Main public logs

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• 00:35, 24 June 2010 Elyons talk contribs uploaded File:Master 3626 7202.CDS-CDS.lastz.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w500.45475535.23476232.png (Syntenic dotplot between two strains of Bacillus Thuringiensis: konkukian (x-axis) and pondicheriensis (y-axis). http://genomevolution.org/r/a2z)
• 23:33, 23 June 2010 Elyons talk contribs uploaded File:GEvo Bt strains.png (GEvo analysis of a syntenic discontinuity between two strains of Bacillus Thuringiensis. http://genomevolution.org/r/ach)
• 23:16, 23 June 2010 Elyons talk contribs uploaded File:Master 3626 3631.CDS-CDS.lastz.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w500.png (Syntenic dotplot between Bacillus thuingiensis strains konkukian (x-axis) and Al Hakam (y-axis). http://genomevolution.org/r/a36)
• 19:21, 23 June 2010 Elyons talk contribs uploaded a new version of File:SynMap-popup-legend.png
• 19:20, 23 June 2010 Elyons talk contribs uploaded File:SynMap-popup-legend.png (Legend for SynMap's popup syntenic dotplots with various evolution patterns and interface options labeled.)
• 01:55, 21 June 2010 Elyons talk contribs uploaded File:Master 4242 4243.CDS-CDS.lastz.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w500.24862786.24921633.png (Syntenic dotplot from SynMap between two substrains of E. coli K12: MG1655 (x-axis) and W3110 (y-axis). http://genomevolution.org/r/8f9)
• 01:45, 21 June 2010 Elyons talk contribs uploaded File:Master 4242 7458.CDS-CDS.lastz.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w500.24862786.48121174.png (Syntenic dotplot by SynMap of two sub-strains of E. coli K12: Bw2952 and MG1655. http://genomevolution.org/r/8fw)
• 23:03, 18 June 2010 Elyons talk contribs uploaded File:Screen shot 2010-06-18 at 4.00.18 PM.png (test)
• 04:28, 13 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-AgMNPV-CfMNPV-inversion.png (GEvo analysis of three baculoviruses: AcMNPV, AgMNPV, CfMNPV showing an inversion specific to AgMNPV. http://genomevolution.org/r/7rx)
• 21:10, 12 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-AgMNPV-CfMNPV.png (GEvo analysis of three baculoviruses AcMNPV, AgMNPV and CfMNPV. http://genomevolution.org/r/7rt)
• 20:00, 12 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-AgMNPV.png (GEvo analysis of AcMNPV and AgMNPV. http://genomevolution.org/r/7rc)
• 19:31, 12 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-TnSNPV-XnGV-polyhedrin.png (GEvo analysis of three baculovirus genomes: AcMNPV, TnSNPV and XnGV around the polyhedrin gene. http://genomevolution.org/r/7ra)
• 19:22, 12 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-TnSNPV-XnGV.png (GEvo comparison of three baculoviruses: AcMNPV, TnMNPV, and XnGV. http://genomevolution.org/r/7r8)
• 00:09, 12 June 2010 Elyons talk contribs uploaded a new version of File:GEvo-Ac-Px-Ro-MNPV.png
• 00:06, 12 June 2010 Elyons talk contribs uploaded File:GEvo-Ac-Px-Ro-MNPV.png (GEvo comparison of three baculoviruses: AcMNPV, PxMNPV, and RoMNPV. http://genomevolution.org/r/7qj)
• 23:52, 11 June 2010 Elyons talk contribs uploaded File:GEvo-9-baculoviruses-orientation.png (GEvo comparison of 9 baculoviruses. AcMNPV is at the top and is the reference genome. Two genomes have been reverse complemented. http://genomevolution.org/r/7qi)
• 23:41, 11 June 2010 Elyons talk contribs uploaded File:GEvo-9-baculoviruses.png (GEvo comparison of 9 baculoviruses. AcMNPV is at the top and is the reference genome. http://genomevolution.org/r/7qg)
• 22:58, 11 June 2010 Elyons talk contribs uploaded File:Baculovirus phylogeny marked.png (phylogeny generated by phylogeny.fr. Protein sequences sent by FastaView: http://genomevolution.org/r/6yh. Arrows point out strains that were used in a comparison using GEvo (centered off of AcMNPV; green arrow))
• 20:39, 8 June 2010 Elyons talk contribs uploaded File:GEvo-Ac-Px-MNPV-closeup3.png (analysis of region present in PxMNPV that is not present in AcMNPV. This is likely a new insertion evidenced by the direct repeats at the ends of the insertion. http://genomevolution.org/r/7cf)
• 20:26, 8 June 2010 Elyons talk contribs uploaded File:GEvo-Ac-Px-MNPV-closeup2.png (GEvo analysis of region present in PxMNPV that is not present in AcMNPV. This is likely a new insertion evidenced by the direct repeats at the ends of the insertion. http://genomevolution.org/r/7c6)
• 20:12, 8 June 2010 Elyons talk contribs uploaded File:GEvo-Ac-Px-MNPV-closeup.png (GEvo analysis around a region not present in PxMNPV and present in AcMNPV http://genomevolution.org/r/7by)
• 02:14, 7 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-vs-PxMNPV-complete.png (GEvo analysis of the complete genomes of AcMNPV and PxMNPV. Results can be regenerated at http://genomevolution.org/r/729)
• 02:03, 7 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-vs-PxMNPV-repeat-region.png (GEvo analysis of a repeat region shared at a syntenic position between AcMNPV and PxMNPV. http://genomevolution.org/r/728)
• 01:01, 7 June 2010 Elyons talk contribs uploaded File:GEvo-AcMNPV-vs-PxMNPV.png (Gevo analysis of AcMNPV and PxMNPV around the polyhedrin gene. http://genomevolution.org/r/725)
• 19:03, 3 June 2010 Elyons talk contribs uploaded File:GEvo-Gaeumannomyces-v-Magnapothe.png (GEvo analysis of Magnaporthe poae ATCC 64411 versus Gaeumannomyces graminis var. tritici showing an inversion. Orange regions in the background of each panel are unsequenced regions; pink blocks and wedges are regions with sequence similarity. http://ge)
• 18:58, 3 June 2010 Elyons talk contribs uploaded File:Master 9197 9195.CDS-CDS.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w2000.png (Syntenic dotplot between Magnaporthe poae ATCC 64411 (y-axis) versus Gaeumannomyces graminis var. tritici (x-axis): http://genomevolution.org/CoGe/SynMap.pl?dsgid1=9197;dsgid2=9195;c=4;D=20;g=10;A=5;Dm=0;gm=0;w=0;b=1;ft1=1;ft2=1;do1=1;do2=1;do=40;dt=gene)
• 16:52, 3 June 2010 Elyons talk contribs uploaded File:OrganismView Features.png (Screen-shot of displaying a list of genomic features in OrgnaismView)
• 16:46, 3 June 2010 Elyons talk contribs uploaded File:Polyhedrin blast hit.png (Blast (tblastn) hit between Autographa californica's polyhedrin protein and Adoxophyes honmai NPV)
• 16:41, 3 June 2010 Elyons talk contribs uploaded File:Baculovirus-phylogeny.png (Baculovirus phylogeny generated by phylogeny.fr. Protein sequences sent by FastaView: http://genomevolution.org/r/6yh)
• 03:03, 19 May 2010 Elyons talk contribs moved page SGD: Saccharomyces Genome Database to SGRP: Sanger Institute Yeast Genomes (Wrong source)
• 22:52, 7 May 2010 Elyons talk contribs uploaded File:Os-Sb-CNS-rich.png (http://genomevolution.org/r/4pk)
• 03:38, 4 May 2010 Elyons talk contribs uploaded a new version of File:8082 9106.CDS-genomic.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords.3-3.w800.ct inv.png (Syntenic dotplot of maize B73 chromosome 3 between refgen version 1 and version 2. Syntenic gene-pairs (dots) are colored green and blue if in the same or opposite orientation respectively. Note the large inversion near the middle (blue line) and many sma)
• 03:37, 4 May 2010 Elyons talk contribs uploaded a new version of File:Master 8082 9106.CDS-genomic.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords ctinv.w1200.png (Maize B73 refgen version 1 (x-axis) and version 2 (y-axis). Version 1 has gene models and version 2 is using only genomic sequence. Syntenic pairs (dots) are colored green and blue if in the same or opposite orientation respectively: http://genomevolution)
• 16:14, 3 May 2010 Elyons talk contribs uploaded File:GEvo analysis of maize B73 refgen v1 v2.png (GEvo analysis of 1MB of chromosome 3 from maize between refgen version 1 and 2. Version 1 has gene models and non-CDS sequences masked (purple). Note the sets of genes that have been reoriented in version 2. http://genomevolution.org/r/4du)
• 16:09, 3 May 2010 Elyons talk contribs uploaded File:8082 9106.CDS-genomic.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords.3-3.w800.ct inv.png (Syntenic dotplot of maize B73 chromosome 3 between refgen version 1 and version 2. Syntenic gene-pairs (dots) are colored green and blue if in the same or opposite orientation respectively. Note the large inversion near the middle (blue line) and many s)
• 16:03, 3 May 2010 Elyons talk contribs uploaded File:Master 8082 9106.CDS-genomic.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords ctinv.w1200.png (Maize B73 refgen version 1 (x-axis) and version 2 (y-axis). Version 1 has gene models and version 2 is using only genomic sequence. Syntenic pairs (dots) are colored green and blue if in the same or opposite orientation respectively: http://genomevoluti)
• 20:55, 29 April 2010 Elyons talk contribs uploaded File:Specifying-syntenic-path-assembly.png (Screen-shot from SynMap show to specify the syntenic path assembly option to order contigs based on their syntenic position to a reference genome. This image also shows the "don't show contigs without assembly" option selected.)
• 20:51, 29 April 2010 Elyons talk contribs deleted page Potato version 1 (content was: 'image:Master 9092 43.genomic-CDS.blastn.dag.go c4 D100 g50 A5.aligncoords.gcoords ct0.w2000.png|thumb|600px|right|Syntenic comparison between grape (y-axis) and p...' (and the only contributor was 'Elyons'))
• 20:08, 29 April 2010 Elyons talk contribs uploaded File:Master 9092 43.genomic-CDS.blastn.dag.go c4 D100 g50 A5.aligncoords.gcoords ct0.w2000.ass2.png (Syntenic comparison between grape (y-axis) and potato (x-axis) using syntenic path assembly in SynMap. http://genomevolution.org/CoGe/SynMap.pl?dsgid1=43;dsgid2=9092;c=4;D=100;g=50;A=5;Dm=;gm=;w=0;b=1;ft1=1;ft2=2;sp=2;do1=1;do2=1;do=40;dt=geneorder)
• 20:06, 29 April 2010 Elyons talk contribs uploaded File:Master 9092 43.genomic-CDS.blastn.dag.go c4 D100 g50 A5.aligncoords.gcoords ct0.w2000.png (Syntenic comparison between grape (y-axis) and potato (x-axis). http://genomevolution.org/CoGe/SynMap.pl?dsgid1=43;dsgid2=9092;c=4;D=100;g=50;A=5;Dm=;gm=;w=0;b=1;ft1=1;ft2=2;do1=1;do2=1;do=40;dt=geneorder)
• 20:03, 29 April 2010 Elyons talk contribs deleted page CoGe system arcitecture (content was: 'Image:CoGe system design.png|thumb|right|600px|CoGe’s system architecture. At CoGe’s core is a relational database (a) designed to store multiple versions of...' (and the only contributor was 'Elyons'))
• 20:16, 27 April 2010 Elyons talk contribs uploaded File:Master 7146 9105.CDS-CDS.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w2000.gene.png (Syntenic dotplot of Aspergillus flavus versus a minimized genome consisting of only genomic regions containing metabolic gene clusters. Axis metrics in gene units (not nucleotides). http://genomevolution.org/CoGe/SynMap.pl?dsgid1=7146;dsgid2=9105;c=4;D=2)
• 20:06, 27 April 2010 Elyons talk contribs uploaded File:Master 7146 9105.CDS-CDS.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w2000.png (Syntenic dotplot of Aspergillus flavus versus a minimized genome consisting of only genomic regions containing metabolic gene clusters. http://genomevolution.org/CoGe/SynMap.pl?dsgid1=7146;dsgid2=9105;c=4;D=20;g=10;A=5;Dm=0;gm=0;w=0;b=1;ft1=1;ft2=1;do1=1)
• 01:51, 23 April 2010 Elyons talk contribs uploaded File:Aspergillus cluster 48.png (GEvo syntenic analysis of metabolic gene cluster 48 between Aspergillus flavus and oryzae. http://genomevolution.org/r/3xq)
• 16:30, 20 April 2010 Elyons talk contribs uploaded File:Flanking gene method.png (Flanking gene method figure from GEvo)
• 19:21, 16 April 2010 Elyons talk contribs uploaded File:GEvo-Peach-v-Grape.png (GEvo analysis of 400kb of syntenic regions from the genomes of peach and grape. http://genomevolution.org/r/3hu)
• 15:55, 16 April 2010 Elyons talk contribs uploaded File:Master 7043 9048.CDS-CDS.blastn.dag.go c4 D40 g20 A5.aligncoords.gcoords ct0.w2000.gene.png (Syntenic dotplot between Arabidopsis thaliana (x-axis) and Vitis viniera (y-axis). http://synteny.cnr.berkeley.edu/CoGe/SynMap.pl?dsgid1=9048;dsgid2=7043;c=4;D=40;g=20;A=5;Dm=;gm=;w=2000;b=1;ft1=1;ft2=1;do1=1;do2=1;do=40;dt=geneorder;am=g)
• 15:50, 16 April 2010 Elyons talk contribs uploaded File:Master 7043 8400.CDS-CDS.blastn.dag.go c4 D40 g20 A5.aligncoords.Dm0.ma1.gcoords ct0.w2000.gene.png (Syntenic dotplot of Arabidopsis thaliana (x-axis) versus Prunus persica (Peach tree; y-axis). http://www.genomevolution.org/CoGe/SynMap.pl?dsgid1=8400;dsgid2=7043;c=4;D=40;g=20;A=5;Dm=0;gm=;w=0;b=1;ft1=1;ft2=1;ma=1;do1=1;do2=1;do=40;dt=geneorder;am=g)
• 05:39, 13 April 2010 Elyons talk contribs uploaded File:Master 3419 3420.CDS-CDS.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords ctinv.w500.png (Syntenic dotplot of Archaeas Thermoplasma acidophilum strain DSM 1728 (x-axis) and Thermoplasma volcanium strain GSS1 (y-axis). http://genomevolution.org/CoGe/SynMap.pl?dsgid1=3419;dsgid2=3420;c=4;D=20;g=10;A=5;Dm=0;gm=0;w=0;b=1;ft1=1;ft2=1;do1=1;do2=1;d)
• 04:51, 13 April 2010 Elyons talk contribs uploaded File:Master 7596 9084.CDS-CDS.blastn.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w2000.ass.png (Syntenic dotplot of Magnaporthe grisea/oryzae version 5 versus version 6. http://genomevolution.org/CoGe/SynMap.pl?dsgid1=7596;dsgid2=9084;c=4;D=20;g=10;A=5;Dm=;gm=;w=0;b=1;ft1=1;ft2=1;sp=1;do1=1;do2=1;do=40;dt=geneorder )