FF:824-19H1: Difference between revisions

Latest revision as of 19:21, 4 June 2020

Name:	spleen, neonate N20
Species:	Mouse (Mus musculus)
Library ID:	CNhs11112
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	spleen
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		SAMD00005217

Library accession numbers

Library id		Method		Exp. accession id		Run accession id
CNhs11112		CAGE		DRX009088		DRR009962

Accession ID Mm9

Library id		BAM		CTSS
CNhs11112		DRZ001387		DRZ002770

Accession ID Mm10

Library id		BAM		CTSS
CNhs11112		DRZ012737		DRZ014120

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

CNhs11112

0	0
1	0
10	0
100	0
1000	0
1001	-0.00222
1002	-0.0921
1003	-0.0518
1004	0
1005	0.0556
1006	-0.143
1007	-0.00166
1008	0
1009	-0.134
101	0.133
1010	0
1011	0
1012	0.189
1013	-0.132
1014	-0.0317
1015	-0.162
1016	-0.324
1017	0
1018	0
1019	0
102	0
1020	0
1021	0
1022	-0.162
1023	0
1024	-0.0761
1025	0
1026	0
1027	0
1028	0
1029	0.138
103	-0.0447
1030	0.741
1031	-0.317
1032	-0.466
1033	0.00822
1034	0
1035	0
1036	0.25
1037	0
1038	-0.272
1039	-0.224
104	0
1040	-0.111
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: CNhs11112

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.00166
MA0003.1	MA0003.1	0.496
MA0004.1	MA0004.1	0.649
MA0006.1	MA0006.1	0.38
MA0007.1	MA0007.1	0.721
MA0009.1	MA0009.1	0.406
MA0014.1	MA0014.1	0.874
MA0017.1	MA0017.1	0.252
MA0018.2	MA0018.2	0.00832
MA0019.1	MA0019.1	0.199
MA0024.1	MA0024.1	4.57593e-6
MA0025.1	MA0025.1	0.0565
MA0027.1	MA0027.1	0.574
MA0028.1	MA0028.1	0.0198
MA0029.1	MA0029.1	0.829
MA0030.1	MA0030.1	0.296
MA0031.1	MA0031.1	0.593
MA0035.2	MA0035.2	7.35339e-10
MA0038.1	MA0038.1	0.11
MA0039.2	MA0039.2	0.876
MA0040.1	MA0040.1	0.617
MA0041.1	MA0041.1	0.312
MA0042.1	MA0042.1	0.969
MA0043.1	MA0043.1	0.00276
MA0046.1	MA0046.1	1.02928e-10
MA0047.2	MA0047.2	0.912
MA0048.1	MA0048.1	0.241
MA0050.1	MA0050.1	1.02224e-10
MA0051.1	MA0051.1	3.46315e-6
MA0052.1	MA0052.1	4.63807e-6
MA0055.1	MA0055.1	0.301
MA0057.1	MA0057.1	0.816
MA0058.1	MA0058.1	0.803
MA0059.1	MA0059.1	0.145
MA0060.1	MA0060.1	0.239
MA0061.1	MA0061.1	8.72507e-4
MA0062.2	MA0062.2	5.71053e-6
MA0065.2	MA0065.2	0.314
MA0066.1	MA0066.1	0.0829
MA0067.1	MA0067.1	0.753
MA0068.1	MA0068.1	0.736
MA0069.1	MA0069.1	0.505
MA0070.1	MA0070.1	0.226
MA0071.1	MA0071.1	0.732
MA0072.1	MA0072.1	0.633
MA0073.1	MA0073.1	1
MA0074.1	MA0074.1	0.735
MA0076.1	MA0076.1	0.0402
MA0077.1	MA0077.1	0.126
MA0078.1	MA0078.1	0.719
MA0079.2	MA0079.2	0.0259
MA0080.2	MA0080.2	4.13609e-11
MA0081.1	MA0081.1	0.0344
MA0083.1	MA0083.1	0.0731
MA0084.1	MA0084.1	0.228
MA0087.1	MA0087.1	0.12
MA0088.1	MA0088.1	0.111
MA0090.1	MA0090.1	0.0473
MA0091.1	MA0091.1	0.0543
MA0092.1	MA0092.1	0.743
MA0093.1	MA0093.1	0.729
MA0099.2	MA0099.2	0.542
MA0100.1	MA0100.1	0.069
MA0101.1	MA0101.1	0.00311
MA0102.2	MA0102.2	0.775
MA0103.1	MA0103.1	0.881
MA0104.2	MA0104.2	0.6
MA0105.1	MA0105.1	5.73848e-6
MA0106.1	MA0106.1	0.225
MA0107.1	MA0107.1	0.00423
MA0108.2	MA0108.2	5.93542e-4
MA0111.1	MA0111.1	0.615
MA0112.2	MA0112.2	0.00355
MA0113.1	MA0113.1	0.5
MA0114.1	MA0114.1	0.911
MA0115.1	MA0115.1	0.669
MA0116.1	MA0116.1	0.00123
MA0117.1	MA0117.1	0.857
MA0119.1	MA0119.1	0.235
MA0122.1	MA0122.1	0.936
MA0124.1	MA0124.1	0.844
MA0125.1	MA0125.1	0.0529
MA0131.1	MA0131.1	0.782
MA0135.1	MA0135.1	0.0896
MA0136.1	MA0136.1	2.41342e-13
MA0137.2	MA0137.2	0.683
MA0138.2	MA0138.2	0.00358
MA0139.1	MA0139.1	0.231
MA0140.1	MA0140.1	1.92838e-36
MA0141.1	MA0141.1	0.492
MA0142.1	MA0142.1	0.0778
MA0143.1	MA0143.1	0.239
MA0144.1	MA0144.1	0.734
MA0145.1	MA0145.1	0.88
MA0146.1	MA0146.1	0.313
MA0147.1	MA0147.1	0.482
MA0148.1	MA0148.1	0.551
MA0149.1	MA0149.1	0.0523
MA0150.1	MA0150.1	0.0682
MA0152.1	MA0152.1	0.922
MA0153.1	MA0153.1	2.30367e-7
MA0154.1	MA0154.1	0.00404
MA0155.1	MA0155.1	0.615
MA0156.1	MA0156.1	2.51498e-11
MA0157.1	MA0157.1	0.536
MA0159.1	MA0159.1	0.151
MA0160.1	MA0160.1	0.91
MA0162.1	MA0162.1	0.261
MA0163.1	MA0163.1	1.45769e-4
MA0164.1	MA0164.1	0.381
MA0258.1	MA0258.1	0.116
MA0259.1	MA0259.1	0.909

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: CNhs11112

Novel motif	Logo	P-value
1	1	0.0958
10	10	0.0174
100	100	0.738
101	101	0.767
102	102	0.716
103	103	0.01
104	104	0.918
105	105	0.548
106	106	0.289
107	107	0.657
108	108	0.342
109	109	0.111
11	11	0.225
110	110	0.0806
111	111	0.02
112	112	0.0337
113	113	0.898
114	114	0.396
115	115	0.559
116	116	0.951
117	117	5.90501e-4
118	118	0.0681
119	119	0.187
12	12	0.972
120	120	0.992
121	121	0.28
122	122	0.757
123	123	0.193
124	124	0.974
125	125	0.0198
126	126	0.194
127	127	0.38
128	128	0.288
129	129	0.114
13	13	0.00663
130	130	0.532
131	131	0.843
132	132	0.123
133	133	0.495
134	134	0.0981
135	135	0.983
136	136	0.931
137	137	0.0403
138	138	0.701
139	139	0.584
14	14	0.734
140	140	0.232
141	141	0.671
142	142	0.181
143	143	0.343
144	144	0.961
145	145	0.0144
146	146	0.948
147	147	0.88
148	148	0.172
149	149	0.423
15	15	0.0388
150	150	0.189
151	151	0.269
152	152	0.442
153	153	0.441
154	154	0.27
155	155	0.13
156	156	0.187
157	157	0.703
158	158	0.0386
159	159	0.126
160	160	0.608
161	161	0.091
162	162	0.704
163	163	0.579
164	164	0.0286
165	165	0.327
166	166	0.37
167	167	0.1
168	168	0.477
169	169	0.0536
17	17	0.472
18	18	0.209
19	19	0.414
2	2	0.261
20	20	0.0597
21	21	0.386
22	22	0.564
23	23	0.818
24	24	0.4
25	25	0.318
26	26	0.00187
27	27	0.758
28	28	0.19
29	29	0.0245
3	3	0.0527
30	30	0.329
31	31	0.889
32	32	0.667
33	33	0.27
34	34	0.945
35	35	0.47
36	36	0.0582
37	37	0.157
38	38	0.496
39	39	0.951
4	4	0.894
40	40	0.274
41	41	0.762
42	42	0.0747
43	43	0.109
44	44	0.474
45	45	0.706
46	46	0.147
47	47	0.169
48	48	0.237
49	49	0.051
5	5	0.0776
50	50	0.982
51	51	0.834
52	52	0.938
53	53	0.972
54	54	0.947
55	55	0.326
56	56	0.649
57	57	0.133
58	58	0.31
59	59	0.512
6	6	0.358
60	60	0.402
61	61	0.385
62	62	0.115
63	63	0.421
64	64	0.655
65	65	0.579
66	66	0.654
67	67	0.555
68	68	0.504
69	69	0.525
7	7	0.04
70	70	0.353
71	71	0.019
72	72	0.33
73	73	0.403
74	74	0.774
75	75	0.039
76	76	0.178
77	77	0.672
78	78	0.0261
79	79	0.957
8	8	0.0257
80	80	0.0284
81	81	0.436
82	82	0.569
83	83	0.462
84	84	0.16
85	85	0.323
86	86	0.584
87	87	0.772
88	88	0.587
89	89	0.652
9	9	0.46
90	90	0.0157
91	91	0.24
92	92	0.561
93	93	0.359
94	94	0.0593
95	95	0.17
96	96	0.0341
97	97	0.869
98	98	0.164
99	99	0.6

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: CNhs11112

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011430 mouse spleen- 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)
0002106 (spleen)
0002100 (trunk)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0000466 (immaterial anatomical entity)
0002075 (viscus)
0000062 (organ)
0000475 (organism subdivision)
0004120 (mesoderm-derived structure)
0000077 (mixed endoderm/mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009569 (subdivision of trunk)
0002323 (body cavity)
0005177 (trunk region element)
0004177 (hemopoietic organ)
0005057 (immune organ)
0005172 (abdomen element)
0000464 (anatomical space)
0004458 (body cavity or lining)
0010317 (germ layer / neural crest derived structure)
0005173 (abdominal segment element)
0002390 (hematopoietic system)
0002417 (abdominal segment of trunk)
0002193 (hemolymphoid system)
0000916 (abdomen)
0002405 (immune system)

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)
0011430 (mouse spleen- 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:0002532 (epiblast (generic))
UBERON:0006595 (presumptive endoderm)
UBERON:0006603 (presumptive mesoderm)
UBERON:0004872 (splanchnic layer of lateral plate mesoderm)
UBERON:0010316 (germ layer / neural crest)
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0002106,UBERON:0000945,UBERON:0002100,UBERON:0000926,UBERON:0000479,UBERON:0001007,UBERON:0000064,UBERON:0000077,UBERON:0000466,UBERON:0002075,UBERON:0000062,UBERON:0000475,UBERON:0004120,UBERON:0004457,UBERON:0004119,UBERON:0000061,UBERON:0000465,UBERON:0000480,UBERON:0000923,UBERON:0002050,UBERON:0004923,UBERON:0004921,UBERON:0005423,UBERON:0002553,UBERON:0000477,UBERON:0000481,UBERON:0000467,UBERON:0001062,UBERON:0009569,UBERON:0005291,UBERON:0010039,UBERON:0002323,UBERON:0005177,UBERON:0000042,UBERON:0003104,UBERON:0004177,UBERON:0005057,UBERON:0005172,UBERON:0000464,UBERON:0004458,UBERON:0001048,UBERON:0000925,UBERON:0004854,UBERON:0009034,UBERON:0006598,UBERON:0003886,UBERON:0002095,UBERON:0004782,UBERON:0004185,UBERON:0005173,UBERON:0003281,UBERON:0002532,UBERON:0001555,UBERON:0005409,UBERON:0002390,UBERON:0002417,UBERON:0007026,UBERON:0001041,UBERON:0002193,UBERON:0000916,UBERON:0002405,UBERON:0003887,UBERON:0009664,UBERON:0009142,UBERON:0003081,UBERON:0002296,UBERON:0005602,UBERON:0001179,UBERON:0006595,UBERON:0006603,UBERON:0004872,UBERON:0006293,UBERON:0003061
+|DRA_sample_Accession=CAGE@SAMD00005217
+|accession_numbers=CAGE;DRX009088;DRR009962;DRZ001387;DRZ002770;DRZ012737;DRZ014120
+|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002106,UBERON:0002100,UBERON:0000479,UBERON:0001007,UBERON:0004119,UBERON:0000466,UBERON:0002075,UBERON:0000062,UBERON:0000475,UBERON:0004120,UBERON:0000077,UBERON:0000061,UBERON:0000465,UBERON:0002553,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0009569,UBERON:0002323,UBERON:0005177,UBERON:0004177,UBERON:0005057,UBERON:0005172,UBERON:0000464,UBERON:0004458,UBERON:0010317,UBERON:0005173,UBERON:0002390,UBERON:0002417,UBERON:0002193,UBERON:0000916,UBERON:0002405
 |ancestors_in_cell_lineage_facet=
 |ancestors_in_disease_facet=
+|ancestors_in_ff_facet=FF:0000102,FF:0000101,FF:0000103,FF:0000001,FF:0000004,FF:0000303,FF:0000308,FF:0011430
 |comment=
 |created_by=
 |creation_date=
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr8:87425854..87425891,+!p1@Klf1!2.46!286.37!Klf1;;chr7:122989594..122989626,-!p1@Sox6!2.25!177.43!Sox6;;chr2:28477452..28477483,-!p1@Gfi1b!2.23!206.82!Gfi1b;;chr15:103085660..103085681,-!p1@Nfe2!2.18!219.26!Nfe2;;chr7:51787434..51787448,-!p1@Spib!2.10!177.16!Spib;;chr7:122989632..122989668,-!p2@Sox6!2.09!123.16!Sox6;;chr4:114732112..114732158,+!p1@Tal1!1.98!199.85!Tal1;;chrX:7544943..7545001,-!p1@Gata1!1.98!95.14!Gata1;;chr9:96159147..96159204,+!p2@Tfdp2!1.93!152.14!Tfdp2;;chr11:11584970..11585030,+!p2@Ikzf1!1.92!114.96!Ikzf1;;chr4:44723559..44723593,-!p1@Pax5!1.87!72.72!Pax5;;chr4:44723520..44723544,-!p2@Pax5!1.79!60.69!Pax5;;chr1:38721792..38721845,-!p1@Aff3!1.78!73.81!Aff3;;chr15:103082088..103082136,-!p2@Nfe2!1.69!48.39!Nfe2;;chr6:99216488..99216534,-!p2@Foxp1!1.68!128.77!Foxp1;;chr10:88145766..88145770,-!p1@Spic!1.66!57.41!Spic;;chr9:51021788..51021802,+!p1@Pou2af1!1.64!50.99!Pou2af1;;chr15:103085690..103085710,-!p3@Nfe2!1.63!44.84!Nfe2;;chr11:98407264..98407295,-!p1@Ikzf3!1.53!32.53!Ikzf3;;chr4:135728581..135728668,+!p1@E2f2!1.49!137.51!E2f2;;chr9:96159225..96159249,+!p5@Tfdp2!1.49!32.81!Tfdp2;;chr4:44723633..44723646,-!p3@Pax5!1.45!27.20!Pax5;;chr10:79884592..79884621,-!p5@Tcf3!1.45!27.20!Tcf3;;chr9:96159116..96159130,+!p6@Tfdp2!1.44!32.67!Tfdp2;;chr4:135728181..135728203,+!p2@E2f2!1.43!33.76!E2f2;;chr16:92826249..92826325,-!p1@Runx1!1.42!60.69!Runx1;;chr4:87452200..87452229,-!p2@Mllt3!1.42!52.63!Mllt3;;chr11:98407234..98407259,-!p2@Ikzf3!1.42!25.43!Ikzf3;;chr13:30841099..30841116,+!p1@Irf4!1.34!32.40!Irf4;;chr8:87225670..87225697,+!p2@Lyl1!1.32!56.59!Lyl1;;chr9:96159133..96159145,+!p9@Tfdp2!1.31!19.41!Tfdp2;;chr7:122989676..122989687,-!p8@Sox6!1.31!19.41!Sox6;;chr4:114729957..114730012,+!p3@Tal1!1.30!18.86!Tal1;;chr4:87452180..87452196,-!p3@Mllt3!1.29!36.36!Mllt3;;chr7:25917492..25917512,-!p1@Pou2f2!1.28!30.21!Pou2f2;;chr11:11586218..11586285,+!p1@Ikzf1!1.26!54.13!Ikzf1;;chr4:135728473..135728494,+!p5@E2f2!1.23!16.13!E2f2;;chr8:124806048..124806094,+!p1@Zfpm1!1.21!136.42!Zfpm1;;chr9:96159210..96159221,+!p10@Tfdp2!1.21!15.04!Tfdp2;;chr2:166868994..166869023,-!p7@Znfx1!1.20!14.76!Znfx1;;chr7:56136362..56136400,-!p1@E2f8!1.16!86.94!E2f8;;chr5:65203599..65203617,+!p8@Klf3!1.13!20.50!Klf3;;chr1:87546583..87546595,+!p1@Sp100!1.13!17.91!Sp100;;chr8:87225702..87225726,+!p3@Lyl1!1.11!24.19!Lyl1;;chr13:112476264..112476282,+!p3@Mier3!1.10!16.54!Mier3;;chr4:44723835..44723849,-!p4@Pax5!1.10!11.62!Pax5;;chr11:11585912..11585950,+!p6@Ikzf1!1.08!14.08!Ikzf1;;chr11:23978353..23978379,+!p10@Bcl11a!1.08!13.26!Bcl11a;;chr5:104183477..104183548,+!p6@Aff1!1.07!21.19!Aff1;;chr11:11585678..11585745,+!p5@Ikzf1!1.06!15.31!Ikzf1;;chr8:124806017..124806040,+!p2@Zfpm1!1.05!113.59!Zfpm1;;chr4:114730254..114730276,+!p2@Tal1!1.05!13.12!Tal1;;chr10:22539932..22539956,-!p1@Tcf21!1.03!26.38!Tcf21;;chr11:52096066..52096081,-!p2@Tcf7!1.03!11.89!Tcf7;;chr3:130815703..130815721,+!p2@Lef1!1.03!11.76!Lef1;;chr14:47896467..47896523,-!p1@Wdhd1!1.02!116.05!Wdhd1;;chr8:87225329..87225396,+!p1@Lyl1!1.02!36.50!Lyl1;;chr2:162880327..162880385,+!p2@Mybl2!1.01!62.88!Mybl2;;chr11:98407370..98407395,-!p3@Ikzf3!1.01!9.16!Ikzf3;;chr8:123260252..123260264,+!p1@Irf8!0.99!63.43!Irf8;;chr2:162880387..162880413,+!p1@Mybl2!0.99!56.86!Mybl2;;chr11:16908650..16908690,-!p1@Plek!0.99!54.95!Plek;;chr4:63064364..63064384,-!p1@Akna!0.98!25.43!Akna;;chr5:65203575..65203589,+!p11@Klf3!0.98!10.39!Klf3;;chr10:20880731..20880775,-!p2@Myb!0.96!17.36!Myb;;chr10:20880698..20880717,-!p3@Myb!0.96!12.85!Myb;;chr11:101413151..101413207,-!p1@Brca1!0.95!79.15!Brca1;;chr14:79915425..79915501,+!p1@Elf1!0.94!71.49!Elf1;;chr19:45225149..45225186,+!p1@Tlx1!0.94!7.65!Tlx1;;chr2:91034924..91034946,-!p2@Nr1h3!0.93!9.30!Nr1h3;;chr11:98407340..98407359,-!p4@Ikzf3!0.92!7.38!Ikzf3;;chr1:167865149..167865167,-!p3@Pou2f1!0.92!7.38!Pou2f1;;chr11:44430812..44430838,+!p1@Ebf1!0.91!72.86!Ebf1;;chr6:29476690..29476724,+!p1@Irf5!0.90!33.35!Irf5;;chr15:103085802..103085817,-!p4@Nfe2!0.89!8.48!Nfe2;;chr4:134708909..134708939,+!p3@Runx3!0.89!6.70!Runx3;;chr6:86619104..86619119,-!p1@Mxd1!0.88!56.45!Mxd1;;chr11:120491440..120491474,-!p3@Mafg!0.88!9.84!Mafg;;chr1:52065508..52065522,+!p2@Stat4!0.88!7.93!Stat4;;chr11:23980664..23980706,+!p2@Bcl11a!0.87!28.98!Bcl11a;;chr9:96159427..96159432,+!p11@Tfdp2!0.87!7.79!Tfdp2;;chr1:38721767..38721778,-!p5@Aff3!0.87!6.42!Aff3;;chr11:23978111..23978134,+!p3@Bcl11a!0.86!13.67!Bcl11a;;chr1:38721779..38721790,-!p6@Aff3!0.85!6.15!Aff3;;chr4:87452236..87452249,-!p9@Mllt3!0.85!6.15!Mllt3;;chr10:20880629..20880683,-!p1@Myb!0.84!17.77!Myb;;chr1:52176406..52176433,+!p2@Stat1!0.84!15.31!Stat1;;chr17:45692676..45692695,+!p2@Nfkbie!0.84!12.44!Nfkbie;;chr11:23978022..23978076,+!p1@Bcl11a!0.83!134.92!Bcl11a;;chr11:23977565..23977612,+!p5@Bcl11a!0.83!13.26!Bcl11a;;chr4:114730015..114730042,+!p7@Tal1!0.82!5.60!Tal1;;chr7:148452314..148452329,-!p1@Irf7!0.81!40.46!Irf7;;chr2:173044380..173044432,-!p1@Zbp1!0.81!13.81!Zbp1;;chr2:90936901..90936945,+!p1@Sfpi1!0.80!30.07!Sfpi1;;chr6:29479277..29479296,+!p2@Irf5!0.80!5.33!Irf5;;chr2:166888058..166888105,-!p2@Znfx1!0.78!17.22!Znfx1;;chr7:56136349..56136360,-!p5@E2f8!0.78!6.56!E2f8;;chr4:135728282..135728310,+!p4@E2f2!0.78!5.74!E2f2;;chr18:80909801..80909819,-!p1@Nfatc1!0.77!31.58!Nfatc1;;chr2:38570011..38570034,-!p1@Nr5a1!0.77!4.92!Nr5a1;;chr6:83301243..83301258,+!p2@Bola3!0.76!4.78!Bola3;;chr6:86619130..86619158,-!p2@Mxd1!0.75!74.50!Mxd1;;chr8:107821563..107821642,+!p1@E2f4!0.74!140.80!E2f4;;chr3:135271185..135271254,-!p4@Nfkb1!0.74!8.75!Nfkb1;;chr12:85534957..85535017,-!p2@C130039O16Rik!0.73!24.19!C130039O16Rik;;chr4:134708451..134708469,+!p1@Runx3!0.73!8.20!Runx3;;chr10:30522690..30522752,-!p2@Ncoa7!0.72!28.71!Ncoa7;;chr7:56137011..56137041,-!p2@E2f8!0.72!8.89!E2f8;;chr11:44430788..44430804,+!p3@Ebf1!0.71!11.21!Ebf1;;chr5:65213356..65213412,+!p6@Klf3!0.71!9.43!Klf3;;chr4:32325445..32325468,+!p4@Bach2!0.71!6.15!Bach2;;chr7:31206743..31206761,+!p1@Nfkbid!0.71!5.88!Nfkbid;;chr1:74634786..74634804,-!p5@Zfp142!0.71!5.74!Zfp142;;chr9:32348943..32349001,-!p1@Fli1!0.70!37.45!Fli1;;chr12:84828663..84828679,-!p1@Dpf3!0.70!35.40!Dpf3;;chr17:45692642..45692663,+!p1@Nfkbie!0.70!14.08!Nfkbie;;chr17:56970339..56970428,-!p1@Rfx2!0.70!14.08!Rfx2;;chr14:32978970..32978984,+!p2@Gm6768,p2@Ncoa4!0.70!6.70!Ncoa4;;chr11:98407142..98407159,-!p5@Ikzf3!0.70!3.96!Ikzf3;;chr11:98407305..98407321,-!p6@Ikzf3!0.70!3.96!Ikzf3;;chr13:55431084..55431137,-!p1@Mxd3!0.69!34.17!Mxd3;;chr11:23670953..23671028,-!p1@Rel!0.69!24.88!Rel;;chr8:47825203..47825225,+!p3@Irf2!0.69!5.47!Irf2;;chr2:17977331..17977360,+!p11@Mllt10!0.69!4.37!Mllt10;;chr1:52176315..52176343,+!p1@Stat1!0.68!63.15!Stat1;;chr11:23978078..23978096,+!p4@Bcl11a!0.68!12.99!Bcl11a;;chr6:115803317..115803361,-!p2@Mbd4!0.68!10.25!Mbd4;;chr13:59923965..59924003,-!p2@Zcchc6!0.68!4.65!Zcchc6;;chrX:7156792..7156811,+!p1@Foxp3!0.68!3.83!Foxp3;;chr4:32325688..32325777,+!p1@Bach2!0.67!37.18!Bach2;;chr4:44717334..44717367,-!p5@Pax5!0.67!3.69!Pax5;;chr4:114732159..114732166,+!p6@Tal1!0.67!3.69!Tal1;;chr11:11590117..11590138,+!p4@Ikzf1!0.67!3.69!Ikzf1;;chr6:83301229..83301242,+!p3@Bola3!0.67!3.69!Bola3;;chr18:80904854..80904919,-!p2@Nfatc1!0.66!49.07!Nfatc1;;chr5:104183219..104183236,+!p2@Aff1!0.66!28.43!Aff1;;chr7:20162663..20162678,+!p1@Zfp296!0.66!4.92!Zfp296;;chr11:11590140..11590187,+!p3@Ikzf1!0.66!4.51!Ikzf1;;chr1:64579145..64579168,+!p6@Creb1!0.66!3.55!Creb1;;chr18:70727922..70728052,+!p1@Mbd2!0.65!145.72!Mbd2;;chr13:83663902..83663927,+!p1@Mef2c!0.65!98.56!Mef2c;;chr10:30522881..30522960,-!p1@Ncoa7!0.65!48.80!Ncoa7;;chr3:95021663..95021687,-!p3@Gabpb2!0.65!13.40!Gabpb2;;chr12:119539732..119539762,-!p3@Sp4!0.65!8.61!Sp4;;chr11:3189171..3189197,+!p4@Patz1!0.65!7.24!Patz1;;chr1:52065454..52065495,+!p1@Stat4!0.64!6.01!Stat4;;chr9:32503590..32503680,+!p1@Ets1!0.63!142.44!Ets1;;chr9:20757282..20757325,-!p2@Dnmt1!0.63!91.72!Dnmt1;;chr6:47544966..47545046,-!p1@Ezh2!0.63!80.79!Ezh2;;chr19:37509324..37509337,+!p1@Hhex!0.63!27.20!Hhex;;chr2:44965593..44965624,-!p3@Zeb2!0.63!21.32!Zeb2;;chr3:95021612..95021650,-!p2@Gabpb2!0.63!19.41!Gabpb2;;chr2:90936947..90936977,+!p2@Sfpi1!0.63!7.11!Sfpi1;;chr11:44431369..44431389,+!p8@Ebf1!0.63!4.51!Ebf1;;chr4:44717308..44717321,-!p6@Pax5!0.63!3.28!Pax5;;chr11:58717675..58717719,-!p1@Zfp39!0.62!26.11!Zfp39;;chr8:108583550..108583595,+!p2@Nfatc3!0.62!16.68!Nfatc3;;chr19:53384910..53384937,+!p3@Mxi1!0.62!10.12!Mxi1;;chr6:28211956..28211967,-!p2@Zfp800!0.62!7.52!Zfp800;;chr6:99216375..99216395,-!p5@Foxp1!0.62!3.14!Foxp1;;chr11:96976641..96976646,-!p1@Tbx21!0.62!3.14!Tbx21;;chr19:43686789..43686811,+!p1@Nkx2-3!0.62!3.14!Nkx2-3;;chr5:65194752..65194769,+!p1@Klf3!0.61!124.26!Klf3;;chr10:30523091..30523182,-!p4@Ncoa7!0.61!12.30!Ncoa7;;chr17:51971932..51971958,-!p2@Satb1!0.61!4.51!Satb1;;chr17:51971960..51971979,-!p1@Satb1!0.61!4.37!Satb1;;chr5:65194720..65194738,+!p2@Klf3!0.60!19.14!Klf3;;chr4:124805061..124805087,-!p1@Zc3h12a!0.60!10.80!Zc3h12a;;chr18:74375772..74375799,+!p2@Cxxc1!0.60!10.12!Cxxc1;;chr1:133904901..133904934,+!p3@Elk4!0.60!9.98!Elk4;;chr8:47825166..47825178,+!p2@Irf2!0.60!5.06!Irf2;;chr2:162880418..162880429,+!p4@Mybl2!0.60!3.96!Mybl2;;chr11:96838974..96839007,-!p1@Sp2!0.59!54.68!Sp2;;chr17:56970481..56970551,-!p2@Rfx2!0.59!10.39!Rfx2;;chr2:90936886..90936898,+!p5@Sfpi1!0.59!3.55!Sfpi1;;chr15:103085864..103085876,-!p5@Nfe2!0.59!2.87!Nfe2;;chr7:25917459..25917474,-!p2@Pou2f2!0.59!2.87!Pou2f2;;chr4:102791976..102792008,+!p2@Mier1!0.58!37.86!Mier1;;chr5:34163023..34163090,+!p2@Whsc1!0.58!22.01!Whsc1;;chr10:79896347..79896358,-!p2@Tcf3!0.58!11.89!Tcf3;;chrX:103070960..103070973,-!p7@Atrx!0.58!3.96!Atrx;;chr11:100683839..100683890,-!p2@Stat5b!0.57!7.38!Stat5b;;chr17:32506357..32506377,-!p3@Wiz!0.57!6.42!Wiz;;chr4:63071779..63071791,-!p3@Akna!0.57!4.24!Akna;;chr8:124806111..124806122,+!p3@Zfpm1!0.57!3.55!Zfpm1;;chr11:23977742..23977794,+!p6@Bcl11a!0.57!3.55!Bcl11a;;chr1:87495371..87495397,-!p1@Sp110!0.57!2.73!Sp110;;chr11:102180696..102180760,-!p2@Ubtf!0.56!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+|ffid_belonging_in_development=UBERON:0002532,UBERON:0006595,UBERON:0006603,UBERON:0004872,UBERON:0010316,FF:0000294
 |fonse_cell_line=
 |fonse_cell_line_closure=
@@ Line 38: / Line 44: @@
 |is_a=EFO:0002091;;FF:0011430
 |is_obsolete=
+|library_id=CNhs11112
+|library_id_phase_based=2:CNhs11112
+|microRNAs=
+|microRNAs_nn=
+|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/mouse#cage;sample;824
+|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/mouse#cage;sample;824
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/spleen%252c%2520neonate%2520N20.CNhs11112.824-19H1.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.tissue.hCAGE/spleen%252c%2520neonate%2520N20.CNhs11112.824-19H1.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520neonate%2520N20.CNhs11112.824-19H1.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520neonate%2520N20.CNhs11112.824-19H1.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.tissue.hCAGE/spleen%252c%2520neonate%2520N20.CNhs11112.824-19H1.mm9.nobarcode.rdna.fa.gz
 |name=spleen, neonate N20
 |namespace=FANTOM5
@@ Line 43: / Line 60: @@
 |profile_cagescan=,,,
 |profile_hcage=CNhs11112,LSID734,release008,COMPLETED
-|profile_rnaseq=,,,
+|profile_rnaseq=
 |profile_srnaseq=,,,
+|repeat_enrich_byfamily=-0.11779559634038,0,0.0158877451159897,0,0.29155966586338,0,0.190115165328007,0,0.094713840314922,0,0,-0.0843392403965415,0,0,0,0,0,0,0.0996663149808051,0,0.027821827298607,0,0,0,0.055643654597214,0,0,0,0,0,0,0,0.335600210298829,0,0,0,0,0,0.0846767524553308,-0.0661618130246221,0.511406145031724,-0.984211366477826,-0.214224983413137,0,0,0,0,0,0,0,0,0,0,0.055643654597214,0,0.123422133066403,0,0,0,0,0,0,0,0.055643654597214,0.055643654597214,0,0.00557309550187152,0.153797036649958,0.10201980368676,0.0416848586612504,0,0.055643654597214,-0.0687573292681126,0,0.39857127527247,0,-0.0313726417750644,-0.0872779019287734,-0.22172721385278,0.295356072047882,0,0,0,0,0,0,-0.097805083983237,-0.10956520596203,-0.0715427151868662,0.0386461207130453,0,0,0,0
 |rna_box=19
 |rna_catalog_number=
@@ Line 58: / Line 76: @@
 |rna_weight_ug=
 |sample_age=
+|sample_category=developmental
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 78: / Line 97: @@
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 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:824-19H1;search_select_hide=table117:824-19H1
 }}

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FF:824-19H1: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:21, 4 June 2020

CNhs11112

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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