FF:860-29I3: Difference between revisions

Latest revision as of 19:21, 4 June 2020

Name:	intestinal mucosa, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10506
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	intestinal mucosa
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		SAMD00005876

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10506		CAGE		DRX008988		DRR009862

Accession ID Mm9

Library id		BAM		CTSS
CNhs10506		DRZ001287		DRZ002670

Accession ID Mm10

Library id		BAM		CTSS
CNhs10506		DRZ012637		DRZ014020

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

CNhs10506

0	0
1	0
10	0
100	0
1000	-0.0355
1001	0.0102
1002	-0.116
1003	-0.102
1004	0
1005	0.35
1006	-0.143
1007	-0.104
1008	0.798
1009	-0.19
101	-0.375
1010	0
1011	-0.145
1012	0
1013	0.41
1014	0
1015	-0.54
1016	-0.379
1017	0
1018	0.666
1019	0
102	0
1020	0
1021	-0.0487
1022	0.0211
1023	0
1024	-0.307
1025	0
1026	0
1027	-0.048
1028	0
1029	0.483
103	-0.0861
1030	0
1031	-0.972
1032	0.635
1033	-0.0396
1034	0.203
1035	0
1036	-0.436
1037	0
1038	0.0449
1039	-0.0905
104	0
1040	-0.676
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: CNhs10506

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	4.45167e-4
MA0003.1	MA0003.1	0.346
MA0004.1	MA0004.1	0.636
MA0006.1	MA0006.1	0.0606
MA0007.1	MA0007.1	0.384
MA0009.1	MA0009.1	0.26
MA0014.1	MA0014.1	0.289
MA0017.1	MA0017.1	5.6012e-27
MA0018.2	MA0018.2	0.166
MA0019.1	MA0019.1	0.298
MA0024.1	MA0024.1	5.15593e-4
MA0025.1	MA0025.1	0.799
MA0027.1	MA0027.1	0.263
MA0028.1	MA0028.1	0.844
MA0029.1	MA0029.1	0.641
MA0030.1	MA0030.1	0.618
MA0031.1	MA0031.1	0.4
MA0035.2	MA0035.2	3.78852e-6
MA0038.1	MA0038.1	0.138
MA0039.2	MA0039.2	4.247e-4
MA0040.1	MA0040.1	0.0444
MA0041.1	MA0041.1	0.366
MA0042.1	MA0042.1	0.259
MA0043.1	MA0043.1	0.0615
MA0046.1	MA0046.1	8.27811e-44
MA0047.2	MA0047.2	0.00474
MA0048.1	MA0048.1	0.583
MA0050.1	MA0050.1	8.84252e-8
MA0051.1	MA0051.1	6.99028e-7
MA0052.1	MA0052.1	8.74771e-4
MA0055.1	MA0055.1	0.362
MA0057.1	MA0057.1	0.0702
MA0058.1	MA0058.1	0.547
MA0059.1	MA0059.1	0.753
MA0060.1	MA0060.1	3.38685e-5
MA0061.1	MA0061.1	0.353
MA0062.2	MA0062.2	0.126
MA0065.2	MA0065.2	8.00267e-15
MA0066.1	MA0066.1	0.0665
MA0067.1	MA0067.1	0.537
MA0068.1	MA0068.1	0.00666
MA0069.1	MA0069.1	0.46
MA0070.1	MA0070.1	0.223
MA0071.1	MA0071.1	0.127
MA0072.1	MA0072.1	0.297
MA0073.1	MA0073.1	0.905
MA0074.1	MA0074.1	0.135
MA0076.1	MA0076.1	0.986
MA0077.1	MA0077.1	0.767
MA0078.1	MA0078.1	0.674
MA0079.2	MA0079.2	0.636
MA0080.2	MA0080.2	2.28524e-6
MA0081.1	MA0081.1	0.654
MA0083.1	MA0083.1	0.034
MA0084.1	MA0084.1	0.265
MA0087.1	MA0087.1	0.454
MA0088.1	MA0088.1	0.469
MA0090.1	MA0090.1	0.642
MA0091.1	MA0091.1	0.941
MA0092.1	MA0092.1	0.428
MA0093.1	MA0093.1	0.62
MA0099.2	MA0099.2	8.98089e-5
MA0100.1	MA0100.1	0.323
MA0101.1	MA0101.1	0.715
MA0102.2	MA0102.2	0.131
MA0103.1	MA0103.1	3.92535e-6
MA0104.2	MA0104.2	0.0696
MA0105.1	MA0105.1	0.314
MA0106.1	MA0106.1	0.839
MA0107.1	MA0107.1	0.836
MA0108.2	MA0108.2	0.52
MA0111.1	MA0111.1	0.847
MA0112.2	MA0112.2	1.04135e-5
MA0113.1	MA0113.1	0.484
MA0114.1	MA0114.1	1.94385e-29
MA0115.1	MA0115.1	1.59586e-16
MA0116.1	MA0116.1	0.409
MA0117.1	MA0117.1	0.454
MA0119.1	MA0119.1	0.0174
MA0122.1	MA0122.1	0.76
MA0124.1	MA0124.1	0.263
MA0125.1	MA0125.1	0.742
MA0131.1	MA0131.1	0.416
MA0135.1	MA0135.1	0.228
MA0136.1	MA0136.1	8.45297e-7
MA0137.2	MA0137.2	0.381
MA0138.2	MA0138.2	0.376
MA0139.1	MA0139.1	0.0305
MA0140.1	MA0140.1	0.00968
MA0141.1	MA0141.1	6.44861e-7
MA0142.1	MA0142.1	0.905
MA0143.1	MA0143.1	0.15
MA0144.1	MA0144.1	0.0597
MA0145.1	MA0145.1	0.00322
MA0146.1	MA0146.1	0.109
MA0147.1	MA0147.1	0.0972
MA0148.1	MA0148.1	1.88116e-4
MA0149.1	MA0149.1	0.0112
MA0150.1	MA0150.1	0.0367
MA0152.1	MA0152.1	0.0543
MA0153.1	MA0153.1	4.75446e-36
MA0154.1	MA0154.1	0.0258
MA0155.1	MA0155.1	0.686
MA0156.1	MA0156.1	3.55098e-4
MA0157.1	MA0157.1	0.95
MA0159.1	MA0159.1	3.09495e-4
MA0160.1	MA0160.1	9.73291e-4
MA0162.1	MA0162.1	0.604
MA0163.1	MA0163.1	0.121
MA0164.1	MA0164.1	0.907
MA0258.1	MA0258.1	9.12915e-4
MA0259.1	MA0259.1	0.273

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: CNhs10506

Novel motif	Logo	P-value
1	1	0.0831
10	10	0.133
100	100	0.872
101	101	0.845
102	102	0.893
103	103	0.116
104	104	0.899
105	105	0.258
106	106	0.0445
107	107	0.0857
108	108	0.802
109	109	0.124
11	11	0.116
110	110	0.253
111	111	0.0159
112	112	0.0144
113	113	0.88
114	114	0.0113
115	115	0.813
116	116	0.446
117	117	0.0883
118	118	0.383
119	119	0.0393
12	12	0.725
120	120	0.627
121	121	0.674
122	122	0.544
123	123	0.358
124	124	0.922
125	125	0.576
126	126	0.164
127	127	0.157
128	128	0.0785
129	129	0.126
13	13	0.00276
130	130	0.744
131	131	0.42
132	132	0.599
133	133	0.66
134	134	0.911
135	135	0.536
136	136	0.277
137	137	0.518
138	138	0.318
139	139	0.0404
14	14	0.477
140	140	0.166
141	141	0.0758
142	142	0.268
143	143	0.604
144	144	0.282
145	145	0.194
146	146	0.32
147	147	0.68
148	148	0.351
149	149	0.699
15	15	0.117
150	150	0.404
151	151	0.262
152	152	0.0878
153	153	0.878
154	154	0.962
155	155	0.242
156	156	0.596
157	157	0.648
158	158	0.439
159	159	0.531
160	160	0.552
161	161	0.45
162	162	0.987
163	163	0.101
164	164	0.0745
165	165	0.409
166	166	0.386
167	167	0.853
168	168	0.807
169	169	0.0155
17	17	0.0921
18	18	0.474
19	19	0.145
2	2	0.503
20	20	0.893
21	21	0.892
22	22	0.286
23	23	0.12
24	24	0.559
25	25	0.494
26	26	0.0113
27	27	0.492
28	28	0.294
29	29	0.199
3	3	0.158
30	30	0.542
31	31	0.622
32	32	0.0673
33	33	0.236
34	34	0.925
35	35	0.309
36	36	0.947
37	37	0.0273
38	38	0.369
39	39	0.47
4	4	0.27
40	40	0.257
41	41	0.507
42	42	0.393
43	43	0.247
44	44	0.216
45	45	0.377
46	46	0.207
47	47	0.283
48	48	0.256
49	49	0.151
5	5	0.338
50	50	0.708
51	51	0.58
52	52	0.187
53	53	0.796
54	54	0.4
55	55	0.489
56	56	0.425
57	57	0.94
58	58	0.27
59	59	0.18
6	6	0.859
60	60	0.0523
61	61	0.378
62	62	0.178
63	63	0.201
64	64	0.555
65	65	0.178
66	66	0.548
67	67	0.353
68	68	0.0108
69	69	0.611
7	7	0.0627
70	70	0.0138
71	71	0.108
72	72	0.543
73	73	0.09
74	74	0.724
75	75	0.0551
76	76	0.988
77	77	0.0692
78	78	0.0577
79	79	0.809
8	8	0.228
80	80	0.972
81	81	0.608
82	82	0.0343
83	83	0.322
84	84	0.173
85	85	0.0528
86	86	0.0511
87	87	0.407
88	88	0.524
89	89	0.267
9	9	0.736
90	90	0.0538
91	91	0.224
92	92	0.206
93	93	0.141
94	94	0.866
95	95	0.188
96	96	0.626
97	97	0.595
98	98	0.371
99	99	0.226

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: CNhs10506

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011436 mouse intestinal mucosa- 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)
0000160 (intestine)
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)
0000467 (anatomical system)
0000060 (anatomical wall)
0001062 (anatomical entity)
0000480 (anatomical group)
0001262 (wall of intestine)
0004786 (gastrointestinal system mucosa)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
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)
0011436 (mouse intestinal mucosa- 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@SAMD00005876
-|accession_numbers=CAGE;DRX008988;DRR009862;DRZ001287;DRZ002670
+|accession_numbers=CAGE;DRX008988;DRR009862;DRZ001287;DRZ002670;DRZ012637;DRZ014020
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000160,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:0000467,UBERON:0000060,UBERON:0001062,UBERON:0000480,UBERON:0001262,UBERON:0004786,UBERON:0010317,UBERON:0001555,UBERON:0005409
 |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!3.03!1081.79!Hnf4g;;chr10:80555320..80555378,-!p1@Creb3l3!2.58!435.82!Creb3l3;;chr1:137155026..137155042,-!p1@Elf3!2.38!1294.25!Elf3;;chr15:97738692..97738747,-!p1@Vdr!2.38!1230.48!Vdr;;chr6:86619104..86619119,-!p1@Mxd1!2.23!1276.08!Mxd1;;chr16:38294860..38294924,-!p1@Nr1i2!2.22!164.22!Nr1i2;;chr2:163372884..163372904,+!p1@Hnf4a!2.21!159.92!Hnf4a;;chr10:88969376..88969395,-!p1@Nr1h4!2.17!147.37!Nr1h4;;chr5:148118639..148118715,-!p1@Cdx2!2.13!132.50!Cdx2;;chr1:173144100..173144138,+!p2@Nr1i3!2.03!105.40!Nr1i3;;chr18:64499674..64499696,+!p1@Onecut2!2.02!173.14!Onecut2;;chr18:64499706..64499721,+!p2@Onecut2!1.98!132.17!Onecut2;;chr8:77396591..77396639,+!p1@Isx!1.97!93.18!Isx;;chr14:63864056..63864102,-!p1@Gata4!1.95!147.70!Gata4;;chr2:163332558..163332596,+!p2@Hnf4a!1.87!73.35!Hnf4a;;chr2:173044380..173044432,-!p1@Zbp1!1.83!154.64!Zbp1;;chr2:180069370..180069409,-!p1@Gata5!1.83!76.99!Gata5;;chr19:5560600..5560617,-!p1@Ovol1!1.82!78.64!Ovol1;;chr2:164228702..164228719,+!p1@Rbpjl!1.79!60.14!Rbpjl;;chr5:148081722..148081744,+!p2@Pdx1!1.76!56.50!Pdx1;;chr3:3508024..3508069,+!p2@Hnf4g!1.71!50.55!Hnf4g;;chr8:77397095..77397127,+!p2@Isx!1.71!49.89!Isx;;chr5:148081686..148081715,+!p1@Pdx1!1.68!47.25!Pdx1;;chr1:165219345..165219366,-!p7@Prrx1!1.67!45.93!Prrx1;;chr5:135582751..135582788,+!p1@Mlxipl!1.65!166.86!Mlxipl;;chr13:31650185..31650201,+!p1@Foxq1!1.64!144.39!Foxq1;;chr8:77397190..77397202,+!p5@Isx!1.64!42.95!Isx;;chr2:173044357..173044377,-!p2@Zbp1!1.62!57.82!Zbp1;;chr8:79426176..79426275,+!p1@Nr3c2!1.61!188.01!Nr3c2;;chr9:31720843..31720888,-!p1@Barx2!1.57!39.98!Barx2;;chr10:80555398..80555409,-!p2@Creb3l3!1.56!35.02!Creb3l3;;chr4:55545337..55545357,-!p1@Klf4!1.55!478.78!Klf4;;chr1:173144144..173144176,+!p1@Nr1i3!1.54!33.70!Nr1i3;;chr11:53583544..53583559,+!p1@Irf1!1.51!494.64!Irf1;;chr6:64679112..64679126,+!p1@Atoh1!1.51!31.06!Atoh1;;chr5:120121020..120121049,+!p1@Tbx3!1.49!177.10!Tbx3;;chr8:77396650..77396662,+!p4@Isx!1.47!28.42!Isx;;chr5:120121446..120121461,+!p2@Tbx3!1.45!86.24!Tbx3;;chr17:87153519..87153533,+!p5@Epas1!1.44!38.66!Epas1;;chr5:144951153..144951203,+!p1@Bhlha15!1.44!38.33!Bhlha15;;chr4:133109285..133109308,+!p1@Nr0b2!1.44!26.76!Nr0b2;;chr14:63890545..63890560,-!p5@Gata4!1.44!26.43!Gata4;;chr4:124805061..124805087,-!p1@Zc3h12a!1.43!77.65!Zc3h12a;;chr19:53384910..53384937,+!p3@Mxi1!1.42!70.38!Mxi1;;chr8:77397492..77397514,+!p3@Isx!1.42!25.11!Isx;;chr6:39068163..39068176,-!p2@Parp12!1.41!45.60!Parp12;;chr9:31720903..31720918,-!p2@Barx2!1.41!24.78!Barx2;;chr5:115421065..115421088,-!p1@Hnf1a!1.41!24.45!Hnf1a;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!1.41!24.45!Ppard;;chr16:55822241..55822258,-!p1@Nfkbiz!1.39!699.50!Nfkbiz;;chr12:86814833..86814846,+!p1@Fos!1.37!496.95!Fos;;chr7:148452314..148452329,-!p1@Irf7!1.37!149.35!Irf7;;chr1:39250584..39250643,+!p1@Npas2!1.37!109.04!Npas2;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!1.37!35.35!Ncoa4;;chr14:63890491..63890516,-!p2@Gata4!1.36!22.14!Gata4;;chr4:148178559..148178603,+!p1@Casz1!1.35!60.14!Casz1;;chr3:89197057..89197114,-!p1@Zbtb7b!1.34!69.72!Zbtb7b;;chr14:99697871..99697934,+!p1@Klf5!1.33!384.94!Klf5;;chr18:11052485..11052508,+!p2@Gata6!1.33!56.50!Gata6;;chr19:5560570..5560582,-!p2@Ovol1!1.30!19.16!Ovol1;;chr2:75543089..75543122,-!p3@Nfe2l2!1.30!19.16!Nfe2l2;;chr17:27865882..27865901,-!p1@Spdef!1.30!18.83!Spdef;;chr5:148081667..148081678,+!p3@Pdx1!1.29!18.50!Pdx1;;chr17:87153505..87153516,+!p6@Epas1!1.28!25.11!Epas1;;chr18:64499879..64499895,+!p3@Onecut2!1.28!17.84!Onecut2;;chr2:166888058..166888105,-!p2@Znfx1!1.27!55.51!Znfx1;;chr2:19367259..19367278,+!p1@Ptf1a!1.27!17.51!Ptf1a;;chr1:194979315..194979359,+!p1@Irf6!1.25!100.12!Irf6;;chr3:3508005..3508021,+!p3@Hnf4g!1.24!16.52!Hnf4g;;chr4:148178459..148178482,+!p4@Casz1!1.24!16.19!Casz1;;chr7:20213752..20213778,-!p2@Relb!1.22!15.53!Relb;;chr14:76887526..76887555,+!p10@Tsc22d1!1.21!15.20!Tsc22d1;;chr18:61195843..61195864,-!p2@Cdx1!1.20!14.87!Cdx1;;chr14:63890519..63890539,-!p3@Gata4!1.19!14.54!Gata4;;chr11:98822047..98822072,+!p9@Rara!1.18!14.21!Rara;;chr8:118231678..118231692,-!p2@Maf!1.17!122.92!Maf;;chr18:36441119..36441158,+!p2@Pura!1.17!33.70!Pura;;chr11:98636400..98636418,-!p4@Nr1d1!1.17!18.17!Nr1d1;;chr8:77397169..77397182,+!p7@Isx!1.17!13.88!Isx;;chr7:20408047..20408125,-!p1@Bcl3!1.16!150.01!Bcl3;;chr4:148178529..148178548,+!p3@Casz1!1.16!31.39!Casz1;;chr7:19608891..19608895,-!p1@Foxa3!1.16!17.51!Foxa3;;chr19:53384985..53385042,+!p1@Mxi1!1.14!388.90!Mxi1;;chr6:39068181..39068206,-!p3@Parp12!1.12!25.11!Parp12;;chr9:31721051..31721068,-!p3@Barx2!1.11!11.90!Barx2;;chr2:160192793..160192809,-!p1@Mafb!1.10!173.80!Mafb;;chr6:52664439..52664461,+!p4@Tax1bp1!1.10!11.56!Tax1bp1;;chr2:79296783..79296801,-!p1@Neurod1!1.10!11.56!Neurod1;;chr10:80555299..80555306,-!p3@Creb3l3!1.10!11.56!Creb3l3;;chr6:115311132..115311147,+!p9@Pparg!1.09!11.23!Pparg;;chr2:24278519..24278530,-!p3@Pax8!1.09!11.23!Pax8;;chr6:115311030..115311065,+!p4@Pparg!1.08!15.86!Pparg;;chr4:55545051..55545110,-!p2@Klf4!1.07!13.55!Klf4;;chr6:37391910..37391928,-!p3@Creb3l2!1.07!12.23!Creb3l2;;chr12:78063146..78063159,-!p2@Max!1.06!27.42!Max;;chr5:120120981..120120992,+!p5@Tbx3!1.06!13.88!Tbx3;;chr2:163372869..163372882,+!p3@Hnf4a!1.06!10.57!Hnf4a;;chr11:70500401..70500460,-!p3@Camta2!1.06!10.57!Camta2;;chr17:28409136..28409150,+!p3@Ppard!1.06!10.57!Ppard;;chr5:148118840..148118857,-!p2@Cdx2!1.05!10.24!Cdx2;;chr3:94176733..94176794,+!p1@Rorc!1.04!77.98!Rorc;;chr12:85657780..85657815,+!p2@Zfp410!1.04!26.43!Zfp410;;chr11:98614335..98614349,+!p8@Thra!1.04!9.91!Thra;;chr2:180069410..180069421,-!p3@Gata5!1.04!9.91!Gata5;;chr19:6996243..6996293,-!p1@Esrra!1.03!108.71!Esrra;;chr8:124806048..124806094,+!p1@Zfpm1!1.02!87.23!Zfpm1;;chr4:154010918..154010931,-!p1@Prdm16!1.02!28.09!Prdm16;;chr13:31650026..31650045,+!p2@Foxq1!1.02!16.19!Foxq1;;chr6:52664406..52664434,+!p3@Tax1bp1!1.02!11.56!Tax1bp1;;chr14:76887566..76887579,+!p18@Tsc22d1!1.02!9.58!Tsc22d1;;chr19:6164433..6164446,+!p2@Batf2!1.02!9.58!Batf2;;chr2:180069640..180069660,-!p4@Gata5!1.02!9.58!Gata5;;chr4:94718861..94718872,-!p2@Jun!1.01!70.38!Jun;;chr4:134676555..134676575,+!p2@Runx3!1.01!9.25!Runx3;;chr11:98636531..98636559,-!p1@Nr1d1!1.00!52.54!Nr1d1;;chr11:53164556..53164567,+!p5@Aff4!1.00!14.54!Aff4;;chr1:194979361..194979373,+!p2@Irf6!1.00!12.23!Irf6;;chr5:65194752..65194769,+!p1@Klf3!0.99!298.37!Klf3;;chr5:120121169..120121171,+!p4@Tbx3!0.99!15.86!Tbx3;;chr6:39068210..39068251,-!p1@Parp12!0.98!40.64!Parp12;;chr2:70313168..70313184,+!p1@Sp5!0.98!12.89!Sp5;;chr10:80555285..80555291,-!p4@Creb3l3!0.98!8.59!Creb3l3;;chr2:180069423..180069434,-!p2@Gata5!0.98!8.59!Gata5;;chr10:44178521..44178557,-!p1@Prdm1!0.97!15.20!Prdm1;;chr8:123260252..123260264,+!p1@Irf8!0.96!59.14!Irf8;;chr4:148275237..148275311,+!p2@Casz1!0.96!34.69!Casz1;;chr8:79423144..79423178,+!p3@Nr3c2!0.95!11.23!Nr3c2;;chr5:32438831..32438878,+!p1@Fosl2!0.93!80.29!Fosl2;;chr8:47825166..47825178,+!p2@Irf2!0.92!11.56!Irf2;;chr8:124806111..124806122,+!p3@Zfpm1!0.92!9.25!Zfpm1;;chr11:98636373..98636387,-!p5@Nr1d1!0.92!8.59!Nr1d1;;chrX:7339938..7339963,+!p1@Tfe3!0.91!37.34!Tfe3;;chr5:115421126..115421137,-!p4@Hnf1a!0.90!6.94!Hnf1a;;chr14:63890459..63890484,-!p4@Gata4!0.90!6.94!Gata4;;chr8:118231705..118231722,-!p3@Maf!0.89!56.17!Maf;;chr2:133377954..133377973,+!p1@Bmp2!0.89!22.47!Bmp2;;chr1:133904946..133904974,+!p7@Elk4!0.89!10.57!Elk4;;chr1:87546583..87546595,+!p1@Sp100!0.89!9.91!Sp100;;chr7:134519473..134519502,-!p3@Zfp747!0.89!9.25!Zfp747;;chr8:87502608..87502623,-!p1@Junb!0.88!113.33!Junb;;chr1:135320989..135321043,-!p1@Sox13!0.88!76.00!Sox13;;chr8:72663098..72663160,-!p2@LOC100048268,p2@Rfxank!0.88!34.69!Rfxank;;chr1:52065508..52065522,+!p2@Stat4!0.88!7.93!Stat4;;chr18:11052456..11052477,+!p3@Gata6!0.87!20.82!Gata6;;chr4:87452180..87452196,-!p3@Mllt3!0.87!13.22!Mllt3;;chr11:98822081..98822092,+!p14@Rara!0.86!6.28!Rara;;chr5:148118792..148118806,-!p3@Cdx2!0.86!6.28!Cdx2;;chr6:86619130..86619158,-!p2@Mxd1!0.85!93.84!Mxd1;;chr5:104183219..104183236,+!p2@Aff1!0.85!44.28!Aff1;;chr10:80600749..80600766,+!p2@Zbtb7a!0.85!33.37!Zbtb7a;;chr3:89197551..89197606,-!p2@Zbtb7b!0.85!21.81!Zbtb7b;;chr5:120121091..120121100,+!p7@Tbx3!0.85!7.27!Tbx3;;chr2:75542527..75542590,-!p1@Nfe2l2!0.84!558.08!Nfe2l2;;chr11:96976641..96976646,-!p1@Tbx21!0.84!5.95!Tbx21;;chr1:193007123..193007139,-!p1@Atf3!0.83!34.36!Atf3;;chr11:53164533..53164548,+!p4@Aff4!0.83!17.84!Aff4;;chr2:77357622..77357704,-!p1@Zfp385b!0.83!16.52!Zfp385b;;chr10:127095407..127095440,+!p3@Stat6!0.83!7.27!Stat6;;chr18:11052642..11052659,+!p1@Gata6!0.82!30.07!Gata6;;chr13:30076280..30076334,-!p3@E2f3!0.82!17.84!E2f3;;chr3:89197216..89197258,-!p3@Zbtb7b!0.82!12.23!Zbtb7b;;chr11:100948597..100948637,+!p1@Mlx!0.81!141.42!Mlx;;chr1:52176315..52176343,+!p1@Stat1!0.81!84.92!Stat1;;chr17:87153462..87153473,+!p3@Epas1!0.81!21.81!Epas1;;chr10:44178493..44178520,-!p3@Prdm1!0.80!7.60!Prdm1;;chr8:47825203..47825225,+!p3@Irf2!0.80!7.27!Irf2;;chr5:32438894..32438908,+!p2@Fosl2!0.79!11.56!Fosl2;;chr10:44178375..44178390,-!p2@Prdm1!0.79!7.27!Prdm1;;chr10:88996336..88996380,-!p2@Nr1h4!0.79!6.61!Nr1h4;;chr2:91035254..91035271,-!p3@Nr1h3!0.79!6.61!Nr1h3;;chr4:43575544..43575565,+!p2@Creb3!0.77!31.06!Creb3;;chr4:55545152..55545194,-!p3@Klf4!0.77!5.95!Klf4;;chr18:61195865..61195880,-!p1@Cdx1!0.77!4.96!Cdx1;;chr13:5860776..5860796,+!p1@Klf6!0.76!127.87!Klf6;;chr17:28369739..28369774,+!p2@Ppard!0.76!16.19!Ppard;;chr18:11052606..11052633,+!p4@Gata6!0.76!12.89!Gata6;;chr3:30993974..30994045,+!p1@Skil!0.75!144.39!Skil;;chr8:72519989..72520007,-!p5@Gatad2a!0.75!24.78!Gatad2a;;chr9:111020710..111020721,+!p2@Lrrfip2!0.75!5.29!Lrrfip2;;chr11:98407264..98407295,-!p1@Ikzf3!0.75!4.63!Ikzf3;;chr1:194982959..194983007,+!p5@Irf6!0.75!4.63!Irf6;;chr19:55816300..55816332,+!p1@Tcf7l2!0.74!234.93!Tcf7l2;;chr18:75527009..75527027,+!p1@Smad7!0.74!105.07!Smad7;;chr19:10315179..10315241,-!p1@Gm98!0.74!51.88!Gm98;;chr19:6996294..6996324,-!p2@Esrra!0.74!33.04!Esrra;;chr4:63064364..63064384,-!p1@Akna!0.74!14.21!Akna;;chr5:120120667..120120685,+!p3@Tbx3!0.74!9.25!Tbx3;;chr5:77543897..77543911,-!p2@Hopx!0.74!9.25!Hopx;;chr5:76733981..76734018,-!p3@Clock!0.73!9.91!Clock;;chr15:85566014..85566045,+!p3@Ppara!0.73!6.28!Ppara;;chr17:21625946..21626024,+!p1@Zfp53!0.72!52.21!Zfp53;;chr11:98822093..98822104,+!p16@Rara!0.72!4.30!Rara;;chr5:138187195..138187255,+!p1@Tsc22d4!0.71!200.23!Tsc22d4;;chr19:55816770..55816793,+!p2@Tcf7l2!0.71!40.31!Tcf7l2;;chr15:85566051..85566080,+!p4@Ppara!0.71!4.96!Ppara;;chr12:78063165..78063227,-!p1@Max!0.70!384.94!Max;;chr2:27532754..27532815,+!p1@Rxra!0.70!132.50!Rxra;;chr3:87329494..87329565,+!p1@Etv3!0.70!68.73!Etv3;;chr7:120351014..120351109,+!p1@Arntl!0.70!63.11!Arntl;;chr17:28369668..28369734,+!p1@Ppard!0.70!41.30!Ppard;;chr1:135320962..135320981,-!p2@Sox13!0.70!14.87!Sox13;;chr1:52065530..52065548,+!p3@Stat4!0.70!3.97!Stat4;;chr5:138526401..138526410,+!p3@Zkscan1!0.70!3.97!Zkscan1;;chr7:29551488..29551529,-!p1@Nfkbib!0.69!143.40!Nfkbib;;chr1:92949999..92950097,+!p1@Lrrfip1!0.69!118.95!Lrrfip1;;chr3:87329568..87329589,+!p2@Etv3!0.69!5.62!Etv3;;chr12:56593574..56593592,-!p1@Nfkbia!0.68!227.66!Nfkbia;;chr8:47825107..47825145,+!p1@Irf2!0.68!176.44!Irf2;;chr1:133904901..133904934,+!p3@Elk4!0.68!12.23!Elk4;;chr5:120121262..120121282,+!p6@Tbx3!0.68!4.30!Tbx3;;chr6:52663725..52663794,+!p1@Tax1bp1!0.67!642.33!Tax1bp1;;chr4:94718879..94718898,-!p1@Jun!0.67!307.29!Jun;;chr18:75527030..75527055,+!p2@Smad7!0.67!26.43!Smad7;;chr7:134519511..134519534,-!p2@Zfp747!0.67!7.27!Zfp747;;chr12:113917014..113917034,+!p1@Zbtb42!0.67!6.94!Zbtb42;;chr10:80598209..80598236,+!p4@Zbtb7a!0.67!6.61!Zbtb7a;;chr11:98407234..98407259,-!p2@Ikzf3!0.67!3.63!Ikzf3;;chr18:11052516..11052525,+!p5@Gata6!0.67!3.63!Gata6;;chr2:75543070..75543079,-!p7@Nfe2l2!0.67!3.63!Nfe2l2;;chr5:77524250..77524300,-!p1@Hopx!0.66!84.59!Hopx;;chr4:154010940..154010962,-!p3@Prdm16!0.66!8.59!Prdm16;;chr2:103143336..103143367,-!p1@Ehf!0.66!6.28!Ehf;;chr1:13364477..13364492,-!p6@Ncoa2!0.66!4.63!Ncoa2;;chr10:127080031..127080090,+!p1@Stat6!0.65!88.22!Stat6;;chr5:104121453..104121479,+!p4@Aff1!0.65!18.17!Aff1;;chr4:87452200..87452229,-!p2@Mllt3!0.65!8.26!Mllt3;;chr2:91035197..91035237,-!p1@Nr1h3!0.65!7.93!Nr1h3;;chr10:44178474..44178487,-!p4@Prdm1!0.65!5.29!Prdm1;;chr6:108610610..108610676,+!p1@Bhlhe40!0.64!192.30!Bhlhe40;;chr7:35841486..35841575,-!p1@Cebpg!0.64!101.44!Cebpg;;chr10:80599279..80599353,+!p1@Zbtb7a!0.64!71.37!Zbtb7a;;chr8:124806017..124806040,+!p2@Zfpm1!0.64!43.28!Zfpm1;;chr2:181022663..181022712,-!p1@Gmeb2!0.64!41.30!Gmeb2;;chr1:52065454..52065495,+!p1@Stat4!0.64!5.95!Stat4;;chr14:32973087..32973175,+!p1@Gm6768,p1@Ncoa4!0.63!264.00!Ncoa4;;chr8:118231723..118231740,-!p1@Maf!0.63!86.24!Maf;;chr8:81552152..81552208,+!p1@Zfp827!0.63!27.76!Zfp827;;chr19:55816414..55816425,+!p4@Tcf7l2!0.63!19.83!Tcf7l2;;chr4:102792072..102792091,+!p5@Mier1!0.63!9.91!Mier1;;chr5:140267510..140267555,+!p2@Mafk!0.63!8.59!Mafk;;chr16:55822638..55822669,-!p3@Nfkbiz!0.63!5.29!Nfkbiz;;chr3:90046995..90047031,-!p2@Creb3l4!0.63!4.30!Creb3l4;;chr14:56223387..56223401,+!p3@Irf9!0.63!3.97!Irf9;;chr5:108155007..108155034,-!p1@Gfi1!0.63!3.30!Gfi1;;chr5:108155037..108155060,-!p2@Gfi1!0.63!3.30!Gfi1;;chr11:98407370..98407395,-!p3@Ikzf3!0.63!3.30!Ikzf3;;chr9:74709695..74709722,+!p1@Onecut1!0.63!3.30!Onecut1;;chr9:31720746..31720762,-!p4@Barx2!0.63!3.30!Barx2;;chr1:138857048..138857071,-!p2@Nr5a2!0.63!3.30!Nr5a2;;chr1:138857076..138857105,-!p1@Nr5a2!0.63!3.30!Nr5a2;;chr19:55816398..55816409,+!p5@Tcf7l2!0.62!17.51!Tcf7l2;;chr13:59924433..59924504,-!p1@Zcchc6!0.61!82.94!Zcchc6;;chr7:19895384..19895399,-!p2@Fosb!0.61!4.63!Fosb;;chr5:104182694..104182724,+!p8@Aff1!0.61!3.97!Aff1;;chr14:79880971..79880992,+!p2@Elf1!0.60!46.59!Elf1;;chr4:135728581..135728668,+!p1@E2f2!0.60!16.85!E2f2;;chr11:62272010..62272050,-!p2@Ncor1!0.60!11.23!Ncor1;;chrX:7339915..7339935,+!p4@Tfe3!0.60!7.60!Tfe3;;chr11:53583960..53584007,+!p2@Irf1!0.60!7.27!Irf1;;chr11:70501599..70501634,-!p2@Camta2,p2@LOC100048818!0.60!6.94!Camta2;;chr8:77397026..77397036,+!p6@Isx!0.60!2.97!Isx;;chr17:28409059..28409076,+!p6@Ppard!0.60!2.97!Ppard;;chr5:148118614..148118625,-!p4@Cdx2!0.60!2.97!Cdx2;;chr3:89191265..89191276,-!p16@Zbtb7b!0.60!2.97!Zbtb7b;;chr4:151533683..151533698,+!p1@Hes2!0.60!2.97!Hes2;;chr16:91044718..91044765,-!p2@Gcfc1!0.59!61.79!Gcfc1;;chr7:134488857..134488914,-!p1@Zfp768!0.59!47.25!Zfp768;;chr16:87699237..87699279,+!p1@Bach1!0.59!36.68!Bach1;;chr14:52634651..52634678,-!p7@Zfp219!0.59!4.96!Zfp219;;chr8:118231350..118231385,-!p7@Maf!0.59!4.63!Maf;;chr11:62270791..62270834,-!p1@Ncor1!0.58!173.80!Ncor1;;chr5:46248712..46248750,-!p1@Lcorl!0.58!51.88!Lcorl;;chr10:80813050..80813114,-!p2@Hmg20b!0.58!37.01!Hmg20b;;chr10:127707602..127707633,+!p1@Stat2!0.58!30.40!Stat2;;chr2:48805015..48805042,+!p2@Mbd5!0.58!20.16!Mbd5;;chr4:124805092..124805135,-!p2@Zc3h12a!0.58!14.21!Zc3h12a;;chr3:30993616..30993634,+!p3@Skil!0.58!5.62!Skil;;chr11:98636508..98636524,-!p3@Nr1d1!0.5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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs10506
-|library_id_phase_based=1:CNhs10506
+|library_id_phase_based=2:CNhs10506
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;860
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;860
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestinal%2520mucosa%252c%2520adult.CNhs10506.860-29I3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/intestinal%2520mucosa%252c%2520adult.CNhs10506.860-29I3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestinal%2520mucosa%252c%2520adult.CNhs10506.860-29I3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestinal%2520mucosa%252c%2520adult.CNhs10506.860-29I3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/intestinal%2520mucosa%252c%2520adult.CNhs10506.860-29I3.mm9.nobarcode.rdna.fa.gz
 |name=intestinal mucosa, adult
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10506,LSID648,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.269692019967593,0,0,0,0,0.088009253895338,-0.050429478174723,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,-0.191893350882575,0,0,0,0,0,0,0.423588899072447,0,0,0,0,0,0,0.107590084639488,0,0.123988367667141,0,0,0,0.321538736399451,-0.099944033489816,-0.0830800896309636,-0.984211366477826,-0.269868638010351,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,0.123988367667141,0,-0.0687023816172165,0,0.123988367667141,0,-0.117389802908326,-0.186662289672246,-0.158091042771083,-0.104094974270439,0,0,-0.0410515226527768,0,0.123988367667141,0.0619941838335705,-0.038988781245974,0.114340283598509,0.604630443832122,0.141495564611166,0,0,0,0,0,0.123988367667141,0.361215496636838,0.379434968770596,0.222741909998765,0,0,0,0,0
@@ 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=table111:860-29I3;search_select_hide=table117:860-29I3
 }}

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FF:860-29I3: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:21, 4 June 2020

CNhs10506

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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