FF:1265-44F5: Difference between revisions

Latest revision as of 18:41, 4 June 2020

Name:	pituitary gland, embryo E17
Species:	Mouse (Mus musculus)
Library ID:	CNhs11039
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	pituitary gland
dev stage	17 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		SAMD00005078

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11039		CAGE		DRX009072		DRR009946

Accession ID Mm9

Library id		BAM		CTSS
CNhs11039		DRZ001371		DRZ002754

Accession ID Mm10

Library id		BAM		CTSS
CNhs11039		DRZ012721		DRZ014104

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

CNhs11039

0	0
1	0.174
10	0
100	0.0662
1000	-0.0024
1001	0
1002	0.197
1003	0.0914
1004	0.328
1005	0
1006	0.13
1007	0.0213
1008	0
1009	0.0549
101	-0.0628
1010	0
1011	0.016
1012	0.0662
1013	0.069
1014	0.402
1015	0.179
1016	0.236
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	0.0176
1023	0
1024	0.142
1025	0.00503
1026	0
1027	0.213
1028	0
1029	0.105
103	0.473
1030	0
1031	0.492
1032	0.0203
1033	0.124
1034	0
1035	0
1036	0.0313
1037	0
1038	0.00635
1039	-0.0425
104	0
1040	0.106
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: CNhs11039

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	2.98391e-7
MA0003.1	MA0003.1	0.177
MA0004.1	MA0004.1	0.506
MA0006.1	MA0006.1	0.501
MA0007.1	MA0007.1	0.543
MA0009.1	MA0009.1	0.805
MA0014.1	MA0014.1	0.535
MA0017.1	MA0017.1	1.98568e-9
MA0018.2	MA0018.2	0.044
MA0019.1	MA0019.1	0.697
MA0024.1	MA0024.1	0.312
MA0025.1	MA0025.1	0.454
MA0027.1	MA0027.1	0.804
MA0028.1	MA0028.1	0.777
MA0029.1	MA0029.1	0.967
MA0030.1	MA0030.1	0.869
MA0031.1	MA0031.1	0.852
MA0035.2	MA0035.2	0.0013
MA0038.1	MA0038.1	0.183
MA0039.2	MA0039.2	0.368
MA0040.1	MA0040.1	0.337
MA0041.1	MA0041.1	0.37
MA0042.1	MA0042.1	0.735
MA0043.1	MA0043.1	0.0664
MA0046.1	MA0046.1	1.12868e-25
MA0047.2	MA0047.2	0.00289
MA0048.1	MA0048.1	0.249
MA0050.1	MA0050.1	0.0426
MA0051.1	MA0051.1	0.0711
MA0052.1	MA0052.1	1.50423e-6
MA0055.1	MA0055.1	0.781
MA0057.1	MA0057.1	0.156
MA0058.1	MA0058.1	0.468
MA0059.1	MA0059.1	0.178
MA0060.1	MA0060.1	1.38505e-4
MA0061.1	MA0061.1	0.0287
MA0062.2	MA0062.2	0.177
MA0065.2	MA0065.2	1.88112e-6
MA0066.1	MA0066.1	0.00528
MA0067.1	MA0067.1	0.724
MA0068.1	MA0068.1	0.0623
MA0069.1	MA0069.1	0.163
MA0070.1	MA0070.1	0.929
MA0071.1	MA0071.1	0.016
MA0072.1	MA0072.1	0.0358
MA0073.1	MA0073.1	0.713
MA0074.1	MA0074.1	0.202
MA0076.1	MA0076.1	0.66
MA0077.1	MA0077.1	0.524
MA0078.1	MA0078.1	0.139
MA0079.2	MA0079.2	0.173
MA0080.2	MA0080.2	3.30083e-9
MA0081.1	MA0081.1	0.192
MA0083.1	MA0083.1	0.103
MA0084.1	MA0084.1	0.377
MA0087.1	MA0087.1	0.859
MA0088.1	MA0088.1	0.303
MA0090.1	MA0090.1	0.114
MA0091.1	MA0091.1	0.918
MA0092.1	MA0092.1	0.558
MA0093.1	MA0093.1	0.586
MA0099.2	MA0099.2	4.26099e-5
MA0100.1	MA0100.1	0.51
MA0101.1	MA0101.1	0.0547
MA0102.2	MA0102.2	0.926
MA0103.1	MA0103.1	0.29
MA0104.2	MA0104.2	0.465
MA0105.1	MA0105.1	0.00188
MA0106.1	MA0106.1	0.144
MA0107.1	MA0107.1	0.0338
MA0108.2	MA0108.2	0.49
MA0111.1	MA0111.1	0.781
MA0112.2	MA0112.2	2.22011e-7
MA0113.1	MA0113.1	0.951
MA0114.1	MA0114.1	5.15379e-8
MA0115.1	MA0115.1	2.84069e-7
MA0116.1	MA0116.1	0.0106
MA0117.1	MA0117.1	0.805
MA0119.1	MA0119.1	0.0786
MA0122.1	MA0122.1	0.999
MA0124.1	MA0124.1	0.792
MA0125.1	MA0125.1	0.0375
MA0131.1	MA0131.1	0.566
MA0135.1	MA0135.1	0.569
MA0136.1	MA0136.1	2.27311e-8
MA0137.2	MA0137.2	0.0713
MA0138.2	MA0138.2	0.945
MA0139.1	MA0139.1	0.16
MA0140.1	MA0140.1	7.87287e-4
MA0141.1	MA0141.1	5.36801e-4
MA0142.1	MA0142.1	0.8
MA0143.1	MA0143.1	0.92
MA0144.1	MA0144.1	0.102
MA0145.1	MA0145.1	0.218
MA0146.1	MA0146.1	0.091
MA0147.1	MA0147.1	0.395
MA0148.1	MA0148.1	0.00153
MA0149.1	MA0149.1	0.00882
MA0150.1	MA0150.1	2.83872e-4
MA0152.1	MA0152.1	0.498
MA0153.1	MA0153.1	4.02288e-22
MA0154.1	MA0154.1	0.0125
MA0155.1	MA0155.1	0.922
MA0156.1	MA0156.1	0.00228
MA0157.1	MA0157.1	0.871
MA0159.1	MA0159.1	7.62718e-4
MA0160.1	MA0160.1	0.00165
MA0162.1	MA0162.1	0.298
MA0163.1	MA0163.1	1.6014e-4
MA0164.1	MA0164.1	0.624
MA0258.1	MA0258.1	3.24227e-5
MA0259.1	MA0259.1	0.814

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: CNhs11039

Novel motif	Logo	P-value
1	1	0.0623
10	10	0.0638
100	100	0.748
101	101	0.585
102	102	0.992
103	103	0.149
104	104	0.522
105	105	0.593
106	106	0.0129
107	107	0.0583
108	108	0.837
109	109	0.111
11	11	0.117
110	110	0.0641
111	111	0.0127
112	112	0.0416
113	113	0.755
114	114	0.0572
115	115	0.664
116	116	0.379
117	117	0.013
118	118	0.415
119	119	0.0839
12	12	0.652
120	120	0.694
121	121	0.42
122	122	0.488
123	123	0.875
124	124	0.853
125	125	0.242
126	126	0.131
127	127	0.0561
128	128	0.0265
129	129	0.144
13	13	0.00703
130	130	0.598
131	131	0.935
132	132	0.626
133	133	0.497
134	134	0.722
135	135	0.142
136	136	0.929
137	137	0.8
138	138	0.535
139	139	0.0345
14	14	0.614
140	140	0.0185
141	141	0.623
142	142	0.288
143	143	0.85
144	144	0.636
145	145	0.113
146	146	0.447
147	147	0.999
148	148	0.584
149	149	0.441
15	15	0.0655
150	150	0.171
151	151	0.345
152	152	0.2
153	153	0.993
154	154	0.715
155	155	0.585
156	156	1.90575e-5
157	157	0.735
158	158	0.205
159	159	0.925
160	160	0.538
161	161	0.557
162	162	0.893
163	163	0.0825
164	164	0.0451
165	165	0.0562
166	166	0.49
167	167	0.0991
168	168	0.657
169	169	5.16478e-4
17	17	0.143
18	18	0.47
19	19	0.157
2	2	0.958
20	20	0.598
21	21	0.835
22	22	0.247
23	23	0.372
24	24	0.318
25	25	0.364
26	26	0.012
27	27	0.6
28	28	0.425
29	29	0.0931
3	3	0.165
30	30	0.981
31	31	0.65
32	32	0.491
33	33	0.266
34	34	0.777
35	35	0.381
36	36	0.234
37	37	0.0525
38	38	0.469
39	39	0.634
4	4	0.363
40	40	0.354
41	41	0.055
42	42	0.425
43	43	0.0869
44	44	0.0913
45	45	0.51
46	46	0.0738
47	47	0.26
48	48	0.0921
49	49	0.0951
5	5	0.0551
50	50	0.844
51	51	0.507
52	52	0.26
53	53	0.973
54	54	0.441
55	55	0.283
56	56	0.545
57	57	0.435
58	58	0.318
59	59	0.081
6	6	0.725
60	60	0.0284
61	61	0.261
62	62	0.0734
63	63	0.106
64	64	0.428
65	65	0.22
66	66	0.768
67	67	0.69
68	68	0.1
69	69	0.662
7	7	0.0625
70	70	0.0217
71	71	0.0265
72	72	0.378
73	73	0.0789
74	74	0.47
75	75	0.0648
76	76	0.837
77	77	0.238
78	78	0.00575
79	79	0.769
8	8	0.0445
80	80	0.183
81	81	0.489
82	82	0.174
83	83	0.293
84	84	0.212
85	85	0.0447
86	86	0.154
87	87	0.549
88	88	0.488
89	89	0.232
9	9	0.56
90	90	0.252
91	91	0.263
92	92	0.192
93	93	0.0274
94	94	0.226
95	95	0.163
96	96	0.197
97	97	0.787
98	98	0.414
99	99	0.629

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: CNhs11039

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011519 mouse pituitary gland- embryo E17 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)
0000922 (embryo)
0000955 (brain)
0000007 (pituitary gland)
0001894 (diencephalon)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0003296 (gland of diencephalon)
0010133 (neuroendocrine gland)
0010314 (structure with developmental contribution from neural crest)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0000073 (regional part of nervous system)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002368 (endocrine gland)
0002616 (regional part of brain)
0002780 (regional part of forebrain)
0002530 (gland)
0010317 (germ layer / neural crest derived structure)
0001017 (central nervous system)
0001016 (nervous system)
0001890 (forebrain)
0000949 (endocrine system)

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)
0000300 (mouse embryonic day 17 sample)
0011519 (mouse pituitary gland- embryo E17 sample)

Ancestor terms (development)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship Analyst: Hideya Kawaji link to source data data
UBERON:0002532 (epiblast (generic))
UBERON:0006601 (presumptive ectoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008935
+|DRA_sample_Accession=CAGE@SAMD00005078
-|accession_numbers=CAGE;DRX009072;DRR009946;DRZ001371;DRZ002754
+|accession_numbers=CAGE;DRX009072;DRR009946;DRZ001371;DRZ002754;DRZ012721;DRZ014104
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0000955,UBERON:0000007,UBERON:0001894,UBERON:0000479,UBERON:0004121,UBERON:0003296,UBERON:0010133,UBERON:0010314,UBERON:0011216,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0000073,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0002368,UBERON:0002616,UBERON:0002780,UBERON:0002530,UBERON:0010317,UBERON:0001017,UBERON:0001016,UBERON:0001890,UBERON:0000949
 |ancestors_in_cell_lineage_facet=
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|data_phase=1
+|data_phase=2
-|datafreeze_phase=1
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr16:65520838..65520853,+!p1@ENSMUST00000004964!2.44!271.83!Pou1f1;;chr13:99124189..99124205,+!p1@Foxd1!1.94!128.68!Foxd1;;chr12:74147689..74147711,-!p1@Six1!1.81!133.94!Six1;;chr2:26062055..26062100,-!p1@Lhx3!1.72!51.17!Lhx3;;chr13:55932591..55932622,-!p1@Pitx1!1.64!50.35!Pitx1;;chr12:74040861..74040875,+!p1@Six6!1.64!42.29!Six6;;chr12:74040895..74040916,+!p2@Six6!1.58!37.35!Six6;;chr10:86956396..86956411,-!p1@Ascl1!1.47!43.77!Ascl1;;chr17:86087592..86087615,-!p1@Six2!1.44!26.66!Six2;;chr5:38215819..38215823,-!p1@Msx1!1.38!58.58!Msx1;;chr2:146047829..146047847,+!p1@Insm1!1.37!39.82!Insm1;;chr10:129717274..129717298,-!p1@Neurod4!1.37!22.54!Neurod4;;chr12:34642510..34642530,+!p1@Twist1!1.36!68.12!Twist1;;chr3:128916868..128916890,+!p1@Pitx2!1.34!28.63!Pitx2;;chr17:86020510..86020589,+!p3@Six3!1.32!19.91!Six3;;chr13:31898767..31898785,+!p4@Foxc1!1.31!23.53!Foxc1;;chr1:167090803..167090816,-!p1@Tbx19!1.28!18.26!Tbx19;;chr2:79296783..79296801,-!p1@Neurod1!1.28!18.10!Neurod1;;chr8:123640063..123640077,+!p1@Foxc2!1.27!31.43!Foxc2;;chr14:122874619..122874634,+!p1@Zic2!1.27!17.44!Zic2;;chr3:34548909..34548927,+!p1@Sox2!1.24!27.64!Sox2;;chr7:6649134..6649167,-!p1@Zim1!1.22!83.76!Zim1;;chr17:86020156..86020183,+!p1@Six3!1.20!14.97!Six3;;chr3:99057269..99057306,+!p1@Tbx15!1.18!17.28!Tbx15;;chr11:50767247..50767270,-!p1@Prop1!1.18!14.15!Prop1;;chr9:91260594..91260612,-!p1@Zic1!1.17!13.82!Zic1;;chr18:52775562..52775650,+!p1@Zfp474!1.17!13.82!Zfp474;;chr16:65521021..65521032,+!p@chr16:65521021..65521032,+!1.16!13.33!Pou1f1;;chr10:84218800..84218829,+!p2@Rfx4!1.15!13.16!Rfx4;;chr7:17647736..17647772,-!p1@Hif3a!1.12!42.95!Hif3a;;chr19:19185671..19185693,-!p1@Rorb!1.11!28.80!Rorb;;chr9:91260616..91260653,-!p2@Zic1!1.10!11.52!Zic1;;chr13:55932624..55932641,-!p2@Pitx1!1.09!11.19!Pitx1;;chr9:55388997..55389016,+!p1@Isl2!1.08!11.02!Isl2;;chr17:86020115..86020128,+!p2@Six3!1.07!10.70!Six3;;chr2:26063801..26063813,-!p2@Lhx3!1.07!10.70!Lhx3;;chr13:117099847..117099907,-!p1@Isl1!1.05!19.25!Isl1;;chr18:66098702..66098742,-!p1@Rax!1.05!10.20!Rax;;chr10:22539932..22539956,-!p1@Tcf21!1.04!26.99!Tcf21;;chr17:86012772..86012825,+!p4@Six3!1.02!9.38!Six3;;chr3:128917187..128917223,+!p2@Pitx2!1.01!10.86!Pitx2;;chr1:169528581..169528607,+!p7@Rxrg!1.00!8.89!Rxrg;;chr2:31495237..31495243,+!p1@Prdm12!0.99!8.72!Prdm12;;chr1:169528491..169528505,+!p4@Rxrg!0.99!8.72!Rxrg;;chr12:30219426..30219506,+!p2@Myt1l!0.99!8.72!Myt1l;;chr10:12810631..12810649,+!p1@Plagl1!0.98!227.90!Plagl1;;chr10:129717308..129717319,-!p2@Neurod4!0.97!8.23!Neurod4;;chr19:59245978..59245982,-!p1@Vax1!0.96!8.06!Vax1;;chr13:31898729..31898761,+!p1@Foxc1!0.95!19.91!Foxc1;;chr13:31717548..31717596,+!p1@Foxf2!0.95!15.96!Foxf2;;chr14:104867201..104867258,-!p1@Pou4f1!0.94!10.86!Pou4f1;;chr1:169528457..169528482,+!p3@Rxrg!0.94!7.73!Rxrg;;chrX:58146612..58146615,-!p1@Sox3!0.94!7.73!Sox3;;chr6:14851440..14851497,+!p2@Foxp2!0.92!18.59!Foxp2;;chr1:120879128..120879183,-!p3@Gli2!0.92!14.15!Gli2;;chr1:169528520..169528542,+!p2@Rxrg!0.92!7.24!Rxrg;;chr2:147190749..147190769,+!p1@Pax1!0.90!6.91!Pax1;;chr14:17407970..17408015,-!p2@Rarb!0.89!18.92!Rarb;;chr2:181501745..181501778,+!p1@Myt1!0.89!6.75!Myt1;;chr3:128902837..128902861,+!p3@Pitx2!0.89!6.75!Pitx2;;chr4:109650609..109650653,+!p1@Dmrta2!0.89!6.75!Dmrta2;;chr14:17407549..17407575,-!p3@Rarb!0.88!10.37!Rarb;;chr8:24780125..24780143,+!p1@Zmat4!0.88!9.87!Zmat4;;chr12:28027561..28027591,-!p1@Sox11!0.87!44.43!Sox11;;chr3:34548946..34548972,+!p2@Sox2!0.86!7.08!Sox2;;chr13:31898637..31898653,+!p2@Foxc1!0.85!11.35!Foxc1;;chr12:74147860..74147888,-!p2@Six1!0.84!5.92!Six1;;chr10:84218895..84218909,+!p1@Rfx4!0.84!5.92!Rfx4;;chr11:90252223..90252240,-!p1@Hlf!0.82!50.52!Hlf;;chr1:167090905..167090912,-!p2@Tbx19!0.81!5.43!Tbx19;;chr1:169528433..169528456,+!p10@Rxrg!0.81!5.43!Rxrg;;chr8:123640090..123640101,+!p2@Foxc2!0.80!6.09!Foxc2;;chr3:107398056..107398082,+!p1@Alx3!0.80!5.27!Alx3;;chr13:55937467..55937516,-!p3@Pitx1!0.80!5.27!Pitx1;;chr7:52963269..52963305,+!p4@Dbp!0.79!7.57!Dbp;;chr12:57796615..57796687,+!p1@Pax9!0.79!5.10!Pax9;;chr3:128916838..128916856,+!p4@Pitx2!0.79!5.10!Pitx2;;chr1:167090920..167090924,-!p3@Tbx19!0.79!5.10!Tbx19;;chr5:138199361..138199441,+!p2@Tsc22d4!0.78!10.04!Tsc22d4;;chr12:3891810..3891829,+!p2@Dnmt3a!0.77!7.90!Dnmt3a;;chr1:169528720..169528749,+!p6@Rxrg!0.77!4.94!Rxrg;;chr3:95032091..95032183,-!p1@Mllt11!0.76!45.09!Mllt11;;chr19:28754692..28754757,-!p1@Glis3!0.76!21.39!Glis3;;chr7:148008023..148008092,-!p1@Zfp941!0.76!12.34!Zfp941;;chr14:49287186..49287225,-!p1@Otx2!0.76!4.77!Otx2;;chr17:86020468..86020504,+!p6@Six3!0.76!4.77!Six3;;chr7:6683123..6683142,-!p1@Peg3!0.74!261.30!Peg3;;chr2:127347067..127347093,-!p1@Kcnip3!0.73!7.73!Kcnip3;;chrX:70656436..70656464,+!p1@Zfp92!0.72!4.28!Zfp92;;chr19:26822880..26822964,+!p2@Smarca2!0.71!39.33!Smarca2;;chr2:181501710..181501742,+!p2@Myt1!0.71!4.11!Myt1;;chr1:169528551..169528569,+!p8@Rxrg!0.71!4.11!Rxrg;;chr1:6720216..6720232,+!p1@St18!0.71!4.11!St18;;chr4:114581497..114581519,-!p2@Foxd2!0.71!4.11!Foxd2;;chr13:99124236..99124243,+!p2@Foxd1!0.71!4.11!Foxd1;;chr2:127347094..127347111,-!p2@Kcnip3!0.70!7.08!Kcnip3;;chr13:31898496..31898519,+!p3@Foxc1!0.69!6.75!Foxc1;;chr2:181501988..181502026,+!p3@Myt1!0.69!3.95!Myt1;;chrX:137135036..137135064,-!p4@Tsc22d3!0.68!8.06!Tsc22d3;;chr17:86020137..86020149,+!p5@Six3!0.68!3.78!Six3;;chr10:126778916..126778974,-!p1@Gli1!0.67!9.05!Gli1;;chr16:18587076..18587106,-!p1@Tbx1!0.67!5.59!Tbx1;;chr19:19185697..19185711,-!p2@Rorb!0.67!4.94!Rorb;;chr7:91558392..91558434,-!p1@Arnt2!0.66!11.02!Arnt2;;chr14:17407878..17407926,-!p1@Rarb!0.66!8.89!Rarb;;chr12:39507680..39507715,+!p2@Etv1!0.66!7.73!Etv1;;chr11:121380594..121380609,-!p2@Zfp750!0.66!6.75!Zfp750;;chr12:72149325..72149343,+!p2@Arid4a!0.66!5.27!Arid4a;;chr14:52948124..52948148,-!p7@Sall2!0.66!3.62!Sall2;;chr4:139388835..139388867,-!p1@Pax7!0.66!3.62!Pax7;;chr6:88148650..88148669,+!p1@Gata2!0.65!33.90!Gata2;;chr3:5218629..5218684,+!p1@Zfhx4!0.65!12.67!Zfhx4;;chr2:30700857..30700873,+!p3@Prrx2!0.65!5.10!Prrx2;;chr4:150503457..150503498,-!p3@Camta1!0.65!3.95!Camta1;;chr15:79178559..79178584,+!p8@Maff!0.65!3.46!Maff;;chr12:30213247..30213333,+!p1@Myt1l!0.65!3.46!Myt1l;;chr14:33412570..33412586,+!p1@Prrxl1!0.65!3.46!Prrxl1;;chr11:116196664..116196679,-!p1@Foxj1!0.64!5.59!Foxj1;;chr10:5636374..5636421,-!p1@Esr1!0.64!4.44!Esr1;;chrX:45245679..45245702,-!p1@Smarca1!0.63!17.11!Smarca1;;chr9:87626083..87626108,-!p1@Tbx18!0.63!8.06!Tbx18;;chr11:90250944..90250982,-!p2@Hlf!0.63!5.92!Hlf;;chrX:108009761..108009788,+!p1@Pou3f4!0.63!3.29!Pou3f4;;chr3:99057677..99057730,+!p2@Tbx15!0.63!3.29!Tbx15;;chr2:105515793..105515808,+!p3@Pax6!0.63!3.29!Pax6;;chr2:147190725..147190747,+!p2@Pax1!0.63!3.29!Pax1;;chr3:94176733..94176794,+!p1@Rorc!0.62!29.45!Rorc;;chr6:14851287..14851342,+!p1@Foxp2!0.62!11.85!Foxp2;;chr4:84320893..84320910,-!p1@Bnc2!0.62!7.90!Bnc2;;chr3:99057256..99057268,+!p3@Tbx15!0.62!3.13!Tbx15;;chr4:82351639..82351658,-!p14@Nfib!0.62!3.13!Nfib;;chr4:139389439..139389450,-!p3@Pax7!0.62!3.13!Pax7;;chr9:48644306..48644364,-!p1@Zbtb16!0.61!14.32!Zbtb16;;chr11:90251852..90251855,-!p4@Hlf!0.61!3.95!Hlf;;chr2:130120884..130120972,+!p1@Ebf4!0.60!20.90!Ebf4;;chr12:34642682..34642753,+!p2@Twist1!0.60!9.05!Twist1;;chr2:65683890..65683907,+!p1@Csrnp3!0.60!6.42!Csrnp3;;chr17:86020293..86020318,+!p7@Six3!0.60!2.96!Six3;;chr6:14851250..14851277,+!p4@Foxp2!0.59!3.95!Foxp2;;chr19:28086045..28086080,-!p4@Rfx3!0.58!16.13!Rfx3;;chr9:48644429..48644462,-!p3@Zbtb16!0.58!6.09!Zbtb16;;chr1:165243379..165243402,-!p3@Prrx1!0.58!4.61!Prrx1;;chr1:169528823..169528860,+!p5@Rxrg!0.58!2.80!Rxrg;;chr9:99776566..99776612,-!p1@Sox14!0.58!2.80!Sox14;;chr11:33103563..33103583,-!p1@Tlx3!0.58!2.80!Tlx3;;chr12:74147444..74147463,-!p4@Six1!0.58!2.80!Six1;;chr12:74040716..74040745,+!p3@Six6!0.58!2.80!Six6;;chr4:150482563..150482655,-!p2@Camta1!0.57!11.52!Camta1;;chr4:58956447..58956510,+!p1@Zkscan16!0.57!6.75!Zkscan16;;chr2:30700881..30700916,+!p1@Prrx2!0.57!5.76!Prrx2;;chr2:91864449..91864492,-!p3@Creb3l1!0.57!4.94!Creb3l1;;chr4:114581524..114581551,-!p1@Foxd2!0.57!4.44!Foxd2;;chr7:38557752..38557793,-!p3@Zfp536!0.57!3.29!Zfp536;;chr1:191994550..191994623,-!p1@Prox1!0.56!22.54!Prox1;;chr7:116154364..116154444,+!p1@Tub!0.56!5.10!Tub;;chr3:5218590..5218614,+!p3@Zfhx4!0.56!5.10!Zfhx4;;chr14:67853425..67853454,+!p1@Ebf2!0.56!4.11!Ebf2;;chr7:17642018..17642045,-!p4@Hif3a!0.56!3.13!Hif3a;;chr3:99044284..99044308,+!p4@Tbx15!0.56!2.63!Tbx15;;chr17:86020186..86020195,+!p9@Six3!0.56!2.63!Six3;;chr17:86087581..86087588,-!p2@Six2!0.56!2.63!Six2;;chr2:146911200..146911219,-!p1@Nkx2-4!0.56!2.63!Nkx2-4;;chr13:55932739..55932756,-!p5@Pitx1!0.56!2.63!Pitx1;;chr11:5761889..5761969,+!p1@Aebp1!0.55!134.77!Aebp1;;chr16:15887371..15887385,+!p1@Cebpd!0.55!110.41!Cebpd;;chr4:3865501..3865548,-!p1@Plag1!0.55!15.96!Plag1;;chr19:28085485..28085544,-!p5@Rfx3!0.55!12.34!Rfx3;;chr4:149862477..149862553,+!p3@Rere!0.55!11.02!Rere;;chrX:45245644..45245666,-!p2@Smarca1!0.55!9.71!Smarca1;;chr14:56443806..56443848,+!p1@Nfatc4!0.55!5.92!Nfatc4;;chr2:163028808..163028869,+!p1@Tox2!0.54!10.70!Tox2;;chr15:78994907..78994926,-!p1@Sox10!0.54!7.40!Sox10;;chr6:15135456..15135520,+!p3@Foxp2!0.54!6.25!Foxp2;;chr7:52472041..52472065,+!p2@Tead2!0.54!2.96!Tead2;;chr2:28771056..28771092,-!p1@Barhl1!0.54!2.47!Barhl1;;chr10:5636354..5636373,-!p2@Esr1!0.54!2.47!Esr1;;chr13:55937432..55937460,-!p4@Pitx1!0.54!2.47!Pitx1;;chr12:74147842..74147856,-!p3@Six1!0.54!2.47!Six1;;chr6:99470943..99471024,-!p3@Foxp1!0.53!28.80!Foxp1;;chr14:100683672..100683717,-!p1@Klf12!0.53!13.99!Klf12;;chr10:80870405..80870428,-!p4@Nfic!0.53!7.73!Nfic;;chr7:130644017..130644092,-!p1@Zkscan2!0.53!5.27!Zkscan2;;chr15:102087737..102087801,-!p3@Rarg!0.53!4.44!Rarg;;chr4:84321300..84321315,-!p2@Bnc2!0.53!3.13!Bnc2;;chr2:167363692..167363710,+!p1@Snai1!0.52!36.53!Snai1;;chr11:5761979..5761992,+!p2@Aebp1!0.52!5.43!Aebp1;;chr17:32525943..32525992,-!p4@Wiz!0.52!3.95!Wiz;;chr18:3281725..3281740,-!p3@Crem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@@ Line 45: / Line 45: @@
 |is_obsolete=
 |library_id=CNhs11039
-|library_id_phase_based=1:CNhs11039
+|library_id_phase_based=2:CNhs11039
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;1265
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;1265
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520embryo%2520E17.CNhs11039.1265-44F5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520embryo%2520E17.CNhs11039.1265-44F5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520embryo%2520E17.CNhs11039.1265-44F5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520embryo%2520E17.CNhs11039.1265-44F5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520embryo%2520E17.CNhs11039.1265-44F5.mm9.nobarcode.rdna.fa.gz
 |name=pituitary gland, embryo E17
 |namespace=FANTOM5
@@ Line 51: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11039,LSID732,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
 |repeat_enrich_byfamily=0.0251012332786315,0,0,0,0,0,0.190708993678411,0,0,0,0,0.638152734767398,0,0,0,0,0,0,0.0688325892502475,0,0,0,0,0,0,0,0,0,0,0,0,0,0.106226558020584,0,0,0,0.0661577744756082,0.0661577744756082,0.0602073125867,0.0919054592229415,0.0514202288339567,1.01389473550485,0.290370977515408,0,0,0,0,0,0,0,0,0,0,0.219635884762414,0,0.0575514703872279,0,0,0,0,-0.0181476826445472,0,0,0,0,0.0661577744756082,0.0647040992659944,-0.0123885089970983,0.264415115280392,0.16413297652623,0,0.123557017950668,0.0620207484504011,0,0,0,0.0522500348099893,0.0713773847285643,0.0986180608861783,-0.0126738203642992,0,0,0,0,0,0,0.092972788584935,0.270722466320287,0.0766363063227843,0.040863375690642,0,0,0,0
@@ Line 88: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:1265-44F5;search_select_hide=table117:1265-44F5
 }}

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FF:1265-44F5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:41, 4 June 2020

CNhs11039

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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