FF:36-18H7: Difference between revisions

Latest revision as of 19:11, 4 June 2020

Name:	colon, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10468
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	colon
dev stage	adult
sex	male
age	NA
cell type	CELL MIXTURE - tissue sample
cell line	NA
company	NA
collaboration	FANTOM5 OSC CORE (contact: Al Forrest)
External link for information	[{{{sample_info_link}}} {{{sample_info_link}}}]

RNA information

lot number	NA
catalog number	NA
sample type	NA
extraction protocol (Details)	NA

CAGE Accession numbers

Method		Sample accession id
CAGE		SAMD00005637

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10468		CAGE		DRX008943		DRR009817

Accession ID Mm9

Library id		BAM		CTSS
CNhs10468		DRZ001242		DRZ002625

Accession ID Mm10

Library id		BAM		CTSS
CNhs10468		DRZ012592		DRZ013975

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

CNhs10468

0	0
1	0
10	0
100	0
1000	0.0494
1001	0.0455
1002	0.0772
1003	-0.074
1004	0
1005	0.202
1006	-0.00265
1007	-0.108
1008	2.569
1009	-0.0572
101	-0.111
1010	0.0988
1011	-0.129
1012	0
1013	0.392
1014	-0.0851
1015	-0.242
1016	-0.275
1017	0
1018	0.306
1019	0
102	0
1020	0
1021	0
1022	0.179
1023	0
1024	-0.0633
1025	0.296
1026	0
1027	-0.048
1028	0
1029	0.403
103	-0.0659
1030	0
1031	-0.393
1032	0.565
1033	-0.0648
1034	0.247
1035	0
1036	-0.219
1037	0
1038	0.00864
1039	0.097
104	0
1040	-0.297
1041	0.0988

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: CNhs10468

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	7.74532e-4
MA0003.1	MA0003.1	0.13
MA0004.1	MA0004.1	0.864
MA0006.1	MA0006.1	0.0656
MA0007.1	MA0007.1	0.615
MA0009.1	MA0009.1	0.327
MA0014.1	MA0014.1	0.454
MA0017.1	MA0017.1	2.02301e-20
MA0018.2	MA0018.2	0.0464
MA0019.1	MA0019.1	0.0991
MA0024.1	MA0024.1	0.026
MA0025.1	MA0025.1	0.936
MA0027.1	MA0027.1	0.22
MA0028.1	MA0028.1	0.761
MA0029.1	MA0029.1	0.899
MA0030.1	MA0030.1	0.974
MA0031.1	MA0031.1	0.775
MA0035.2	MA0035.2	7.86193e-7
MA0038.1	MA0038.1	0.522
MA0039.2	MA0039.2	8.15231e-4
MA0040.1	MA0040.1	0.0312
MA0041.1	MA0041.1	0.407
MA0042.1	MA0042.1	0.457
MA0043.1	MA0043.1	0.0371
MA0046.1	MA0046.1	3.25867e-34
MA0047.2	MA0047.2	0.00264
MA0048.1	MA0048.1	0.903
MA0050.1	MA0050.1	1.02218e-7
MA0051.1	MA0051.1	2.3939e-5
MA0052.1	MA0052.1	2.62828e-4
MA0055.1	MA0055.1	0.339
MA0057.1	MA0057.1	0.0625
MA0058.1	MA0058.1	0.657
MA0059.1	MA0059.1	0.814
MA0060.1	MA0060.1	0.00102
MA0061.1	MA0061.1	0.222
MA0062.2	MA0062.2	0.75
MA0065.2	MA0065.2	7.04638e-12
MA0066.1	MA0066.1	0.0965
MA0067.1	MA0067.1	0.192
MA0068.1	MA0068.1	0.0101
MA0069.1	MA0069.1	0.238
MA0070.1	MA0070.1	0.253
MA0071.1	MA0071.1	0.399
MA0072.1	MA0072.1	0.954
MA0073.1	MA0073.1	0.862
MA0074.1	MA0074.1	0.107
MA0076.1	MA0076.1	0.429
MA0077.1	MA0077.1	0.702
MA0078.1	MA0078.1	0.98
MA0079.2	MA0079.2	0.716
MA0080.2	MA0080.2	7.20261e-7
MA0081.1	MA0081.1	0.793
MA0083.1	MA0083.1	0.63
MA0084.1	MA0084.1	0.52
MA0087.1	MA0087.1	0.727
MA0088.1	MA0088.1	0.503
MA0090.1	MA0090.1	0.986
MA0091.1	MA0091.1	0.467
MA0092.1	MA0092.1	0.612
MA0093.1	MA0093.1	0.779
MA0099.2	MA0099.2	0.0109
MA0100.1	MA0100.1	0.2
MA0101.1	MA0101.1	0.649
MA0102.2	MA0102.2	0.168
MA0103.1	MA0103.1	1.00916e-5
MA0104.2	MA0104.2	0.22
MA0105.1	MA0105.1	0.108
MA0106.1	MA0106.1	0.387
MA0107.1	MA0107.1	0.571
MA0108.2	MA0108.2	0.617
MA0111.1	MA0111.1	0.91
MA0112.2	MA0112.2	7.13177e-5
MA0113.1	MA0113.1	0.802
MA0114.1	MA0114.1	2.18648e-21
MA0115.1	MA0115.1	1.40062e-11
MA0116.1	MA0116.1	0.201
MA0117.1	MA0117.1	0.926
MA0119.1	MA0119.1	0.0717
MA0122.1	MA0122.1	0.566
MA0124.1	MA0124.1	0.157
MA0125.1	MA0125.1	0.281
MA0131.1	MA0131.1	0.379
MA0135.1	MA0135.1	0.274
MA0136.1	MA0136.1	1.04844e-6
MA0137.2	MA0137.2	0.314
MA0138.2	MA0138.2	0.293
MA0139.1	MA0139.1	0.0378
MA0140.1	MA0140.1	0.00591
MA0141.1	MA0141.1	1.81245e-4
MA0142.1	MA0142.1	0.261
MA0143.1	MA0143.1	0.105
MA0144.1	MA0144.1	0.033
MA0145.1	MA0145.1	0.0068
MA0146.1	MA0146.1	0.241
MA0147.1	MA0147.1	0.385
MA0148.1	MA0148.1	4.12681e-4
MA0149.1	MA0149.1	0.0283
MA0150.1	MA0150.1	0.329
MA0152.1	MA0152.1	0.119
MA0153.1	MA0153.1	2.81052e-27
MA0154.1	MA0154.1	0.0108
MA0155.1	MA0155.1	0.514
MA0156.1	MA0156.1	0.0033
MA0157.1	MA0157.1	0.682
MA0159.1	MA0159.1	0.00175
MA0160.1	MA0160.1	0.0161
MA0162.1	MA0162.1	0.249
MA0163.1	MA0163.1	0.0564
MA0164.1	MA0164.1	0.901
MA0258.1	MA0258.1	0.00908
MA0259.1	MA0259.1	0.289

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: CNhs10468

Novel motif	Logo	P-value
1	1	0.161
10	10	0.178
100	100	0.996
101	101	0.993
102	102	0.922
103	103	0.209
104	104	0.732
105	105	0.392
106	106	0.0122
107	107	0.0358
108	108	0.712
109	109	0.0849
11	11	0.161
110	110	0.268
111	111	0.0746
112	112	0.0128
113	113	0.901
114	114	0.0523
115	115	0.336
116	116	0.24
117	117	0.22
118	118	0.496
119	119	0.045
12	12	0.77
120	120	0.434
121	121	0.778
122	122	0.628
123	123	0.293
124	124	0.913
125	125	0.327
126	126	0.0975
127	127	0.159
128	128	0.0385
129	129	0.269
13	13	0.00466
130	130	0.953
131	131	0.163
132	132	0.484
133	133	0.732
134	134	0.885
135	135	0.714
136	136	0.139
137	137	0.48
138	138	0.839
139	139	0.0396
14	14	0.614
140	140	0.301
141	141	0.126
142	142	0.314
143	143	0.67
144	144	0.223
145	145	0.147
146	146	0.241
147	147	0.428
148	148	0.258
149	149	0.521
15	15	0.158
150	150	0.312
151	151	0.336
152	152	0.0593
153	153	0.776
154	154	0.91
155	155	0.339
156	156	0.609
157	157	0.923
158	158	0.497
159	159	0.216
160	160	0.371
161	161	0.544
162	162	0.556
163	163	0.21
164	164	0.101
165	165	0.274
166	166	0.657
167	167	0.95
168	168	0.825
169	169	0.0114
17	17	0.0973
18	18	0.253
19	19	0.0898
2	2	0.222
20	20	0.775
21	21	0.921
22	22	0.326
23	23	0.244
24	24	0.683
25	25	0.649
26	26	0.00786
27	27	0.435
28	28	0.439
29	29	0.314
3	3	0.212
30	30	0.363
31	31	0.553
32	32	0.034
33	33	0.319
34	34	0.731
35	35	0.51
36	36	0.751
37	37	0.059
38	38	0.355
39	39	0.332
4	4	0.457
40	40	0.207
41	41	0.54
42	42	0.425
43	43	0.237
44	44	0.149
45	45	0.277
46	46	0.229
47	47	0.322
48	48	0.282
49	49	0.195
5	5	0.358
50	50	0.527
51	51	0.64
52	52	0.102
53	53	0.936
54	54	0.553
55	55	0.868
56	56	0.39
57	57	0.911
58	58	0.32
59	59	0.0561
6	6	0.684
60	60	0.0424
61	61	0.216
62	62	0.27
63	63	0.156
64	64	0.563
65	65	0.134
66	66	0.649
67	67	0.403
68	68	0.067
69	69	0.798
7	7	0.11
70	70	0.0179
71	71	0.101
72	72	0.468
73	73	0.132
74	74	0.78
75	75	0.0945
76	76	0.68
77	77	0.0823
78	78	0.0688
79	79	0.115
8	8	0.141
80	80	0.455
81	81	0.645
82	82	0.0428
83	83	0.16
84	84	0.147
85	85	0.0392
86	86	0.18
87	87	0.167
88	88	0.612
89	89	0.15
9	9	0.649
90	90	0.174
91	91	0.468
92	92	0.336
93	93	0.191
94	94	0.632
95	95	0.164
96	96	0.884
97	97	0.555
98	98	0.647
99	99	0.117

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: CNhs10468

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011323 mouse colon- adult 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)
0001155 (colon)
0000160 (intestine)
0000479 (tissue)
0001007 (digestive system)
0000064 (organ part)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000063 (organ segment)
0000481 (multi-tissue structure)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0000059 (large intestine)
0005409 (gastrointestinal system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011323 (mouse colon- adult 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@SAMD00005637
+|accession_numbers=CAGE;DRX008943;DRR009817;DRZ001242;DRZ002625;DRZ012592;DRZ013975
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0001155,UBERON:0000160,UBERON:0000479,UBERON:0001007,UBERON:0000064,UBERON:0004119,UBERON:0011216,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000063,UBERON:0000481,UBERON:0004921,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0010317,UBERON:0001555,UBERON:0000059,UBERON:0005409
 |ancestors_in_cell_lineage_facet=
@@ 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!2.71!514.49!Hnf4g;;chr5:148118639..148118715,-!p1@Cdx2!2.29!194.91!Cdx2;;chr1:137155026..137155042,-!p1@Elf3!2.16!788.09!Elf3;;chr10:80555320..80555378,-!p1@Creb3l3!2.14!156.85!Creb3l3;;chr2:163372884..163372904,+!p1@Hnf4a!1.98!95.29!Hnf4a;;chr6:86619104..86619119,-!p1@Mxd1!1.94!660.61!Mxd1;;chr2:163332558..163332596,+!p2@Hnf4a!1.87!72.29!Hnf4a;;chr10:88969376..88969395,-!p1@Nr1h4!1.85!70.25!Nr1h4;;chr16:38294860..38294924,-!p1@Nr1i2!1.84!68.97!Nr1i2;;chr8:77396591..77396639,+!p1@Isx!1.83!66.16!Isx;;chr15:97738692..97738747,-!p1@Vdr!1.82!338.99!Vdr;;chr2:180069370..180069409,-!p1@Gata5!1.78!68.46!Gata5;;chr2:164228702..164228719,+!p1@Rbpjl!1.68!46.75!Rbpjl;;chr14:63864056..63864102,-!p1@Gata4!1.63!71.27!Gata4;;chr18:61195843..61195864,-!p2@Cdx1!1.63!42.15!Cdx1;;chr6:64679112..64679126,+!p1@Atoh1!1.63!41.64!Atoh1;;chr3:3508024..3508069,+!p2@Hnf4g!1.60!39.08!Hnf4g;;chr1:173144100..173144138,+!p2@Nr1i3!1.57!36.27!Nr1i3;;chr5:135582751..135582788,+!p1@Mlxipl!1.53!128.24!Mlxipl;;chr2:173044380..173044432,-!p1@Zbp1!1.53!76.64!Zbp1;;chr17:27865882..27865901,-!p1@Spdef!1.53!32.95!Spdef;;chr14:99697871..99697934,+!p1@Klf5!1.45!518.07!Klf5;;chr5:148118840..148118857,-!p2@Cdx2!1.42!25.29!Cdx2;;chr2:103143336..103143367,-!p1@Ehf!1.40!38.57!Ehf;;chr7:19608891..19608895,-!p1@Foxa3!1.40!30.91!Foxa3;;chr9:31720843..31720888,-!p1@Barx2!1.38!25.29!Barx2;;chr18:61195865..61195880,-!p1@Cdx1!1.38!22.99!Cdx1;;chr2:173044357..173044377,-!p2@Zbp1!1.36!31.42!Zbp1;;chr5:144951153..144951203,+!p1@Bhlha15!1.36!31.42!Bhlha15;;chr8:77397095..77397127,+!p2@Isx!1.36!21.97!Isx;;chr19:5560600..5560617,-!p1@Ovol1!1.34!25.03!Ovol1;;chr8:77397190..77397202,+!p5@Isx!1.34!20.95!Isx;;chr2:103123925..103123959,-!p3@Ehf!1.34!20.69!Ehf;;chr11:98636531..98636559,-!p1@Nr1d1!1.32!111.63!Nr1d1;;chr11:70500401..70500460,-!p3@Camta2!1.31!19.41!Camta2;;chr18:64499674..64499696,+!p1@Onecut2!1.30!32.44!Onecut2;;chr4:124805061..124805087,-!p1@Zc3h12a!1.29!55.69!Zc3h12a;;chr13:30841099..30841116,+!p1@Irf4!1.28!27.84!Irf4;;chr10:127095407..127095440,+!p3@Stat6!1.26!21.20!Stat6;;chr5:115421065..115421088,-!p1@Hnf1a!1.26!17.37!Hnf1a;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!1.26!17.12!Ppard;;chr8:118231678..118231692,-!p2@Maf!1.24!143.82!Maf;;chr8:77397492..77397514,+!p3@Isx!1.24!16.35!Isx;;chr14:76887526..76887555,+!p10@Tsc22d1!1.24!16.35!Tsc22d1;;chr8:79426176..79426275,+!p1@Nr3c2!1.22!77.40!Nr3c2;;chr15:35225845..35225867,+!p1@Osr2!1.22!39.34!Osr2;;chr8:77396650..77396662,+!p4@Isx!1.22!15.58!Isx;;chr17:28409136..28409150,+!p3@Ppard!1.22!15.58!Ppard;;chr8:123260252..123260264,+!p1@Irf8!1.18!98.10!Irf8;;chr5:148118792..148118806,-!p3@Cdx2!1.17!13.79!Cdx2;;chr18:64499706..64499721,+!p2@Onecut2!1.16!18.90!Onecut2;;chr7:148452314..148452329,-!p1@Irf7!1.15!89.92!Irf7;;chr11:98636400..98636418,-!p4@Nr1d1!1.15!17.12!Nr1d1;;chr2:103143315..103143328,-!p2@Ehf!1.15!13.28!Ehf;;chr4:148178559..148178603,+!p1@Casz1!1.13!35.51!Casz1;;chr4:55545337..55545357,-!p1@Klf4!1.12!180.10!Klf4;;chr10:22539932..22539956,-!p1@Tcf21!1.11!31.42!Tcf21;;chr9:31720903..31720918,-!p2@Barx2!1.11!12.01!Barx2;;chr3:3508005..3508021,+!p3@Hnf4g!1.11!12.01!Hnf4g;;chr11:53583544..53583559,+!p1@Irf1!1.08!184.18!Irf1;;chr9:51021788..51021802,+!p1@Pou2af1!1.08!13.03!Pou2af1;;chr14:63890545..63890560,-!p5@Gata4!1.08!10.98!Gata4;;chr1:194979315..194979359,+!p1@Irf6!1.07!65.40!Irf6;;chr2:166888058..166888105,-!p2@Znfx1!1.07!35.00!Znfx1;;chr4:55545051..55545110,-!p2@Klf4!1.07!13.54!Klf4;;chr1:173144144..173144176,+!p1@Nr1i3!1.07!10.73!Nr1i3;;chr1:165219345..165219366,-!p7@Prrx1!1.06!10.47!Prrx1;;chr3:30039329..30039355,-!p5@Mecom!1.06!10.47!Mecom;;chr10:80555398..80555409,-!p2@Creb3l3!1.06!10.47!Creb3l3;;chr7:20213752..20213778,-!p2@Relb!1.05!10.22!Relb;;chr3:89197057..89197114,-!p1@Zbtb7b!1.04!34.23!Zbtb7b;;chr5:120121446..120121461,+!p2@Tbx3!1.04!32.95!Tbx3;;chr2:163372869..163372882,+!p3@Hnf4a!1.04!9.96!Hnf4a;;chr12:86814833..86814846,+!p1@Fos!1.03!226.85!Fos;;chr19:53384910..53384937,+!p3@Mxi1!1.03!27.84!Mxi1;;chr19:6164433..6164446,+!p2@Batf2!1.03!9.71!Batf2;;chr18:11052485..11052508,+!p2@Gata6!1.02!27.33!Gata6;;chr6:39068163..39068176,-!p2@Parp12!1.02!17.88!Parp12;;chr3:90046995..90047031,-!p2@Creb3l4!1.02!12.01!Creb3l4;;chr19:43686789..43686811,+!p1@Nkx2-3!1.02!9.45!Nkx2-3;;chr5:120121020..120121049,+!p1@Tbx3!1.01!57.22!Tbx3;;chr1:138857048..138857071,-!p2@Nr5a2!1.01!9.20!Nr5a2;;chr2:19367259..19367278,+!p1@Ptf1a!1.01!9.20!Ptf1a;;chr11:5420655..5420659,+!p3@Xbp1!1.00!8.94!Xbp1;;chr5:148118809..148118832,-!p5@Cdx2!1.00!8.94!Cdx2;;chr1:194979361..194979373,+!p2@Irf6!0.99!12.01!Irf6;;chr10:88996336..88996380,-!p2@Nr1h4!0.99!10.98!Nr1h4;;chr11:98636508..98636524,-!p3@Nr1d1!0.98!10.73!Nr1d1;;chr7:20408047..20408125,-!p1@Bcl3!0.96!95.29!Bcl3;;chr5:138187583..138187602,+!p6@Tsc22d4!0.96!15.33!Tsc22d4;;chr11:98636373..98636387,-!p5@Nr1d1!0.96!9.45!Nr1d1;;chr2:180069640..180069660,-!p4@Gata5!0.96!8.17!Gata5;;chr8:77397169..77397182,+!p7@Isx!0.94!7.66!Isx;;chr14:63890519..63890539,-!p3@Gata4!0.94!7.66!Gata4;;chr4:148178529..148178548,+!p3@Casz1!0.93!18.39!Casz1;;chr14:76887566..76887579,+!p18@Tsc22d1!0.92!7.41!Tsc22d1;;chr10:20880629..20880683,-!p1@Myb!0.91!21.46!Myb;;chr19:6996243..6996293,-!p1@Esrra!0.90!80.47!Esrra;;chr14:63890491..63890516,-!p2@Gata4!0.90!6.90!Gata4;;chr5:148118614..148118625,-!p4@Cdx2!0.90!6.90!Cdx2;;chr10:88996295..88996335,-!p3@Nr1h4!0.89!8.17!Nr1h4;;chr8:118231705..118231722,-!p3@Maf!0.88!55.69!Maf;;chr13:44825008..44825066,+!p5@Jarid2!0.88!13.28!Jarid2;;chr2:24278519..24278530,-!p3@Pax8!0.88!6.64!Pax8;;chr5:148081686..148081715,+!p1@Pdx1!0.87!6.39!Pdx1;;chr19:5560570..5560582,-!p2@Ovol1!0.87!6.39!Ovol1;;chr2:79296783..79296801,-!p1@Neurod1!0.87!6.39!Neurod1;;chr8:123608252..123608268,+!p1@Foxf1a!0.86!9.45!Foxf1a;;chr5:115421126..115421137,-!p4@Hnf1a!0.84!5.88!Hnf1a;;chr1:52176315..52176343,+!p1@Stat1!0.83!88.90!Stat1;;chr1:193007123..193007139,-!p1@Atf3!0.83!34.49!Atf3;;chr16:55822241..55822258,-!p1@Nfkbiz!0.82!187.25!Nfkbiz;;chr6:37391910..37391928,-!p3@Creb3l2!0.82!6.39!Creb3l2;;chr17:28409059..28409076,+!p6@Ppard!0.82!5.62!Ppard;;chr9:31721051..31721068,-!p3@Barx2!0.82!5.62!Barx2;;chr1:138857076..138857105,-!p1@Nr5a2!0.82!5.62!Nr5a2;;chr2:180069410..180069421,-!p3@Gata5!0.82!5.62!Gata5;;chr1:39250584..39250643,+!p1@Npas2!0.81!29.63!Npas2;;chr13:31717548..31717596,+!p1@Foxf2!0.81!11.24!Foxf2;;chr7:51787434..51787448,-!p1@Spib!0.80!7.92!Spib;;chr5:120120981..120120992,+!p5@Tbx3!0.80!7.15!Tbx3;;chr5:148081722..148081744,+!p2@Pdx1!0.80!5.36!Pdx1;;chr2:180069423..180069434,-!p2@Gata5!0.80!5.36!Gata5;;chr18:11052642..11052659,+!p1@Gata6!0.78!27.84!Gata6;;chr8:59799772..59799789,+!p1@Hand2!0.78!15.33!Hand2;;chr18:36441119..36441158,+!p2@Pura!0.78!13.03!Pura;;chr5:120121169..120121171,+!p4@Tbx3!0.78!9.45!Tbx3;;chr3:128918394..128918413,+!p5@Pitx2!0.77!4.85!Pitx2;;chr4:148178459..148178482,+!p4@Casz1!0.75!4.60!Casz1;;chr11:100948597..100948637,+!p1@Mlx!0.74!118.02!Mlx;;chr3:94176733..94176794,+!p1@Rorc!0.74!38.32!Rorc;;chr10:80600749..80600766,+!p2@Zbtb7a!0.74!25.80!Zbtb7a;;chr4:148275237..148275311,+!p2@Casz1!0.74!20.44!Casz1;;chr3:89197216..89197258,-!p3@Zbtb7b!0.74!9.96!Zbtb7b;;chr7:52960555..52960662,+!p1@Dbp!0.73!41.64!Dbp;;chr2:91035197..91035237,-!p1@Nr1h3!0.73!9.71!Nr1h3;;chr1:57029281..57029326,-!p1@Satb2!0.73!7.15!Satb2;;chr15:35225873..35225889,+!p2@Osr2!0.73!4.34!Osr2;;chr11:57645506..57645523,-!p1@Hand1!0.73!4.34!Hand1;;chr11:98614335..98614349,+!p8@Thra!0.73!4.34!Thra;;chr19:53384985..53385042,+!p1@Mxi1!0.72!147.14!Mxi1;;chr12:58646974..58647003,-!p1@Foxa1!0.72!5.88!Foxa1;;chr2:160192793..160192809,-!p1@Mafb!0.71!70.51!Mafb;;chr13:31650185..31650201,+!p1@Foxq1!0.71!15.84!Foxq1;;chr1:194982959..194983007,+!p5@Irf6!0.71!4.09!Irf6;;chr3:128918433..128918448,+!p8@Pitx2!0.71!4.09!Pitx2;;chr2:75543089..75543122,-!p3@Nfe2l2!0.71!4.09!Nfe2l2;;chr8:77397026..77397036,+!p6@Isx!0.71!4.09!Isx;;chr10:80555285..80555291,-!p4@Creb3l3!0.71!4.09!Creb3l3;;chr1:135320989..135321043,-!p1@Sox13!0.70!50.33!Sox13;;chr2:133377954..133377973,+!p1@Bmp2!0.70!14.31!Bmp2;;chr5:65213356..65213412,+!p6@Klf3!0.70!9.20!Klf3;;chr17:32506357..32506377,-!p3@Wiz!0.70!9.20!Wiz;;chr5:120121091..120121100,+!p7@Tbx3!0.70!4.85!Tbx3;;chr1:133904946..133904974,+!p7@Elk4!0.69!6.39!Elk4;;chr8:47825203..47825225,+!p3@Irf2!0.69!5.36!Irf2;;chr14:99698164..99698208,+!p2@Klf5!0.69!4.60!Klf5;;chr11:5420954..5420969,+!p2@Xbp1!0.68!54.67!Xbp1;;chr12:109242266..109242295,-!p1@Bcl11b!0.68!36.53!Bcl11b;;chr14:63890459..63890484,-!p4@Gata4!0.68!3.83!Gata4;;chr1:138846079..138846103,-!p6@Nr5a2!0.68!3.83!Nr5a2;;chr6:39068181..39068206,-!p3@Parp12!0.67!8.17!Parp12;;chr6:39068210..39068251,-!p1@Parp12!0.66!18.90!Parp12;;chr3:89197551..89197606,-!p2@Zbtb7b!0.66!13.79!Zbtb7b;;chr4:87452180..87452196,-!p3@Mllt3!0.66!7.66!Mllt3;;chr7:134519473..134519502,-!p3@Zfp747!0.66!5.11!Zfp747;;chr5:115420882..115420896,-!p3@Hnf1a!0.66!3.58!Hnf1a;;chr11:83664334..83664353,+!p2@Hnf1b!0.66!3.58!Hnf1b;;chr2:75542527..75542590,-!p1@Nfe2l2!0.65!359.17!Nfe2l2;;chr6:86619130..86619158,-!p2@Mxd1!0.65!58.50!Mxd1;;chr4:63064364..63064384,-!p1@Akna!0.65!11.50!Akna;;chr8:79423144..79423178,+!p3@Nr3c2!0.65!5.11!Nr3c2;;chr2:91035254..91035271,-!p3@Nr1h3!0.64!4.34!Nr1h3;;chr4:55545152..55545194,-!p3@Klf4!0.64!4.09!Klf4;;chr10:79884592..79884621,-!p5@Tcf3!0.64!3.32!Tcf3;;chr10:80555299..80555306,-!p3@Creb3l3!0.64!3.32!Creb3l3;;chr11:96976641..96976646,-!p1@Tbx21!0.64!3.32!Tbx21;;chr1:194979383..194979393,+!p3@Irf6!0.64!3.32!Irf6;;chr15:102828658..102828678,+!p1@Hoxc6!0.64!3.32!Hoxc6;;chr8:87502608..87502623,-!p1@Junb!0.63!63.61!Junb;;chr18:11052606..11052633,+!p4@Gata6!0.63!9.20!Gata6;;chr8:118231350..118231385,-!p7@Maf!0.63!5.11!Maf;;chr1:138846047..138846074,-!p5@Nr5a2!0.63!3.58!Nr5a2;;chr2:77357622..77357704,-!p1@Zfp385b!0.62!9.71!Zfp385b;;chr14:52634651..52634678,-!p7@Zfp219!0.62!5.36!Zfp219;;chr1:52065508..52065522,+!p2@Stat4!0.62!3.83!Stat4;;chr15:85566051..85566080,+!p4@Ppara!0.62!3.83!Pp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2.81!Zfp595;;chr10:75495410..75495444,+!p2@Zfp280b!0.20!2.81!Zfp280b;;chr10:93610727..93610754,+!p2@Nr2c1!0.20!2.81!Nr2c1;;chr3:135354452..135354475,-!p5@Nfkb1!0.20!2.81!Nfkb1;;chr1:193961837..193961849,-!p3@Rcor3!0.20!2.04!Rcor3;;chr11:62271274..62271337,-!p4@Ncor1!0.20!1.28!Ncor1;;chr2:77357593..77357606,-!p6@Zfp385b!0.20!0.77!Zfp385b;;chr19:4397052..4397098,-!p1@Kdm2a!0.19!36.02!Kdm2a;;chr8:108583462..108583523,+!p1@Nfatc3!0.19!25.55!Nfatc3;;chr5:123844791..123844835,+!p1@Mlxip!0.19!23.76!Mlxip;;chr5:46248712..46248750,-!p1@Lcorl!0.19!20.95!Lcorl;;chr10:79862223..79862261,-!p4@Mbd3!0.19!12.77!Mbd3;;chr17:47873985..47874056,+!p1@Tfeb!0.19!10.73!Tfeb;;chr2:91077082..91077122,-!p1@Ddb2!0.19!7.92!Ddb2;;chr7:24919204..24919231,+!p2@Zfp235!0.19!7.15!Zfp235;;chr3:135354289..135354334,-!p3@Nfkb1!0.19!6.39!Nfkb1;;chr6:90412582..90412601,+!p1@Klf15!0.19!5.88!Klf15;;chr5:65194827..65194846,+!p4@Klf3!0.19!4.09!Klf3;;chr10:13685585..13685645,+!p2@Hivep2!0.19!4.09!Hivep2;;chr6:124959250..124959271,+!p6@Zfp384!0.19!3.07!Zfp384;;chr14:52639709..52639753,-!p5@Zfp219!0.19!2.30!Zfp219;;chr3:135354349..135354371,-!p6@Nfkb1!0.19!2.04!Nfkb1;;chr5:32438395..32438406,+!p3@Fosl2!0.19!1.28!Fosl2;;chr11:96145450..96145517,+!p2@Hoxb7!0.19!1.28!Hoxb7;;chr19:23216166..23216191,+!p6@Klf9!0.19!1.02!Klf9;;chr16:43619156..43619171,+!p16@Zbtb20!0.19!1.02!Zbtb20;;chr2:27532513..27532525,+!p8@Rxra!0.19!0.77!Rxra;;chr6:124662297..124662371,+!p1@Phb2!0.18!274.11!Phb2;;chr2:153067094..153067130,-!p1@Plagl2!0.18!33.72!Plagl2;;chr11:23978022..23978076,+!p1@Bcl11a!0.18!29.12!Bcl11a;;chr11:106134020..106134128,-!p1@Smarcd2!0.18!26.57!Smarcd2;;chr11:6375995..6376105,-!p1@Purb!0.18!23.50!Purb;;chr3:52072329..52072346,+!p1@Foxo1!0.18!20.44!Foxo1;;chr19:23215673..23215753,+!p1@Klf9!0.18!19.16!Klf9;;chr5:108697916..108697943,+!p2@Dr1!0.18!15.58!Dr1;;chr3:94758041..94758142,+!p1@Rfx5!0.18!11.75!Rfx5;;chr9:21420572..21420591,+!p2@Smarca4!0.18!6.90!Smarca4;;chr18:24178808..24178865,-!p2@Zfp191!0.18!6.64!Zfp191;;chr6:124959131..124959160,+!p4@Zfp384!0.18!3.07!Zfp384;;chr1:52176406..52176433,+!p2@Stat1!0.18!2.55!Stat1;;chr3:135354903..135354945,-!p7@Nfkb1!0.18!2.30!Nfkb1;;chr17:44873393..44873418,-!p4@Runx2!0.18!1.53!Runx2;;chr11:102179174..102179191,-!p10@Ubtf!0.18!1.53!Ubtf;;chr19:23215469..23215494,+!p2@Klf9!0.18!1.28!Klf9;;chr6:108610513..108610528,+!p3@Bhlhe40!0.18!1.28!Bhlhe40;;chr7:86956107..86956152,+!p@chr7:86956107..86956152,+!0.18!1.28!Mesp2;;chr19:55817629..55817652,+!p14@Tcf7l2!0.18!1.02!Tcf7l2;;chr2:115890294..115890334,-!p9@Meis2!0.18!1.02!Meis2;;chr1:92950099..92950109,+!p3@Lrrfip1!0.18!0.77!Lrrfip1;;chr7:52960780..52960793,+!p5@Dbp!0.18!0.77!Dbp;;chr13:37918661..37918673,+!p17@Rreb1!0.18!0.77!Rreb1;;chr12:39510206..39510249,+!p3@Etv1!0.18!0.51!Etv1;;chr15:102820946..102820961,+!p3@Hoxc8!0.18!0.51!Hoxc8;;chr14:55330976..55330990,-!p1@Cebpe!0.18!0.51!Cebpe;;chr15:102828642..102828653,+!p2@Hoxc6!0.18!0.51!Hoxc6;;chr14:76888344..76888348,+!p26@Tsc22d1!0.18!0.51!Tsc22d1;;chr1:57029027..57029056,-!p7@Satb2!0.18!0.51!Satb2;;chr2:105509045..105509071,+!p1@Pax6!0.18!0.51!Pax6;;chr2:168032254..168032259,-!p6@Adnp!0.18!0.51!Adnp;;chr2:169968173..169968178,-!p2@Zfp217!0.18!0.51!Zfp217;;chr1:87495371..87495397,-!p1@Sp110!0.18!0.51!Sp110;;chr19:55991838..55991852,+!p41@Tcf7l2!0.18!0.51!Tcf7l2;;chr1:64579145..64579168,+!p6@Creb1!0.18!0.51!Creb1;;chr2:147872074..147872079,-!p4@Foxa2!0.18!0.51!Foxa2;;chr2:181501988..181502026,+!p3@Myt1!0.18!0.51!Myt1;;chr2:147019977..147019985,-!p2@Nkx2-2!0.18!0.51!Nkx2-2;;chr2:147871948..147871977,-!p3@Foxa2!0.18!0.51!Foxa2;;chr1:120524563..120524591,+!p2@Tfcp2l1!0.18!0.51!Tfcp2l1;;chr15:85566241..85566253,+!p6@Ppara!0.18!0.51!Ppara;;chr19:55967419..55967424,+!p19@Tcf7l2!0.18!0.51!Tcf7l2;;chr18:11052516..11052525,+!p5@Gata6!0.18!0.51!Gata6;;chr17:71201050..71201078,-!p9@Tgif1!0.18!0.51!Tgif1;;chr11:96685444..96685473,-!p5@Nfe2l1!0.18!0.51!Nfe2l1;;chr11:62272200..62272221,-!p11@Ncor1!0.18!0.51!Ncor1;;chr11:59319796..59319801,-!p6@Zkscan17!0.18!0.51!Zkscan17;;chr11:90250894..90250916,-!p5@Hlf!0.18!0.51!Hlf;;chr11:98407142..98407159,-!p5@Ikzf3!0.18!0.51!Ikzf3;;chr11:98614697..98614707,+!p15@Thra!0.18!0.51!Thra;;chr11:11590205..11590216,+!p9@Ikzf1!0.18!0.51!Ikzf1;;chr11:60034039..60034050,-!p4@Srebf1!0.18!0.51!Srebf1;;chr11:11590188..11590200,+!p8@Ikzf1!0.18!0.51!Ikzf1;;chr11:98407121..98407133,-!p10@Ikzf3!0.18!0.51!Ikzf3;;chr11:120624106..120624107,+!p13@Hmga1-rs1,p14@Hmga1!0.18!0.51!Hmga1;;chr11:98338697..98338709,-!p9@Ikzf3!0.18!0.51!Ikzf3;;chr4:48064302..48064316,+!p11@Nr4a3!0.18!0.51!Nr4a3;;chr4:44723835..44723849,-!p4@Pax5!0.18!0.51!Pax5;;chr5:104182680..104182687,+!p26@Aff1!0.18!0.51!Aff1;;chr4:44723559..44723593,-!p1@Pax5!0.18!0.51!Pax5;;chr7:31207452..31207463,+!p11@Nfkbid!0.18!0.51!Nfkbid;;chr8:72676653..72676668,+!p4@2310045N01Rik,p4@Mef2b!0.18!0.51!Mef2b;;chr9:59797525..59797538,-!p2@Nr2e3!0.18!0.51!Nr2e3;;chr8:123651727..123651748,+!p1@ENSMUST00000062634!0.18!0.51!Foxl1;;chr5:29805170..29805178,-!p2@Mnx1!0.18!0.51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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011323
 |is_obsolete=
+|library_id=CNhs10468
+|library_id_phase_based=2:CNhs10468
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;36
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;36
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/colon%252c%2520adult.CNhs10468.36-18H7.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/colon%252c%2520adult.CNhs10468.36-18H7.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/colon%252c%2520adult.CNhs10468.36-18H7.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/colon%252c%2520adult.CNhs10468.36-18H7.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/colon%252c%2520adult.CNhs10468.36-18H7.mm9.nobarcode.rdna.fa.gz
 |name=colon, adult
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10468,LSID646,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.173303149001518,0,0,0,0,0,-0.056414160759587,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0,0.727766473720414,0,0,0,0,0,0,0.125691175097366,0,0.098801861608942,0,0,0,-0.119702836950426,-0.0493633375883983,-0.0352253922624399,-0.984211366477826,-0.171066776401409,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0.136392822007925,0,0.0571132762536156,0,0,0,-0.117389802908326,-0.131410880248587,-0.0592891811621406,-0.104094974270439,0,0,-0.0384756470764768,0,0,0,-0.0198458063693785,0.0063433116746169,0.272519492873576,-0.0788315948399074,0,0,0,0,0,0.1792397770908,0.224030877331309,0.266525818635936,0.194556725954305,0,0,0,0,0
@@ 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=table111:36-18H7;search_select_hide=table117:36-18H7
 }}

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FF:36-18H7: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:11, 4 June 2020

CNhs10468

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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