
49	49	0.269
5	5	0.41
50	50	0.594
51	51	0.715
52	52	0.167
53	53	0.459
54	54	0.643
55	55	0.777
56	56	0.5
57	57	0.819
58	58	0.373
59	59	0.275
6	6	0.456
60	60	0.0385
61	61	0.23
62	62	0.189
63	63	0.174
64	64	0.598
65	65	0.224
66	66	0.981
67	67	0.424
68	68	0.0106
69	69	0.881
7	7	0.0515
70	70	0.00535
71	71	0.0683
72	72	0.438
73	73	0.057
74	74	0.966
75	75	0.0211
76	76	0.668
77	77	0.143
78	78	0.0208
79	79	0.302
8	8	0.0905
80	80	0.925
81	81	0.873
82	82	0.0611
83	83	0.0562
84	84	0.128
85	85	0.0446
86	86	0.0777
87	87	0.0233
88	88	0.394
89	89	0.169
9	9	0.898
90	90	0.00794
91	91	0.514
92	92	0.293
93	93	0.377
94	94	0.712
95	95	0.0481
96	96	0.765
97	97	0.996
98	98	0.448
99	99	0.2

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: CNhs13199

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
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

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)
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@SAMD00005822
-|accession_numbers=CAGE;DRX008923;DRR009797;DRZ001222;DRZ002605
+|accession_numbers=CAGE;DRX008923;DRR009797;DRZ001222;DRZ002605;DRZ012572;DRZ013955
 |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=
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr3:3634145..3634161,+!p1@Hnf4g!2.73!533.02!Hnf4g;;chr5:148118639..148118715,-!p1@Cdx2!2.39!246.46!Cdx2;;chr10:88969376..88969395,-!p1@Nr1h4!2.36!228.03!Nr1h4;;chr10:80555320..80555378,-!p1@Creb3l3!2.21!184.89!Creb3l3;;chr2:163372884..163372904,+!p1@Hnf4a!2.08!119.33!Hnf4a;;chr1:137155026..137155042,-!p1@Elf3!1.98!523.32!Elf3;;chr16:38294860..38294924,-!p1@Nr1i2!1.93!84.18!Nr1i2;;chr2:163332558..163332596,+!p2@Hnf4a!1.89!76.96!Hnf4a;;chr6:86619104..86619119,-!p1@Mxd1!1.86!553.73!Mxd1;;chr8:77396591..77396639,+!p1@Isx!1.82!65.56!Isx;;chr6:64679112..64679126,+!p1@Atoh1!1.80!61.76!Atoh1;;chr15:97738692..97738747,-!p1@Vdr!1.79!313.16!Vdr;;chr2:180069370..180069409,-!p1@Gata5!1.77!67.08!Gata5;;chr17:27865882..27865901,-!p1@Spdef!1.77!57.39!Spdef;;chr3:3508024..3508069,+!p2@Hnf4g!1.74!54.35!Hnf4g;;chr5:120121169..120121171,+!p4@Tbx3!1.72!90.83!Tbx3;;chr18:61195843..61195864,-!p2@Cdx1!1.70!49.22!Cdx1;;chr5:148118840..148118857,-!p2@Cdx2!1.66!44.66!Cdx2;;chr2:103123925..103123959,-!p3@Ehf!1.65!43.52!Ehf;;chr18:61195865..61195880,-!p1@Cdx1!1.61!39.33!Cdx1;;chr15:35225845..35225867,+!p1@Osr2!1.55!83.99!Osr2;;chr14:99697871..99697934,+!p1@Klf5!1.50!581.66!Klf5;;chr5:148118792..148118806,-!p3@Cdx2!1.48!29.07!Cdx2;;chr16:55966492..55966517,+!p2@Rpl24,p2@Zbtb11!1.46!35.34!Zbtb11;;chr8:118231678..118231692,-!p2@Maf!1.45!234.30!Maf;;chr2:103143336..103143367,-!p1@Ehf!1.45!43.33!Ehf;;chr8:77397095..77397127,+!p2@Isx!1.44!26.60!Isx;;chr8:77397190..77397202,+!p5@Isx!1.39!23.56!Isx;;chr8:77397492..77397514,+!p3@Isx!1.34!20.90!Isx;;chr5:135582751..135582788,+!p1@Mlxipl!1.33!79.05!Mlxipl;;chr11:98636400..98636418,-!p4@Nr1d1!1.33!26.98!Nr1d1;;chr19:5560600..5560617,-!p1@Ovol1!1.32!23.94!Ovol1;;chr4:124805061..124805087,-!p1@Zc3h12a!1.31!59.48!Zc3h12a;;chr7:19608891..19608895,-!p1@Foxa3!1.31!24.89!Foxa3;;chr5:115421065..115421088,-!p1@Hnf1a!1.31!19.57!Hnf1a;;chr5:148118614..148118625,-!p4@Cdx2!1.31!19.38!Cdx2;;chr7:20213752..20213778,-!p2@Relb!1.31!19.19!Relb;;chr1:194979315..194979359,+!p1@Irf6!1.29!110.78!Irf6;;chr10:88996336..88996380,-!p2@Nr1h4!1.29!22.80!Nr1h4;;chr11:98636531..98636559,-!p1@Nr1d1!1.26!95.20!Nr1d1;;chr3:90046995..90047031,-!p2@Creb3l4!1.26!21.47!Creb3l4;;chr10:88996295..88996335,-!p3@Nr1h4!1.25!20.14!Nr1h4;;chr11:70500401..70500460,-!p3@Camta2!1.25!16.72!Camta2;;chr11:53583544..53583559,+!p1@Irf1!1.23!260.52!Irf1;;chr6:39068163..39068176,-!p2@Parp12!1.23!30.02!Parp12;;chr7:148452314..148452329,-!p1@Irf7!1.22!106.60!Irf7;;chr5:148118809..148118832,-!p5@Cdx2!1.22!15.77!Cdx2;;chr8:118231705..118231722,-!p3@Maf!1.19!113.25!Maf;;chr19:6996243..6996293,-!p1@Esrra!1.17!148.98!Esrra;;chr14:76887526..76887555,+!p10@Tsc22d1!1.16!13.30!Tsc22d1;;chr8:79426176..79426275,+!p1@Nr3c2!1.09!57.20!Nr3c2;;chr2:173044380..173044432,-!p1@Zbp1!1.09!26.98!Zbp1;;chr8:77396650..77396662,+!p4@Isx!1.09!11.21!Isx;;chr3:3508005..3508021,+!p3@Hnf4g!1.09!11.21!Hnf4g;;chr3:89197057..89197114,-!p1@Zbtb7b!1.07!36.29!Zbtb7b;;chr1:173144100..173144138,+!p2@Nr1i3!1.07!10.64!Nr1i3;;chr11:96153767..96153822,+!p1@Hoxb6!1.06!16.15!Hoxb6;;chr11:98636373..98636387,-!p5@Nr1d1!1.06!12.16!Nr1d1;;chr3:128918394..128918413,+!p5@Pitx2!1.04!10.07!Pitx2;;chr17:28409136..28409150,+!p3@Ppard!1.04!10.07!Ppard;;chr9:31720843..31720888,-!p1@Barx2!1.02!10.45!Barx2;;chr8:123260252..123260264,+!p1@Irf8!1.01!66.51!Irf8;;chr2:133377954..133377973,+!p1@Bmp2!1.01!29.83!Bmp2;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!1.01!9.31!Ppard;;chr4:133109285..133109308,+!p1@Nr0b2!1.01!9.31!Nr0b2;;chr3:128918433..128918448,+!p8@Pitx2!1.01!9.12!Pitx2;;chr2:163372869..163372882,+!p3@Hnf4a!1.00!8.93!Hnf4a;;chr4:87452180..87452196,-!p3@Mllt3!0.99!17.67!Mllt3;;chr5:120121262..120121282,+!p6@Tbx3!0.99!9.88!Tbx3;;chr12:58646974..58647003,-!p1@Foxa1!0.98!11.59!Foxa1;;chr2:173044357..173044377,-!p2@Zbp1!0.97!11.97!Zbp1;;chr2:166888058..166888105,-!p2@Znfx1!0.96!26.98!Znfx1;;chr1:138857048..138857071,-!p2@Nr5a2!0.96!8.17!Nr5a2;;chr19:55816546..55816556,+!p3@Tcf7l2!0.95!30.97!Tcf7l2;;chr2:180069640..180069660,-!p4@Gata5!0.95!7.98!Gata5;;chr2:103143315..103143328,-!p2@Ehf!0.94!7.79!Ehf;;chr1:57029281..57029326,-!p1@Satb2!0.93!11.78!Satb2;;chr8:77397026..77397036,+!p6@Isx!0.93!7.60!Isx;;chr9:31720903..31720918,-!p2@Barx2!0.93!7.60!Barx2;;chr8:77397169..77397182,+!p7@Isx!0.91!7.22!Isx;;chr11:100948597..100948637,+!p1@Mlx!0.90!174.63!Mlx;;chr5:120121020..120121049,+!p1@Tbx3!0.89!43.14!Tbx3;;chr5:144951153..144951203,+!p1@Bhlha15!0.89!10.07!Bhlha15;;chr15:35225873..35225889,+!p2@Osr2!0.89!6.84!Osr2;;chr4:87452200..87452229,-!p2@Mllt3!0.88!14.63!Mllt3;;chr6:39068181..39068206,-!p3@Parp12!0.88!14.06!Parp12;;chr11:98636508..98636524,-!p3@Nr1d1!0.88!8.17!Nr1d1;;chr10:20880629..20880683,-!p1@Myb!0.86!19.00!Myb;;chr2:24278519..24278530,-!p3@Pax8!0.85!6.08!Pax8;;chr19:5560570..5560582,-!p2@Ovol1!0.85!6.08!Ovol1;;chr18:11052606..11052633,+!p4@Gata6!0.84!15.77!Gata6;;chr17:34784073..34784118,+!p2@Atf6b!0.83!24.89!Atf6b;;chr19:53384910..53384937,+!p3@Mxi1!0.83!17.10!Mxi1;;chr12:78063146..78063159,-!p2@Max!0.83!15.96!Max;;chr11:98822047..98822072,+!p9@Rara!0.83!5.70!Rara;;chr2:77357622..77357704,-!p1@Zfp385b!0.82!15.96!Zfp385b;;chr4:55545337..55545357,-!p1@Klf4!0.81!86.46!Klf4;;chr7:20408047..20408125,-!p1@Bcl3!0.81!66.51!Bcl3;;chr4:148178559..148178603,+!p1@Casz1!0.81!16.53!Casz1;;chr2:79296783..79296801,-!p1@Neurod1!0.79!5.13!Neurod1;;chr19:6164433..6164446,+!p2@Batf2!0.79!5.13!Batf2;;chr13:5860776..5860796,+!p1@Klf6!0.78!132.45!Klf6;;chr8:87502608..87502623,-!p1@Junb!0.78!90.45!Junb;;chr3:30039329..30039355,-!p5@Mecom!0.77!4.94!Mecom;;chr15:85565338..85565355,+!p7@Ppara!0.77!4.94!Ppara;;chr1:194979361..194979373,+!p2@Irf6!0.76!6.65!Irf6;;chr10:80555398..80555409,-!p2@Creb3l3!0.76!4.75!Creb3l3;;chr5:115421126..115421137,-!p4@Hnf1a!0.76!4.75!Hnf1a;;chr19:6996294..6996324,-!p2@Esrra!0.75!34.20!Esrra;;chr18:11052642..11052659,+!p1@Gata6!0.75!25.46!Gata6;;chr2:180069423..180069434,-!p2@Gata5!0.75!4.56!Gata5;;chr3:94176733..94176794,+!p1@Rorc!0.74!38.38!Rorc;;chr6:39068210..39068251,-!p1@Parp12!0.74!22.80!Parp12;;chr18:36441119..36441158,+!p2@Pura!0.74!11.78!Pura;;chr8:87643578..87643593,-!p1@Zfp791!0.74!10.07!Zfp791;;chr2:91035254..91035271,-!p3@Nr1h3!0.74!5.70!Nr1h3;;chr8:73905344..73905381,-!p2@Nr2f6!0.73!11.21!Nr2f6;;chr4:135700687..135700719,+!p2@Id3!0.73!7.03!Id3;;chr11:96145450..96145517,+!p2@Hoxb7!0.73!6.84!Hoxb7;;chr10:88996274..88996286,-!p4@Nr1h4!0.73!4.37!Nr1h4;;chr19:53384985..53385042,+!p1@Mxi1!0.72!147.65!Mxi1;;chr13:44825008..44825066,+!p5@Jarid2!0.72!8.93!Jarid2;;chr16:55822241..55822258,-!p1@Nfkbiz!0.69!140.24!Nfkbiz;;chr2:152561980..152561997,+!p1@Id1!0.69!129.03!Id1;;chr11:72990738..72990763,+!p2@LOC100047518,p2@Tax1bp3!0.69!24.32!Tax1bp3;;chr11:83664365..83664383,+!p1@Hnf1b!0.68!3.80!Hnf1b;;chr2:180069410..180069421,-!p3@Gata5!0.68!3.80!Gata5;;chr1:194979383..194979393,+!p3@Irf6!0.68!3.80!Irf6;;chr1:52176315..52176343,+!p1@Stat1!0.67!61.19!Stat1;;chr11:53583960..53584007,+!p2@Irf1!0.67!8.74!Irf1;;chr7:134519473..134519502,-!p3@Zfp747!0.66!5.13!Zfp747;;chr5:120121091..120121100,+!p7@Tbx3!0.66!4.37!Tbx3;;chr10:80555299..80555306,-!p3@Creb3l3!0.66!3.61!Creb3l3;;chr10:80555285..80555291,-!p4@Creb3l3!0.66!3.61!Creb3l3;;chr6:86619130..86619158,-!p2@Mxd1!0.65!58.15!Mxd1;;chr7:52960555..52960662,+!p1@Dbp!0.65!34.58!Dbp;;chr15:85566184..85566238,+!p1@Ppara!0.65!5.51!Ppara;;chr16:8672238..8672254,-!p2@Carhsp1,p2@Gm9791!0.65!5.13!Carhsp1;;chr17:28409059..28409076,+!p6@Ppard!0.65!3.42!Ppard;;chr11:83664334..83664353,+!p2@Hnf1b!0.65!3.42!Hnf1b;;chr1:133904946..133904974,+!p7@Elk4!0.64!5.51!Elk4;;chr1:135320989..135321043,-!p1@Sox13!0.63!42.38!Sox13;;chr4:148178529..148178548,+!p3@Casz1!0.63!8.55!Casz1;;chr10:80598209..80598236,+!p4@Zbtb7a!0.63!5.89!Zbtb7a;;chr15:85566051..85566080,+!p4@Ppara!0.63!3.99!Ppara;;chr7:134519511..134519534,-!p2@Zfp747!0.62!6.46!Zfp747;;chr8:118231350..118231385,-!p7@Maf!0.62!4.94!Maf;;chr1:138846009..138846038,-!p3@Nr5a2!0.62!3.61!Nr5a2;;chr10:80600749..80600766,+!p2@Zbtb7a!0.61!18.81!Zbtb7a;;chr4:148275237..148275311,+!p2@Casz1!0.61!14.82!Casz1;;chr8:79423144..79423178,+!p3@Nr3c2!0.61!4.56!Nr3c2;;chr4:55545051..55545110,-!p2@Klf4!0.61!3.99!Klf4;;chr4:151533683..151533698,+!p1@Hes2!0.61!3.04!Hes2;;chr17:21625946..21626024,+!p1@Zfp53!0.60!38.95!Zfp53;;chr5:65194752..65194769,+!p1@Klf3!0.59!118.95!Klf3;;chr15:81977802..81977828,+!p2@Srebf2!0.59!29.83!Srebf2;;chr4:43575544..43575565,+!p2@Creb3!0.59!20.14!Creb3;;chr5:140267510..140267555,+!p2@Mafk!0.59!7.79!Mafk;;chr7:31065205..31065207,+!p1@LOC100504904!0.59!2.85!Thap8;;chr10:107769168..107769215,+!p1@Pawr!0.58!34.77!Pawr;;chr5:120121446..120121461,+!p2@Tbx3!0.58!10.83!Tbx3;;chr8:28087609..28087634,+!p1@Zfp703!0.57!77.15!Zfp703;;chr7:35904304..35904320,+!p1@Cebpa!0.57!68.79!Cebpa;;chr5:77524250..77524300,-!p1@Hopx!0.57!68.41!Hopx;;chr1:39250584..39250643,+!p1@Npas2!0.57!16.72!Npas2;;chr3:128916868..128916890,+!p1@Pitx2!0.57!3.99!Pitx2;;chr12:86814833..86814846,+!p1@Fos!0.56!76.96!Fos;;chr19:46379199..46379301,+!p1@Nfkb2!0.56!18.24!Nfkb2;;chr1:194979301..194979310,+!p4@Irf6!0.56!3.23!Irf6;;chr14:76887566..76887579,+!p18@Tsc22d1!0.56!2.66!Tsc22d1;;chr3:90046983..90046994,-!p6@Creb3l4!0.56!2.66!Creb3l4;;chr13:37918094..37918119,+!p6@Rreb1!0.55!6.46!Rreb1;;chr11:98636321..98636332,-!p8@Nr1d1!0.55!3.23!Nr1d1;;chr3:30993974..30994045,+!p1@Skil!0.54!87.60!Skil;;chr1:135320962..135320981,-!p2@Sox13!0.54!10.07!Sox13;;chr1:138846079..138846103,-!p6@Nr5a2!0.54!2.47!Nr5a2;;chr1:138857076..138857105,-!p1@Nr5a2!0.54!2.47!Nr5a2;;chr2:74549945..74549965,+!p4@Hoxd3!0.54!2.47!Hoxd3;;chr16:87699237..87699279,+!p1@Bach1!0.53!31.92!Bach1;;chr13:5860749..5860772,+!p2@Klf6!0.53!29.45!Klf6;;chr11:98821937..98821987,+!p4@Rara!0.53!6.27!Rara;;chr7:35841486..35841575,-!p1@Cebpg!0.52!76.77!Cebpg;;chr5:32438831..32438878,+!p1@Fosl2!0.52!30.78!Fosl2;;chr5:140267476..140267493,+!p1@Mafk!0.52!16.53!Mafk;;chr3:89197216..89197258,-!p3@Zbtb7b!0.52!5.70!Zbtb7b;;chr4:87452167..87452178,-!p8@Mllt3!0.52!2.28!Mllt3;;chr11:5420973..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Prdm1;;chr11:23977742..23977794,+!p6@Bcl11a!0.05!0.38!Bcl11a;;chr17:25152634..25152648,-!p8@Cramp1l!0.05!0.38!Cramp1l;;chr12:109241728..109241781,-!p2@Bcl11b!0.05!0.19!Bcl11b;;chr18:74375851..74375891,+!p1@Cxxc1!0.04!38.57!Cxxc1;;chr2:17986191..17986271,+!p1@Mllt10!0.04!16.72!Mllt10;;chr6:133985839..133985915,+!p1@Etv6!0.04!15.96!Etv6;;chr5:76733756..76733815,-!p1@Clock!0.04!14.63!Clock;;chr5:104183173..104183207,+!p1@Aff1!0.04!12.35!Aff1;;chr5:145992626..145992652,+!p2@Zfp655!0.04!6.08!Zfp655;;chr5:139060892..139060911,-!p2@Zfp68!0.04!3.99!Zfp68;;chr9:21420596..21420607,+!p4@Smarca4!0.04!3.23!Smarca4;;chr13:67914714..67914768,+!p1@Zfp273!0.04!2.47!Zfp273;;chr6:124959131..124959160,+!p4@Zfp384!0.04!1.90!Zfp384;;chr17:31701800..31701818,+!p2@Pknox1!0.04!1.71!Pknox1;;chr10:41995430..41995458,-!p3@Foxo3!0.04!1.71!Foxo3;;chr17:45570511..45570532,-!p5@Cdc5l!0.04!1.52!Cdc5l;;chr15:57526345..57526392,+!p3@Zhx2!0.04!0.95!Zhx2;;chr13:67500674..67500700,-!p2@Zfp429!0.04!0.76!Zfp429;;chr15:88582079..88582091,+!p1@Gm15583,p1@Zbed4!0.04!0.76!Zbed4;;chr7:56136974..56136989,-!p4@E2f8!0.04!0.76!E2f8;;chr10:82226709..82226720,-!p6@Nfyb!0.04!0.76!Nfyb;;chr11:120491440..120491474,-!p3@Mafg!0.04!0.57!Mafg;;chr12:109242296..109242307,-!p3@Bcl11b!0.04!0.57!Bcl11b;;chr14:52640315..52640328,-!p10@Zfp219!0.04!0.38!Zfp219;;chr3:19957878..19957885,+!p2@Hltf!0.04!0.38!Hltf;;chr5:104182754..104182777,+!p11@Aff1!0.04!0.19!Aff1;;chr2:27532912..27532923,+!p9@Rxra!0.04!0.19!Rxra;;chr9:111020795..111020816,+!p3@Lrrfip2!0.04!0.19!Lrrfip2;;chr5:3647838..3648009,-!p1@Gatad1!0.03!55.11!Gatad1;;chr2:165818125..165818167,+!p1@Ncoa3!0.03!25.46!Ncoa3;;chr2:31428295..31428361,+!p1@Fubp3!0.03!25.27!Fubp3;;chr10:80040030..80040072,-!p1@Klf16!0.03!18.62!Klf16;;chr10:80813134..80813211,-!p1@Hmg20b!0.03!17.67!Hmg20b;;chr16:95924005..95924042,+!p2@Ets2!0.03!16.53!Ets2;;chr15:36937113..36937127,-!p3@Gm10193,p3@Zfp706!0.03!8.74!Zfp706;;chr15:99532568..99532636,+!p2@Smarcd1!0.03!7.98!Smarcd1;;chr13:37918486..37918575,+!p2@Rreb1!0.03!5.32!Rreb1;;chr2:120996843..120996894,-!p1@Zscan29!0.03!5.13!Zscan29;;chr11:70577930..70577985,+!p1@Zfp3!0.03!4.94!Zfp3;;chr17:28314341..28314394,+!p2@Zfp523!0.03!4.75!Zfp523;;chr17:48061409..48061431,-!p4@Foxp4!0.03!4.37!Foxp4;;chr16:33380881..33380909,+!p1@Zfp148!0.03!3.42!Zfp148;;chr8:72498217..72498232,-!p8@Gatad2a!0.03!2.85!Gatad2a;;chr3:51081199..51081228,-!p3@Elf2!0.03!2.66!Elf2;;chr4:126703093..126703158,+!p3@Sfpq!0.03!1.90!Sfpq;;chr4:45024965..45025031,-!p3@Zbtb5!0.03!1.52!Zbtb5;;chr16:3744146..3744157,+!p3@Zfp263!0.03!1.33!Zfp263;;chr2:56976543..56976558,-!p2@Nr4a2!0.03!1.33!Nr4a2;;chr12:119539732..119539762,-!p3@Sp4!0.03!1.33!Sp4;;chr10:80812991..80813004,-!p3@Hmg20b!0.03!1.14!Hmg20b;;chr2:31428187..31428198,+!p3@Fubp3!0.03!1.14!Fubp3;;chr4:126700576..126700598,+!p7@Sfpq!0.03!0.95!Sfpq;;chr13:59924354..59924366,-!p3@Zcchc6!0.03!0.95!Zcchc6;;chr9:63869834..63869849,-!p5@Smad6!0.03!0.76!Smad6;;chr7:134376558..134376587,+!p2@Zfp553!0.03!0.76!Zfp553;;chr7:134169999..134170010,-!p13@Maz!0.03!0.76!Maz;;chr12:77470573..77470585,-!p6@Zbtb25!0.03!0.57!Zbtb25;;chr2:70313168..70313184,+!p1@Sp5!0.03!0.57!Sp5;;chr6:48395677..48395688,-!p7@Zfp467!0.03!0.38!Zfp467;;chr19:23216166..23216191,+!p6@Klf9!0.03!0.38!Klf9;;chr7:20162663..20162678,+!p1@Zfp296!0.03!0.38!Zfp296;;chrX:48559029..48559051,-!p7@Mbnl3!0.03!0.38!Mbnl3;;chr6:37391910..37391928,-!p3@Creb3l2!0.03!0.19!Creb3l2;;chr2:74550178..74550214,+!p5@Hoxd3!0.03!0.19!Hoxd3;;chr9:71743910..71743915,-!p7@Tcf12!0.03!0.19!Tcf12;;chr17:84105231..84105253,+!p7@Mta3!0.03!0.19!Mta3;;chr10:13686074..13686090,+!p9@Hivep2!0.03!0.19!Hivep2;;chr12:110031495..110031585,+!p1@Yy1!0.02!23.94!Yy1;;chr19:4397052..4397098,-!p1@Kdm2a!0.02!23.94!Kdm2a;;chr2:84877326..84877362,+!p2@Ssrp1!0.02!19.76!Ssrp1;;chr7:16986536..16986582,+!p1@Zc3h4!0.02!18.81!Zc3h4;;chr13:21494557..21494617,-!p1@Zkscan3!0.02!16.72!Zkscan3;;
@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs13199
-|library_id_phase_based=1:CNhs13199
+|library_id_phase_based=2:CNhs13199
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;10252
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;10252
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/Ileum%2520epithelium%252c%2520pool1.CNhs13199.10252-104B9.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/Ileum%2520epithelium%252c%2520pool1.CNhs13199.10252-104B9.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/Ileum%2520epithelium%252c%2520pool1.CNhs13199.10252-104B9.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/Ileum%2520epithelium%252c%2520pool1.CNhs13199.10252-104B9.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/Ileum%2520epithelium%252c%2520pool1.CNhs13199.10252-104B9.mm9.nobarcode.rdna.fa.gz
 |name=Ileum epithelium, pool1
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs13199,LSID1004,release012,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.185415225757541,0,0,0,0,0,-0.435125964707362,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.116337842565178,0,0,0,0,0,0,0,0,0,0,0,0,0,-0.312887009350785,0,0.0755555083173967,0,0,-0.0167609385502548,-0.10159805801472,-0.138945366767754,-0.238194427253818,-0.984211366477826,-0.269868638010351,0.0755555083173967,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0.195919086892867,0,-0.0929188112920885,0,0,-0.0051150849576652,-0.218589167982252,-0.310650657339386,-0.158091042771083,0.00118504516184489,0,-0.00245309243455466,-0.129824031025596,-0.209116093769226,0,0,-0.138569915576139,-0.001781739487593,0.254164344869696,-0.0788315948399074,0,0,0,0,0,0,0.190954682620514,0.332575399900931,0.771824200724311,0,0,0.0755555083173967,0,0
@@ Line 88: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:10252-104B9;search_select_hide=table117:10252-104B9
 }}

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FF:10252-104B9: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 13:57, 3 June 2020

CNhs13199

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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