FF:21-1G8: Difference between revisions

Latest revision as of 19:09, 4 June 2020

Name:	pituitary gland, adult
Species:	Mouse (Mus musculus)
Library ID:	CNhs10493
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	pituitary gland
dev stage	adult
sex	male
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		SAMD00005524

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs10493		CAGE		DRX009066		DRR009940

Accession ID Mm9

Library id		BAM		CTSS
CNhs10493		DRZ001365		DRZ002748

Accession ID Mm10

Library id		BAM		CTSS
CNhs10493		DRZ012715		DRZ014098

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

CNhs10493

0	0
1	0.226
10	0
100	0
1000	0
1001	0.159
1002	-0.116
1003	0.147
1004	0.306
1005	0
1006	0.5
1007	-0.079
1008	0
1009	-0.0342
101	-0.0544
1010	0
1011	0.0946
1012	0
1013	0.348
1014	0.337
1015	-0.158
1016	-0.108
1017	0
1018	0
1019	0
102	0
1020	0
1021	0.0444
1022	0.361
1023	0
1024	0
1025	-0.0611
1026	0
1027	0
1028	0
1029	0.0779
103	-0.0802
1030	0
1031	-0.199
1032	0.198
1033	0.251
1034	0
1035	0
1036	-0.0297
1037	0
1038	-0.0548
1039	0.261
104	0
1040	-0.167
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: CNhs10493

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	8.47939e-4
MA0003.1	MA0003.1	0.0355
MA0004.1	MA0004.1	0.621
MA0006.1	MA0006.1	0.251
MA0007.1	MA0007.1	0.301
MA0009.1	MA0009.1	0.8
MA0014.1	MA0014.1	0.82
MA0017.1	MA0017.1	1.29577e-7
MA0018.2	MA0018.2	4.22184e-7
MA0019.1	MA0019.1	0.459
MA0024.1	MA0024.1	0.0168
MA0025.1	MA0025.1	0.0654
MA0027.1	MA0027.1	0.477
MA0028.1	MA0028.1	0.173
MA0029.1	MA0029.1	0.527
MA0030.1	MA0030.1	0.99
MA0031.1	MA0031.1	0.212
MA0035.2	MA0035.2	0.00208
MA0038.1	MA0038.1	0.254
MA0039.2	MA0039.2	0.634
MA0040.1	MA0040.1	0.571
MA0041.1	MA0041.1	0.507
MA0042.1	MA0042.1	0.683
MA0043.1	MA0043.1	0.00182
MA0046.1	MA0046.1	7.05802e-16
MA0047.2	MA0047.2	0.00216
MA0048.1	MA0048.1	0.0156
MA0050.1	MA0050.1	6.74244e-4
MA0051.1	MA0051.1	4.82479e-4
MA0052.1	MA0052.1	0.0026
MA0055.1	MA0055.1	0.255
MA0057.1	MA0057.1	0.359
MA0058.1	MA0058.1	0.939
MA0059.1	MA0059.1	0.269
MA0060.1	MA0060.1	0.0692
MA0061.1	MA0061.1	0.0064
MA0062.2	MA0062.2	0.114
MA0065.2	MA0065.2	5.65108e-7
MA0066.1	MA0066.1	8.73688e-4
MA0067.1	MA0067.1	0.281
MA0068.1	MA0068.1	0.687
MA0069.1	MA0069.1	0.149
MA0070.1	MA0070.1	0.346
MA0071.1	MA0071.1	0.316
MA0072.1	MA0072.1	0.776
MA0073.1	MA0073.1	0.901
MA0074.1	MA0074.1	0.126
MA0076.1	MA0076.1	0.0226
MA0077.1	MA0077.1	0.186
MA0078.1	MA0078.1	0.046
MA0079.2	MA0079.2	0.421
MA0080.2	MA0080.2	1.04429e-6
MA0081.1	MA0081.1	0.356
MA0083.1	MA0083.1	9.3265e-4
MA0084.1	MA0084.1	0.925
MA0087.1	MA0087.1	0.959
MA0088.1	MA0088.1	0.811
MA0090.1	MA0090.1	0.138
MA0091.1	MA0091.1	0.42
MA0092.1	MA0092.1	0.294
MA0093.1	MA0093.1	0.881
MA0099.2	MA0099.2	0.134
MA0100.1	MA0100.1	0.742
MA0101.1	MA0101.1	0.0941
MA0102.2	MA0102.2	0.804
MA0103.1	MA0103.1	0.133
MA0104.2	MA0104.2	0.548
MA0105.1	MA0105.1	2.80736e-5
MA0106.1	MA0106.1	0.255
MA0107.1	MA0107.1	0.0421
MA0108.2	MA0108.2	6.84254e-6
MA0111.1	MA0111.1	0.619
MA0112.2	MA0112.2	1.47088e-4
MA0113.1	MA0113.1	0.824
MA0114.1	MA0114.1	9.69309e-7
MA0115.1	MA0115.1	1.56764e-4
MA0116.1	MA0116.1	0.0143
MA0117.1	MA0117.1	0.0539
MA0119.1	MA0119.1	0.0131
MA0122.1	MA0122.1	0.921
MA0124.1	MA0124.1	0.71
MA0125.1	MA0125.1	0.236
MA0131.1	MA0131.1	0.938
MA0135.1	MA0135.1	0.949
MA0136.1	MA0136.1	5.74049e-4
MA0137.2	MA0137.2	0.214
MA0138.2	MA0138.2	0.0148
MA0139.1	MA0139.1	0.404
MA0140.1	MA0140.1	0.00144
MA0141.1	MA0141.1	0.0118
MA0142.1	MA0142.1	0.197
MA0143.1	MA0143.1	0.335
MA0144.1	MA0144.1	0.842
MA0145.1	MA0145.1	0.425
MA0146.1	MA0146.1	0.454
MA0147.1	MA0147.1	0.395
MA0148.1	MA0148.1	0.029
MA0149.1	MA0149.1	0.577
MA0150.1	MA0150.1	0.385
MA0152.1	MA0152.1	0.909
MA0153.1	MA0153.1	1.71571e-12
MA0154.1	MA0154.1	0.0103
MA0155.1	MA0155.1	0.0861
MA0156.1	MA0156.1	0.455
MA0157.1	MA0157.1	0.503
MA0159.1	MA0159.1	0.0225
MA0160.1	MA0160.1	0.107
MA0162.1	MA0162.1	0.015
MA0163.1	MA0163.1	8.5232e-4
MA0164.1	MA0164.1	0.563
MA0258.1	MA0258.1	0.00573
MA0259.1	MA0259.1	0.743

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: CNhs10493

Novel motif	Logo	P-value
1	1	0.147
10	10	0.0578
100	100	0.743
101	101	0.912
102	102	0.593
103	103	0.39
104	104	0.681
105	105	0.162
106	106	6.11841e-4
107	107	0.00602
108	108	0.454
109	109	0.109
11	11	0.167
110	110	0.0563
111	111	0.99
112	112	0.219
113	113	0.699
114	114	0.902
115	115	0.258
116	116	0.0274
117	117	0.0513
118	118	0.704
119	119	0.251
12	12	0.739
120	120	0.76
121	121	0.775
122	122	0.0619
123	123	0.458
124	124	0.571
125	125	0.29
126	126	0.237
127	127	0.0347
128	128	0.0178
129	129	0.776
13	13	0.00326
130	130	0.555
131	131	0.518
132	132	0.717
133	133	0.528
134	134	0.755
135	135	0.837
136	136	0.842
137	137	0.608
138	138	0.142
139	139	0.442
14	14	0.692
140	140	0.752
141	141	0.951
142	142	0.298
143	143	0.04
144	144	0.826
145	145	0.00966
146	146	0.616
147	147	0.765
148	148	0.293
149	149	0.473
15	15	0.255
150	150	0.0662
151	151	0.856
152	152	0.219
153	153	0.564
154	154	0.936
155	155	0.262
156	156	0.00791
157	157	0.386
158	158	0.677
159	159	0.0629
160	160	0.0797
161	161	0.58
162	162	0.674
163	163	0.831
164	164	0.252
165	165	0.0563
166	166	0.258
167	167	0.945
168	168	0.719
169	169	0.00384
17	17	0.247
18	18	0.5
19	19	0.096
2	2	0.59
20	20	0.59
21	21	0.331
22	22	0.186
23	23	0.382
24	24	0.215
25	25	0.82
26	26	9.54292e-4
27	27	0.727
28	28	0.829
29	29	0.19
3	3	0.276
30	30	0.778
31	31	0.923
32	32	0.0242
33	33	0.518
34	34	0.223
35	35	0.702
36	36	0.769
37	37	0.121
38	38	0.517
39	39	0.323
4	4	0.101
40	40	0.406
41	41	0.127
42	42	0.435
43	43	0.0863
44	44	0.238
45	45	0.403
46	46	0.0584
47	47	0.859
48	48	0.28
49	49	0.206
5	5	0.0498
50	50	0.298
51	51	0.583
52	52	0.0646
53	53	0.88
54	54	0.417
55	55	0.136
56	56	0.686
57	57	0.3
58	58	0.55
59	59	0.0171
6	6	0.487
60	60	0.0155
61	61	0.235
62	62	0.208
63	63	0.154
64	64	0.705
65	65	0.177
66	66	0.531
67	67	0.789
68	68	0.542
69	69	0.256
7	7	0.0963
70	70	0.788
71	71	0.00307
72	72	0.669
73	73	0.195
74	74	0.227
75	75	0.152
76	76	0.995
77	77	0.0803
78	78	2.62307e-4
79	79	0.853
8	8	0.0601
80	80	0.454
81	81	0.527
82	82	0.334
83	83	0.129
84	84	0.347
85	85	0.179
86	86	0.315
87	87	0.813
88	88	0.634
89	89	0.801
9	9	0.446
90	90	0.44
91	91	0.0659
92	92	0.176
93	93	0.203
94	94	0.59
95	95	0.249
96	96	0.546
97	97	0.328
98	98	0.937
99	99	0.0918

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: CNhs10493

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011303 mouse pituitary gland- adult 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)
0007023 (adult organism)
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)
0000998 (adult tissue sample)
0000004 (tissue sample)
0011303 (mouse pituitary gland- adult 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)

@@ Line 1: / Line 1: @@
 {{f5samples
+|DRA_sample_Accession=CAGE@SAMD00005524
+|accession_numbers=CAGE;DRX009066;DRR009940;DRZ001365;DRZ002748;DRZ012715;DRZ014098
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,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 7: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr16:65520838..65520853,+!p1@ENSMUST00000004964!2.79!615.51!Pou1f1;;chr10:5636374..5636421,-!p1@Esr1!2.03!130.73!Esr1;;chr10:86956396..86956411,-!p1@Ascl1!1.91!121.88!Ascl1;;chr10:5636354..5636373,-!p2@Esr1!1.87!72.51!Esr1;;chr10:129717274..129717298,-!p1@Neurod4!1.86!70.81!Neurod4;;chr13:55932591..55932622,-!p1@Pitx1!1.73!62.30!Pitx1;;chr12:74147689..74147711,-!p1@Six1!1.70!103.49!Six1;;chr2:26062055..26062100,-!p1@Lhx3!1.64!42.21!Lhx3;;chr12:74040895..74040916,+!p2@Six6!1.62!40.51!Six6;;chr12:30219426..30219506,+!p2@Myt1l!1.60!38.47!Myt1l;;chr12:74040861..74040875,+!p1@Six6!1.57!35.75!Six6;;chr19:19185671..19185693,-!p1@Rorb!1.52!74.56!Rorb;;chr3:128916868..128916890,+!p1@Pitx2!1.52!43.58!Pitx2;;chr2:26063801..26063813,-!p2@Lhx3!1.50!30.98!Lhx3;;chr16:65521021..65521032,+!p@chr16:65521021..65521032,+!1.50!30.30!Pou1f1;;chr18:3281725..3281740,-!p3@Crem!1.41!31.66!Crem;;chr10:129717308..129717319,-!p2@Neurod4!1.40!24.17!Neurod4;;chr1:167090803..167090816,-!p1@Tbx19!1.39!23.49!Tbx19;;chr19:19185697..19185711,-!p2@Rorb!1.37!28.60!Rorb;;chr12:74040716..74040745,+!p3@Six6!1.34!21.11!Six6;;chr4:58956447..58956510,+!p1@Zkscan16!1.32!42.55!Zkscan16;;chr2:127347067..127347093,-!p1@Kcnip3!1.32!32.68!Kcnip3;;chr15:101097270..101097290,+!p1@Nr4a1!1.31!194.05!Nr4a1;;chr5:144951153..144951203,+!p1@Bhlha15!1.29!26.55!Bhlha15;;chr10:67000609..67000625,+!p1@Egr2!1.27!40.51!Egr2;;chr18:36441119..36441158,+!p2@Pura!1.26!41.53!Pura;;chr2:56967334..56967366,-!p1@Nr4a2!1.25!33.70!Nr4a2;;chr2:146047829..146047847,+!p1@Insm1!1.25!29.96!Insm1;;chr13:55932624..55932641,-!p2@Pitx1!1.23!16.00!Pitx1;;chr16:43236037..43236050,+!p35@Zbtb20!1.19!14.64!Zbtb20;;chr2:65683890..65683907,+!p1@Csrnp3!1.17!26.55!Csrnp3;;chr1:6720216..6720232,+!p1@St18!1.15!13.28!St18;;chr18:35020854..35020869,+!p1@Egr1!1.13!472.19!Egr1;;chr3:128902837..128902861,+!p3@Pitx2!1.13!12.60!Pitx2;;chr7:148008023..148008092,-!p1@Zfp941!1.12!29.28!Zfp941;;chr3:128916838..128916856,+!p4@Pitx2!1.12!12.26!Pitx2;;chr17:86020156..86020183,+!p1@Six3!1.12!12.26!Six3;;chr18:3281750..3281776,-!p2@Crem!1.11!24.17!Crem;;chr12:72149325..72149343,+!p2@Arid4a!1.11!16.68!Arid4a;;chr10:12810631..12810649,+!p1@Plagl1!1.10!305.37!Plagl1;;chr5:38215819..38215823,-!p1@Msx1!1.10!30.64!Msx1;;chr3:34548909..34548927,+!p1@Sox2!1.10!19.75!Sox2;;chr2:127347094..127347111,-!p2@Kcnip3!1.10!19.41!Kcnip3;;chr8:79426176..79426275,+!p1@Nr3c2!1.09!57.19!Nr3c2;;chr11:121380594..121380609,-!p2@Zfp750!1.08!19.41!Zfp750;;chr1:169528520..169528542,+!p2@Rxrg!1.08!10.89!Rxrg;;chr1:120879128..120879183,-!p3@Gli2!1.07!20.77!Gli2;;chr17:86020115..86020128,+!p2@Six3!1.06!10.55!Six3;;chrX:70656436..70656464,+!p1@Zfp92!1.06!10.55!Zfp92;;chr10:84218800..84218829,+!p2@Rfx4!1.06!10.55!Rfx4;;chr17:86020510..86020589,+!p3@Six3!1.05!10.21!Six3;;chr13:55932739..55932756,-!p5@Pitx1!1.05!10.21!Pitx1;;chr5:125342568..125342602,+!p2@Zfp664!1.04!16.34!Zfp664;;chr3:128917187..128917223,+!p2@Pitx2!1.04!11.57!Pitx2;;chr4:139388835..139388867,-!p1@Pax7!1.04!9.87!Pax7;;chr13:55937432..55937460,-!p4@Pitx1!1.04!9.87!Pitx1;;chr8:112603658..112603674,+!p2@Zfp612!1.03!18.04!Zfp612;;chr13:55937467..55937516,-!p3@Pitx1!1.01!9.19!Pitx1;;chr1:169528581..169528607,+!p7@Rxrg!1.01!9.19!Rxrg;;chr10:12780505..12780529,+!p10@Plagl1!1.01!9.19!Plagl1;;chr17:86087592..86087615,-!p1@Six2!1.01!9.19!Six2;;chr18:52775562..52775650,+!p1@Zfp474!1.01!9.19!Zfp474;;chr5:125538737..125538781,-!p2@Ncor2!0.98!31.66!Ncor2;;chr7:38557752..38557793,-!p3@Zfp536!0.98!10.21!Zfp536;;chr2:181501745..181501778,+!p1@Myt1!0.98!8.51!Myt1;;chr12:39510206..39510249,+!p3@Etv1!0.98!8.51!Etv1;;chr10:12780335..12780344,+!p12@Plagl1!0.98!8.51!Plagl1;;chr7:6649134..6649167,-!p1@Zim1!0.96!44.94!Zim1;;chr4:109650609..109650653,+!p1@Dmrta2!0.95!7.83!Dmrta2;;chr12:86814833..86814846,+!p1@Fos!0.93!180.09!Fos;;chr7:116154364..116154444,+!p1@Tub!0.93!13.28!Tub;;chr11:98636531..98636559,-!p1@Nr1d1!0.92!43.24!Nr1d1;;chr1:169528457..169528482,+!p3@Rxrg!0.91!7.15!Rxrg;;chr1:169528491..169528505,+!p4@Rxrg!0.91!7.15!Rxrg;;chr1:170361991..170362015,-!p6@Pbx1!0.89!15.66!Pbx1;;chr16:42907656..42907675,+!p10@Zbtb20!0.89!15.32!Zbtb20;;chr8:107793688..107793736,+!p1@Hsf4!0.89!8.85!Hsf4;;chr18:66098702..66098742,-!p1@Rax!0.89!6.81!Rax;;chr2:181501988..181502026,+!p3@Myt1!0.89!6.81!Myt1;;chr16:42907676..42907797,+!p1@Zbtb20!0.88!89.54!Zbtb20;;chr11:90252223..90252240,-!p1@Hlf!0.88!58.22!Hlf;;chr18:3281034..3281104,-!p1@Crem!0.88!49.02!Crem;;chrX:110411840..110411860,+!p1@Dach2!0.88!8.17!Dach2;;chr1:167090905..167090912,-!p2@Tbx19!0.87!6.47!Tbx19;;chr2:181501710..181501742,+!p2@Myt1!0.87!6.47!Myt1;;chr2:38567715..38567730,-!p2@Nr5a1!0.87!6.47!Nr5a1;;chr11:98636575..98636607,-!p2@Nr1d1!0.86!23.83!Nr1d1;;chr3:5218629..5218684,+!p1@Zfhx4!0.86!21.11!Zfhx4;;chr18:3337339..3337397,-!p5@Crem!0.86!12.94!Crem;;chr6:88143711..88143717,+!p2@Gata2!0.86!10.21!Gata2;;chr17:48015839..48015915,-!p3@Foxp4!0.86!7.49!Foxp4;;chr6:88148650..88148669,+!p1@Gata2!0.85!53.45!Gata2;;chr2:103123925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f1!0.61!12.94!Jazf1;;chr4:119960301..119960359,-!p1@Foxo6!0.61!11.57!Foxo6;;chr12:25257141..25257173,+!p1@Grhl1!0.61!7.15!Grhl1;;chr3:5218590..5218614,+!p3@Zfhx4!0.61!5.79!Zfhx4;;chr4:13670626..13670657,+!p5@Runx1t1!0.61!5.11!Runx1t1;;chr4:13678723..13678739,+!p10@Runx1t1!0.61!3.06!Runx1t1;;chr6:85463580..85463585,-!p1@Egr4!0.61!3.06!Egr4;;chr14:18814327..18814334,+!p10@Thrb!0.61!3.06!Thrb;;chr12:74147860..74147888,-!p2@Six1!0.61!3.06!Six1;;chr17:28408632..28408682,+!p1@1810013A23Rik,p4@Ppard!0.61!3.06!Ppard;;chr17:86020336..86020352,+!p8@Six3!0.61!3.06!Six3;;chr1:167090920..167090924,-!p3@Tbx19!0.61!3.06!Tbx19;;chr9:48644306..48644364,-!p1@Zbtb16!0.60!13.96!Zbtb16;;chr11:121380611..121380625,-!p3@Zfp750!0.60!3.74!Zfp750;;chr5:125538703..125538715,-!p5@Ncor2!0.60!3.74!Ncor2;;chr2:169458192..169458247,+!p1@Tshz2!0.59!31.32!Tshz2;;chr9:96619823..96619898,-!p2@Zbtb38!0.59!15.32!Zbtb38;;chr16:42875952..42875974,+!p4@Zbtb20!0.59!12.94!Zbtb20;;chr4:150482563..150482655,-!p2@Camta1!0.59!12.26!Camta1;;chr6:134780234..134780288,+!p1@Crebl2!0.59!10.89!Crebl2;;chrX:92907025..92907051,+!p1@Zc3h12b!0.59!9.53!Zc3h12b;;chr9:96619968..96619983,-!p6@Zbtb38!0.59!5.45!Zbtb38;;chr8:107793737..107793757,+!p2@Hsf4!0.59!3.40!Hsf4;;chr4:150513630..150513686,-!p4@Camta1!0.59!3.40!Camta1;;chr4:13670661..13670681,+!p12@Runx1t1!0.59!3.40!Runx1t1;;chr7:48888915..48888973,+!p1@Zfp788!0.58!43.92!Zfp788;;chr14:19071466..19071550,-!p1@Nr1d2!0.58!23.15!Nr1d2;;chr1:194979315..194979359,+!p1@Irf6!0.58!20.77!Irf6;;chr9:96159665..96159680,+!p3@Tfdp2!0.58!15.32!Tfdp2;;chr4:13670499..13670526,+!p2@Runx1t1!0.58!7.15!Runx1t1;;chr11:53583960..53584007,+!p2@Irf1!0.58!6.81!Irf1;;chr7:130644017..130644092,-!p1@Zkscan2!0.58!6.13!Zkscan2;;chr4:135736690..135736705,+!p6@E2f2!0.58!3.40!E2f2;;chr13:64253718..64253763,-!p2@Zfp367!0.57!8.17!Zfp367;;chr15:103170516..103170531,-!p2@Zfp385a!0.57!7.49!Zfp385a;;chr9:68501522..68501538,+!p4@Rora!0.57!5.79!Rora;;chr4:48058016..48058032,+!p3@Nr4a3!0.57!5.11!Nr4a3;;chr9:48644013..48644027,-!p5@Zbtb16!0.57!3.40!Zbtb16;;chr10:128082840..128082872,-!p1@Ikzf4!0.57!3.40!Ikzf4;;chr9:55388997..55389016,+!p1@Isl2!0.57!2.72!Isl2;;chr17:86020186..86020195,+!p9@Six3!0.57!2.72!Six3;;chr12:30213247..30213333,+!p1@Myt1l!0.57!2.72!Myt1l;;chr2:65683842..65683856,+!p3@Csrnp3!0.57!2.72!Csrnp3;;chr1:137155026..137155042,-!p1@Elf3!0.56!18.72!Elf3;;chr13:21545538..21545569,-!p2@Zfp187!0.56!14.64!Zfp187;;chr8:72356532..72356611,+!p1@Pbx4!0.56!13.28!Pbx4;;chr9:122812356..122812381,+!p@chr9:122812356..122812381,+!0.56!5.79!Gm8008;;chr5:122499831..122499891,-!p1@Cux2!0.56!4.43!Cux2;;chr7:6238191..6238224,+!p1@Zfp667!0.55!19.06!Zfp667;;chr19:26681865..26681900,+!p6@Smarca2!0.55!8.85!Smarca2;;chr16:43363152..43363186,+!p3@Zbtb20!0.55!6.81!Zbtb20;;chr7:52960555..52960662,+!p1@Dbp!0.54!26.55!Dbp;;chrX:98728074..98728116,+!p2@Taf1!0.54!19.75!Taf1;;chr18:5334362..5334408,-!p1@Zfp438!0.54!12.94!Zfp438;;chr19:26681226..26681299,+!p7@Smarca2!0.54!6.81!Smarca2;;chr3:94758041..94758142,+!p1@Rfx5!0.53!27.58!Rfx5;;chr7:30644985..30645072,+!p1@Zfp420!0.53!17.70!Zfp420;;chr4:3865501..3865548,-!p1@Plag1!0.53!15.32!Plag1;;chr6:117813087..117813121,+!p1@Zfp239!0.53!11.23!Zfp239;;chr18:55150011..55150059,-!p3@Zfp608!0.53!9.53!Zfp608;;chr16:43619156..43619171,+!p16@Zbtb20!0.53!3.40!Zbtb20;;chr9:122812411..122812426,+!p@chr9:122812411..122812426,+!0.53!3.40!Gm8008;;chr8:107033774..107033794,-!p1@Ccdc79!0.53!3.06!Ccdc79;;chr8:87298020..87298041,-!p9@Nfix!0.53!2.38!Nfix;;chr6:88143570..88143590,+!p4@Gata2!0.53!2.38!Gata2;;chr11:96685444..96685473,-!p5@Nfe2l1!0.53!2.38!Nfe2l1;;chr12:39510260..39510271,+!p10@Etv1!0.53!2.38!Etv1;;chr17:86020293..86020318,+!p7@Six3!0.53!2.38!Six3;;chr2:105515793..105515808,+!p3@Pax6!0.53!2.38!Pax6;;chr4:82351566..82351607,-!p10@Nfib!0.53!2.38!Nfib;;chr3:128902878..128902893,+!p6@Pitx2!0.53!2.38!Pitx2;;chr14:98568761..98568814,-!p2@Dach1!0.52!20.09!Dach1;;chr4:54960870..54960926,+!p1@Zfp462!0.52!10.21!Zfp462;;chr15:57526316..57526332,+!p4@Zhx2!0.52!6.47!Zhx2;;chr19:23215554..23215567,+!p5@Klf9!0.52!3.40!Klf9;;chr1:133904862..133904893,+!p6@Elk4!0.51!5.45!Elk4;;chr7:38558544..38558566,-!p4@Zfp536!0.51!2.72!Zfp536;;chr7:120351014..120351109,+!p1@Arntl!0.50!38.81!Arntl;;chr15:50721588..50721610,-!p1@Trps1!0.50!28.94!Trps1;;chr4:119406389..119406411,+!p1@Hivep3!0.50!13.62!Hivep3;;chr5:9160908..9160912,-!p2@Dmtf1!0.50!11.23!Dmtf1;;chr7:30875490..30875555,-!p1@Zfp566,p1@Zfp82!0.50!7.49!Zfp566;;chr2:77357622..77357704,-!p1@Zfp385b!0.50!7.15!Zfp385b;;chr3:30500978..30501018,+!p1@Mynn!0.50!7.15!Mynn;;chr6:134780163..134780197,+!p2@Crebl2!0.50!6.13!Crebl2;;chrX:45947746..45947762,-!p2@Zfp280c!0.50!5.45!Zfp280c;;chr16:43363837..43363842,+!p11@Zbtb20!0.50!4.77!Zbtb20;;chr7:30094448..30094481,+!p4@Dpf1!0.50!2.72!Dpf1;;chr1:74634538..74634615,-!p1@Zfp142!0.49!22.81!Zfp142;;chrX:7339938..7339963,+!p1@Tfe3!0.49!13.62!Tfe3;;chr19:28754692..28754757,-!p1@Glis3!0.49!11.23!Glis3;;chrX:70587926..70587945,+!p2@Zfp275!0.49!8.85!Zfp275;;chr18:83080305..8308033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;chr9:72379991..72380014,+!p2@Rfx7!0.21!4.09!Rfx7;;chr19:8876976..8877011,+!p1@Zbtb3!0.21!4.09!Zbtb3;;chr15:102301130..102301147,+!p3@Pcbp2!0.21!3.74!Pcbp2;;chr11:95170871..95170900,-!p2@Myst2!0.21!3.06!Myst2;;chr1:138521574..138521597,+!p3@Zfp281!0.21!2.72!Zfp281;;chr18:55149735..55149776,-!p4@Zfp608!0.21!2.72!Zfp608;;chr13:67229127..67229153,+!p2@Zfp759!0.21!2.04!Zfp759;;chr11:58717721..58717738,-!p2@Zfp39!0.21!2.04!Zfp39;;chr19:5423800..5423821,-!p5@Drap1!0.21!1.36!Drap1;;chr7:91558631..91558652,-!p3@Arnt2!0.21!1.36!Arnt2;;chr8:79423672..79423727,+!p2@Nr3c2!0.21!1.02!Nr3c2;;chr9:71958979..71959032,-!p4@Tcf12!0.21!1.02!Tcf12;;chr3:30408384..30408431,-!p4@Mecom!0.21!1.02!Mecom;;chr16:95923586..95923598,+!p5@Ets2!0.21!1.02!Ets2;;chr19:23215430..23215441,+!p7@Klf9!0.21!1.02!Klf9;;chr6:92041372..92041383,+!p6@Nr2c2!0.21!1.02!Nr2c2;;chr7:123177377..123177409,-!p7@Sox6!0.21!1.02!Sox6;;chr5:125538905..125538910,-!p4@Ncor2!0.21!1.02!Ncor2;;chr15:76307834..76307891,+!p1@Hsf1!0.20!55.83!Hsf1;;chr14:65568675..65568723,-!p1@Hmbox1!0.20!46.64!Hmbox1;;chr7:97591284..97591375,+!p1@Crebzf!0.20!46.64!Crebzf;;chr15:76181733..76181767,+!p1@Maf1!0.20!40.85!Maf1;;chr18:74427905..74427991,+!p1@Mbd1!0.20!26.89!Mbd1;;chr10:80599279..80599353,+!p1@Zbtb7a!0.20!25.19!Zbtb7a;;chr8:74474953..74475029,+!p1@Zfp961!0.20!22.81!Zfp961;;chr11:100711801..100711910,-!p1@Stat5b!0.20!19.06!Stat5b;;chr17:35372700..35372762,-!p1@Nfkbil1!0.20!14.98!Nfkbil1;;chr19:26679615..26679646,+!p3@Smarca2!0.20!9.19!Smarca2;;chr7:11080671..11080750,-!p1@Zik1!0.20!9.19!Zik1;;chr13:21622917..21622952,-!p1@Zfp192!0.20!8.85!Zfp192;;chr2:91077082..91077122,-!p1@Ddb2!0.20!8.17!Ddb2;;chr13:21454695..21454752,+!p1@Zscan12!0.20!7.49!Zscan12;;chr4:116480179..116480222,-!p2@Toe1!0.20!7.15!Toe1;;chr7:135020438..135020468,+!p1@Zfp646!0.20!5.45!Zfp646;;chr9:20297135..20297154,-!p2@Zfp426!0.20!4.43!Zfp426;;chr11:98789099..98789124,+!p3@Rara!0.20!3.74!Rara;;chr4:63064364..63064384,-!p1@Akna!0.20!3.40!Akna;;chr7:30857891..30857943,-!p1@LOC100505067,p3@Zfp82!0.20!3.06!Zfp82;;chr5:134790326..134790343,-!p8@Gtf2i!0.20!2.72!Gtf2i;;chr13:55206625..55206636,+!p2@Zfp346!0.20!2.04!Zfp346;;chr13:31717548..31717596,+!p1@Foxf2!0.20!2.04!Foxf2;;chr9:72380594..72380635,+!p3@Rfx7!0.20!1.70!Rfx7;;chr8:74405624..74405679,+!p3@Zfp709!0.20!1.70!Zfp709;;chr18:39648811..39648818,-!p4@Nr3c1!0.20!1.70!Nr3c1;;chr10:67375368..67375433,-!p1@Zfp365!0.20!1.70!Zfp365;;chr2:151969288..151969294,+!p1@Tcf15!0.20!1.36!Tcf15;;chr6:108610513..108610528,+!p3@Bhlhe40!0.20!1.36!Bhlhe40;;chr7:6315994..6316007,+!p2@Zfp78!0.20!1.02!Zfp78;;chr15:79178060..79178074,+!p2@Maff!0.20!1.02!Maff;;chr18:35721940..35721951,+!p5@Matr3!0.20!1.02!Matr3;;chr17:51952537..51952552,-!p15@Satb1!0.20!0.68!Satb1;;chr12:41172341..41172385,-!p1@Zfp277!0.19!48.00!Zfp277;;chr11:53164236..53164284,+!p1@Aff4!0.19!40.17!Aff4;;chr17:87153240..87153254,+!p1@Epas1!0.19!26.89!Epas1;;chr6:47998498..47998527,-!p1@Zfp777!0.19!22.47!Zfp777;;chr6:117791192..117791269,+!p1@Zfp637!0.19!21.79!Zfp637;;chr11:101087728..101087769,-!p1@Ezh1!0.19!20.43!Ezh1;;chr10:82226781..82226825,-!p1@Nfyb!0.19!17.02!Nfyb;;chr17:21625946..21626024,+!p1@Zfp53!0.19!14.64!Zfp53;;chr9:113840108..113840184,+!p2@Ubp1!0.19!12.26!Ubp1;;chr7:88005795..88005858,+!p1@Zscan2!0.19!9.19!Zscan2;;chr7:13063668..13063721,+!p1@Zfp606!0.19!9.19!Zfp606;;chr2:120996843..120996894,-!p1@Zscan29!0.19!7.83!Zscan29;;chr6:133985657..133985707,+!p3@Etv6!0.19!7.15!Etv6;;chr7:49761065..49761106,-!p1@ENSMUST00000174407,p1@uc009gmb.1!0.19!6.81!Zfp141;;chr12:75008946..75008957,+!p2@Hif1a!0.19!6.47!Hif1a;;chr5:145962698..145962742,-!p1@Zkscan14!0.19!5.79!Zkscan14;;chr15:102455492..102455531,-!p2@Atf7!0.19!4.77!Atf7;;chrX:20527723..20527739,-!p2@Elk1!0.19!3.40!Elk1;;chr7:87171233..87171255,+!p3@Zfp710!0.19!3.06!Zfp710;;chr7:30691543..30691586,-!p2@Zfp27!0.19!2.38!Zfp27;;chr8:47825166..47825178,+!p2@Irf2!0.19!1.36!Irf2;;chr7:6238175..6238186,+!p2@Zfp667!0.19!1.36!Zfp667;;chr5:92391948..92391968,+!p3@Thap6!0.19!1.36!Thap6;;chr11:53164556..53164567,+!p5@Aff4!0.19!1.36!Aff4;;
+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006601,UBERON:0010316
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 40: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011303
 |is_obsolete=
+|library_id=CNhs10493
+|library_id_phase_based=2:CNhs10493
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;21
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;21
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520adult.CNhs10493.21-1G8.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520adult.CNhs10493.21-1G8.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520adult.CNhs10493.21-1G8.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520adult.CNhs10493.21-1G8.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/pituitary%2520gland%252c%2520adult.CNhs10493.21-1G8.mm9.nobarcode.rdna.fa.gz
 |name=pituitary gland, adult
 |namespace=FANTOM5
@@ Line 45: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs10493,LSID647,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=0.0986454388686688,0,0,0,0,0,0.073855650981103,0,0,0,0,-0.0843392403965415,0,0,0,0,0,0,0.18134212202361,0,0,0,0,0,0.12724725138213,0,0,0,0,0,0,0,0.294539592064659,0,0,0,0.12724725138213,0,0.119304113933584,0.00085067176834408,-0.0711233438221357,1.3491894564298,0.103366834895834,0,0,0,0,0,0,0,0,0,0,0,0,-0.0660055475634404,0,0,0,0,-0.0144574492130856,0,0,0,0,0.0631434036340572,0.139095003204988,0.172599575433473,0.929495430639591,0.211630497304215,0,0.127947007543986,0.0198937020695984,0.12724725138213,0,0,0.039230866628024,-0.0230296607125689,0.164971392613914,0.22680322419606,0,0,0,0,0,0,-0.0182565814712849,-0.306652978876477,-0.0533619670223505,0,0,0.12724725138213,0,0
 |rna_box=1
 |rna_catalog_number=
@@ Line 60: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 80: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:21-1G8;search_select_hide=table117:21-1G8
 }}

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FF:21-1G8: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:09, 4 June 2020

CNhs10493

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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