FF:715-19A3: Difference between revisions

Latest revision as of 19:19, 4 June 2020

Name:	lung, neonate N07
Species:	Mouse (Mus musculus)
Library ID:	CNhs11111
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	lung
dev stage	7 days neonate
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		SAMD00005558

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11111		CAGE		DRX009039		DRR009913

Accession ID Mm9

Library id		BAM		CTSS
CNhs11111		DRZ001338		DRZ002721

Accession ID Mm10

Library id		BAM		CTSS
CNhs11111		DRZ012688		DRZ014071

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

CNhs11111

0	0
1	0
10	0
100	0
1000	0.0869
1001	0.146
1002	-0.0798
1003	0.327
1004	0
1005	0.048
1006	0.0764
1007	0.0873
1008	0
1009	0.446
101	-0.0507
1010	0
1011	-0.108
1012	0.0869
1013	-0.0407
1014	0.231
1015	-0.0272
1016	0.31
1017	0
1018	0.0869
1019	0
102	0
1020	0
1021	0
1022	0.0353
1023	0
1024	0.717
1025	1.319
1026	0
1027	0
1028	0
1029	0.436
103	0.276
1030	0.0869
1031	0.566
1032	0.0971
1033	-0.022
1034	0.159
1035	0
1036	0.0101
1037	0
1038	0.598
1039	0.0755
104	0
1040	0.502
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: CNhs11111

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.196
MA0003.1	MA0003.1	0.123
MA0004.1	MA0004.1	0.00899
MA0006.1	MA0006.1	0.0156
MA0007.1	MA0007.1	0.0448
MA0009.1	MA0009.1	0.943
MA0014.1	MA0014.1	0.96
MA0017.1	MA0017.1	2.74956e-4
MA0018.2	MA0018.2	2.01189e-4
MA0019.1	MA0019.1	0.72
MA0024.1	MA0024.1	0.82
MA0025.1	MA0025.1	0.527
MA0027.1	MA0027.1	0.367
MA0028.1	MA0028.1	1.31617e-5
MA0029.1	MA0029.1	0.504
MA0030.1	MA0030.1	0.138
MA0031.1	MA0031.1	0.169
MA0035.2	MA0035.2	8.85344e-4
MA0038.1	MA0038.1	0.879
MA0039.2	MA0039.2	0.092
MA0040.1	MA0040.1	0.817
MA0041.1	MA0041.1	0.285
MA0042.1	MA0042.1	0.525
MA0043.1	MA0043.1	0.0156
MA0046.1	MA0046.1	8.70528e-11
MA0047.2	MA0047.2	0.00174
MA0048.1	MA0048.1	0.466
MA0050.1	MA0050.1	0.0124
MA0051.1	MA0051.1	0.148
MA0052.1	MA0052.1	0.586
MA0055.1	MA0055.1	0.923
MA0057.1	MA0057.1	0.701
MA0058.1	MA0058.1	6.52627e-4
MA0059.1	MA0059.1	7.10455e-4
MA0060.1	MA0060.1	2.62165e-5
MA0061.1	MA0061.1	0.533
MA0062.2	MA0062.2	3.99855e-7
MA0065.2	MA0065.2	0.00145
MA0066.1	MA0066.1	0.162
MA0067.1	MA0067.1	0.31
MA0068.1	MA0068.1	0.882
MA0069.1	MA0069.1	0.612
MA0070.1	MA0070.1	0.482
MA0071.1	MA0071.1	0.00975
MA0072.1	MA0072.1	0.0287
MA0073.1	MA0073.1	0.598
MA0074.1	MA0074.1	0.734
MA0076.1	MA0076.1	1.22032e-6
MA0077.1	MA0077.1	0.182
MA0078.1	MA0078.1	0.00523
MA0079.2	MA0079.2	0.13
MA0080.2	MA0080.2	0.03
MA0081.1	MA0081.1	0.749
MA0083.1	MA0083.1	1.54819e-4
MA0084.1	MA0084.1	0.412
MA0087.1	MA0087.1	0.232
MA0088.1	MA0088.1	0.125
MA0090.1	MA0090.1	0.051
MA0091.1	MA0091.1	0.928
MA0092.1	MA0092.1	0.789
MA0093.1	MA0093.1	0.00497
MA0099.2	MA0099.2	0.0422
MA0100.1	MA0100.1	0.155
MA0101.1	MA0101.1	0.735
MA0102.2	MA0102.2	0.905
MA0103.1	MA0103.1	0.0109
MA0104.2	MA0104.2	1.3983e-5
MA0105.1	MA0105.1	0.482
MA0106.1	MA0106.1	0.018
MA0107.1	MA0107.1	0.0586
MA0108.2	MA0108.2	0.392
MA0111.1	MA0111.1	0.684
MA0112.2	MA0112.2	0.725
MA0113.1	MA0113.1	0.827
MA0114.1	MA0114.1	1.78766e-7
MA0115.1	MA0115.1	0.00637
MA0116.1	MA0116.1	0.571
MA0117.1	MA0117.1	0.152
MA0119.1	MA0119.1	0.0843
MA0122.1	MA0122.1	0.325
MA0124.1	MA0124.1	0.283
MA0125.1	MA0125.1	0.124
MA0131.1	MA0131.1	0.341
MA0135.1	MA0135.1	0.354
MA0136.1	MA0136.1	0.211
MA0137.2	MA0137.2	0.184
MA0138.2	MA0138.2	0.0425
MA0139.1	MA0139.1	0.557
MA0140.1	MA0140.1	0.292
MA0141.1	MA0141.1	2.00246e-6
MA0142.1	MA0142.1	0.735
MA0143.1	MA0143.1	0.845
MA0144.1	MA0144.1	0.825
MA0145.1	MA0145.1	0.001
MA0146.1	MA0146.1	0.892
MA0147.1	MA0147.1	1.36997e-6
MA0148.1	MA0148.1	0.0178
MA0149.1	MA0149.1	0.817
MA0150.1	MA0150.1	0.00268
MA0152.1	MA0152.1	0.0457
MA0153.1	MA0153.1	1.67719e-6
MA0154.1	MA0154.1	0.158
MA0155.1	MA0155.1	0.135
MA0156.1	MA0156.1	0.976
MA0157.1	MA0157.1	0.163
MA0159.1	MA0159.1	0.00445
MA0160.1	MA0160.1	4.12779e-5
MA0162.1	MA0162.1	0.102
MA0163.1	MA0163.1	0.206
MA0164.1	MA0164.1	0.493
MA0258.1	MA0258.1	0.129
MA0259.1	MA0259.1	0.0141

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: CNhs11111

Novel motif	Logo	P-value
1	1	0.422
10	10	0.302
100	100	0.293
101	101	0.806
102	102	0.836
103	103	0.887
104	104	0.859
105	105	0.753
106	106	0.00179
107	107	2.12936e-4
108	108	0.765
109	109	0.16
11	11	0.227
110	110	0.423
111	111	0.213
112	112	0.911
113	113	0.732
114	114	0.138
115	115	0.462
116	116	0.892
117	117	0.0168
118	118	0.417
119	119	0.898
12	12	0.627
120	120	0.142
121	121	0.733
122	122	0.685
123	123	0.62
124	124	0.539
125	125	0.914
126	126	0.537
127	127	0.529
128	128	0.00916
129	129	0.341
13	13	0.172
130	130	0.0101
131	131	0.118
132	132	0.496
133	133	0.501
134	134	0.848
135	135	0.159
136	136	0.548
137	137	0.329
138	138	0.0347
139	139	0.211
14	14	0.899
140	140	0.659
141	141	0.72
142	142	0.457
143	143	0.646
144	144	0.511
145	145	0.479
146	146	0.709
147	147	0.654
148	148	0.687
149	149	0.268
15	15	0.875
150	150	0.0575
151	151	0.769
152	152	0.0916
153	153	0.575
154	154	0.0686
155	155	0.711
156	156	0.0228
157	157	0.931
158	158	0.864
159	159	0.0459
160	160	0.117
161	161	0.817
162	162	0.318
163	163	0.81
164	164	0.739
165	165	0.35
166	166	0.029
167	167	0.504
168	168	0.715
169	169	0.0627
17	17	0.663
18	18	0.0201
19	19	0.0691
2	2	0.265
20	20	0.54
21	21	0.673
22	22	0.329
23	23	0.214
24	24	0.853
25	25	0.0423
26	26	0.146
27	27	0.641
28	28	0.661
29	29	0.111
3	3	0.42
30	30	0.815
31	31	0.499
32	32	0.134
33	33	0.569
34	34	0.589
35	35	0.0247
36	36	0.599
37	37	0.483
38	38	0.591
39	39	0.0882
4	4	0.841
40	40	0.985
41	41	0.258
42	42	0.714
43	43	0.488
44	44	0.0956
45	45	0.308
46	46	0.679
47	47	0.481
48	48	0.331
49	49	0.866
5	5	0.612
50	50	0.27
51	51	0.898
52	52	0.0415
53	53	0.6
54	54	0.753
55	55	0.797
56	56	0.953
57	57	0.567
58	58	0.514
59	59	0.31
6	6	0.872
60	60	0.102
61	61	0.586
62	62	0.225
63	63	0.794
64	64	0.201
65	65	0.879
66	66	0.135
67	67	0.877
68	68	0.294
69	69	0.636
7	7	0.98
70	70	0.0921
71	71	0.654
72	72	0.259
73	73	0.974
74	74	0.996
75	75	0.0633
76	76	0.994
77	77	0.55
78	78	0.182
79	79	0.82
8	8	0.158
80	80	0.271
81	81	0.144
82	82	0.726
83	83	0.908
84	84	0.164
85	85	0.54
86	86	0.733
87	87	7.91034e-4
88	88	0.736
89	89	0.672
9	9	0.324
90	90	0.0776
91	91	0.241
92	92	0.457
93	93	0.487
94	94	0.369
95	95	0.29
96	96	0.377
97	97	0.803
98	98	0.433
99	99	0.255

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: CNhs11111

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011408 mouse lung- neonate N07 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)
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)
0000004 (tissue sample)
0000303 (neonate sample - mouse)
0000313 (mouse neonate N7 sample)
0011408 (mouse lung- neonate N07 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@DRS008902
+|DRA_sample_Accession=CAGE@SAMD00005558
+|accession_numbers=CAGE;DRX009039;DRR009913;DRZ001338;DRZ002721;DRZ012688;DRZ014071
 |ancestors_in_anatomy_facet=UBERON:0000468,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 8: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr11:85699862..85699920,+!p1@Tbx4!2.14!136.87!Tbx4;;chr10:22539932..22539956,-!p1@Tcf21!2.12!331.75!Tcf21;;chr8:123608252..123608268,+!p1@Foxf1a!2.05!160.12!Foxf1a;;chr5:77543897..77543911,-!p2@Hopx!1.77!108.07!Hopx;;chr12:37835141..37835194,+!p1@Meox2!1.65!130.44!Meox2;;chr2:180069370..180069409,-!p1@Gata5!1.65!51.16!Gata5;;chr12:57636034..57636087,-!p1@Nkx2-1!1.63!41.64!Nkx2-1;;chr13:31717548..31717596,+!p1@Foxf2!1.58!71.98!Foxf2;;chr12:37835120..37835133,+!p2@Meox2!1.58!52.93!Meox2;;chr11:85646303..85646329,+!p1@Tbx2!1.48!186.25!Tbx2;;chr2:103264213..103264233,+!p1@Elf5!1.46!27.90!Elf5;;chr5:98609885..98609900,+!p1@Prdm8!1.38!22.81!Prdm8;;chr12:57636178..57636194,-!p2@Nkx2-1!1.35!21.48!Nkx2-1;;chr17:87153462..87153473,+!p3@Epas1!1.28!66.44!Epas1;;chr17:87153240..87153254,+!p1@Epas1!1.26!325.55!Epas1;;chr11:85646341..85646352,+!p3@Tbx2!1.23!31.45!Tbx2;;chr13:72766250..72766273,+!p1@Irx2!1.23!24.80!Irx2;;chr2:147871627..147871641,-!p1@Foxa2!1.22!15.50!Foxa2;;chr13:72101161..72101177,-!p2@Irx1!1.21!20.82!Irx1;;chr12:57636220..57636236,-!p3@Nkx2-1!1.21!15.06!Nkx2-1;;chr6:52154414..52154462,-!p1@Hoxa5!1.20!20.37!Hoxa5;;chr6:52154386..52154407,-!p2@Hoxa5!1.19!18.60!Hoxa5;;chr11:85703483..85703508,+!p2@Tbx4!1.18!14.17!Tbx4;;chr1:186556323..186556370,-!p2@Hlx!1.17!37.43!Hlx;;chr14:64562503..64562524,+!p1@Sox7!1.14!75.74!Sox7;;chr17:87153028..87153049,+!p2@Epas1!1.13!255.35!Epas1;;chr5:120285144..120285160,+!p1@Tbx5!1.13!12.62!Tbx5;;chr13:72766279..72766296,+!p2@Irx2!1.12!18.16!Irx2;;chr1:4486481..4486501,-!p2@Sox17!1.12!18.16!Sox17;;chr13:31717597..31717613,+!p2@Foxf2!1.11!11.96!Foxf2;;chr11:85646263..85646278,+!p2@Tbx2!1.10!29.90!Tbx2;;chr11:85646427..85646451,+!p4@Tbx2!1.10!20.15!Tbx2;;chr1:4483679..4483695,-!p1@Sox17!1.09!53.37!Sox17;;chr12:37835203..37835218,+!p3@Meox2!1.08!13.07!Meox2;;chr12:37835248..37835260,+!p4@Meox2!1.06!10.41!Meox2;;chr11:116196664..116196679,-!p1@Foxj1!1.05!15.95!Foxj1;;chr11:85646469..85646488,+!p5@Tbx2!1.05!15.28!Tbx2;;chr16:95680889..95680991,-!p1@Erg!1.04!82.61!Erg;;chr12:57636240..57636256,-!p4@Nkx2-1!1.04!9.97!Nkx2-1;;chr5:77543935..77543947,-!p4@Hopx!1.03!9.74!Hopx;;chr13:72101178..72101203,-!p1@Irx1!1.02!15.06!Irx1;;chr18:53623836..53623839,+!p1@Prdm6!1.01!10.63!Prdm6;;chr2:103264245..103264268,+!p2@Elf5!1.00!9.08!Elf5;;chr17:87153440..87153451,+!p4@Epas1!0.99!18.16!Epas1;;chr13:72101141..72101158,-!p3@Irx1!0.98!10.85!Irx1;;chr6:88148650..88148669,+!p1@Gata2!0.97!71.98!Gata2;;chr5:120120667..120120685,+!p3@Tbx3!0.97!16.17!Tbx3;;chr12:58646974..58647003,-!p1@Foxa1!0.96!11.07!Foxa1;;chr11:85703335..85703350,+!p4@Tbx4!0.96!8.19!Tbx4;;chr9:96159147..96159204,+!p2@Tfdp2!0.95!15.28!Tfdp2;;chr11:96213288..96213332,+!p@chr11:96213288..96213332,+!0.95!13.73!Hoxb2;;chr11:96164821..96164865,+!p1@Hoxb5!0.95!7.97!Hoxb5;;chr5:120121446..120121461,+!p2@Tbx3!0.94!26.58!Tbx3;;chr12:57637732..57637777,-!p5@Nkx2-1!0.94!7.75!Nkx2-1;;chr12:36219645..36219730,-!p1@Ahr!0.93!76.63!Ahr;;chr8:94325814..94325839,-!p2@Irx3!0.93!16.17!Irx3;;chr12:39507680..39507715,+!p2@Etv1!0.93!15.28!Etv1;;chr1:4486453..4486470,-!p3@Sox17!0.93!9.97!Sox17;;chr11:85699562..85699575,+!p6@Tbx4!0.92!7.31!Tbx4;;chr18:52775562..52775650,+!p1@Zfp474!0.92!7.31!Zfp474;;chr5:77544170..77544181,-!p6@Hopx!0.91!7.09!Hopx;;chr6:99216488..99216534,-!p2@Foxp1!0.90!20.37!Foxp1;;chr11:96213434..96213452,+!p@chr11:96213434..96213452,+!0.90!9.30!Hoxb2;;chr10:92773591..92773623,-!p1@Elk3!0.89!160.34!Elk3;;chr2:103143336..103143367,-!p1@Ehf!0.89!11.29!Ehf;;chr17:87153519..87153533,+!p5@Epas1!0.89!10.19!Epas1;;chr3:30408603..30408668,-!p1@Mecom!0.88!15.95!Mecom;;chr11:83664365..83664383,+!p1@Hnf1b!0.88!6.64!Hnf1b;;chr12:37835219..37835230,+!p5@Meox2!0.87!6.42!Meox2;;chr4:122911086..122911112,+!p1@Heyl!0.86!76.85!Heyl;;chr16:14705925..14705951,+!p1@Snai2!0.85!44.96!Snai2;;chr4:82151126..82151133,-!p8@Nfib!0.85!8.19!Nfib;;chr8:94881733..94881790,+!p1@Irx5!0.84!12.18!Irx5;;chr14:98568971..98569025,-!p1@Dach1!0.83!48.06!Dach1;;chr18:11052642..11052659,+!p1@Gata6!0.83!31.23!Gata6;;chr4:148275237..148275311,+!p2@Casz1!0.83!25.47!Casz1;;chr6:14851287..14851342,+!p1@Foxp2!0.83!20.15!Foxp2;;chr9:96653072..96653154,-!p1@Zbtb38!0.83!16.39!Zbtb38;;chr17:87153505..87153516,+!p6@Epas1!0.82!7.97!Epas1;;chr8:94325321..94325366,-!p1@Irx3!0.81!13.95!Irx3;;chr2:167363692..167363710,+!p1@Snai1!0.80!69.76!Snai1;;chr9:24578720..24578735,-!p1@Tbx20!0.80!5.32!Tbx20;;chr4:82151148..82151159,-!p5@Nfib!0.79!15.72!Nfib;;chr11:70043257..70043263,-!p1@Bcl6b!0.79!9.30!Bcl6b;;chr4:135840623..135840632,+!p5@Zfp46!0.79!7.09!Zfp46;;chr2:181406327..181406350,-!p1@Sox18!0.78!170.31!Sox18;;chr4:135840573..135840601,+!p1@Zfp46!0.78!43.19!Zfp46;;chr19:26681672..26681716,+!p5@Smarca2!0.78!22.81!Smarca2;;chr4:119486912..119486954,+!p3@Hivep3!0.78!9.08!Hivep3;;chr2:164228702..164228719,+!p1@Rbpjl!0.78!5.09!Rbpjl;;chr2:44968721..44968734,-!p6@Zeb2!0.77!19.93!Zeb2;;chr1:186556410..186556424,-!p1@Hlx!0.77!16.39!Hlx;;chr1:4486505..4486527,-!p5@Sox17!0.77!6.64!Sox17;;chr6:52141694..52141715,-!p1@Hoxa4!0.77!6.42!Hoxa4;;chr14:98568761..98568814,-!p2@Dach1!0.76!35.66!Dach1;;chr1:186556375..186556404,-!p3@Hlx!0.75!8.86!Hlx;;chr8:74842952..74842970,+!p1@Klf2!0.74!337.51!Klf2;;chr11:52096804..52096896,-!p1@Tcf7!0.74!40.75!Tcf7;;chr6:52114821..52114828,-!p1@Hoxa2!0.74!7.09!Hoxa2;;chr1:4486530..4486557,-!p4@Sox17!0.74!5.98!Sox17;;chr10:67599319..67599360,-!p2@Arid5b!0.73!54.26!Arid5b;;chr6:144730427..144730508,-!p1@Sox5!0.73!29.90!Sox5;;chr5:120121020..120121049,+!p1@Tbx3!0.73!29.68!Tbx3;;chr16:14705961..14705978,+!p2@Snai2!0.73!22.81!Snai2;;chr13:99954640..99954681,+!p1@Zfp366!0.73!17.50!Zfp366;;chr1:186556307..186556318,-!p7@Hlx!0.73!4.43!Hlx;;chr4:55545337..55545357,-!p1@Klf4!0.72!71.09!Klf4;;chr18:80909801..80909819,-!p1@Nfatc1!0.72!27.68!Nfatc1;;chr2:44968737..44968758,-!p2@Zeb2!0.72!27.02!Zeb2;;chr6:128250380..128250442,-!p2@Tead4!0.72!5.54!Tead4;;chr12:57637882..57637924,-!p6@Nkx2-1!0.72!4.21!Nkx2-1;;chr11:96180069..96180089,+!p3@Hoxb4!0.72!4.21!Hoxb4;;chr14:22807083..22807104,-!p1@Zfp503!0.71!81.50!Zfp503;;chr12:39506873..39506913,+!p1@Etv1!0.71!47.84!Etv1;;chr2:77357622..77357704,-!p1@Zfp385b!0.71!12.18!Zfp385b;;chr10:126778916..126778974,-!p1@Gli1!0.71!9.97!Gli1;;chr6:128250471..128250519,-!p1@Tead4!0.71!8.86!Tead4;;chr9:63869802..63869815,-!p3@Smad6!0.71!8.86!Smad6;;chr4:82151178..82151262,-!p1@Nfib!0.70!184.92!Nfib;;chr16:22439681..22439698,-!p1@Etv5!0.70!78.84!Etv5;;chr4:82151274..82151290,-!p3@Nfib!0.70!73.97!Nfib;;chr3:8666963..8666978,-!p1@Hey1!0.70!29.23!Hey1;;chr11:101755669..101755686,-!p1@Meox1!0.70!7.75!Meox1;;chr8:94325486..94325510,-!p4@Irx3!0.70!5.54!Irx3;;chr5:120285161..120285176,+!p2@Tbx5!0.70!3.99!Tbx5;;chr14:22807107..22807119,-!p2@Zfp503!0.69!19.27!Zfp503;;chr5:77524250..77524300,-!p1@Hopx!0.68!87.70!Hopx;;chr6:98978245..98978289,-!p1@Foxp1!0.68!64.22!Foxp1;;chr15:81633165..81633188,+!p2@Tef!0.68!35.88!Tef;;chr7:38554763..38554780,-!p1@Zfp536!0.68!7.31!Zfp536;;chr3:30408674..30408716,-!p2@Mecom!0.68!6.64!Mecom;;chr13:31717614..31717628,+!p3@Foxf2!0.68!3.76!Foxf2;;chr2:180069423..180069434,-!p2@Gata5!0.68!3.76!Gata5;;chr11:96164905..96164919,+!p2@Hoxb5!0.68!3.76!Hoxb5;;chr2:44968512..44968530,-!p1@Zeb2!0.67!95.01!Zeb2;;chr4:119406389..119406411,+!p1@Hivep3!0.67!20.60!Hivep3;;chr7:119822957..119822980,+!p2@Tead1!0.67!20.15!Tead1;;chr7:119822915..119822936,+!p5@Tead1!0.67!6.42!Tead1;;chr11:96213264..96213282,+!p@chr11:96213264..96213282,+!0.67!4.87!Hoxb2;;chr14:98569030..98569059,-!p3@Dach1!0.66!19.49!Dach1;;chr8:94325779..94325791,-!p7@Irx3!0.66!3.54!Irx3;;chr9:32503590..32503680,+!p1@Ets1!0.65!149.93!Ets1;;chr4:82151653..82151706,-!p2@Nfib!0.65!114.05!Nfib;;chr14:65568469..65568511,-!p2@Hmbox1!0.65!12.84!Hmbox1;;chr18:11052606..11052633,+!p4@Gata6!0.65!9.74!Gata6;;chr16:42907676..42907797,+!p1@Zbtb20!0.64!51.38!Zbtb20;;chr9:63869890..63869908,-!p6@Smad6!0.64!4.65!Smad6;;chr2:147871948..147871977,-!p3@Foxa2!0.64!3.32!Foxa2;;chr16:22439654..22439676,-!p2@Etv5!0.63!22.59!Etv5;;chr18:69504195..69504213,+!p4@Tcf4!0.63!17.50!Tcf4;;chr4:114732112..114732158,+!p1@Tal1!0.63!7.97!Tal1;;chr14:56443806..56443848,+!p1@Nfatc4!0.63!7.31!Nfatc4;;chr11:96180045..96180059,+!p1@Hoxb4!0.63!4.87!Hoxb4;;chr5:120121262..120121282,+!p6@Tbx3!0.63!3.76!Tbx3;;chr16:92697560..92697592,-!p2@Runx1!0.62!23.25!Runx1;;chr11:16908650..16908690,-!p1@Plek!0.62!23.03!Plek;;chr17:34730333..34730362,+!p2@Pbx2!0.62!14.62!Pbx2;;chr5:65213356..65213412,+!p6@Klf3!0.62!7.53!Klf3;;chr2:91035197..91035237,-!p1@Nr1h3!0.62!7.31!Nr1h3;;chr10:67599361..67599372,-!p5@Arid5b!0.62!5.32!Arid5b;;chr1:135320989..135321043,-!p1@Sox13!0.61!40.53!Sox13;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.61!10.19!Tfcp2l1;;chr8:87225670..87225697,+!p2@Lyl1!0.61!10.19!Lyl1;;chr12:87027598..87027652,+!p1@Batf!0.61!7.97!Batf;;chr17:28487603..28487626,-!p2@Tead3!0.61!7.31!Tead3;;chr13:99954688..99954710,+!p2@Zfp366!0.61!6.64!Zfp366;;chr16:92697354..92697362,-!p3@Runx1!0.61!5.09!Runx1;;chr1:38721792..38721845,-!p1@Aff3!0.61!3.99!Aff3;;chr11:96160360..96160397,+!p3@Hoxb6!0.61!3.10!Hoxb6;;chr7:77505617..77505632,-!p1@Nr2f2!0.60!168.53!Nr2f2;;chr4:97444012..97444045,+!p4@Nfia!0.60!26.80!Nfia;;chr1:137155026..137155042,-!p1@Elf3!0.60!20.60!Elf3;;chr10:92773708..92773734,-!p3@Elk3!0.60!6.64!Elk3;;chr3:135271185..135271254,-!p4@Nfkb1!0.60!5.98!Nfkb1;;chr2:44966659..44966675,-!p7@Zeb2!0.59!9.74!Zeb2;;chr4:13670571..13670625,+!p1@Runx1t1!0.59!9.08!Runx1t1;;chr12:57637595..57637608,-!p7@Nkx2-1!0.59!2.88!Nkx2-1;;chr6:14851440..14851497,+!p2@Foxp2!0.58!7.97!Foxp2;;chr16:43619101..43619151,+!p6@Zbtb20!0.58!7.75!Zbtb20;;chr5:120121169..120121171,+!p4@Tbx3!0.58!5.54!Tbx3;;chr6:128250521..128250543,-!p3@Tead4!0.58!4.87!Tead4;;chrX:103070746..103070764,-!p5@Atrx!0.58!4.65!Atrx;;chrX:103070960..103070973,-!p7@Atrx!0.58!3.99!Atrx;;chr6:53523358..53523388,+!p1@Creb5!0.57!40.09!Creb5;;chr15:101097270..101097290,+!p1@Nr4a1!0.57!34.77!Nr4a1;;chr2:152758901..152758925,-!p1@Foxs1!0.57!14.40!Foxs1;;chr4:148178559..148178603,+!p1@Casz1!0.57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@@ Line 42: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011408
 |is_obsolete=
-|library_ids=CNhs11111
+|library_id=CNhs11111
+|library_id_phase_based=2:CNhs11111
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;715
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;715
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N07.CNhs11111.715-19A3.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N07.CNhs11111.715-19A3.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N07.CNhs11111.715-19A3.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N07.CNhs11111.715-19A3.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N07.CNhs11111.715-19A3.mm9.nobarcode.rdna.fa.gz
 |name=lung, neonate N07
 |namespace=FANTOM5
@@ Line 48: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11111,LSID734,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.246399121453827,0.0484995524856321,0,0.086880916817156,0.159245076116426,0.0180682051923567,0.592110163436423,0,0.157143774963992,0,0.0101714596515235,0.282790739881651,0,0,0,0,0,0,0.175236629395618,0,0,0,0,0,0.086880916817156,0,0.02236720403058,0,0,0,0,0,0.435391906839704,0,0,0,0.086880916817156,0.0538884008874407,0.195667537305306,0.0618000937870615,-0.0205829016140675,0.427476428166949,-0.110623561893925,0,0,0,0,0,0,0,0,0,0,0.086880916817156,0,0.155250611955647,0,0,0,0,0.0440339617342812,0,0.086880916817156,0.086880916817156,0.086880916817156,0.0987761013429483,0.187095373528675,0.225416601561513,-0.0712101259539265,0.180631888437317,0,0.245722598836498,0.0639607982347636,0.0882685820046418,0.221256159519088,0,0.0998910950206309,0.00151486625787023,0.0821388847250585,0.14242456467918,0,0,0,0,0.043440458408578,0.086880916817156,-0.0133203581309256,-0.0274639506710086,-0.0644969440285962,0.0123266619096519,0,0,0,0
@@ Line 85: / Line 97: @@
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 |xref=
-}} {{DRAAccessionNumbers
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:715-19A3;search_select_hide=table117:715-19A3
-|DRA_sample_Accession=CAGE@DRS008902
-|accession_numbers=DRX009039;DRR009913;DRZ001338;DRZ002721;CAGE
-|library_id=CNhs11111
 }}

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From FANTOM5_SSTAR

Latest revision as of 19:19, 4 June 2020

CNhs11111

	FAQ
	Mozilla Cavendish skin modified by DaSch for the Web Community Wiki GitHub project page – Report a bug – Skin version: 2.6.0