FF:404-26F8: Difference between revisions

Latest revision as of 19:15, 4 June 2020

Name:	lung, embryo E14
Species:	Mouse (Mus musculus)
Library ID:	CNhs10604
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	lung
dev stage	14 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		SAMD00006008

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10604		CAGE		DRX009032		DRR009906

Accession ID Mm9

Library id		BAM		CTSS
CNhs10604		DRZ001331		DRZ002714

Accession ID Mm10

Library id		BAM		CTSS
CNhs10604		DRZ012681		DRZ014064

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

CNhs10604

0	0
1	0
10	0
100	0
1000	0
1001	0.00899
1002	0.0933
1003	0.0305
1004	0
1005	-0.161
1006	-0.0795
1007	0.109
1008	0
1009	0.028
101	0.166
1010	0
1011	0.0187
1012	0
1013	-0.204
1014	0.305
1015	0.234
1016	0.297
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0656
1022	-0.0704
1023	0
1024	0.113
1025	1.005
1026	0
1027	0.0656
1028	0
1029	0.0704
103	0.107
1030	0
1031	0.45
1032	-0.0491
1033	-0.0587
1034	0.0363
1035	0
1036	0
1037	0
1038	0.0479
1039	-0.121
104	0
1040	0.147
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: CNhs10604

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	5.71221e-4
MA0003.1	MA0003.1	0.6
MA0004.1	MA0004.1	0.939
MA0006.1	MA0006.1	0.887
MA0007.1	MA0007.1	0.22
MA0009.1	MA0009.1	0.536
MA0014.1	MA0014.1	0.288
MA0017.1	MA0017.1	3.98691e-5
MA0018.2	MA0018.2	0.629
MA0019.1	MA0019.1	0.952
MA0024.1	MA0024.1	1.71638e-8
MA0025.1	MA0025.1	0.839
MA0027.1	MA0027.1	0.00654
MA0028.1	MA0028.1	0.167
MA0029.1	MA0029.1	0.789
MA0030.1	MA0030.1	0.854
MA0031.1	MA0031.1	0.199
MA0035.2	MA0035.2	0.261
MA0038.1	MA0038.1	0.0492
MA0039.2	MA0039.2	0.27
MA0040.1	MA0040.1	0.784
MA0041.1	MA0041.1	0.686
MA0042.1	MA0042.1	0.36
MA0043.1	MA0043.1	0.0925
MA0046.1	MA0046.1	3.29288e-6
MA0047.2	MA0047.2	0.497
MA0048.1	MA0048.1	0.111
MA0050.1	MA0050.1	1.01909e-7
MA0051.1	MA0051.1	6.12085e-5
MA0052.1	MA0052.1	0.274
MA0055.1	MA0055.1	0.0152
MA0057.1	MA0057.1	0.271
MA0058.1	MA0058.1	0.83
MA0059.1	MA0059.1	0.964
MA0060.1	MA0060.1	7.51183e-11
MA0061.1	MA0061.1	0.0879
MA0062.2	MA0062.2	0.549
MA0065.2	MA0065.2	2.03228e-4
MA0066.1	MA0066.1	0.0166
MA0067.1	MA0067.1	0.207
MA0068.1	MA0068.1	0.738
MA0069.1	MA0069.1	0.651
MA0070.1	MA0070.1	0.911
MA0071.1	MA0071.1	0.0117
MA0072.1	MA0072.1	0.019
MA0073.1	MA0073.1	0.774
MA0074.1	MA0074.1	0.223
MA0076.1	MA0076.1	0.263
MA0077.1	MA0077.1	0.0841
MA0078.1	MA0078.1	0.724
MA0079.2	MA0079.2	0.657
MA0080.2	MA0080.2	1.55564e-4
MA0081.1	MA0081.1	0.799
MA0083.1	MA0083.1	2.5374e-5
MA0084.1	MA0084.1	0.864
MA0087.1	MA0087.1	0.746
MA0088.1	MA0088.1	0.55
MA0090.1	MA0090.1	0.23
MA0091.1	MA0091.1	0.612
MA0092.1	MA0092.1	0.611
MA0093.1	MA0093.1	0.883
MA0099.2	MA0099.2	0.00141
MA0100.1	MA0100.1	0.53
MA0101.1	MA0101.1	0.606
MA0102.2	MA0102.2	0.713
MA0103.1	MA0103.1	0.00152
MA0104.2	MA0104.2	0.59
MA0105.1	MA0105.1	9.60888e-4
MA0106.1	MA0106.1	0.704
MA0107.1	MA0107.1	0.41
MA0108.2	MA0108.2	0.853
MA0111.1	MA0111.1	0.224
MA0112.2	MA0112.2	7.23763e-6
MA0113.1	MA0113.1	0.533
MA0114.1	MA0114.1	1.19876e-4
MA0115.1	MA0115.1	0.00376
MA0116.1	MA0116.1	0.0303
MA0117.1	MA0117.1	0.172
MA0119.1	MA0119.1	0.263
MA0122.1	MA0122.1	0.418
MA0124.1	MA0124.1	0.694
MA0125.1	MA0125.1	0.186
MA0131.1	MA0131.1	0.174
MA0135.1	MA0135.1	0.259
MA0136.1	MA0136.1	0.0383
MA0137.2	MA0137.2	0.0772
MA0138.2	MA0138.2	4.62296e-4
MA0139.1	MA0139.1	0.224
MA0140.1	MA0140.1	0.873
MA0141.1	MA0141.1	9.76102e-5
MA0142.1	MA0142.1	0.979
MA0143.1	MA0143.1	0.102
MA0144.1	MA0144.1	0.352
MA0145.1	MA0145.1	0.112
MA0146.1	MA0146.1	0.838
MA0147.1	MA0147.1	0.914
MA0148.1	MA0148.1	0.911
MA0149.1	MA0149.1	0.0104
MA0150.1	MA0150.1	0.00227
MA0152.1	MA0152.1	0.979
MA0153.1	MA0153.1	7.22112e-4
MA0154.1	MA0154.1	0.00279
MA0155.1	MA0155.1	0.341
MA0156.1	MA0156.1	0.794
MA0157.1	MA0157.1	0.371
MA0159.1	MA0159.1	0.00275
MA0160.1	MA0160.1	0.00613
MA0162.1	MA0162.1	0.728
MA0163.1	MA0163.1	0.132
MA0164.1	MA0164.1	0.983
MA0258.1	MA0258.1	1.23654e-5
MA0259.1	MA0259.1	0.733

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: CNhs10604

Novel motif	Logo	P-value
1	1	0.0759
10	10	0.305
100	100	0.973
101	101	0.927
102	102	0.593
103	103	0.0662
104	104	0.996
105	105	0.668
106	106	0.125
107	107	0.269
108	108	0.836
109	109	0.113
11	11	0.0908
110	110	0.26
111	111	0.0252
112	112	0.0589
113	113	0.685
114	114	0.00847
115	115	0.493
116	116	0.709
117	117	0.337
118	118	0.726
119	119	0.0932
12	12	0.583
120	120	0.084
121	121	0.567
122	122	0.786
123	123	0.165
124	124	0.549
125	125	0.588
126	126	0.723
127	127	0.443
128	128	0.093
129	129	0.106
13	13	0.846
130	130	0.0473
131	131	0.542
132	132	0.907
133	133	0.321
134	134	0.794
135	135	0.918
136	136	0.655
137	137	0.796
138	138	0.992
139	139	0.00128
14	14	0.394
140	140	0.0714
141	141	0.355
142	142	0.269
143	143	0.551
144	144	0.671
145	145	0.744
146	146	0.435
147	147	0.305
148	148	0.0555
149	149	0.358
15	15	0.0828
150	150	0.957
151	151	0.0557
152	152	0.242
153	153	0.22
154	154	0.707
155	155	0.829
156	156	5.57033e-4
157	157	0.898
158	158	0.816
159	159	0.386
160	160	0.86
161	161	0.586
162	162	0.766
163	163	0.17
164	164	0.645
165	165	0.067
166	166	0.19
167	167	0.383
168	168	0.87
169	169	0.0676
17	17	0.0671
18	18	0.0804
19	19	0.462
2	2	0.814
20	20	0.754
21	21	0.838
22	22	0.548
23	23	0.0965
24	24	0.496
25	25	0.208
26	26	0.635
27	27	0.233
28	28	0.255
29	29	0.904
3	3	0.0623
30	30	0.735
31	31	0.3
32	32	0.0911
33	33	0.831
34	34	0.897
35	35	0.05
36	36	0.269
37	37	0.175
38	38	0.623
39	39	0.899
4	4	0.875
40	40	0.43
41	41	0.595
42	42	0.33
43	43	0.179
44	44	0.0146
45	45	0.509
46	46	0.375
47	47	0.173
48	48	0.14
49	49	0.116
5	5	0.193
50	50	0.675
51	51	0.554
52	52	0.64
53	53	0.779
54	54	0.318
55	55	0.961
56	56	0.257
57	57	0.405
58	58	0.218
59	59	0.241
6	6	0.503
60	60	0.303
61	61	0.944
62	62	0.0405
63	63	0.264
64	64	0.313
65	65	0.282
66	66	0.665
67	67	0.94
68	68	0.136
69	69	0.611
7	7	0.517
70	70	3.699e-4
71	71	0.482
72	72	0.224
73	73	0.116
74	74	0.801
75	75	0.118
76	76	0.769
77	77	0.227
78	78	0.397
79	79	0.635
8	8	0.124
80	80	0.273
81	81	0.107
82	82	0.101
83	83	0.55
84	84	0.819
85	85	0.0101
86	86	0.421
87	87	0.501
88	88	0.302
89	89	0.517
9	9	0.718
90	90	7.50611e-4
91	91	0.429
92	92	0.0263
93	93	0.648
94	94	0.288
95	95	0.344
96	96	0.144
97	97	0.314
98	98	0.201
99	99	0.587

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: CNhs10604

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011338 mouse lung- embryo E14 sample

part_of relathionship
UBERON:0000310 breast

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)
0000310 (breast)
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)
0001443 (chest)
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)
0000296 (mouse embryonic day 14 sample)
0011338 (mouse lung- embryo E14 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
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002048,UBERON:0000310,UBERON:0002100,UBERON:0000483,UBERON:0000926,UBERON:0000479,UBERON:0001007,UBERON:0000077,UBERON:0000466,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0004120,UBERON:0000025,UBERON:0004119,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0002050,UBERON:0005153,UBERON:0005911,UBERON:0004921,UBERON:0005423,UBERON:0000477,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0000119,UBERON:0009569,UBERON:0005291,UBERON:0005178,UBERON:0005177,UBERON:0000117,UBERON:0000171,UBERON:0003104,UBERON:0000464,UBERON:0001048,UBERON:0000925,UBERON:0005181,UBERON:0006598,UBERON:0004185,UBERON:0005157,UBERON:0002532,UBERON:0001555,UBERON:0000065,UBERON:0000170,UBERON:0001004,UBERON:0001443,UBERON:0007026,UBERON:0001041,UBERON:0002224,UBERON:0000915,UBERON:0009142,UBERON:0008947,UBERON:0003258,UBERON:0005597,UBERON:0006595,UBERON:0006603,UBERON:0000118
+|DRA_sample_Accession=CAGE@SAMD00006008
+|accession_numbers=CAGE;DRX009032;DRR009906;DRZ001331;DRZ002714;DRZ012681;DRZ014064
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002048,UBERON:0000310,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:0001443,UBERON:0002224,UBERON:0000915
 |ancestors_in_cell_lineage_facet=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000999,FF:0000292,FF:0000004,FF:0000296,FF:0011338
 |comment=
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr11:85699862..85699920,+!p1@Tbx4!1.89!77.25!Tbx4;;chr2:180069370..180069409,-!p1@Gata5!1.70!56.87!Gata5;;chr10:22539932..22539956,-!p1@Tcf21!1.64!110.65!Tcf21;;chr8:123608252..123608268,+!p1@Foxf1a!1.56!51.17!Foxf1a;;chr6:14851440..14851497,+!p2@Foxp2!1.37!53.78!Foxp2;;chr6:52154414..52154462,-!p1@Hoxa5!1.31!26.40!Hoxa5;;chr6:52154386..52154407,-!p2@Hoxa5!1.30!23.96!Hoxa5;;chr13:31717548..31717596,+!p1@Foxf2!1.28!35.36!Foxf2;;chr11:96164905..96164919,+!p2@Hoxb5!1.28!17.93!Hoxb5;;chr11:85646303..85646329,+!p1@Tbx2!1.27!115.38!Tbx2;;chr12:57636220..57636236,-!p3@Nkx2-1!1.27!17.44!Nkx2-1;;chr2:147871627..147871641,-!p1@Foxa2!1.26!17.27!Foxa2;;chr12:57636178..57636194,-!p2@Nkx2-1!1.22!15.48!Nkx2-1;;chr13:72766250..72766273,+!p1@Irx2!1.21!23.30!Irx2;;chr12:57636240..57636256,-!p4@Nkx2-1!1.21!15.32!Nkx2-1;;chr13:72101161..72101177,-!p2@Irx1!1.20!20.37!Irx1;;chr11:96164821..96164865,+!p1@Hoxb5!1.20!14.99!Hoxb5;;chr11:85646263..85646278,+!p2@Tbx2!1.19!36.50!Tbx2;;chr11:85703483..85703508,+!p2@Tbx4!1.19!14.50!Tbx4;;chr16:14705925..14705951,+!p1@Snai2!1.18!99.25!Snai2;;chr16:14705961..14705978,+!p2@Snai2!1.18!64.86!Snai2;;chr12:37835141..37835194,+!p1@Meox2!1.18!43.84!Meox2;;chr12:58646974..58647003,-!p1@Foxa1!1.16!17.93!Foxa1;;chr10:126778916..126778974,-!p1@Gli1!1.14!29.01!Gli1;;chr12:3891810..3891829,+!p2@Dnmt3a!1.13!19.56!Dnmt3a;;chr12:37835120..37835133,+!p2@Meox2!1.13!17.93!Meox2;;chr13:72766279..72766296,+!p2@Irx2!1.12!18.25!Irx2;;chr9:24578720..24578735,-!p1@Tbx20!1.11!11.90!Tbx20;;chr10:12810631..12810649,+!p1@Plagl1!1.08!290.40!Plagl1;;chr12:57636034..57636087,-!p1@Nkx2-1!1.06!10.59!Nkx2-1;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!1.02!16.30!Hoxb2;;chr5:120285144..120285160,+!p1@Tbx5!1.01!9.13!Tbx5;;chr6:14853484..14853504,+!p14@Foxp2!0.98!8.47!Foxp2;;chr2:103264213..103264233,+!p1@Elf5!0.98!8.47!Elf5;;chr11:96160426..96160443,+!p2@Hoxb6!0.97!8.31!Hoxb6;;chr9:71743854..71743909,-!p1@Tcf12!0.96!66.98!Tcf12;;chr11:85646341..85646352,+!p3@Tbx2!0.96!16.46!Tbx2;;chr11:18918434..18918489,-!p3@Meis1!0.95!12.71!Meis1;;chr6:14851250..14851277,+!p4@Foxp2!0.95!10.43!Foxp2;;chr2:167363692..167363710,+!p1@Snai1!0.93!94.52!Snai1;;chr6:14851403..14851422,+!p8@Foxp2!0.93!7.50!Foxp2;;chr16:22439654..22439676,-!p2@Etv5!0.92!45.30!Etv5;;chr7:17647736..17647772,-!p1@Hif3a!0.91!26.24!Hif3a;;chr7:19895354..19895369,-!p1@Fosb!0.91!9.94!Fosb;;chr6:14851287..14851342,+!p1@Foxp2!0.90!23.63!Foxp2;;chr12:57637732..57637777,-!p5@Nkx2-1!0.90!7.01!Nkx2-1;;chr11:96213264..96213282,+!p@chr11:96213264..96213282,+!0.88!8.31!Hoxb2;;chr13:72101178..72101203,-!p1@Irx1!0.87!10.27!Irx1;;chr11:96180069..96180089,+!p3@Hoxb4!0.87!6.36!Hoxb4;;chr6:14851212..14851226,+!p12@Foxp2!0.85!6.03!Foxp2;;chr10:119913310..119913366,-!p1@Hmga2!0.84!49.87!Hmga2;;chr11:96180045..96180059,+!p1@Hoxb4!0.84!8.47!Hoxb4;;chr13:31717597..31717613,+!p2@Foxf2!0.84!5.87!Foxf2;;chr10:119913278..119913298,-!p2@Hmga2!0.83!13.69!Hmga2;;chr6:14851344..14851364,+!p6@Foxp2!0.82!6.84!Foxp2;;chr2:180069423..180069434,-!p2@Gata5!0.82!5.54!Gata5;;chr16:22439681..22439698,-!p1@Etv5!0.81!102.67!Etv5;;chr13:15555670..15555771,+!p2@Gli3!0.81!14.50!Gli3;;chr14:63864056..63864102,-!p1@Gata4!0.81!9.94!Gata4;;chr10:86956396..86956411,-!p1@Ascl1!0.80!8.47!Ascl1;;chr7:19895384..19895399,-!p2@Fosb!0.80!7.66!Fosb;;chr18:53623836..53623839,+!p1@Prdm6!0.80!6.19!Prdm6;;chr6:52158644..52158677,-!p2@Hoxa6!0.79!5.21!Hoxa6;;chr18:11052642..11052659,+!p1@Gata6!0.78!27.70!Gata6;;chr8:94325486..94325510,-!p4@Irx3!0.78!6.84!Irx3;;chr12:37835203..37835218,+!p3@Meox2!0.78!6.03!Meox2;;chr14:56443806..56443848,+!p1@Nfatc4!0.77!10.43!Nfatc4;;chr8:90483433..90483457,-!p2@Zfp423!0.77!6.84!Zfp423;;chr11:18918406..18918431,-!p6@Meis1!0.77!6.84!Meis1;;chr6:14851547..14851571,+!p7@Foxp2!0.77!6.03!Foxp2;;chr8:59799772..59799789,+!p1@Hand2!0.76!14.83!Hand2;;chr11:85646427..85646451,+!p4@Tbx2!0.76!8.80!Tbx2;;chr12:28027561..28027591,-!p1@Sox11!0.75!33.41!Sox11;;chr10:119913546..119913583,-!p3@Hmga2!0.75!10.27!Hmga2;;chr3:30408674..30408716,-!p2@Mecom!0.75!7.99!Mecom;;chr7:52471143..52471186,+!p1@Tead2!0.74!53.29!Tead2;;chr17:48061584..48061601,-!p2@Foxp4!0.74!32.10!Foxp4;;chr12:3891753..3891801,+!p4@Dnmt3a!0.74!7.66!Dnmt3a;;chr6:52163319..52163342,-!p1@Hoxa3!0.74!6.84!Hoxa3;;chr7:6649134..6649167,-!p1@Zim1!0.73!26.07!Zim1;;chr3:30408603..30408668,-!p1@Mecom!0.73!10.92!Mecom;;chr6:52114821..52114828,-!p1@Hoxa2!0.72!6.68!Hoxa2;;chr12:57637882..57637924,-!p6@Nkx2-1!0.72!4.24!Nkx2-1;;chr14:22807083..22807104,-!p1@Zfp503!0.71!82.30!Zfp503;;chr14:64562503..64562524,+!p1@Sox7!0.71!27.22!Sox7;;chr11:85703335..85703350,+!p4@Tbx4!0.71!4.07!Tbx4;;chr11:52096804..52096896,-!p1@Tcf7!0.70!36.50!Tcf7;;chr14:22807107..22807119,-!p2@Zfp503!0.70!19.56!Zfp503;;chr3:34548909..34548927,+!p1@Sox2!0.70!7.33!Sox2;;chr13:72101141..72101158,-!p3@Irx1!0.70!5.21!Irx1;;chr8:94325321..94325366,-!p1@Irx3!0.69!10.43!Irx3;;chr11:101755669..101755686,-!p1@Meox1!0.69!7.50!Meox1;;chr6:14851377..14851396,+!p10@Foxp2!0.69!3.91!Foxp2;;chr4:82151274..82151290,-!p3@Nfib!0.68!71.05!Nfib;;chr4:122911086..122911112,+!p1@Heyl!0.68!50.85!Heyl;;chr11:96213434..96213452,+!p@chr11:96213434..96213452,+!0.68!5.21!Hoxb2;;chr17:26978409..26978442,-!p1@Nkx2-5!0.68!3.75!Nkx2-5;;chr11:18918917..18918944,-!p1@Meis1!0.67!54.27!Meis1;;chr8:94325847..94325869,-!p3@Irx3!0.67!6.36!Irx3;;chr11:85646469..85646488,+!p5@Tbx2!0.67!5.87!Tbx2;;chr4:82151178..82151262,-!p1@Nfib!0.66!167.69!Nfib;;chr12:86814833..86814846,+!p1@Fos!0.66!97.29!Fos;;chr2:152223441..152223465,-!p2@Sox12!0.66!16.62!Sox12;;chr13:15555496..15555544,+!p1@Gli3!0.66!14.01!Gli3;;chr5:120120667..120120685,+!p3@Tbx3!0.66!7.50!Tbx3;;chr16:18587076..18587106,-!p1@Tbx1!0.66!5.38!Tbx1;;chr2:147872074..147872079,-!p4@Foxa2!0.66!3.59!Foxa2;;chr2:44968737..44968758,-!p2@Zeb2!0.65!22.98!Zeb2;;chr8:94325814..94325839,-!p2@Irx3!0.65!7.99!Irx3;;chr8:111227493..111227517,+!p@chr8:111227493..111227517,+!0.65!6.68!Zfhx3;;chrX:110411840..110411860,+!p1@Dach2!0.65!4.40!Dach2;;chr18:65741358..65741415,+!p1@Zfp532!0.64!16.79!Zfp532;;chr3:130813736..130813752,+!p3@Lef1!0.64!5.05!Lef1;;chr14:98568761..98568814,-!p2@Dach1!0.63!26.07!Dach1;;chr18:65741935..65741964,+!p2@Zfp532!0.63!10.10!Zfp532;;chr12:37835248..37835260,+!p4@Meox2!0.63!3.26!Meox2;;chr11:83664365..83664383,+!p1@Hnf1b!0.63!3.26!Hnf1b;;chr11:96213183..96213188,+!p@chr11:96213183..96213188,+!0.63!3.26!Hoxb2;;chr4:13670499..13670526,+!p2@Runx1t1!0.62!7.82!Runx1t1;;chr1:120879128..120879183,-!p3@Gli2!0.62!6.68!Gli2;;chr8:111227518..111227550,+!p@chr8:111227518..111227550,+!0.62!6.03!Zfhx3;;chrX:45245679..45245702,-!p1@Smarca1!0.61!16.13!Smarca1;;chr2:35960919..35960954,-!p1@Lhx6!0.61!6.36!Lhx6;;chr2:104966766..104966786,+!p1@Wt1!0.61!5.21!Wt1;;chrX:48559194..48559210,-!p4@Mbnl3!0.61!4.07!Mbnl3;;chr11:3189683..3189744,+!p2@Patz1!0.60!6.84!Patz1;;chr14:98568971..98569025,-!p1@Dach1!0.59!26.89!Dach1;;chr1:120949949..120950000,-!p1@Gli2!0.59!14.99!Gli2;;chrX:45245644..45245666,-!p2@Smarca1!0.59!10.76!Smarca1;;chr18:11052456..11052477,+!p3@Gata6!0.59!10.59!Gata6;;chr4:13670571..13670625,+!p1@Runx1t1!0.59!9.13!Runx1t1;;chr11:96145450..96145517,+!p2@Hoxb7!0.59!4.73!Hoxb7;;chr6:52141694..52141715,-!p1@Hoxa4!0.59!3.91!Hoxa4;;chr5:120285161..120285176,+!p2@Tbx5!0.59!2.93!Tbx5;;chr2:147871948..147871977,-!p3@Foxa2!0.59!2.93!Foxa2;;chr2:180069410..180069421,-!p3@Gata5!0.59!2.93!Gata5;;chr11:96160360..96160397,+!p3@Hoxb6!0.59!2.93!Hoxb6;;chr10:92773591..92773623,-!p1@Elk3!0.58!78.22!Elk3;;chr17:37139472..37139514,+!p1@Zfp57!0.58!23.14!Zfp57;;chr2:44968775..44968795,-!p4@Zeb2!0.58!15.97!Zeb2;;chr11:18918820..18918831,-!p4@Meis1!0.58!6.03!Meis1;;chr2:30700788..30700824,+!p2@Prrx2!0.58!4.73!Prrx2;;chr2:70313168..70313184,+!p1@Sp5!0.58!4.56!Sp5;;chr7:17642053..17642066,-!p2@Hif3a!0.58!4.24!Hif3a;;chr3:30408384..30408431,-!p4@Mecom!0.58!3.75!Mecom;;chr8:123651727..123651748,+!p1@ENSMUST00000062634!0.58!2.77!Foxl1;;chr12:37835219..37835230,+!p5@Meox2!0.58!2.77!Meox2;;chr11:101413151..101413207,-!p1@Brca1!0.57!31.94!Brca1;;chr10:126779021..126779032,-!p2@Gli1!0.57!3.59!Gli1;;chr9:106356211..106356242,+!p1@Pcbp4!0.56!63.88!Pcbp4;;chr4:94718861..94718872,-!p2@Jun!0.56!24.28!Jun;;chr18:11052606..11052633,+!p4@Gata6!0.56!7.82!Gata6;;chr6:14851605..14851614,+!p17@Foxp2!0.56!2.61!Foxp2;;chr1:136186574..136186592,+!p1@Myog!0.56!2.61!Myog;;chr11:96160403..96160416,+!p4@Hoxb6!0.56!2.61!Hoxb6;;chr4:82151653..82151706,-!p2@Nfib!0.55!90.12!Nfib;;chr2:44968721..44968734,-!p6@Zeb2!0.55!11.57!Zeb2;;chr13:15555035..15555073,+!p4@Gli3!0.55!8.15!Gli3;;chr13:22036953..22037009,+!p1@Zfp184!0.55!7.99!Zfp184;;chr14:22807216..22807231,-!p3@Zfp503!0.55!4.89!Zfp503;;chr10:110182489..110182589,+!p1@E2f7!0.54!37.97!E2f7;;chr12:12948633..12948651,-!p1@Mycn!0.54!29.82!Mycn;;chr18:55150011..55150059,-!p3@Zfp608!0.54!9.61!Zfp608;;chr10:119914001..119914078,-!p4@Hmga2!0.54!3.59!Hmga2;;chr10:126778639..126778670,-!p3@Gli1!0.54!2.44!Gli1;;chr12:9581262..9581282,+!p1@Osr1!0.53!36.99!Osr1;;chr13:30077847..30077906,-!p1@E2f3!0.53!23.47!E2f3;;chr7:77511234..77511302,-!p2@Nr2f2!0.53!19.88!Nr2f2;;chr15:76287876..76287894,+!p1@Scx!0.53!16.46!Scx;;chr18:11052485..11052508,+!p2@Gata6!0.53!8.15!Gata6;;chr1:170361991..170362015,-!p6@Pbx1!0.53!6.36!Pbx1;;chr17:28487603..28487626,-!p2@Tead3!0.53!5.87!Tead3;;chr8:94881733..94881790,+!p1@Irx5!0.53!5.38!Irx5;;chr2:91034924..91034946,-!p2@Nr1h3!0.53!3.10!Nr1h3;;chr15:61816932..61816952,+!p2@Myc!0.52!24.44!Myc;;chr14:65568469..65568511,-!p2@Hmbox1!0.52!9.29!Hmbox1;;chr4:87678709..87678726,-!p4@Mllt3!0.52!8.80!Mllt3;;chr6:99216488..99216534,-!p2@Foxp1!0.52!7.99!Foxp1;;chr11:85699562..85699575,+!p6@Tbx4!0.52!2.28!Tbx4;;chr2:103264245..103264268,+!p2@Elf5!0.52!2.28!Elf5;;chr12:58647114..58647128,-!p2@Foxa1!0.52!2.28!Foxa1;;chr6:116578973..116579022,-!p1@Zfp422!0.51!49.87!Zfp422;;chr5:120121020..120121049,+!p1@Tbx3!0.51!17.44!Tbx3;;chr17:35031460..35031518,+!p1@Zbtb12!0.51!14.18!Zbtb12;;chr11:99092233..99092273,-!p2@Smarce1!0.51!13.53!Smarce1;;chr1:4483679..4483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xc2;;chr7:4946900..4946921,-!p5@Zfp579!0.18!1.47!Zfp579;;chr11:90250944..90250982,-!p2@Hlf!0.18!1.47!Hlf;;chr3:51144477..51144506,-!p6@Elf2!0.18!1.30!Elf2;;chr2:34227659..34227674,-!p3@Pbx3!0.18!1.30!Pbx3;;chr4:87679181..87679192,-!p10@Mllt3!0.18!1.14!Mllt3;;chr3:94668075..94668087,+!p6@Pogz!0.18!1.14!Pogz;;chr6:53523332..53523343,+!p2@Creb5!0.18!1.14!Creb5;;chr7:134169459..134169468,-!p15@Maz!0.18!0.98!Maz;;chr5:108494765..108494786,+!p2@Mtf2!0.18!0.98!Mtf2;;chr8:87237692..87237703,-!p12@Nfix!0.18!0.98!Nfix;;chr12:72149359..72149406,+!p4@Arid4a!0.18!0.98!Arid4a;;chr7:89137163..89137200,-!p1@Bnc1!0.18!0.81!Bnc1;;chr1:9690398..9690410,-!p2@Mybl1!0.18!0.81!Mybl1;;chr3:29912154..29912168,-!p11@Mecom!0.18!0.65!Mecom;;chr1:64579394..64579433,+!p1@Creb1!0.17!48.07!Creb1;;chr12:99985145..99985256,+!p1@Zc3h14!0.17!44.98!Zc3h14;;chr17:13897509..13897607,+!p1@Mllt4!0.17!38.95!Mllt4;;chr4:133309876..133309934,-!p1@Arid1a!0.17!36.83!Arid1a;;chr5:111082367..111082441,-!p1@Noc4l!0.17!30.47!Noc4l;;chr2:164860270..164860320,-!p1@Ncoa5!0.17!25.75!Ncoa5;;chr16:50432467..50432522,-!p1@Bbx!0.17!25.42!Bbx;;chr7:117205217..117205246,+!p1@Zfp143!0.17!25.26!Zfp143;;chr17:48549054..48549091,-!p1@Nfya!0.17!22.98!Nfya;;chr6:81873639..81873700,+!p1@AW146020!0.17!18.25!AW146020;;chr12:77471524..77471607,+!p1@Zbtb1!0.17!16.46!Zbtb1;;chr2:181022663..181022712,-!p1@Gmeb2!0.17!13.04!Gmeb2;;chr4:97444446..97444470,+!p3@Nfia!0.17!12.22!Nfia;;chr1:135557964..135557976,-!p2@Zc3h11a!0.17!10.92!Zc3h11a;;chr1:74634538..74634615,-!p1@Zfp142!0.17!10.59!Zfp142;;chr11:90252223..90252240,-!p1@Hlf!0.17!10.43!Hlf;;chr6:133985993..133986029,+!p2@Etv6!0.17!7.99!Etv6;;chr6:124959683..124959735,+!p2@Zfp384!0.17!7.17!Zfp384;;chr11:72990738..72990763,+!p2@LOC100047518,p2@Tax1bp3!0.17!6.68!Tax1bp3;;chr7:5003165..5003203,+!p2@Zfp580!0.17!6.68!Zfp580;;chr9:65675514..65675547,-!p2@Zfp609!0.17!5.38!Zfp609;;chr14:52634412..52634500,-!p2@Zfp219!0.17!5.38!Zfp219;;chr7:6282837..6282892,-!p1@Zfp583!0.17!4.73!Zfp583;;chr11:62545367..62545412,-!p1@Zfp287!0.17!4.73!Zfp287;;chr13:67274092..67274140,+!p1@Rsl1!0.17!4.07!Rsl1;;chr17:69732364..69732405,+!p2@Zfp161!0.17!3.91!Zfp161;;chr4:108131994..108132056,+!p2@Zcchc11!0.17!3.59!Zcchc11;;chr5:76733499..76733532,-!p2@Clock!0.17!3.42!Clock;;chr18:3337537..3337598,-!p4@Crem!0.17!3.26!Crem;;chr11:106134144..106134174,-!p3@Smarcd2!0.17!3.26!Smarcd2;;chr5:147760339..147760350,+!p3@Gtf3a!0.17!3.10!Gtf3a;;chr8:87225670..87225697,+!p2@Lyl1!0.17!3.10!Lyl1;;chr9:96653072..96653154,-!p1@Zbtb38!0.17!2.77!Zbtb38;;chr12:75009172..75009223,+!p3@Hif1a!0.17!2.44!Hif1a;;chr16:4559721..4559747,-!p3@Tfap4!0.17!2.12!Tfap4;;chr5:34163132..34163158,+!p3@Whsc1!0.17!1.96!Whsc1;;chr13:44825008..44825066,+!p5@Jarid2!0.17!1.79!Jarid2;;chr13:53568104..53568156,-!p1@Msx2!0.17!1.14!Msx2;;chr12:77470573..77470585,-!p6@Zbtb25!0.17!1.14!Zbtb25;;chr3:5218516..5218544,+!p2@Zfhx4!0.17!1.14!Zfhx4;;chr6:47998938..47998955,-!p2@Zfp777!0.17!0.98!Zfp777;;chr18:55149778..55149798,-!p11@Zfp608!0.17!0.98!Zfp608;;chr13:78339134..78339185,-!p5@Nr2f1!0.17!0.81!Nr2f1;;chrX:66613569..66613586,+!p2@Aff2!0.17!0.81!Aff2;;chr3:100773602..100773607,-!p2@Ttf2!0.17!0.81!Ttf2;;chr4:102787067..102787080,+!p10@Mier1!0.17!0.81!Mier1;;chr8:111227455..111227464,+!p@chr8:111227455..111227464,+!0.17!0.81!Zfhx3;;chr13:78338288..78338309,-!p7@Nr2f1!0.17!0.65!Nr2f1;;chr1:138846009..138846038,-!p3@Nr5a2!0.17!0.65!Nr5a2;;chr2:180069640..180069660,-!p4@Gata5!0.17!0.49!Gata5;;chr1:186556495..186556506,-!p8@Hlx!0.17!0.49!Hlx;;chr2:17976830..17976848,+!p12@Mllt10!0.17!0.49!Mllt10;;chr2:163332558..163332596,+!p2@Hnf4a!0.17!0.49!Hnf4a;;chr2:104966909..104966920,+!p8@Wt1!0.17!0.49!Wt1;;chr2:168781014..168781025,-!p4@LOC100502777,p4@Zfp64!0.17!0.49!Zfp64;;chr2:172375081..172375105,+!p1@Tfap2c!0.17!0.49!Tfap2c;;
+|ffid_belonging_in_development=UBERON:0001041,UBERON:0008947,UBERON:0002532,UBERON:0006595,UBERON:0010316,FF:0000294
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 39: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011338
 |is_obsolete=
+|library_id=CNhs10604
+|library_id_phase_based=2:CNhs10604
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;404
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;404
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E14.CNhs10604.404-26F8.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E14.CNhs10604.404-26F8.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E14.CNhs10604.404-26F8.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E14.CNhs10604.404-26F8.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520embryo%2520E14.CNhs10604.404-26F8.mm9.nobarcode.rdna.fa.gz
 |name=lung, embryo E14
 |namespace=FANTOM5
@@ Line 44: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10604,LSID654,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.0474878704543523,0,0,0,0,0,0.119349425624985,0,0.0281534478836786,0,0,0.307774415137762,0,0,0,0,0,0,-0.0190293000235871,0,0,0,0,0,0.0655666358230307,0,0,0,0,0,0,0,-0.00122372118938419,0,0,0,0,0,-0.148062434758382,0,-0.100105626710152,0.335555049798725,0.150029271883042,0,0,0,0,0,0,0,0,0,0,0.122520581474887,0,-0.000438911740409637,0,0,0,0,0.0227196807401559,0,-0.044264540021293,0,0,0,0.0497442436027002,-0.0926774453064742,-0.158091042771083,0.0555855035896877,0,-0.000227099015397969,0,0,0.0655666358230307,0,0.0258712398304852,-0.0713827252548263,-0.233485223568955,0.139141617193005,0,0,0,0,0,0,-0.17183377338763,-0.381543343912707,-0.107602321798827,0,0,0,0,0
 |rna_box=26
 |rna_catalog_number=
@@ Line 59: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 79: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:404-26F8;search_select_hide=table117:404-26F8
 }}

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FF:404-26F8: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:15, 4 June 2020

CNhs10604

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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