FF:822-18A4: Difference between revisions

Latest revision as of 19:20, 4 June 2020

Name:	lung, neonate N20
Species:	Mouse (Mus musculus)
Library ID:	CNhs11109
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	lung
dev stage	20 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		SAMD00004879

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11109		CAGE		DRX009041		DRR009915

Accession ID Mm9

Library id		BAM		CTSS
CNhs11109		DRZ001340		DRZ002723

Accession ID Mm10

Library id		BAM		CTSS
CNhs11109		DRZ012690		DRZ014073

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

CNhs11109

0	0
1	0
10	0.0659
100	0
1000	0.059
1001	0.253
1002	-0.0363
1003	0.193
1004	0
1005	0.2
1006	0.152
1007	0.0373
1008	0.0659
1009	0.441
101	-0.0759
1010	0
1011	-0.0788
1012	0.219
1013	0.0964
1014	0.0791
1015	-0.223
1016	0.0534
1017	0.0659
1018	0.174
1019	0
102	0
1020	0
1021	-0.0487
1022	0.261
1023	0.0659
1024	0.598
1025	1.222
1026	0
1027	0
1028	0
1029	0.395
103	0.113
1030	0.394
1031	0.279
1032	0.0744
1033	-5.948308e-4
1034	0.0874
1035	0.0659
1036	-0.0392
1037	0
1038	0.478
1039	0.163
104	0
1040	0.514
1041	0.297

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: CNhs11109

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.359
MA0003.1	MA0003.1	0.0686
MA0004.1	MA0004.1	0.152
MA0006.1	MA0006.1	0.0648
MA0007.1	MA0007.1	0.794
MA0009.1	MA0009.1	0.362
MA0014.1	MA0014.1	0.667
MA0017.1	MA0017.1	0.193
MA0018.2	MA0018.2	7.88765e-5
MA0019.1	MA0019.1	0.932
MA0024.1	MA0024.1	1.16491e-4
MA0025.1	MA0025.1	0.275
MA0027.1	MA0027.1	0.611
MA0028.1	MA0028.1	0.00215
MA0029.1	MA0029.1	0.566
MA0030.1	MA0030.1	0.166
MA0031.1	MA0031.1	0.0139
MA0035.2	MA0035.2	0.159
MA0038.1	MA0038.1	0.313
MA0039.2	MA0039.2	0.0059
MA0040.1	MA0040.1	0.714
MA0041.1	MA0041.1	0.23
MA0042.1	MA0042.1	0.471
MA0043.1	MA0043.1	0.0193
MA0046.1	MA0046.1	2.87509e-9
MA0047.2	MA0047.2	9.58928e-6
MA0048.1	MA0048.1	0.523
MA0050.1	MA0050.1	4.28818e-6
MA0051.1	MA0051.1	0.00381
MA0052.1	MA0052.1	0.0129
MA0055.1	MA0055.1	0.349
MA0057.1	MA0057.1	0.109
MA0058.1	MA0058.1	0.0548
MA0059.1	MA0059.1	0.0522
MA0060.1	MA0060.1	1.10758e-12
MA0061.1	MA0061.1	0.0755
MA0062.2	MA0062.2	6.5658e-4
MA0065.2	MA0065.2	0.739
MA0066.1	MA0066.1	0.974
MA0067.1	MA0067.1	0.528
MA0068.1	MA0068.1	0.795
MA0069.1	MA0069.1	0.471
MA0070.1	MA0070.1	0.806
MA0071.1	MA0071.1	0.323
MA0072.1	MA0072.1	0.193
MA0073.1	MA0073.1	0.864
MA0074.1	MA0074.1	0.459
MA0076.1	MA0076.1	4.38208e-4
MA0077.1	MA0077.1	0.014
MA0078.1	MA0078.1	0.00803
MA0079.2	MA0079.2	0.154
MA0080.2	MA0080.2	2.32115e-8
MA0081.1	MA0081.1	0.294
MA0083.1	MA0083.1	0.00386
MA0084.1	MA0084.1	0.795
MA0087.1	MA0087.1	0.63
MA0088.1	MA0088.1	0.997
MA0090.1	MA0090.1	0.0363
MA0091.1	MA0091.1	0.867
MA0092.1	MA0092.1	0.388
MA0093.1	MA0093.1	0.124
MA0099.2	MA0099.2	0.834
MA0100.1	MA0100.1	0.144
MA0101.1	MA0101.1	0.365
MA0102.2	MA0102.2	0.287
MA0103.1	MA0103.1	0.569
MA0104.2	MA0104.2	0.00726
MA0105.1	MA0105.1	0.151
MA0106.1	MA0106.1	0.0273
MA0107.1	MA0107.1	0.0308
MA0108.2	MA0108.2	0.347
MA0111.1	MA0111.1	0.178
MA0112.2	MA0112.2	0.00934
MA0113.1	MA0113.1	0.573
MA0114.1	MA0114.1	0.0663
MA0115.1	MA0115.1	0.0717
MA0116.1	MA0116.1	0.136
MA0117.1	MA0117.1	0.498
MA0119.1	MA0119.1	0.0356
MA0122.1	MA0122.1	0.202
MA0124.1	MA0124.1	0.179
MA0125.1	MA0125.1	0.0644
MA0131.1	MA0131.1	0.113
MA0135.1	MA0135.1	0.491
MA0136.1	MA0136.1	0.0337
MA0137.2	MA0137.2	0.712
MA0138.2	MA0138.2	0.719
MA0139.1	MA0139.1	0.109
MA0140.1	MA0140.1	0.883
MA0141.1	MA0141.1	0.134
MA0142.1	MA0142.1	0.779
MA0143.1	MA0143.1	0.262
MA0144.1	MA0144.1	0.224
MA0145.1	MA0145.1	0.00205
MA0146.1	MA0146.1	0.518
MA0147.1	MA0147.1	0.00803
MA0148.1	MA0148.1	3.20513e-4
MA0149.1	MA0149.1	0.271
MA0150.1	MA0150.1	0.677
MA0152.1	MA0152.1	0.369
MA0153.1	MA0153.1	1.49493e-6
MA0154.1	MA0154.1	0.00316
MA0155.1	MA0155.1	0.257
MA0156.1	MA0156.1	0.0272
MA0157.1	MA0157.1	0.0117
MA0159.1	MA0159.1	0.748
MA0160.1	MA0160.1	0.168
MA0162.1	MA0162.1	0.127
MA0163.1	MA0163.1	0.634
MA0164.1	MA0164.1	0.602
MA0258.1	MA0258.1	0.171
MA0259.1	MA0259.1	0.0193

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: CNhs11109

Novel motif	Logo	P-value
1	1	0.544
10	10	0.999
100	100	0.519
101	101	0.404
102	102	0.479
103	103	0.141
104	104	0.836
105	105	0.389
106	106	8.99126e-4
107	107	0.00384
108	108	0.969
109	109	0.258
11	11	0.879
110	110	0.678
111	111	0.729
112	112	0.227
113	113	0.876
114	114	0.386
115	115	0.654
116	116	0.956
117	117	0.211
118	118	0.893
119	119	0.056
12	12	0.694
120	120	0.314
121	121	0.315
122	122	0.681
123	123	0.616
124	124	0.418
125	125	0.625
126	126	0.205
127	127	0.109
128	128	0.00149
129	129	0.1
13	13	0.0398
130	130	0.012
131	131	0.154
132	132	0.395
133	133	0.73
134	134	0.937
135	135	0.528
136	136	0.256
137	137	0.248
138	138	0.0474
139	139	0.469
14	14	0.248
140	140	0.477
141	141	0.152
142	142	0.0556
143	143	0.717
144	144	0.966
145	145	0.18
146	146	0.813
147	147	0.767
148	148	0.47
149	149	0.0434
15	15	0.325
150	150	0.244
151	151	0.146
152	152	0.0451
153	153	0.446
154	154	0.32
155	155	0.572
156	156	0.0824
157	157	0.812
158	158	0.663
159	159	0.0228
160	160	0.0734
161	161	0.897
162	162	0.391
163	163	0.885
164	164	0.557
165	165	0.688
166	166	0.198
167	167	0.604
168	168	0.818
169	169	0.00745
17	17	0.252
18	18	0.258
19	19	0.0371
2	2	0.163
20	20	0.306
21	21	0.599
22	22	0.128
23	23	0.0165
24	24	0.317
25	25	0.359
26	26	0.0662
27	27	0.743
28	28	0.458
29	29	0.529
3	3	0.481
30	30	0.749
31	31	0.819
32	32	0.703
33	33	0.912
34	34	0.53
35	35	0.311
36	36	0.849
37	37	0.0468
38	38	0.242
39	39	0.153
4	4	0.619
40	40	0.701
41	41	0.454
42	42	0.499
43	43	0.13
44	44	0.448
45	45	0.157
46	46	0.586
47	47	0.602
48	48	0.902
49	49	0.232
5	5	0.441
50	50	0.398
51	51	0.434
52	52	0.0639
53	53	0.299
54	54	0.483
55	55	0.985
56	56	0.295
57	57	0.657
58	58	0.539
59	59	0.095
6	6	0.926
60	60	0.0413
61	61	0.869
62	62	0.509
63	63	0.154
64	64	0.72
65	65	0.142
66	66	0.0715
67	67	0.358
68	68	0.669
69	69	0.794
7	7	0.306
70	70	0.234
71	71	0.264
72	72	0.93
73	73	0.194
74	74	0.799
75	75	0.807
76	76	0.502
77	77	0.185
78	78	0.882
79	79	0.799
8	8	0.983
80	80	0.854
81	81	0.929
82	82	0.234
83	83	0.313
84	84	0.378
85	85	0.0325
86	86	0.885
87	87	0.0219
88	88	0.739
89	89	0.309
9	9	0.159
90	90	0.908
91	91	0.336
92	92	0.0722
93	93	0.444
94	94	0.853
95	95	0.685
96	96	0.378
97	97	0.66
98	98	0.856
99	99	0.24

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: CNhs11109

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011428 mouse lung- neonate N20 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)
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)
0000308 (mouse neonate N20 sample)
0011428 (mouse lung- neonate N20 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@SAMD00004879
+|accession_numbers=CAGE;DRX009041;DRR009915;DRZ001340;DRZ002723;DRZ012690;DRZ014073
 |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 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr5:77543897..77543911,-!p2@Hopx!2.26!333.63!Hopx;;chr10:22539932..22539956,-!p1@Tcf21!1.91!206.63!Tcf21;;chr8:123608252..123608268,+!p1@Foxf1a!1.86!103.40!Foxf1a;;chr11:85699862..85699920,+!p1@Tbx4!1.85!69.15!Tbx4;;chr12:57636034..57636087,-!p1@Nkx2-1!1.75!55.22!Nkx2-1;;chr17:87153240..87153254,+!p1@Epas1!1.56!647.75!Epas1;;chr17:87153462..87153473,+!p3@Epas1!1.49!108.48!Epas1;;chr12:57636178..57636194,-!p2@Nkx2-1!1.47!28.18!Nkx2-1;;chr5:77543935..77543947,-!p4@Hopx!1.46!27.86!Hopx;;chr13:72101161..72101177,-!p2@Irx1!1.43!35.23!Irx1;;chr11:85646303..85646329,+!p1@Tbx2!1.30!121.75!Tbx2;;chr5:98609885..98609900,+!p1@Prdm8!1.30!19.01!Prdm8;;chr17:87153028..87153049,+!p2@Epas1!1.29!369.18!Epas1;;chr2:103264213..103264233,+!p1@Elf5!1.29!18.68!Elf5;;chr11:98636531..98636559,-!p1@Nr1d1!1.26!96.19!Nr1d1;;chr2:103143336..103143367,-!p1@Ehf!1.25!26.71!Ehf;;chr13:31717548..31717596,+!p1@Foxf2!1.24!32.44!Foxf2;;chr14:64562503..64562524,+!p1@Sox7!1.23!92.91!Sox7;;chr5:77544170..77544181,-!p6@Hopx!1.21!15.40!Hopx;;chr11:116196664..116196679,-!p1@Foxj1!1.20!22.94!Foxj1;;chr17:87153519..87153533,+!p5@Epas1!1.17!20.48!Epas1;;chr7:51787434..51787448,-!p1@Spib!1.17!19.66!Spib;;chr7:52960555..52960662,+!p1@Dbp!1.16!112.41!Dbp;;chr15:81633165..81633188,+!p2@Tef!1.16!109.46!Tef;;chr6:99216488..99216534,-!p2@Foxp1!1.16!38.18!Foxp1;;chr17:87153440..87153451,+!p4@Epas1!1.16!27.53!Epas1;;chr1:4486481..4486501,-!p2@Sox17!1.16!20.16!Sox17;;chr2:147871627..147871641,-!p1@Foxa2!1.16!13.60!Foxa2;;chr6:88148650..88148669,+!p1@Gata2!1.15!108.31!Gata2;;chr6:52154386..52154407,-!p2@Hoxa5!1.15!16.88!Hoxa5;;chr2:180069370..180069409,-!p1@Gata5!1.15!15.40!Gata5;;chr3:8666963..8666978,-!p1@Hey1!1.13!80.95!Hey1;;chr4:44723559..44723593,-!p1@Pax5!1.13!12.45!Pax5;;chr13:72766279..72766296,+!p2@Irx2!1.12!18.19!Irx2;;chr9:96159147..96159204,+!p2@Tfdp2!1.11!22.45!Tfdp2;;chr13:72766250..72766273,+!p1@Irx2!1.11!18.52!Irx2;;chr13:72101178..72101203,-!p1@Irx1!1.09!17.70!Irx1;;chr12:58646974..58647003,-!p1@Foxa1!1.09!15.24!Foxa1;;chr1:38721792..38721845,-!p1@Aff3!1.09!14.09!Aff3;;chr16:95680889..95680991,-!p1@Erg!1.06!85.86!Erg;;chr12:37835141..37835194,+!p1@Meox2!1.06!32.77!Meox2;;chr9:48644037..48644067,-!p2@Zbtb16!1.06!26.71!Zbtb16;;chr11:85646341..85646352,+!p3@Tbx2!1.06!20.97!Tbx2;;chr3:30408674..30408716,-!p2@Mecom!1.06!17.21!Mecom;;chr4:135129538..135129558,-!p1@Grhl3!1.06!15.89!Grhl3;;chr3:30408603..30408668,-!p1@Mecom!1.05!23.76!Mecom;;chr11:85646469..85646488,+!p5@Tbx2!1.05!15.57!Tbx2;;chr11:85646263..85646278,+!p2@Tbx2!1.04!25.73!Tbx2;;chr15:81633203..81633215,+!p3@Tef!1.04!15.73!Tef;;chr9:63869890..63869908,-!p6@Smad6!1.04!13.11!Smad6;;chr4:44723520..44723544,-!p2@Pax5!1.03!9.83!Pax5;;chr12:57636240..57636256,-!p4@Nkx2-1!1.03!9.83!Nkx2-1;;chr4:148275237..148275311,+!p2@Casz1!1.02!39.65!Casz1;;chr8:94325814..94325839,-!p2@Irx3!1.02!19.99!Irx3;;chr13:99954640..99954681,+!p1@Zfp366!1.01!33.92!Zfp366;;chr1:4483679..4483695,-!p1@Sox17!1.00!42.93!Sox17;;chrX:137077716..137077734,-!p1@Tsc22d3!0.99!65.22!Tsc22d3;;chr7:52960700..52960719,+!p2@Dbp!0.99!10.81!Dbp;;chr11:16908650..16908690,-!p1@Plek!0.98!54.07!Plek;;chr17:87153505..87153516,+!p6@Epas1!0.97!11.80!Epas1;;chr11:98636508..98636524,-!p3@Nr1d1!0.97!10.32!Nr1d1;;chr18:52775562..52775650,+!p1@Zfp474!0.97!8.36!Zfp474;;chr12:57636220..57636236,-!p3@Nkx2-1!0.97!8.36!Nkx2-1;;chr6:128250380..128250442,-!p2@Tead4!0.96!10.49!Tead4;;chr9:51021788..51021802,+!p1@Pou2af1!0.96!9.83!Pou2af1;;chr11:85646427..85646451,+!p4@Tbx2!0.95!14.09!Tbx2;;chr6:52154414..52154462,-!p1@Hoxa5!0.95!10.98!Hoxa5;;chr5:120120667..120120685,+!p3@Tbx3!0.94!15.08!Tbx3;;chr14:19071466..19071550,-!p1@Nr1d2!0.93!53.09!Nr1d2;;chr8:74842952..74842970,+!p1@Klf2!0.92!512.24!Klf2;;chr1:4486505..4486527,-!p5@Sox17!0.92!10.00!Sox17;;chr11:52096066..52096081,-!p2@Tcf7!0.92!9.01!Tcf7;;chr2:181406327..181406350,-!p1@Sox18!0.91!231.38!Sox18;;chr4:119486912..119486954,+!p3@Hivep3!0.90!12.45!Hivep3;;chr13:72101141..72101158,-!p3@Irx1!0.90!8.68!Irx1;;chr2:103264245..103264268,+!p2@Elf5!0.90!6.88!Elf5;;chr9:63869918..63869936,-!p9@Smad6!0.90!6.88!Smad6;;chr5:120121446..120121461,+!p2@Tbx3!0.89!23.10!Tbx3;;chr1:120524520..120524528,+!p1@Tfcp2l1!0.89!20.16!Tfcp2l1;;chr8:94325321..94325366,-!p1@Irx3!0.89!17.04!Irx3;;chr11:98636400..98636418,-!p4@Nr1d1!0.89!9.01!Nr1d1;;chr9:63869751..63869767,-!p1@Smad6!0.87!17.70!Smad6;;chr9:63869802..63869815,-!p3@Smad6!0.86!12.78!Smad6;;chr16:42907676..42907797,+!p1@Zbtb20!0.85!83.24!Zbtb20;;chr4:148178559..148178603,+!p1@Casz1!0.85!18.19!Casz1;;chr1:87546583..87546595,+!p1@Sp100!0.85!8.85!Sp100;;chr12:37835120..37835133,+!p2@Meox2!0.85!8.85!Meox2;;chr1:4486530..4486557,-!p4@Sox17!0.85!8.03!Sox17;;chr12:36219645..36219730,-!p1@Ahr!0.84!62.27!Ahr;;chr19:26679654..26679675,+!p1@Smarca2!0.84!59.81!Smarca2;;chr12:37835248..37835260,+!p4@Meox2!0.84!5.90!Meox2;;chr8:94881733..94881790,+!p1@Irx5!0.83!11.63!Irx5;;chr1:4486453..4486470,-!p3@Sox17!0.83!7.70!Sox17;;chr2:91034924..91034946,-!p2@Nr1h3!0.83!7.21!Nr1h3;;chr4:44723633..44723646,-!p3@Pax5!0.83!5.74!Pax5;;chr13:31717597..31717613,+!p2@Foxf2!0.83!5.74!Foxf2;;chr13:30841099..30841116,+!p1@Irf4!0.82!9.01!Irf4;;chr11:98407234..98407259,-!p2@Ikzf3!0.82!5.57!Ikzf3;;chr18:55147667..55147746,-!p2@Zfp608!0.81!27.20!Zfp608;;chr5:77524231..77524245,-!p3@Hopx!0.81!14.42!Hopx;;chr3:8666997..8667012,-!p2@Hey1!0.81!13.27!Hey1;;chr4:55545337..55545357,-!p1@Klf4!0.80!86.03!Klf4;;chr11:98407264..98407295,-!p1@Ikzf3!0.80!5.24!Ikzf3;;chr9:32503590..32503680,+!p1@Ets1!0.79!203.35!Ets1;;chr11:53583544..53583559,+!p1@Irf1!0.79!93.40!Irf1;;chr8:107793688..107793736,+!p1@Hsf4!0.79!6.88!Hsf4;;chr18:53623836..53623839,+!p1@Prdm6!0.79!6.06!Prdm6;;chr14:22807107..22807119,-!p2@Zfp503!0.78!23.76!Zfp503;;chr1:186556323..186556370,-!p2@Hlx!0.78!14.58!Hlx;;chr2:120365588..120365602,-!p2@Zfp106!0.78!8.85!Zfp106;;chr8:94325486..94325510,-!p4@Irx3!0.78!6.72!Irx3;;chr12:37835203..37835218,+!p3@Meox2!0.78!6.06!Meox2;;chr12:57637732..57637777,-!p5@Nkx2-1!0.78!5.08!Nkx2-1;;chr11:90252223..90252240,-!p1@Hlf!0.77!44.24!Hlf;;chr1:137155026..137155042,-!p1@Elf3!0.77!31.30!Elf3;;chr11:69579472..69579529,+!p1@Zbtb4!0.77!26.87!Zbtb4;;chr5:77524250..77524300,-!p1@Hopx!0.76!107.17!Hopx;;chr4:122911086..122911112,+!p1@Heyl!0.76!61.12!Heyl;;chr16:43363968..43364001,+!p7@Zbtb20!0.76!9.18!Zbtb20;;chr11:83664365..83664383,+!p1@Hnf1b!0.76!4.75!Hnf1b;;chr2:103143315..103143328,-!p2@Ehf!0.76!4.75!Ehf;;chr19:26681672..26681716,+!p5@Smarca2!0.75!21.30!Smarca2;;chr16:43619101..43619151,+!p6@Zbtb20!0.75!12.13!Zbtb20;;chr3:130815703..130815721,+!p2@Lef1!0.75!5.74!Lef1;;chr9:48644013..48644027,-!p5@Zbtb16!0.75!5.74!Zbtb16;;chr5:120285144..120285160,+!p1@Tbx5!0.75!4.59!Tbx5;;chr11:85699562..85699575,+!p6@Tbx4!0.75!4.59!Tbx4;;chr10:92773591..92773623,-!p1@Elk3!0.74!110.94!Elk3;;chr6:128250471..128250519,-!p1@Tead4!0.74!9.67!Tead4;;chr8:47825166..47825178,+!p2@Irf2!0.73!7.05!Irf2;;chr10:67599319..67599360,-!p2@Arid5b!0.72!52.93!Arid5b;;chr18:11052642..11052659,+!p1@Gata6!0.72!24.09!Gata6;;chr9:48644306..48644364,-!p1@Zbtb16!0.72!18.84!Zbtb16;;chr1:186556410..186556424,-!p1@Hlx!0.72!14.58!Hlx;;chr9:63869850..63869873,-!p2@Smad6!0.72!13.76!Smad6;;chr5:120285161..120285176,+!p2@Tbx5!0.72!4.26!Tbx5;;chr1:64167972..64168026,-!p1@Klf7!0.71!110.12!Klf7;;chr16:22439681..22439698,-!p1@Etv5!0.71!81.44!Etv5;;chr1:64167550..64167618,-!p4@Klf7!0.71!12.29!Klf7;;chr7:74517982..74518012,-!p2@Mef2a!0.71!8.19!Mef2a;;chr9:96653241..96653288,-!p1@E030011O05Rik,p5@Zbtb38!0.71!8.19!Zbtb38;;chr5:77544108..77544119,-!p7@Hopx!0.71!4.10!Hopx;;chr19:23215673..23215753,+!p1@Klf9!0.70!65.71!Klf9;;chr1:135320989..135321043,-!p1@Sox13!0.70!50.63!Sox13;;chr7:119822957..119822980,+!p2@Tead1!0.70!22.12!Tead1;;chr16:43363190..43363242,+!p2@Zbtb20!0.70!13.76!Zbtb20;;chr10:92773708..92773734,-!p3@Elk3!0.70!8.52!Elk3;;chr3:135271185..135271254,-!p4@Nfkb1!0.70!7.87!Nfkb1;;chr11:121380640..121380655,-!p1@Zfp750!0.70!7.05!Zfp750;;chr15:102076870..102076941,-!p1@Rarg!0.69!48.18!Rarg;;chr2:77357622..77357704,-!p1@Zfp385b!0.69!11.63!Zfp385b;;chr10:67599361..67599372,-!p5@Arid5b!0.69!6.39!Arid5b;;chr16:25801993..25802014,+!p1@Trp63!0.69!3.93!Trp63;;chr5:120121020..120121049,+!p1@Tbx3!0.68!26.22!Tbx3;;chr10:67000609..67000625,+!p1@Egr2!0.68!9.50!Egr2;;chr15:102087880..102087927,-!p2@Rarg!0.68!9.50!Rarg;;chr15:81633224..81633235,+!p5@Tef!0.68!4.92!Tef;;chr12:57796615..57796687,+!p1@Pax9!0.68!3.77!Pax9;;chr12:57637595..57637608,-!p7@Nkx2-1!0.68!3.77!Nkx2-1;;chr11:85703483..85703508,+!p2@Tbx4!0.68!3.77!Tbx4;;chr2:147871948..147871977,-!p3@Foxa2!0.68!3.77!Foxa2;;chr4:63064364..63064384,-!p1@Akna!0.67!12.13!Akna;;chr4:148178529..148178548,+!p3@Casz1!0.67!9.67!Casz1;;chr2:91035197..91035237,-!p1@Nr1h3!0.67!8.36!Nr1h3;;chr13:55932591..55932622,-!p1@Pitx1!0.67!4.59!Pitx1;;chr6:98978245..98978289,-!p1@Foxp1!0.66!61.94!Foxp1;;chr4:94718861..94718872,-!p2@Jun!0.66!31.13!Jun;;chr6:144730427..144730508,-!p1@Sox5!0.66!25.56!Sox5;;chr19:26681929..26681987,+!p4@Smarca2!0.66!23.10!Smarca2;;chr14:65568469..65568511,-!p2@Hmbox1!0.66!13.27!Hmbox1;;chr16:43619057..43619078,+!p8@Zbtb20!0.66!8.03!Zbtb20;;chr9:63869834..63869849,-!p5@Smad6!0.66!6.55!Smad6;;chr6:88143711..88143717,+!p2@Gata2!0.66!6.06!Gata2;;chr9:24578720..24578735,-!p1@Tbx20!0.66!3.60!Tbx20;;chr17:14011485..14011507,+!p2@Mllt4!0.66!3.60!Mllt4;;chr5:104121391..104121450,+!p3@Aff1!0.65!20.65!Aff1;;chrX:137077653..137077669,-!p3@Tsc22d3!0.65!17.86!Tsc22d3;;chr2:160698288..160698358,-!p3@Zhx3!0.65!11.96!Zhx3;;chr9:96653072..96653154,-!p1@Zbtb38!0.65!10.32!Zbtb38;;chr6:52114821..52114828,-!p1@Hoxa2!0.65!5.57!Hoxa2;;chr19:5560600..5560617,-!p1@Ovol1!0.65!4.42!Ovol1;;chr8:123260252..123260264,+!p1@Irf8!0.64!27.69!Irf8;;chr14:98568761..98568814,-!p2@Dach1!0.64!26.55!Dach1;;chr2:173044380..173044432,-!p1@Zbp1!0.64!9.01!Zbp1;;chr13:99954688..99954710,+!p2@Zfp366!0.64!7.21!Zfp366;;chr3:34548909..34548927,+!p1@Sox2!0.64!6.23!Sox2;;chr4:94718879..94718898,-!p1@Jun!0.63!280.04!Jun;;chr16:15887371..15887385,+!p1@Cebpd!0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@@ Line 41: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011428
 |is_obsolete=
+|library_id=CNhs11109
+|library_id_phase_based=2:CNhs11109
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;822
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;822
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N20.CNhs11109.822-18A4.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N20.CNhs11109.822-18A4.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N20.CNhs11109.822-18A4.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N20.CNhs11109.822-18A4.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/lung%252c%2520neonate%2520N20.CNhs11109.822-18A4.mm9.nobarcode.rdna.fa.gz
 |name=lung, neonate N20
 |namespace=FANTOM5
@@ Line 46: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11109,LSID734,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.167531273012693,0.0659019793256198,0,0.0659019793256198,0.123108665731713,0,0.719461925574848,0,0.332959765750234,0,0.0659019793256198,0.0387694253351712,0.0659019793256198,0,0,0,0,0,0.280330472651159,0,0,0,0,0,0.123108665731713,0,0.0568643603666489,0,0,0,0,0,0.389277458807977,0,0,0,0,0.0333471656472951,0.262901098037908,0,-0.0750832511433945,-0.135225686955525,-0.0962191911945712,0,0,0,0,0,0,0.0659019793256198,0,0,0,0.517734986808741,0,0.512137934398049,0,0,0,0,0,0,0.245913333194089,0.0128134904564645,0.0659019793256198,0.103894666160079,0.141567188343,0.110728356510789,-0.0349823770393697,0.204760778158346,0.0659019793256198,0.253832182687624,0.0357117366586259,0.104393026357721,0.17364944681578,0,0.0570056029927278,-0.00655998633100963,0.253070798781732,-0.0788315948399074,0,0,0,0,0.1197757130707,0,0.140046571887419,0.234281539175147,0.151576011618776,0.0659019793256198,0,0,0,0.0659019793256198
@@ Line 62: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 82: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:822-18A4;search_select_hide=table117:822-18A4
 }}

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FF:822-18A4: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:20, 4 June 2020

CNhs11109

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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