FF:3139-67G5: Difference between revisions

Latest revision as of 19:09, 4 June 2020

Name:	whole body, embryo E17.5, pool1 (internal control)
Species:	Mouse (Mus musculus)
Library ID:	CNhs10479,CNhs10495,CNhs10511,CNhs10527,CNhs10591,CNhs10607,CNhs10623,CNhs10639,CNhs10655,CNhs10725,CNhs10749,CNhs10840,CNhs10856,CNhs10880,CNhs11000,CNhs11024,CNhs11032,CNhs11048,CNhs11072,CNhs11080,CNhs11096,CNhs11120,CNhs11128,CNhs11184,CNhs11208,CNhs11216,CNhs11246,CNhs11278,CNhs11318,CNhs11374,CNhs11668,CNhs11706,CNhs11730,CNhs11754,CNhs11778,CNhs11802,CNhs11826,CNhs11850,CNhs11874,CNhs11898,CNhs11938,CNhs11946,CNhs11970,CNhs11994,CNhs12018,CNhs12042,CNhs12066,CNhs12090,CNhs12114,CNhs12230,CNhs11262,CNhs11294,CNhs12361,CNhs12385,CNhs12577,CNhs12505,CNhs11916,CNhs12585,CNhs12313,CNhs12337,CNhs11326,CNhs11342,CNhs12186,CNhs12194
Sample type:	control
Genomic View:	UCSC
CAGEd-oPOSSUM:	link
ZENBU report :	link

Additional information

Sample information

strain	C57BL/6J
tissue	whole body
dev stage	17.5 days embryo
sex	unknown_sex_type
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		SAMD00005832

Library accession numbers

Library id	Method	Exp. accession id	Run accession id
CNhs10479	CAGE	DRX008871	DRR009743
CNhs10495	CAGE	DRX008872	DRR009744
CNhs10511	CAGE	DRX008873	DRR009745
CNhs10527	CAGE	DRX008874	DRR009746
CNhs10591	CAGE	DRX008875	DRR009747
CNhs10607	CAGE	DRX008876	DRR009748
CNhs10623	CAGE	DRX008877	DRR009749
CNhs10639	CAGE	DRX008878	DRR009750
CNhs10655	CAGE	DRX008879	DRR009751
CNhs10725	CAGE	DRX008880	DRR009752
CNhs10749	CAGE	DRX008881	DRR009753
CNhs10840	CAGE	DRX008882	DRR009754
CNhs10856	CAGE	DRX008883	DRR009755
CNhs10880	CAGE	DRX008884	DRR009756
CNhs11000	CAGE	DRX008885	DRR009757
CNhs11024	CAGE	DRX008886	DRR009758
CNhs11032	CAGE	DRX008887	DRR009759
CNhs11048	CAGE	DRX008888	DRR009760
CNhs11072	CAGE	DRX008889	DRR009761
CNhs11080	CAGE	DRX008890	DRR009762
CNhs11096	CAGE	DRX008891	DRR009763
CNhs11120	CAGE	DRX008892	DRR009764
CNhs11128	CAGE	DRX008893	DRR009765
CNhs11184	CAGE	DRX008894	DRR009766
CNhs11208	CAGE	DRX008895	DRR009767
CNhs11216	CAGE	DRX008896	DRR009768
CNhs11246	CAGE	DRX008897	DRR009769
CNhs11278	CAGE	DRX008898	DRR009770
CNhs11318	CAGE	DRX023644	DRR026039
CNhs11374	CAGE	DRX023645	DRR026040
CNhs11668	CAGE	DRX023646	DRR026041
CNhs11706	CAGE	DRX023647	DRR026042
CNhs11730	CAGE	DRX023648	DRR026043
CNhs11754	CAGE	DRX023649	DRR026044
CNhs11778	CAGE	DRX023650	DRR026045
CNhs11802	CAGE	DRX023651	DRR026046
CNhs11826	CAGE	DRX023652	DRR026047
CNhs11850	CAGE	DRX023653	DRR026048
CNhs11874	CAGE	DRX023654	DRR026049
CNhs11898	CAGE	DRX023655	DRR026050
CNhs11938	CAGE	DRX023656	DRR026051
CNhs11946	CAGE	DRX023657	DRR026052
CNhs11970	CAGE	DRX023658	DRR026053
CNhs11994	CAGE	DRX023659	DRR026054
CNhs12018	CAGE	DRX023660	DRR026055
CNhs12042	CAGE	DRX023661	DRR026056
CNhs12066	CAGE	DRX023662	DRR026057
CNhs12090	CAGE	DRX023663	DRR026058
CNhs12114	CAGE	DRX023664	DRR026059
CNhs12230	CAGE	DRX023665	DRR026060
CNhs11262	CAGE	DRX023666	DRR026061
CNhs11294	CAGE	DRX023667	DRR026062
CNhs12361	CAGE	DRX023668	DRR026063
CNhs12385	CAGE	DRX023669	DRR026064
CNhs12577	CAGE	DRX023670	DRR026065
CNhs12505	CAGE	DRX023671	DRR026066
CNhs11916	CAGE	DRX023682	DRR026077
CNhs12585	CAGE	DRX023683	DRR026078
CNhs12313	CAGE	DRX023684	DRR026079
CNhs12337	CAGE	DRX023685	DRR026080
CNhs11326	CAGE	DRX023713	DRR026108
CNhs11342	CAGE	DRX023714	DRR026109
CNhs12186	CAGE	DRX023753	DRR026152
CNhs12194	CAGE	DRX023754	DRR026153

Accession ID Mm9

Library id	BAM	CTSS
CNhs10479	DRZ001168	DRZ002553
CNhs10495	DRZ001169	DRZ002554
CNhs10511	DRZ001170	DRZ002555
CNhs10527	DRZ001171	DRZ002556
CNhs10591	DRZ001172	DRZ002557
CNhs10607	DRZ001173	DRZ002558
CNhs10623	DRZ001174	DRZ002559
CNhs10639	DRZ001175	DRZ002560
CNhs10655	DRZ001176	DRZ002561
CNhs10725	DRZ001177	DRZ002562
CNhs10749	DRZ001178	DRZ002563
CNhs10840	DRZ001179	DRZ002564
CNhs10856	DRZ001180	DRZ002565
CNhs10880	DRZ001181	DRZ002566
CNhs11000	DRZ001182	DRZ002567
CNhs11024	DRZ001183	DRZ002568
CNhs11032	DRZ001184	DRZ002569
CNhs11048	DRZ001185	DRZ002570
CNhs11072	DRZ001186	DRZ002571
CNhs11080	DRZ001187	DRZ002572
CNhs11096	DRZ001188	DRZ002573
CNhs11120	DRZ001189	DRZ002574
CNhs11128	DRZ001190	DRZ002575
CNhs11184	DRZ001191	DRZ002576
CNhs11208	DRZ001192	DRZ002577
CNhs11216	DRZ001193	DRZ002578
CNhs11246	DRZ001194	DRZ002579
CNhs11278	DRZ001195	DRZ002580
CNhs11318	DRZ005291	DRZ006081
CNhs11374	DRZ005292	DRZ006082
CNhs11668	DRZ005293	DRZ006083
CNhs11706	DRZ005294	DRZ006084
CNhs11730	DRZ005295	DRZ006085
CNhs11754	DRZ005296	DRZ006086
CNhs11778	DRZ005297	DRZ006087
CNhs11802	DRZ005298	DRZ006088
CNhs11826	DRZ005299	DRZ006089
CNhs11850	DRZ005300	DRZ006090
CNhs11874	DRZ005301	DRZ006091
CNhs11898	DRZ005302	DRZ006092
CNhs11938	DRZ005303	DRZ006093
CNhs11946	DRZ005304	DRZ006094
CNhs11970	DRZ005305	DRZ006095
CNhs11994	DRZ005306	DRZ006096
CNhs12018	DRZ005307	DRZ006097
CNhs12042	DRZ005308	DRZ006098
CNhs12066	DRZ005309	DRZ006099
CNhs12090	DRZ005310	DRZ006100
CNhs12114	DRZ005311	DRZ006101
CNhs12230	DRZ005312	DRZ006102
CNhs11262	DRZ005313	DRZ006103
CNhs11294	DRZ005314	DRZ006104
CNhs12361	DRZ005315	DRZ006105
CNhs12385	DRZ005316	DRZ006106
CNhs12577	DRZ005317	DRZ006107
CNhs12505	DRZ005318	DRZ006108
CNhs11916	DRZ005329	DRZ006119
CNhs12585	DRZ005330	DRZ006120
CNhs12313	DRZ005331	DRZ006121
CNhs12337	DRZ005332	DRZ006122
CNhs11326	DRZ005360	DRZ006150
CNhs11342	DRZ005361	DRZ006151
CNhs12186	DRZ005404	DRZ006190
CNhs12194	DRZ005405	DRZ006191

Accession ID Mm10

Library id	BAM	CTSS
CNhs10479	DRZ012518	DRZ013903
CNhs10495	DRZ012519	DRZ013904
CNhs10511	DRZ012520	DRZ013905
CNhs10527	DRZ012521	DRZ013906
CNhs10591	DRZ012522	DRZ013907
CNhs10607	DRZ012523	DRZ013908
CNhs10623	DRZ012524	DRZ013909
CNhs10639	DRZ012525	DRZ013910
CNhs10655	DRZ012526	DRZ013911
CNhs10725	DRZ012527	DRZ013912
CNhs10749	DRZ012528	DRZ013913
CNhs10840	DRZ012529	DRZ013914
CNhs10856	DRZ012530	DRZ013915
CNhs10880	DRZ012531	DRZ013916
CNhs11000	DRZ012532	DRZ013917
CNhs11024	DRZ012533	DRZ013918
CNhs11032	DRZ012534	DRZ013919
CNhs11048	DRZ012535	DRZ013920
CNhs11072	DRZ012536	DRZ013921
CNhs11080	DRZ012537	DRZ013922
CNhs11096	DRZ012538	DRZ013923
CNhs11120	DRZ012539	DRZ013924
CNhs11128	DRZ012540	DRZ013925
CNhs11184	DRZ012541	DRZ013926
CNhs11208	DRZ012542	DRZ013927
CNhs11216	DRZ012543	DRZ013928
CNhs11246	DRZ012544	DRZ013929
CNhs11278	DRZ012545	DRZ013930
CNhs11318
CNhs11374
CNhs11668
CNhs11706
CNhs11730
CNhs11754
CNhs11778
CNhs11802
CNhs11826
CNhs11850
CNhs11874
CNhs11898
CNhs11938
CNhs11946
CNhs11970
CNhs11994
CNhs12018
CNhs12042
CNhs12066
CNhs12090
CNhs12114
CNhs12230
CNhs11262
CNhs11294
CNhs12361
CNhs12385
CNhs12577
CNhs12505
CNhs11916
CNhs12585
CNhs12313
CNhs12337
CNhs11326
CNhs11342
CNhs12186
CNhs12194

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

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

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

de novo motifs identified by HOMER in promoters active in this sampleSummary:The result of HOMER in this sample is shown. Analyst:NA

FANTOM5 (FF) ontology

Direct parent terms

is_a relathionship
EFO:0001461 control
FF:0011374 mouse whole body- embryo E17.5 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)
0000479 (tissue)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0001062 (anatomical entity)

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)
0000301 (mouse embryonic day 17.5 sample)
0011374 (mouse whole body- embryo E17.5 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
FF:0000294 (mouse embryonic day 11 sample)

@@ Line 1: / Line 1: @@
 {{f5samples
-|DRA_sample_Accession=CAGE@DRS008761
+|DRA_sample_Accession=CAGE@SAMD00005832
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+|accession_numbers=CAGE;DRX008871;DRR009743;DRZ001168;DRZ002553;DRZ012518;DRZ013903!CAGE;DRX008872;DRR009744;DRZ001169;DRZ002554;DRZ012519;DRZ013904!CAGE;DRX008873;DRR009745;DRZ001170;DRZ002555;DRZ012520;DRZ013905!CAGE;DRX008874;DRR009746;DRZ001171;DRZ002556;DRZ012521;DRZ013906!CAGE;DRX008875;DRR009747;DRZ001172;DRZ002557;DRZ012522;DRZ013907!CAGE;DRX008876;DRR009748;DRZ001173;DRZ002558;DRZ012523;DRZ013908!CAGE;DRX008877;DRR009749;DRZ001174;DRZ002559;DRZ012524;DRZ013909!CAGE;DRX008878;DRR009750;DRZ001175;DRZ002560;DRZ012525;DRZ013910!CAGE;DRX008879;DRR009751;DRZ001176;DRZ002561;DRZ012526;DRZ013911!CAGE;DRX008880;DRR009752;DRZ001177;DRZ002562;DRZ012527;DRZ013912!CAGE;DRX008881;DRR009753;DRZ001178;DRZ002563;DRZ012528;DRZ013913!CAGE;DRX008882;DRR009754;DRZ001179;DRZ002564;DRZ012529;DRZ013914!CAGE;DRX008883;DRR009755;DRZ001180;DRZ002565;DRZ012530;DRZ013915!CAGE;DRX008884;DRR009756;DRZ001181;DRZ002566;DRZ012531;DRZ013916!CAGE;DRX008885;DRR009757;DRZ001182;DRZ002567;DRZ012532;DRZ013917!CAGE;DRX008886;DRR009758;DRZ001183;DRZ002568;DRZ012533;DRZ013918!CAGE;DRX008887;DRR009759;DRZ001184;DRZ002569;DRZ012534;DRZ013919!CAGE;DRX008888;DRR009760;DRZ001185;DRZ002570;DRZ012535;DRZ013920!CAGE;DRX008889;DRR009761;DRZ001186;DRZ002571;DRZ012536;DRZ013921!CAGE;DRX008890;DRR009762;DRZ001187;DRZ002572;DRZ012537;DRZ013922!CAGE;DRX008891;DRR009763;DRZ001188;DRZ002573;DRZ012538;DRZ013923!CAGE;DRX008892;DRR009764;DRZ001189;DRZ002574;DRZ012539;DRZ013924!CAGE;DRX008893;DRR009765;DRZ001190;DRZ002575;DRZ012540;DRZ013925!CAGE;DRX008894;DRR009766;DRZ001191;DRZ002576;DRZ012541;DRZ013926!CAGE;DRX008895;DRR009767;DRZ001192;DRZ002577;DRZ012542;DRZ013927!CAGE;DRX008896;DRR009768;DRZ001193;DRZ002578;DRZ012543;DRZ013928!CAGE;DRX008897;DRR009769;DRZ001194;DRZ002579;DRZ012544;DRZ013929!CAGE;DRX008898;DRR009770;DRZ001195;DRZ002580;DRZ012545;DRZ013930!CAGE;DRX023644;DRR026039;DRZ005291;DRZ006081!CAGE;DRX023645;DRR026040;DRZ005292;DRZ006082!CAGE;DRX023646;DRR026041;DRZ005293;DRZ006083!CAGE;DRX023647;DRR026042;DRZ005294;DRZ006084!CAGE;DRX023648;DRR026043;DRZ005295;DRZ006085!CAGE;DRX023649;DRR026044;DRZ005296;DRZ006086!CAGE;DRX023650;DRR026045;DRZ005297;DRZ006087!CAGE;DRX023651;DRR026046;DRZ005298;DRZ006088!CAGE;DRX023652;DRR026047;DRZ005299;DRZ006089!CAGE;DRX023653;DRR026048;DRZ005300;DRZ006090!CAGE;DRX023654;DRR026049;DRZ005301;DRZ006091!CAGE;DRX023655;DRR026050;DRZ005302;DRZ006092!CAGE;DRX023656;DRR026051;DRZ005303;DRZ006093!CAGE;DRX023657;DRR026052;DRZ005304;DRZ006094!CAGE;DRX023658;DRR026053;DRZ005305;DRZ006095!CAGE;DRX023659;DRR026054;DRZ005306;DRZ006096!CAGE;DRX023660;DRR026055;DRZ005307;DRZ006097!CAGE;DRX023661;DRR026056;DRZ005308;DRZ006098!CAGE;DRX023662;DRR026057;DRZ005309;DRZ006099!CAGE;DRX023663;DRR026058;DRZ005310;DRZ006100!CAGE;DRX023664;DRR026059;DRZ005311;DRZ006101!CAGE;DRX023665;DRR026060;DRZ005312;DRZ006102!CAGE;DRX023666;DRR026061;DRZ005313;DRZ006103!CAGE;DRX023667;DRR026062;DRZ005314;DRZ006104!CAGE;DRX023668;DRR026063;DRZ005315;DRZ006105!CAGE;DRX023669;DRR026064;DRZ005316;DRZ006106!CAGE;DRX023670;DRR026065;DRZ005317;DRZ006107!CAGE;DRX023671;DRR026066;DRZ005318;DRZ006108!CAGE;DRX023682;DRR026077;DRZ005329;DRZ006119!CAGE;DRX023683;DRR026078;DRZ005330;DRZ006120!CAGE;DRX023684;DRR026079;DRZ005331;DRZ006121!CAGE;DRX023685;DRR026080;DRZ005332;DRZ006122!CAGE;DRX023713;DRR026108;DRZ005360;DRZ006150!CAGE;DRX023714;DRR026109;DRZ005361;DRZ006151!CAGE;DRX023753;DRR026152;DRZ005404;DRZ006190!CAGE;DRX023754;DRR026153;DRZ005405;DRZ006191
 |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000922,UBERON:0000479,UBERON:0000061,UBERON:0000465,UBERON:0001062
 |ancestors_in_cell_lineage_facet=
@@ Line 9: / Line 9: @@
 |created_by=
 |creation_date=
-|datafreeze_phase=1
+|data_phase=2
+|datafreeze_phase=2
 |def=
 |expression_enrichment_score=chr13:83643159..83643226,+!p3@Mef2c!1.68!46.64!Mef2c;;chr3:99057269..99057306,+!p1@Tbx15!1.48!35.02!Tbx15;;chr1:136186574..136186592,+!p1@Myog!1.43!26.18!Myog;;chr6:55631042..55631102,-!p1@Neurod6!1.35!21.54!Neurod6;;chr10:106931775..106931798,-!p1@Myf6!1.32!19.83!Myf6;;chr4:87452180..87452196,-!p3@Mllt3!1.29!35.64!Mllt3;;chr7:6649134..6649167,-!p1@Zim1!1.27!92.65!Zim1;;chr4:87452200..87452229,-!p2@Mllt3!1.25!35.17!Mllt3;;chr9:74709695..74709722,+!p1@Onecut1!1.22!15.65!Onecut1;;chr2:120365588..120365602,-!p2@Zfp106!1.21!25.41!Zfp106;;chr12:34642510..34642530,+!p1@Twist1!1.15!41.83!Twist1;;chr10:22539932..22539956,-!p1@Tcf21!1.15!34.86!Tcf21;;chr1:179374784..179374800,+!p2@Zfp238!1.14!15.03!Zfp238;;chr12:74147689..74147711,-!p1@Six1!1.11!26.34!Six1;;chr10:80555320..80555378,-!p1@Creb3l3!1.10!13.63!Creb3l3;;chr7:17647736..17647772,-!p1@Hif3a!1.07!38.42!Hif3a;;chr7:53631837..53631850,+!p1@Myod1!1.07!10.85!Myod1;;chr3:3634145..3634161,+!p1@Hnf4g!1.07!10.85!Hnf4g;;chr10:12810631..12810649,+!p1@Plagl1!1.06!275.79!Plagl1;;chr13:83643232..83643254,+!p5@Mef2c!1.06!10.38!Mef2c;;chr12:37835120..37835133,+!p2@Meox2!1.05!14.72!Meox2;;chr1:42752574..42752621,+!p@chr1:42752574..42752621,+!1.05!12.86!Pou3f3;;chr12:30213247..30213333,+!p1@Myt1l!1.04!10.07!Myt1l;;chr12:37835141..37835194,+!p1@Meox2!1.03!30.83!Meox2;;chr7:119885539..119885574,+!p3@Tead1!1.01!9.30!Tead1;;chr2:79296783..79296801,-!p1@Neurod1!1.01!9.14!Neurod1;;chr8:87425854..87425891,+!p1@Klf1!0.99!8.83!Klf1;;chr16:25801993..25802014,+!p1@Trp63!0.99!8.68!Trp63;;chr3:95032091..95032183,-!p1@Mllt11!0.98!74.52!Mllt11;;chr1:169548377..169548430,+!p1@Rxrg!0.98!8.52!Rxrg;;chr10:88969376..88969395,-!p1@Nr1h4!0.97!8.37!Nr1h4;;chr19:19185671..19185693,-!p1@Rorb!0.96!19.68!Rorb;;chr9:91260616..91260653,-!p2@Zic1!0.95!7.90!Zic1;;chr11:85699862..85699920,+!p1@Tbx4!0.94!7.75!Tbx4;;chr15:102828658..102828678,+!p1@Hoxc6!0.94!7.75!Hoxc6;;chr14:67853425..67853454,+!p1@Ebf2!0.93!10.85!Ebf2;;chr9:91260594..91260612,-!p1@Zic1!0.93!7.44!Zic1;;chr2:65683890..65683907,+!p1@Csrnp3!0.90!13.79!Csrnp3;;chr15:103085660..103085681,-!p1@Nfe2!0.90!10.54!Nfe2;;chr15:85566184..85566238,+!p1@Ppara!0.90!10.54!Ppara;;chr11:94981424..94981439,+!p1@Dlx3!0.90!8.06!Dlx3;;chr11:96143666..96143725,+!p1@Hoxb8!0.90!8.06!Hoxb8;;chr7:116154364..116154444,+!p1@Tub!0.89!12.09!Tub;;chr16:91270004..91270023,+!p1@Olig1!0.89!7.75!Olig1;;chr15:102197405..102197454,-!p1@Sp7!0.89!6.82!Sp7;;chr5:77543897..77543911,-!p2@Hopx!0.88!13.17!Hopx;;chr2:28477452..28477483,-!p1@Gfi1b!0.88!8.21!Gfi1b;;chr11:98190918..98190951,-!p1@Neurod2!0.88!6.51!Neurod2;;chr12:28027561..28027591,-!p1@Sox11!0.87!44.78!Sox11;;chr1:140739014..140739032,-!p1@Lhx9!0.87!8.37!Lhx9;;chr8:59799772..59799789,+!p1@Hand2!0.86!18.90!Hand2;;chr17:44951553..44951586,-!p2@Runx2!0.86!6.97!Runx2;;chr9:96159147..96159204,+!p2@Tfdp2!0.85!11.78!Tfdp2;;chr2:38206580..38206600,+!p2@Lhx2!0.85!7.59!Lhx2;;chr5:148118639..148118715,-!p1@Cdx2!0.85!6.04!Cdx2;;chr12:54349410..54349461,+!p1@Npas3!0.84!7.28!Npas3;;chr13:72766250..72766273,+!p1@Irx2!0.82!8.99!Irx2;;chr6:52190467..52190500,-!p1@Hoxa10!0.82!5.58!Hoxa10;;chr7:122989594..122989626,-!p1@Sox6!0.82!5.58!Sox6;;chr2:163372884..163372904,+!p1@Hnf4a!0.82!5.58!Hnf4a;;chr15:35225845..35225867,+!p1@Osr2!0.81!14.41!Osr2;;chr1:165243591..165243625,-!p2@Prrx1!0.81!8.68!Prrx1;;chr14:67853457..67853482,+!p2@Ebf2!0.81!7.90!Ebf2;;chr17:48015839..48015915,-!p3@Foxp4!0.81!6.51!Foxp4;;chr12:109242266..109242295,-!p1@Bcl11b!0.80!48.19!Bcl11b;;chr6:52176164..52176195,-!p1@Hoxa9!0.80!6.66!Hoxa9;;chr9:43013917..43013968,-!p1@Pou2f3!0.80!5.27!Pou2f3;;chr3:99057256..99057268,+!p3@Tbx15!0.80!5.27!Tbx15;;chr15:85566537..85566552,+!p2@Ppara!0.80!5.27!Ppara;;chr10:126778916..126778974,-!p1@Gli1!0.79!12.24!Gli1;;chr2:38206744..38206766,+!p1@Lhx2!0.79!6.35!Lhx2;;chr5:98609885..98609900,+!p1@Prdm8!0.79!5.11!Prdm8;;chr16:91225808..91225824,+!p1@Olig2!0.79!5.11!Olig2;;chr3:99057677..99057730,+!p2@Tbx15!0.79!5.11!Tbx15;;chr4:87452167..87452178,-!p8@Mllt3!0.79!5.11!Mllt3;;chr1:57029281..57029326,-!p1@Satb2!0.78!8.21!Satb2;;chr19:55969923..55969944,+!p6@Tcf7l2!0.78!4.96!Tcf7l2;;chrX:90531838..90531861,+!p1@Arx!0.77!6.35!Arx;;chr1:137155026..137155042,-!p1@Elf3!0.76!30.52!Elf3;;chr13:40829137..40829205,-!p1@Tfap2a!0.76!5.42!Tfap2a;;chr9:31720843..31720888,-!p1@Barx2!0.76!5.27!Barx2;;chr2:61642631..61642684,+!p1@Tbr1!0.76!4.80!Tbr1;;chr2:74549968..74549996,+!p1@Hoxd3!0.75!5.89!Hoxd3;;chr13:55932591..55932622,-!p1@Pitx1!0.75!5.73!Pitx1;;chr1:57028125..57028149,-!p2@Satb2!0.75!4.65!Satb2;;chrX:7544943..7545001,-!p1@Gata1!0.75!4.65!Gata1;;chr7:122989632..122989668,-!p2@Sox6!0.75!4.65!Sox6;;chr1:165243379..165243402,-!p3@Prrx1!0.74!7.13!Prrx1;;chr13:72766279..72766296,+!p2@Irx2!0.74!6.97!Irx2;;chr19:25746898..25746910,+!p1@Dmrt2!0.74!6.97!Dmrt2;;chr6:6832076..6832092,-!p1@Dlx5!0.74!5.42!Dlx5;;chr6:115372058..115372085,+!p3@Pparg!0.74!4.49!Pparg;;chr4:139388835..139388867,-!p1@Pax7!0.74!4.49!Pax7;;chr18:80909801..80909819,-!p1@Nfatc1!0.73!28.97!Nfatc1;;chr11:121380640..121380655,-!p1@Zfp750!0.73!7.59!Zfp750;;chr2:103143336..103143367,-!p1@Ehf!0.73!7.44!Ehf;;chr10:106923133..106923146,-!p1@Myf5!0.73!4.34!Myf5;;chr10:106931803..106931817,-!p2@Myf6!0.73!4.34!Myf6;;chr7:6683123..6683142,-!p1@Peg3!0.72!250.07!Peg3;;chr11:101755669..101755686,-!p1@Meox1!0.72!8.06!Meox1;;chr8:87297280..87297326,-!p2@Nfix!0.71!10.54!Nfix;;chr13:99124189..99124205,+!p1@Foxd1!0.71!6.66!Foxd1;;chr7:19608891..19608895,-!p1@Foxa3!0.71!5.58!Foxa3;;chr14:67853632..67853674,+!p3@Ebf2!0.71!5.11!Ebf2;;chr12:37835248..37835260,+!p4@Meox2!0.71!4.18!Meox2;;chr17:44951431..44951445,-!p3@Runx2!0.71!4.18!Runx2;;chr7:144506077..144506128,-!p1@Ebf3!0.70!10.07!Ebf3;;chr1:189821714..189821761,+!p1@Esrrg!0.70!7.90!Esrrg;;chr18:64499706..64499721,+!p2@Onecut2!0.70!5.89!Onecut2;;chr15:75578748..75578752,-!p1@Mafa!0.70!4.03!Mafa;;chr2:74542918..74542971,+!p1@Hoxd8!0.69!6.20!Hoxd8;;chr6:128250380..128250442,-!p2@Tead4!0.69!5.11!Tead4;;chr7:144505957..144505972,-!p2@Ebf3!0.69!4.96!Ebf3;;chr12:37835203..37835218,+!p3@Meox2!0.69!4.80!Meox2;;chr2:103264213..103264233,+!p1@Elf5!0.69!3.87!Elf5;;chr19:59533221..59533271,+!p1@Emx2!0.68!4.80!Emx2;;chr2:71384802..71384815,-!p1@Dlx2!0.68!4.80!Dlx2;;chr4:150482563..150482655,-!p2@Camta1!0.67!14.87!Camta1;;chr11:116196664..116196679,-!p1@Foxj1!0.67!6.04!Foxj1;;chr10:106931839..106931851,-!p3@Myf6!0.67!3.72!Myf6;;chr3:34548909..34548927,+!p1@Sox2!0.66!6.51!Sox2;;chr13:72101178..72101203,-!p1@Irx1!0.66!5.89!Irx1;;chr15:102196745..102196769,-!p2@Sp7!0.66!3.56!Sp7;;chr3:101814061..101814094,+!p1@Nhlh2!0.66!3.56!Nhlh2;;chr1:19199236..19199258,+!p1@Tfap2b!0.66!3.56!Tfap2b;;chr6:30908793..30908815,-!p1@Klf14!0.66!3.56!Klf14;;chr16:25684232..25684285,+!p2@Trp63!0.66!3.56!Trp63;;chr16:38294860..38294924,-!p1@Nr1i2!0.66!3.56!Nr1i2;;chr4:114732112..114732158,+!p1@Tal1!0.65!8.37!Tal1;;chr15:103085690..103085710,-!p3@Nfe2!0.65!3.87!Nfe2;;chr1:165243792..165243808,-!p1@Prrx1!0.64!13.63!Prrx1;;chr6:14851440..14851497,+!p2@Foxp2!0.64!9.30!Foxp2;;chr11:83664365..83664383,+!p1@Hnf1b!0.64!3.41!Hnf1b;;chr5:135582751..135582788,+!p1@Mlxipl!0.63!15.18!Mlxipl;;chr2:32229906..32229942,+!p3@Ciz1!0.63!3.25!Ciz1;;chr15:76352832..76352900,-!p1@Scrt1!0.63!3.25!Scrt1;;chr2:74550015..74550057,+!p2@Hoxd3!0.63!3.25!Hoxd3;;chr3:99044284..99044308,+!p4@Tbx15!0.63!3.25!Tbx15;;chr2:71367142..71367167,+!p2@Dlx1!0.63!3.25!Dlx1;;chr9:24578720..24578735,-!p1@Tbx20!0.63!3.25!Tbx20;;chr7:35904304..35904320,+!p1@Cebpa!0.62!77.47!Cebpa;;chr3:5218629..5218684,+!p1@Zfhx4!0.62!11.93!Zfhx4;;chr6:88143711..88143717,+!p2@Gata2!0.62!5.58!Gata2;;chr10:86956396..86956411,-!p1@Ascl1!0.62!5.27!Ascl1;;chr1:93698030..93698064,+!p1@Twist2!0.61!6.82!Twist2;;chr4:154335024..154335039,+!p1@Hes5!0.61!3.87!Hes5;;chr14:122874619..122874634,+!p1@Zic2!0.61!3.10!Zic2;;chr13:83643136..83643158,+!p7@Mef2c!0.61!3.10!Mef2c;;chr12:30219426..30219506,+!p2@Myt1l!0.61!3.10!Myt1l;;chr18:52775562..52775650,+!p1@Zfp474!0.61!3.10!Zfp474;;chr6:52184901..52184959,-!p2@Hoxa10!0.61!3.10!Hoxa10;;chrX:55283799..55283813,+!p1@Zic3!0.61!3.10!Zic3;;chr8:123608252..123608268,+!p1@Foxf1a!0.60!4.80!Foxf1a;;chr11:44431016..44431045,+!p5@Ebf1!0.60!4.49!Ebf1;;chr1:14746065..14746079,-!p1@Msc!0.60!3.72!Msc;;chr6:6831950..6831985,-!p2@Dlx5!0.60!3.41!Dlx5;;chr8:77396591..77396639,+!p1@Isx!0.60!2.94!Isx;;chr17:27865882..27865901,-!p1@Spdef!0.60!2.94!Spdef;;chr18:7004715..7004731,-!p1@Mkx!0.59!7.90!Mkx;;chr14:63864056..63864102,-!p1@Gata4!0.59!5.58!Gata4;;chr4:135728181..135728203,+!p2@E2f2!0.59!4.03!E2f2;;chr11:44430812..44430838,+!p1@Ebf1!0.58!33.31!Ebf1;;chr2:9800207..9800234,-!p1@Gata3!0.58!9.92!Gata3;;chr2:91864300..91864379,-!p2@Creb3l1!0.58!9.30!Creb3l1;;chr4:13670499..13670526,+!p2@Runx1t1!0.58!7.13!Runx1t1;;chr8:90328310..90328362,-!p3@Zfp423!0.58!3.41!Zfp423;;chr2:180069370..180069409,-!p1@Gata5!0.58!3.41!Gata5;;chr1:93698068..93698085,+!p2@Twist2!0.58!3.41!Twist2;;chr19:55969946..55969973,+!p8@Tcf7l2!0.58!2.79!Tcf7l2;;chr14:49287186..49287225,-!p1@Otx2!0.58!2.79!Otx2;;chr13:53568104..53568156,-!p1@Msx2!0.57!4.34!Msx2;;chr10:88996336..88996380,-!p2@Nr1h4!0.56!3.41!Nr1h4;;chr11:84339016..84339044,-!p1@Lhx1!0.56!2.63!Lhx1;;chr15:103082088..103082136,-!p2@Nfe2!0.56!2.63!Nfe2;;chr15:50714356..50714368,-!p14@Trps1!0.56!2.63!Trps1;;chr2:172375081..172375105,+!p1@Tfap2c!0.56!2.63!Tfap2c;;chr17:26978409..26978442,-!p1@Nkx2-5!0.56!2.63!Nkx2-5;;chr7:108966820..108966835,+!p1@Phox2a!0.56!2.63!Phox2a;;chr7:53631818..53631829,+!p2@Myod1!0.56!2.63!Myod1;;chr8:12395603..12395621,+!p1@Sox1!0.56!2.63!Sox1;;chr3:17954233..17954249,+!p1@Bhlhe22!0.56!2.63!Bhlhe22;;chr17:37139472..37139514,+!p1@Zfp57!0.55!21.23!Zfp57;;chr11:44431687..44431706,+!p2@Ebf1!0.55!14.72!Ebf1;;chr13:31650185..31650201,+!p1@Foxq1!0.55!10.85!Foxq1;;chr11:44430989..44431015,+!p4@Ebf1!0.55!5.11!Ebf1;;chr18:14131020..14131033,-!p4@Zfp521!0.55!3.56!Zfp521;;chr5:24107903..24107917,-!p6@Smarcd3!0.55!3.41!Smarcd3;;chr15:75578637..75578669,-!p2@Mafa!0.55!2.94!Mafa;;chr9:87626083..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22752,-!p2@Ncoa7!0.21!8.21!Ncoa7;;chr19:55816398..55816409,+!p5@Tcf7l2!0.21!6.20!Tcf7l2;;chr6:90412582..90412601,+!p1@Klf15!0.21!6.20!Klf15;;chr6:131338363..131338383,-!p4@Csda!0.21!5.73!Csda;;chr4:148275237..148275311,+!p2@Casz1!0.21!5.27!Casz1;;chr13:37917925..37917950,+!p4@Rreb1!0.21!4.96!Rreb1;;chr15:102034446..102034506,+!p2@Zfp740!0.21!4.34!Zfp740;;chr4:149611311..149611317,+!p2@Eno1!0.21!3.56!Eno1;;chr4:87679193..87679219,-!p5@Mllt3!0.21!3.25!Mllt3;;chr1:170362322..170362333,-!p8@Pbx1!0.21!3.10!Pbx1;;chr5:110539286..110539317,+!p2@Zfp605!0.21!2.79!Zfp605;;chr18:55149735..55149776,-!p4@Zfp608!0.21!2.79!Zfp608;;chr17:47278081..47278103,+!p1@Trerf1!0.21!2.63!Trerf1;;chr1:170361826..170361844,-!p9@Pbx1!0.21!2.48!Pbx1;;chr2:153067079..153067090,-!p2@Plagl2!0.21!2.32!Plagl2;;chr11:3189683..3189744,+!p2@Patz1!0.21!2.17!Patz1;;chr2:44972869..44972895,-!p12@Zeb2!0.21!2.01!Zeb2;;chr6:72849280..72849297,-!p6@Kcmf1!0.21!2.01!Kcmf1;;chr6:128312772..128312792,+!p2@Foxm1!0.21!1.70!Foxm1;;chr13:44826650..44826661,+!p8@Jarid2!0.21!1.70!Jarid2;;chr18:69839537..69839544,+!p13@Tcf4!0.21!1.70!Tcf4;;chr18:79306603..79306620,-!p4@Setbp1!0.21!1.55!Setbp1;;chr1:38684431..38684450,-!p3@Aff3!0.21!1.55!Aff3;;chr6:83391668..83391678,-!p3@Tet3!0.21!1.39!Tet3;;chr2:70313168..70313184,+!p1@Sp5!0.21!1.39!Sp5;;chr18:69752912..69752928,+!p9@Tcf4!0.21!1.39!Tcf4;;chr13:112476264..112476282,+!p3@Mier3!0.21!1.24!Mier3;;chr1:138845748..138845766,-!p4@Nr5a2!0.21!1.08!Nr5a2;;chrX:109714433..109714444,+!p2@Zfp711!0.21!1.08!Zfp711;;chr4:135842093..135842105,+!p6@Zfp46!0.21!1.08!Zfp46;;chr4:6917793..6917809,-!p5@Tox!0.21!0.93!Tox;;chr15:37162834..37162849,+!p2@Grhl2!0.21!0.93!Grhl2;;chr5:125538703..125538715,-!p5@Ncor2!0.21!0.93!Ncor2;;chr9:48644013..48644027,-!p5@Zbtb16!0.21!0.93!Zbtb16;;chr9:51021788..51021802,+!p1@Pou2af1!0.21!0.93!Pou2af1;;chr16:43503594..43503634,+!p15@Zbtb20!0.21!0.93!Zbtb20;;chr17:51951383..51951409,-!p19@Satb1!0.21!0.62!Satb1;;chr17:51972017..51972022,-!p17@Satb1!0.21!0.62!Satb1;;chr18:5591424..5591444,+!p5@Zeb1!0.21!0.62!Zeb1;;chr18:77094872..77094887,+!p1@Skor2!0.21!0.62!Skor2;;chr18:66098702..66098742,-!p1@Rax!0.21!0.62!Rax;;chr17:86020137..86020149,+!p5@Six3!0.21!0.62!Six3;;chr19:5560570..5560582,-!p2@Ovol1!0.21!0.62!Ovol1;;chr18:81183755..81183761,-!p1@Sall3!0.21!0.62!Sall3;;chr15:102767247..102767265,+!p1@Hoxc12!0.21!0.62!Hoxc12;;chr15:102751603..102751630,+!p1@Hoxc13!0.21!0.62!Hoxc13;;chr12:74147860..74147888,-!p2@Six1!0.21!0.62!Six1;;chr13:56353536..56353542,-!p1@Neurog1!0.21!0.62!Neurog1;;chr15:102844431..102844445,+!p1@Hoxc5!0.21!0.62!Hoxc5;;chr12:30213392..30213414,+!p8@Myt1l!0.21!0.62!Myt1l;;chr14:17408052..17408073,-!p5@Rarb!0.21!0.62!Rarb;;chr14:13178147..13178185,-!p1@Fezf2!0.21!0.62!Fezf2;;chr12:25257265..25257294,+!p2@Grhl1!0.21!0.62!Grhl1;;chr14:69808725..69808748,+!p1@Nkx3-1!0.21!0.62!Nkx3-1;;chr15:76352740..76352781,-!p5@Scrt1!0.21!0.62!Scrt1;;chr14:52948124..52948148,-!p7@Sall2!0.21!0.62!Sall2;;chr4:82351544..82351563,-!p15@Nfib!0.21!0.62!Nfib;;chr2:71366660..71366702,+!p3@Dlx1!0.21!0.62!Dlx1;;chr3:107398056..107398082,+!p1@Alx3!0.21!0.62!Alx3;;chr2:77541432..77541474,-!p5@Zfp385b!0.21!0.62!Zfp385b;;chr4:22415600..22415616,-!p3@Pou3f2!0.21!0.62!Pou3f2;;chr4:46356509..46356527,+!p1@Foxe1!0.21!0.62!Foxe1;;chr4:44717334..44717367,-!p5@Pax5!0.21!0.62!Pax5;;
@@ Line 43: / Line 44: @@
 |is_a=EFO:0001461;;FF:0011374
 |is_obsolete=
-|library_id=CNhs10479!CNhs10495!CNhs10511!CNhs10527!CNhs10591!CNhs10607!CNhs10623!CNhs10639!CNhs10655!CNhs10725!CNhs10749!CNhs10840!CNhs10856!CNhs10880!CNhs11000!CNhs11024!CNhs11032!CNhs11048!CNhs11072!CNhs11080!CNhs11096!CNhs11120!CNhs11128!CNhs11184!CNhs11208!CNhs11216!CNhs11246!CNhs11278
+|library_id=CNhs10479!CNhs10495!CNhs10511!CNhs10527!CNhs10591!CNhs10607!CNhs10623!CNhs10639!CNhs10655!CNhs10725!CNhs10749!CNhs10840!CNhs10856!CNhs10880!CNhs11000!CNhs11024!CNhs11032!CNhs11048!CNhs11072!CNhs11080!CNhs11096!CNhs11120!CNhs11128!CNhs11184!CNhs11208!CNhs11216!CNhs11246!CNhs11278!CNhs11318!CNhs11374!CNhs11668!CNhs11706!CNhs11730!CNhs11754!CNhs11778!CNhs11802!CNhs11826!CNhs11850!CNhs11874!CNhs11898!CNhs11938!CNhs11946!CNhs11970!CNhs11994!CNhs12018!CNhs12042!CNhs12066!CNhs12090!CNhs12114!CNhs12230!CNhs11262!CNhs11294!CNhs12361!CNhs12385!CNhs12577!CNhs12505!CNhs11916!CNhs12585!CNhs12313!CNhs12337!CNhs11326!CNhs11342!CNhs12186!CNhs12194
-|library_ids=CNhs10479!CNhs10495!CNhs10511!CNhs10527!CNhs10591!CNhs10607!CNhs10623!CNhs10639!CNhs10655!CNhs10725!CNhs10749!CNhs10840!CNhs10856!CNhs10880!CNhs11000!CNhs11024!CNhs11032!CNhs11048!CNhs11072!CNhs11080!CNhs11096!CNhs11120!CNhs11128!CNhs11184!CNhs11208!CNhs11216!CNhs11246!CNhs11278
+|library_id_phase_based=2:CNhs10479,CNhs10495,CNhs10511,CNhs10527,CNhs10591,CNhs10607,CNhs10623,CNhs10639,CNhs10655,CNhs10725,CNhs10749,CNhs10840,CNhs10856,CNhs10880,CNhs11000,CNhs11024,CNhs11032,CNhs11048,CNhs11072,CNhs11080,CNhs11096,CNhs11120,CNhs11128,CNhs11184,CNhs11208,CNhs11216,CNhs11246,CNhs11278,CNhs11318,CNhs11374,CNhs11668,CNhs11706,CNhs11730,CNhs11754,CNhs11778,CNhs11802,CNhs11826,CNhs11850,CNhs11874,CNhs11898,CNhs11938,CNhs11946,CNhs11970,CNhs11994,CNhs12018,CNhs12042,CNhs12066,CNhs12090,CNhs12114,CNhs12230,CNhs11262,CNhs11294,CNhs12361,CNhs12385,CNhs12577,CNhs12505,CNhs11916,CNhs12585,CNhs12313,CNhs12337,CNhs11326,CNhs11342,CNhs12186,CNhs12194
+|mm10bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.qualitycontrol.hCAGE/whole%2520body%252c%2520embryo%2520E17%252e5%252c%2520pool1%2520%2528internal%2520control%2529.CNhs12385.3139-67G5.mm10.nobarcode.bam
+|mm10ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v2/basic/mouse.qualitycontrol.hCAGE/whole%2520body%252c%2520embryo%2520E17%252e5%252c%2520pool1%2520%2528internal%2520control%2529.CNhs12385.3139-67G5.mm10.nobarcode.ctss.bed.gz
+|mm9bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.qualitycontrol.LQhCAGE/whole%2520body%252c%2520embryo%2520E17%252e5%252c%2520pool1%2520%2528internal%2520control%2529.CNhs12194.3139-67G5.mm9.nobarcode.bam
+|mm9ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.qualitycontrol.LQhCAGE/whole%2520body%252c%2520embryo%2520E17%252e5%252c%2520pool1%2520%2528internal%2520control%2529.CNhs12194.3139-67G5.mm9.ctss.bed.gz
+|mm9fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/mouse.qualitycontrol.LQhCAGE/whole%2520body%252c%2520embryo%2520E17%252e5%252c%2520pool1%2520%2528internal%2520control%2529.CNhs12194.3139-67G5.mm9.nobarcode.rdna.fa.gz
 |name=whole body, embryo E17.5, pool1 (internal control)
 |namespace=
 |part_of=
 |profile_cagescan=
-|profile_hcage=multiple,MULTIPLE,,
+|profile_hcage=
 |profile_rnaseq=
 |profile_srnaseq=
@@ Line 66: / Line 72: @@
 |rna_weight_ug=
 |sample_age=
-|sample_category=developmental
+|sample_category=control
 |sample_cell_catalog=
 |sample_cell_line=
@@ Line 87: / Line 93: @@
 |top_motifs=
 |xref=
+|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_mouse;search_select_hide=table111:3139-67G5;search_select_hide=table117:3139-67G5
 }}

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FF:3139-67G5: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 19:09, 4 June 2020

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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