FF:1287-20I6: Difference between revisions

Revision as of 21:56, 10 August 2017

Name:	lung, embryo E18
Species:	Mouse (Mus musculus)
Library ID:	CNhs10583
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link

Additional information

Sample information

strain	C57BL/6J
tissue	lung
dev stage	18 days embryo
sex	mixture
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		SAMD00005648

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10583		CAGE		DRX009036		DRR009910

Accession ID Mm9

Library id		BAM		CTSS
CNhs10583		DRZ001335		DRZ002718

Accession ID Mm10

Library id		BAM		CTSS
CNhs10583		DRZ012685		DRZ014068

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

CNhs10583

0	0
1	0
10	0
100	0
1000	0.0454
1001	0.0496
1002	-0.0137
1003	0.0821
1004	0
1005	0.0927
1006	0
1007	0.0808
1008	0
1009	0.307
101	-0.0911
1010	0
1011	-0.0539
1012	0
1013	0.0161
1014	0.0927
1015	-0.0607
1016	0.148
1017	0
1018	0.171
1019	0
102	0
1020	0.0927
1021	-0.0487
1022	0.0726
1023	0
1024	0.542
1025	1.051
1026	0
1027	0
1028	0
1029	0.0864
103	0.0966
1030	0
1031	0.437
1032	-0.0838
1033	0
1034	0.299
1035	0
1036	-0.183
1037	0
1038	0.427
1039	-0.0359
104	0
1040	0.397
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: CNhs10583

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.0905
MA0003.1	MA0003.1	0.0712
MA0004.1	MA0004.1	0.0199
MA0006.1	MA0006.1	0.0497
MA0007.1	MA0007.1	0.31
MA0009.1	MA0009.1	0.953
MA0014.1	MA0014.1	0.736
MA0017.1	MA0017.1	8.57076e-4
MA0018.2	MA0018.2	0.00816
MA0019.1	MA0019.1	0.583
MA0024.1	MA0024.1	0.122
MA0025.1	MA0025.1	0.209
MA0027.1	MA0027.1	0.802
MA0028.1	MA0028.1	0.0618
MA0029.1	MA0029.1	0.808
MA0030.1	MA0030.1	0.00228
MA0031.1	MA0031.1	0.00284
MA0035.2	MA0035.2	0.0647
MA0038.1	MA0038.1	0.187
MA0039.2	MA0039.2	0.00408
MA0040.1	MA0040.1	0.442
MA0041.1	MA0041.1	0.945
MA0042.1	MA0042.1	0.78
MA0043.1	MA0043.1	0.912
MA0046.1	MA0046.1	0.458
MA0047.2	MA0047.2	2.05155e-10
MA0048.1	MA0048.1	0.653
MA0050.1	MA0050.1	0.0531
MA0051.1	MA0051.1	0.0475
MA0052.1	MA0052.1	0.0213
MA0055.1	MA0055.1	0.215
MA0057.1	MA0057.1	0.575
MA0058.1	MA0058.1	0.00511
MA0059.1	MA0059.1	3.38948e-5
MA0060.1	MA0060.1	0.7
MA0061.1	MA0061.1	0.761
MA0062.2	MA0062.2	0.0196
MA0065.2	MA0065.2	0.0397
MA0066.1	MA0066.1	0.0266
MA0067.1	MA0067.1	0.329
MA0068.1	MA0068.1	0.279
MA0069.1	MA0069.1	0.317
MA0070.1	MA0070.1	0.318
MA0071.1	MA0071.1	0.0089
MA0072.1	MA0072.1	0.201
MA0073.1	MA0073.1	0.822
MA0074.1	MA0074.1	0.433
MA0076.1	MA0076.1	0.0651
MA0077.1	MA0077.1	0.437
MA0078.1	MA0078.1	0.0256
MA0079.2	MA0079.2	0.0108
MA0080.2	MA0080.2	0.105
MA0081.1	MA0081.1	0.729
MA0083.1	MA0083.1	3.18959e-4
MA0084.1	MA0084.1	0.684
MA0087.1	MA0087.1	0.278
MA0088.1	MA0088.1	0.45
MA0090.1	MA0090.1	0.00452
MA0091.1	MA0091.1	0.151
MA0092.1	MA0092.1	0.85
MA0093.1	MA0093.1	0.0281
MA0099.2	MA0099.2	0.0706
MA0100.1	MA0100.1	0.972
MA0101.1	MA0101.1	0.789
MA0102.2	MA0102.2	0.191
MA0103.1	MA0103.1	0.372
MA0104.2	MA0104.2	2.1977e-4
MA0105.1	MA0105.1	0.27
MA0106.1	MA0106.1	0.316
MA0107.1	MA0107.1	0.147
MA0108.2	MA0108.2	0.031
MA0111.1	MA0111.1	0.989
MA0112.2	MA0112.2	0.195
MA0113.1	MA0113.1	0.623
MA0114.1	MA0114.1	2.53942e-4
MA0115.1	MA0115.1	0.0152
MA0116.1	MA0116.1	0.299
MA0117.1	MA0117.1	0.0724
MA0119.1	MA0119.1	0.1
MA0122.1	MA0122.1	0.0935
MA0124.1	MA0124.1	0.302
MA0125.1	MA0125.1	0.728
MA0131.1	MA0131.1	0.335
MA0135.1	MA0135.1	0.12
MA0136.1	MA0136.1	0.896
MA0137.2	MA0137.2	0.93
MA0138.2	MA0138.2	0.277
MA0139.1	MA0139.1	0.473
MA0140.1	MA0140.1	0.668
MA0141.1	MA0141.1	5.19195e-7
MA0142.1	MA0142.1	0.349
MA0143.1	MA0143.1	0.952
MA0144.1	MA0144.1	0.614
MA0145.1	MA0145.1	0.00244
MA0146.1	MA0146.1	0.309
MA0147.1	MA0147.1	1.90183e-5
MA0148.1	MA0148.1	7.79001e-9
MA0149.1	MA0149.1	0.555
MA0150.1	MA0150.1	0.00223
MA0152.1	MA0152.1	0.907
MA0153.1	MA0153.1	0.853
MA0154.1	MA0154.1	0.279
MA0155.1	MA0155.1	0.089
MA0156.1	MA0156.1	0.237
MA0157.1	MA0157.1	0.0344
MA0159.1	MA0159.1	0.0183
MA0160.1	MA0160.1	0.00573
MA0162.1	MA0162.1	0.407
MA0163.1	MA0163.1	0.105
MA0164.1	MA0164.1	0.388
MA0258.1	MA0258.1	0.0171
MA0259.1	MA0259.1	0.0933

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: CNhs10583

Novel motif	Logo	P-value
1	1	0.115
10	10	0.108
100	100	0.408
101	101	0.671
102	102	0.914
103	103	0.633
104	104	0.886
105	105	0.706
106	106	0.131
107	107	0.0757
108	108	0.998
109	109	0.989
11	11	0.211
110	110	0.713
111	111	0.169
112	112	0.442
113	113	0.731
114	114	0.429
115	115	0.513
116	116	0.826
117	117	0.0155
118	118	0.406
119	119	0.51
12	12	0.379
120	120	0.07
121	121	0.337
122	122	0.999
123	123	0.747
124	124	0.582
125	125	0.528
126	126	0.847
127	127	0.585
128	128	0.266
129	129	0.819
13	13	0.0198
130	130	0.0199
131	131	0.0286
132	132	0.48
133	133	0.775
134	134	0.399
135	135	0.849
136	136	0.0309
137	137	0.84
138	138	0.243
139	139	0.187
14	14	0.759
140	140	0.141
141	141	0.454
142	142	0.752
143	143	0.185
144	144	0.904
145	145	0.746
146	146	0.966
147	147	0.554
148	148	0.225
149	149	0.131
15	15	0.344
150	150	0.165
151	151	0.465
152	152	0.0133
153	153	0.486
154	154	0.471
155	155	0.962
156	156	0.00831
157	157	0.655
158	158	0.655
159	159	0.187
160	160	0.233
161	161	0.647
162	162	0.428
163	163	0.715
164	164	0.93
165	165	0.697
166	166	0.346
167	167	0.0106
168	168	0.988
169	169	0.143
17	17	0.645
18	18	0.00152
19	19	0.243
2	2	0.0918
20	20	0.358
21	21	0.931
22	22	0.216
23	23	0.366
24	24	0.374
25	25	0.0975
26	26	0.385
27	27	0.895
28	28	0.981
29	29	0.25
3	3	0.549
30	30	0.374
31	31	0.325
32	32	0.085
33	33	0.72
34	34	0.635
35	35	0.0024
36	36	0.372
37	37	0.552
38	38	0.685
39	39	0.25
4	4	0.484
40	40	0.702
41	41	0.409
42	42	0.686
43	43	0.901
44	44	0.0291
45	45	0.107
46	46	0.276
47	47	0.261
48	48	0.22
49	49	0.151
5	5	0.746
50	50	0.228
51	51	0.798
52	52	0.121
53	53	0.632
54	54	0.804
55	55	0.688
56	56	0.966
57	57	0.261
58	58	0.786
59	59	0.202
6	6	0.748
60	60	0.253
61	61	0.654
62	62	0.294
63	63	0.732
64	64	0.232
65	65	0.876
66	66	0.317
67	67	0.949
68	68	0.225
69	69	0.361
7	7	0.772
70	70	0.0552
71	71	0.441
72	72	0.272
73	73	0.343
74	74	0.993
75	75	0.146
76	76	0.413
77	77	0.341
78	78	0.221
79	79	0.977
8	8	0.125
80	80	0.503
81	81	0.0573
82	82	0.763
83	83	0.262
84	84	0.712
85	85	0.812
86	86	0.918
87	87	0.963
88	88	0.779
89	89	0.752
9	9	0.463
90	90	8.62297e-4
91	91	0.851
92	92	0.254
93	93	0.992
94	94	0.0403
95	95	0.507
96	96	0.0792
97	97	0.723
98	98	0.722
99	99	0.466

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: CNhs10583

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011513 mouse lung- embryo E18 sample

part_of relathionship
UBERON:0000170 pair of lungs

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)
0000922 (embryo)
0002048 (lung)
0002100 (trunk)
0000479 (tissue)
0004119 (endoderm-derived structure)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004111 (anatomical conduit)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000025 (tube)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0005178 (thoracic cavity element)
0005177 (trunk region element)
0000117 (respiratory tube)
0000171 (respiration organ)
0000464 (anatomical space)
0005181 (thoracic segment organ)
0010317 (germ layer / neural crest derived structure)
0000065 (respiratory tract)
0000170 (pair of lungs)
0001004 (respiratory system)
0002224 (thoracic cavity)
0000915 (thoracic segment of trunk)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000302 (mouse embryonic day 18 sample)
0011513 (mouse lung- embryo E18 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:0001041 (foregut)
UBERON:0008947 (respiratory primordium)
UBERON:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005648
+|accession_numbers=CAGE;DRX009036;DRR009910;DRZ001335;DRZ002718;DRZ012685;DRZ014068
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002048,UBERON:0002100,UBERON:0000479,UBERON:0004119,UBERON:0000466,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000025,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0009569,UBERON:0005178,UBERON:0005177,UBERON:0000117,UBERON:0000171,UBERON:0000464,UBERON:0005181,UBERON:0010317,UBERON:0000065,UBERON:0000170,UBERON:0001004,UBERON:0002224,UBERON:0000915
 |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=chr10:22539932..22539956,-!p1@Tcf21!2.31!516.32!Tcf21;;chr11:85699862..85699920,+!p1@Tbx4!2.05!110.69!Tbx4;;chr5:77543897..77543911,-!p2@Hopx!2.02!192.10!Hopx;;chr2:103264213..103264233,+!p1@Elf5!1.82!65.70!Elf5;;chr12:57636034..57636087,-!p1@Nkx2-1!1.80!62.61!Nkx2-1;;chr12:57636178..57636194,-!p2@Nkx2-1!1.69!48.32!Nkx2-1;;chr12:57636220..57636236,-!p3@Nkx2-1!1.64!43.09!Nkx2-1;;chr7:17647736..17647772,-!p1@Hif3a!1.61!136.64!Hif3a;;chr8:123608252..123608268,+!p1@Foxf1a!1.59!55.94!Foxf1a;;chr13:72101161..72101177,-!p2@Irx1!1.56!48.32!Irx1;;chr2:180069370..180069409,-!p1@Gata5!1.54!39.52!Gata5;;chr12:57636240..57636256,-!p4@Nkx2-1!1.53!33.09!Nkx2-1;;chr11:116196664..116196679,-!p1@Foxj1!1.52!49.04!Foxj1;;chr12:37835141..37835194,+!p1@Meox2!1.45!81.65!Meox2;;chr11:85646303..85646329,+!p1@Tbx2!1.40!154.49!Tbx2;;chr12:37835120..37835133,+!p2@Meox2!1.38!32.85!Meox2;;chr13:72766250..72766273,+!p1@Irx2!1.35!32.85!Irx2;;chr12:58646974..58647003,-!p1@Foxa1!1.35!28.80!Foxa1;;chr13:72766279..72766296,+!p2@Irx2!1.29!27.61!Irx2;;chr2:147871627..147871641,-!p1@Foxa2!1.29!18.57!Foxa2;;chr13:31717548..31717596,+!p1@Foxf2!1.25!32.85!Foxf2;;chr6:52154414..52154462,-!p1@Hoxa5!1.24!22.61!Hoxa5;;chr9:24578720..24578735,-!p1@Tbx20!1.21!15.23!Tbx20;;chr6:52154386..52154407,-!p2@Hoxa5!1.20!18.81!Hoxa5;;chr11:85646263..85646278,+!p2@Tbx2!1.19!36.42!Tbx2;;chr18:52775562..52775650,+!p1@Zfp474!1.19!14.52!Zfp474;;chr5:77524250..77524300,-!p1@Hopx!1.18!279.46!Hopx;;chr2:103264245..103264268,+!p2@Elf5!1.18!14.04!Elf5;;chr18:53623836..53623839,+!p1@Prdm6!1.16!15.71!Prdm6;;chr9:48644037..48644067,-!p2@Zbtb16!1.15!33.09!Zbtb16;;chr8:94881733..94881790,+!p1@Irx5!1.15!25.71!Irx5;;chr13:72101178..72101203,-!p1@Irx1!1.15!20.47!Irx1;;chr1:137155026..137155042,-!p1@Elf3!1.13!72.60!Elf3;;chr6:14851440..14851497,+!p2@Foxp2!1.13!30.23!Foxp2;;chr8:94325321..94325366,-!p1@Irx3!1.13!29.99!Irx3;;chr3:30408674..30408716,-!p2@Mecom!1.13!20.71!Mecom;;chr11:85646341..85646352,+!p3@Tbx2!1.10!22.85!Tbx2;;chr11:85703483..85703508,+!p2@Tbx4!1.10!11.66!Tbx4;;chr12:57637732..57637777,-!p5@Nkx2-1!1.09!11.43!Nkx2-1;;chr5:77543935..77543947,-!p4@Hopx!1.09!11.19!Hopx;;chr8:94325814..94325839,-!p2@Irx3!1.08!23.09!Irx3;;chr6:128250380..128250442,-!p2@Tead4!1.08!14.04!Tead4;;chr13:72101141..72101158,-!p3@Irx1!1.07!13.33!Irx1;;chr1:4483679..4483695,-!p1@Sox17!1.06!49.28!Sox17;;chr5:77524231..77524245,-!p3@Hopx!1.02!24.04!Hopx;;chr15:81633203..81633215,+!p3@Tef!1.02!15.00!Tef;;chr8:94325486..94325510,-!p4@Irx3!1.02!12.62!Irx3;;chr1:4486453..4486470,-!p3@Sox17!1.01!12.14!Sox17;;chr11:83664365..83664383,+!p1@Hnf1b!1.01!9.28!Hnf1b;;chr12:37835248..37835260,+!p4@Meox2!1.00!9.05!Meox2;;chr15:81633165..81633188,+!p2@Tef!0.99!73.79!Tef;;chr6:14853484..14853504,+!p14@Foxp2!0.99!8.81!Foxp2;;chr12:37835203..37835218,+!p3@Meox2!0.98!10.24!Meox2;;chr16:22439654..22439676,-!p2@Etv5!0.97!51.18!Etv5;;chr5:120285144..120285160,+!p1@Tbx5!0.96!8.09!Tbx5;;chr14:64562503..64562524,+!p1@Sox7!0.93!46.18!Sox7;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.93!13.09!Hoxb2;;chr2:167363692..167363710,+!p1@Snai1!0.92!93.08!Snai1;;chr16:15887371..15887385,+!p1@Cebpd!0.91!252.33!Cebpd;;chr18:11052642..11052659,+!p1@Gata6!0.89!35.47!Gata6;;chr14:99697871..99697934,+!p1@Klf5!0.88!138.78!Klf5;;chr5:120120667..120120685,+!p3@Tbx3!0.87!12.62!Tbx3;;chr1:4486481..4486501,-!p2@Sox17!0.87!9.76!Sox17;;chr10:12810631..12810649,+!p1@Plagl1!0.86!174.01!Plagl1;;chr16:14705961..14705978,+!p2@Snai2!0.86!30.95!Snai2;;chr2:77357622..77357704,-!p1@Zfp385b!0.86!17.62!Zfp385b;;chr5:98609885..98609900,+!p1@Prdm8!0.86!6.19!Prdm8;;chr6:14851403..14851422,+!p8@Foxp2!0.86!6.19!Foxp2;;chr2:181406327..181406350,-!p1@Sox18!0.84!194.72!Sox18;;chr18:11052606..11052633,+!p4@Gata6!0.84!15.71!Gata6;;chr12:57637700..57637717,-!p9@Nkx2-1!0.84!5.95!Nkx2-1;;chr6:88148650..88148669,+!p1@Gata2!0.83!51.89!Gata2;;chr14:98568971..98569025,-!p1@Dach1!0.83!47.61!Dach1;;chr3:8666963..8666978,-!p1@Hey1!0.83!39.75!Hey1;;chr9:48644306..48644364,-!p1@Zbtb16!0.83!24.52!Zbtb16;;chr11:85646469..85646488,+!p5@Tbx2!0.83!8.81!Tbx2;;chrX:48559194..48559210,-!p4@Mbnl3!0.83!7.38!Mbnl3;;chr2:147871948..147871977,-!p3@Foxa2!0.83!5.71!Foxa2;;chr6:14851287..14851342,+!p1@Foxp2!0.82!19.76!Foxp2;;chr3:30408603..30408668,-!p1@Mecom!0.82!13.81!Mecom;;chr11:85646427..85646451,+!p4@Tbx2!0.82!10.24!Tbx2;;chr2:91034924..91034946,-!p2@Nr1h3!0.82!7.14!Nr1h3;;chr16:22439681..22439698,-!p1@Etv5!0.81!103.31!Etv5;;chr12:36219645..36219730,-!p1@Ahr!0.81!58.32!Ahr;;chr16:95680889..95680991,-!p1@Erg!0.81!47.85!Erg;;chr16:14705925..14705951,+!p1@Snai2!0.80!40.23!Snai2;;chr4:154010918..154010931,-!p1@Prdm16!0.80!16.43!Prdm16;;chr10:92773591..92773623,-!p1@Elk3!0.79!126.16!Elk3;;chr13:31717597..31717613,+!p2@Foxf2!0.79!5.24!Foxf2;;chr7:35904304..35904320,+!p1@Cebpa!0.78!112.36!Cebpa;;chr8:24780125..24780143,+!p1@Zmat4!0.78!7.62!Zmat4;;chr6:14851250..14851277,+!p4@Foxp2!0.78!6.67!Foxp2;;chr12:57637595..57637608,-!p7@Nkx2-1!0.78!5.00!Nkx2-1;;chr11:85703335..85703350,+!p4@Tbx4!0.78!5.00!Tbx4;;chr15:79178559..79178584,+!p8@Maff!0.78!5.00!Maff;;chr10:67599319..67599360,-!p2@Arid5b!0.77!58.80!Arid5b;;chr4:135840573..135840601,+!p1@Zfp46!0.77!42.13!Zfp46;;chr1:186556323..186556370,-!p2@Hlx!0.77!14.28!Hlx;;chr8:94325847..94325869,-!p3@Irx3!0.77!8.09!Irx3;;chr6:128250471..128250519,-!p1@Tead4!0.76!10.00!Tead4;;chr14:22807107..22807119,-!p2@Zfp503!0.75!22.38!Zfp503;;chr17:87153240..87153254,+!p1@Epas1!0.74!98.55!Epas1;;chr6:14851547..14851571,+!p7@Foxp2!0.74!5.48!Foxp2;;chr12:57637649..57637665,-!p8@Nkx2-1!0.74!4.52!Nkx2-1;;chr2:103143336..103143367,-!p1@Ehf!0.73!7.38!Ehf;;chr1:4486505..4486527,-!p5@Sox17!0.73!5.95!Sox17;;chr19:26681672..26681716,+!p5@Smarca2!0.72!19.52!Smarca2;;chr6:52114821..52114828,-!p1@Hoxa2!0.72!6.67!Hoxa2;;chr2:70313168..70313184,+!p1@Sp5!0.72!6.67!Sp5;;chr5:120121446..120121461,+!p2@Tbx3!0.71!15.00!Tbx3;;chr2:91035197..91035237,-!p1@Nr1h3!0.71!9.28!Nr1h3;;chr14:98569030..98569059,-!p3@Dach1!0.70!21.66!Dach1;;chr8:94325779..94325791,-!p7@Irx3!0.70!4.05!Irx3;;chr5:120285161..120285176,+!p2@Tbx5!0.70!4.05!Tbx5;;chr4:97444012..97444045,+!p4@Nfia!0.69!33.33!Nfia;;chr9:32443818..32443854,+!p2@Ets1!0.69!19.28!Ets1;;chr3:54559496..54559511,+!p1@Smad9!0.69!9.52!Smad9;;chr11:70043257..70043263,-!p1@Bcl6b!0.69!7.14!Bcl6b;;chr6:14851344..14851364,+!p6@Foxp2!0.69!4.76!Foxp2;;chr6:115372058..115372085,+!p3@Pparg!0.68!3.81!Pparg;;chr2:164228702..164228719,+!p1@Rbpjl!0.68!3.81!Rbpjl;;chr2:180069423..180069434,-!p2@Gata5!0.68!3.81!Gata5;;chr6:72185232..72185272,-!p1@Atoh8!0.67!11.66!Atoh8;;chr17:28487603..28487626,-!p2@Tead3!0.67!8.57!Tead3;;chr14:98568761..98568814,-!p2@Dach1!0.66!28.33!Dach1;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.66!11.43!Tfcp2l1;;chr9:48644013..48644027,-!p5@Zbtb16!0.66!4.52!Zbtb16;;chr5:137041960..137041977,-!p6@Cux1!0.66!4.05!Cux1;;chr5:77524175..77524186,-!p8@Hopx!0.66!3.57!Hopx;;chr8:94881686..94881700,+!p4@Irx5!0.66!3.57!Irx5;;chr13:31717775..31717788,+!p4@Foxf2!0.66!3.57!Foxf2;;chr11:96180069..96180089,+!p3@Hoxb4!0.66!3.57!Hoxb4;;chr11:85699562..85699575,+!p6@Tbx4!0.66!3.57!Tbx4;;chr17:87153462..87153473,+!p3@Epas1!0.65!15.00!Epas1;;chr6:99216488..99216534,-!p2@Foxp1!0.65!10.95!Foxp1;;chr10:126778916..126778974,-!p1@Gli1!0.65!8.57!Gli1;;chr5:77524304..77524315,-!p5@Hopx!0.65!8.09!Hopx;;chr14:56443806..56443848,+!p1@Nfatc4!0.65!7.62!Nfatc4;;chr9:32503590..32503680,+!p1@Ets1!0.64!144.49!Ets1;;chr15:102076870..102076941,-!p1@Rarg!0.64!42.85!Rarg;;chr19:26679654..26679675,+!p1@Smarca2!0.64!37.13!Smarca2;;chr18:55152179..55152194,-!p5@Zfp608!0.64!10.71!Zfp608;;chr3:8666997..8667012,-!p2@Hey1!0.64!8.57!Hey1;;chr12:37835219..37835230,+!p5@Meox2!0.64!3.33!Meox2;;chr14:22807083..22807104,-!p1@Zfp503!0.63!67.37!Zfp503;;chr4:82151274..82151290,-!p3@Nfib!0.63!63.32!Nfib;;chr18:55152206..55152251,-!p1@Zfp608!0.63!37.61!Zfp608;;chr8:111227518..111227550,+!p@chr8:111227518..111227550,+!0.63!6.19!Zfhx3;;chr16:18587076..18587106,-!p1@Tbx1!0.63!5.00!Tbx1;;chr7:17642018..17642045,-!p4@Hif3a!0.63!3.81!Hif3a;;chr16:55822241..55822258,-!p1@Nfkbiz!0.62!117.36!Nfkbiz;;chr16:92697560..92697592,-!p2@Runx1!0.62!23.33!Runx1;;chr18:55147667..55147746,-!p2@Zfp608!0.62!16.90!Zfp608;;chr6:52163319..52163342,-!p1@Hoxa3!0.61!4.76!Hoxa3;;chr8:94325446..94325459,-!p8@Irx3!0.61!3.33!Irx3;;chr5:77544170..77544181,-!p6@Hopx!0.61!3.09!Hopx;;chr12:57637882..57637924,-!p6@Nkx2-1!0.61!3.09!Nkx2-1;;chr11:83664334..83664353,+!p2@Hnf1b!0.61!3.09!Hnf1b;;chr16:95924055..95924077,+!p1@Ets2!0.60!197.10!Ets2;;chr10:80870405..80870428,-!p4@Nfic!0.60!9.28!Nfic;;chr13:83663600..83663625,+!p6@Mef2c!0.60!5.00!Mef2c;;chr11:96180045..96180059,+!p1@Hoxb4!0.60!4.52!Hoxb4;;chr2:167514456..167514473,+!p1@Cebpb!0.59!158.06!Cebpb;;chr4:82151653..82151706,-!p2@Nfib!0.59!99.74!Nfib;;chr4:119406389..119406411,+!p1@Hivep3!0.59!17.14!Hivep3;;chr13:99954640..99954681,+!p1@Zfp366!0.59!12.38!Zfp366;;chr11:96213264..96213282,+!p@chr11:96213264..96213282,+!0.59!3.81!Hoxb2;;chr11:96164821..96164865,+!p1@Hoxb5!0.59!2.86!Hoxb5;;chr13:31717614..31717628,+!p3@Foxf2!0.59!2.86!Foxf2;;chr16:22439804..22439806,-!p4@Etv5!0.59!2.86!Etv5;;chr8:74842952..74842970,+!p1@Klf2!0.58!233.28!Klf2;;chr4:82151178..82151262,-!p1@Nfib!0.58!140.68!Nfib;;chr7:6649134..6649167,-!p1@Zim1!0.58!18.09!Zim1;;chr14:65568469..65568511,-!p2@Hmbox1!0.58!10.71!Hmbox1;;chr1:4486530..4486557,-!p4@Sox17!0.58!3.81!Sox17;;chr6:48395743..48395820,-!p1@Zfp467!0.57!72.13!Zfp467;;chr1:39250584..39250643,+!p1@Npas2!0.57!16.66!Npas2;;chrX:48558950..48559016,-!p1@Mbnl3!0.57!10.24!Mbnl3;;chr15:37162796..37162828,+!p1@Grhl2!0.57!5.00!Grhl2;;chr3:30408384..30408431,-!p4@Mecom!0.57!3.57!Mecom;;chr5:137042233..137042245,-!p4@Cux1!0.57!3.33!Cux1;;chr15:79177964..79177986,+!p1@Maff!0.56!10.95!Maff;;chr10:67599361..67599372,-!p5@Arid5b!0.56!4.52!Arid5b;;chr3:130813736..130813752,+!p3@Lef1!0.56!4.05!Lef1;;chr17:26978409..26978442,-!p1@Nkx2-5!0.56!2.62!Nkx2-5;;chr8:94881639..94881650,+!p5@Irx5!0.56!2.62!Irx5;;chr2:147872074..147872079,-!p4@Foxa2!0.5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2;;chr2:152223783..152223812,-!p4@Sox12!0.38!4.28!Sox12;;chr8:87324292..87324303,-!p4@Nfix!0.38!4.28!Nfix;;chr18:79306577..79306592,-!p3@Setbp1!0.38!3.57!Setbp1;;chr18:39648811..39648818,-!p4@Nr3c1!0.38!3.09!Nr3c1;;chr11:121380640..121380655,-!p1@Zfp750!0.38!2.86!Zfp750;;chr11:52096750..52096772,-!p4@Tcf7!0.38!2.62!Tcf7;;chr5:34530519..34530545,-!p4@Mxd4!0.38!2.62!Mxd4;;chr4:135840623..135840632,+!p5@Zfp46!0.38!2.14!Zfp46;;chr9:96159225..96159249,+!p5@Tfdp2!0.38!1.67!Tfdp2;;chr12:32635078..32635111,-!p1@Hbp1!0.37!45.23!Hbp1;;chr17:23004085..23004108,-!p1@Zfp945!0.37!20.47!Zfp945;;chr12:28027561..28027591,-!p1@Sox11!0.37!13.33!Sox11;;chr6:39068210..39068251,-!p1@Parp12!0.37!9.28!Parp12;;chr2:152223441..152223465,-!p2@Sox12!0.37!8.09!Sox12;;chrX:45245644..45245666,-!p2@Smarca1!0.37!6.19!Smarca1;;chr1:52176378..52176401,+!p3@Stat1!0.37!5.71!Stat1;;chr3:152058408..152058453,+!p5@Gm8261,p5@Zzz3!0.37!4.05!Zzz3;;chr2:44972869..44972895,-!p12@Zeb2!0.37!3.33!Zeb2;;chr10:80598209..80598236,+!p4@Zbtb7a!0.37!2.86!Zbtb7a;;chr13:31650026..31650045,+!p2@Foxq1!0.37!2.86!Foxq1;;chr3:130813557..130813582,+!p5@Lef1!0.37!1.67!Lef1;;chr7:74517658..74517731,-!p1@Mef2a!0.36!93.08!Mef2a;;chr8:118231723..118231740,-!p1@Maf!0.36!46.18!Maf;;chr1:162964925..162964963,-!p1@Zbtb37!0.36!13.09!Zbtb37;;chr19:26681929..26681987,+!p4@Smarca2!0.36!11.19!Smarca2;;chr18:69504195..69504213,+!p4@Tcf4!0.36!8.81!Tcf4;;chr1:64167550..64167618,-!p4@Klf7!0.36!5.00!Klf7;;chr3:94641455..94641486,+!p4@Pogz!0.36!4.76!Pogz;;chr18:76401074..76401118,+!p3@Smad2!0.36!4.05!Smad2;;chr2:92886419..92886455,-!p2@Prdm11!0.36!3.33!Prdm11;;chr10:107769229..107769238,+!p3@Pawr!0.36!2.14!Pawr;;chr6:52167513..52167549,-!p2@Hoxa7!0.36!2.14!Hoxa7;;chr4:154011072..154011095,-!p6@Prdm16!0.36!1.67!Prdm16;;chr14:76904313..76904328,+!p1@Tsc22d1!0.35!395.63!Tsc22d1;;chr6:37392095..37392154,-!p1@Creb3l2!0.35!63.56!Creb3l2;;chr2:91864661..91864686,-!p1@Creb3l1!0.35!44.04!Creb3l1;;chr17:4994286..4994373,+!p2@Arid1b!0.35!21.66!Arid1b;;chr5:32438831..32438878,+!p1@Fosl2!0.35!20.23!Fosl2;;chr2:130120884..130120972,+!p1@Ebf4!0.35!11.19!Ebf4;;chr2:181194069..181194144,-!p1@Zbtb46!0.35!10.95!Zbtb46;;chr18:69681439..69681456,+!p7@Tcf4!0.35!4.52!Tcf4;;chr4:148178529..148178548,+!p3@Casz1!0.35!4.05!Casz1;;chr2:44972821..44972865,-!p10@Zeb2!0.35!3.33!Zeb2;;chr2:35960919..35960954,-!p1@Lhx6!0.35!3.09!Lhx6;;chr11:18918820..18918831,-!p4@Meis1!0.35!3.09!Meis1;;chr10:44178521..44178557,-!p1@Prdm1!0.35!2.86!Prdm1;;chr15:102076652..102076679,-!p4@Rarg!0.35!2.86!Rarg;;chr15:81633139..81633152,+!p4@Tef!0.35!2.62!Tef;;chr19:10315252..10315266,-!p2@Gm98!0.35!2.38!Gm98;;chr6:52167459..52167492,-!p1@Hoxa7!0.35!1.67!Hoxa7;;chr12:56593574..56593592,-!p1@Nfkbia!0.34!102.36!Nfkbia;;chr1:170362273..170362317,-!p1@Pbx1!0.34!56.65!Pbx1;;chr4:97444471..97444514,+!p1@Nfia!0.34!52.61!Nfia;;chr5:134790507..134790546,-!p1@Gtf2i!0.34!48.56!Gtf2i;;chr10:41996494..41996549,-!p1@Foxo3!0.34!33.33!Foxo3;;chr11:53583544..53583559,+!p1@Irf1!0.34!32.85!Irf1;;chr14:22320101..22320119,+!p1@Myst4!0.34!26.90!Myst4;;chr18:39649430..39649522,-!p2@Nr3c1!0.34!19.04!Nr3c1;;chr10:126726055..126726091,-!p2@Mbd6!0.34!15.47!Mbd6;;chr1:170362242..170362256,-!p3@Pbx1!0.34!13.81!Pbx1;;chr5:104121391..104121450,+!p3@Aff1!0.34!9.76!Aff1;;chr8:111227641..111227672,+!p@chr8:111227641..111227672,+!0.34!4.52!Zfhx3;;chr6:90412608..90412630,+!p2@Klf15!0.34!3.33!Klf15;;chr5:65194709..65194716,+!p10@Klf3!0.34!3.09!Klf3;;chrX:7341077..7341091,+!p5@Tfe3!0.34!2.62!Tfe3;;chr14:22807216..22807231,-!p3@Zfp503!0.34!2.62!Zfp503;;chr2:104966766..104966786,+!p1@Wt1!0.34!2.38!Wt1;;chr10:20880698..20880717,-!p3@Myb!0.34!2.38!Myb;;chr8:87237711..87237727,-!p11@Nfix!0.34!1.90!Nfix;;chr3:29912154..29912168,-!p11@Mecom!0.34!1.43!Mecom;;chr8:87425854..87425891,+!p1@Klf1!0.34!1.19!Klf1;;chr2:103143315..103143328,-!p2@Ehf!0.34!1.19!Ehf;;chr1:120524563..120524591,+!p2@Tfcp2l1!0.34!1.19!Tfcp2l1;;chr13:72766234..72766243,+!p3@Irx2!0.34!1.19!Irx2;;chr15:103082088..103082136,-!p2@Nfe2!0.34!1.19!Nfe2;;chr11:52096732..52096741,-!p6@Tcf7!0.34!1.19!Tcf7;;chr5:120120834..120120845,+!p8@Tbx3!0.34!1.19!Tbx3;;chr5:120130377..120130432,+!p10@Tbx3!0.34!1.19!Tbx3;;chr5:120120708..120120713,+!p12@Tbx3!0.34!1.19!Tbx3;;chr5:137042338..137042372,-!p5@Cux1!0.34!1.19!Cux1;;chr6:83301243..83301258,+!p2@Bola3!0.34!1.19!Bola3;;chr6:52158644..52158677,-!p2@Hoxa6!0.34!1.19!Hoxa6;;chr6:97879817..97879857,+!p2@Mitf!0.34!1.19!Mitf;;chr17:34729193..34729274,+!p1@Pbx2!0.33!90.93!Pbx2;;chr2:152561980..152561997,+!p1@Id1!0.33!56.65!Id1;;chr7:52471143..52471186,+!p1@Tead2!0.33!20.23!Tead2;;chr6:48395426..48395504,-!p2@Zfp467!0.33!17.62!Zfp467;;chr1:170362040..170362113,-!p2@Pbx1!0.33!14.52!Pbx1;;chr14:56223010..56223067,+!p1@Irf9!0.33!14.52!Irf9;;chr17:4994697..4994730,+!p4@Arid1b!0.33!8.33!Arid1b;;chrX:109714331..109714347,+!p1@Zfp711!0.33!7.38!Zfp711;;chr7:19946556..19946611,+!p1@Ppp1r13l!0.33!6.90!Ppp1r13l;;chr15:102455492..102455531,-!p2@Atf7!0.33!6.90!Atf7;;chr2:160698288..160698358,-!p3@Zhx3!0.3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+|ffid_belonging_in_development=UBERON:0001041,UBERON:0008947,UBERON:0002532,UBERON:0006595,UBERON:0010316,FF:0000294
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 40: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011513
 |is_obsolete=
+|library_id=CNhs10583
+|library_id_phase_based=2:CNhs10583
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1287
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1287
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E18.CNhs10583.1287-20I6.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E18.CNhs10583.1287-20I6.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E18.CNhs10583.1287-20I6.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E18.CNhs10583.1287-20I6.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E18.CNhs10583.1287-20I6.mm9.nobarcode.rdna.fa.gz
 |name=lung, embryo E18
 |namespace=FANTOM5
@@ Line 45: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10583,LSID653,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.0837824176027339,0,0,0,0,0,0.299801947444688,0,0.0596291109272098,0,0,0.206179409304146,0,0,0,0,0,0,0.0421506387095566,0,0,0,0,0,0.0927359537809747,0,0,0,0,0,0,0,0.400307504646054,0,0,0,0.234043989592131,0.00262329118271877,0.0204926185015656,0,-0.212278003929602,0.67165780901612,-0.0358246484182201,0,0,0,0,0,0,0,0,0,0,0.0927359537809747,0,0.274481836801419,0,0,0,0,-0.0428469550828748,0,0,0,0,0.00267283880636092,0.116654186683805,-0.14153861904529,-0.158091042771083,0.146159983871082,0,0.162799572872879,0.0215615264737576,0,0.0927359537809747,0,0.0554836092743613,-0.0586320044936056,-0.0986544141349064,-0.0788315948399074,0,0,0,0,0,0,-0.135798219778432,-0.255740805495473,-0.035759012639268,0,0,0,0,0
 |rna_box=20
 |rna_catalog_number=
@@ Line 60: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=

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FF:1287-20I6: Difference between revisions

From FANTOM5_SSTAR

Revision as of 21:56, 10 August 2017

CNhs10583

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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