{"id":88,"date":"2011-02-08T23:43:43","date_gmt":"2011-02-08T18:43:43","guid":{"rendered":"https:\/\/wordpress.clarku.edu\/polypeet\/"},"modified":"2017-04-14T00:12:38","modified_gmt":"2017-04-13T19:12:38","slug":"datasets","status":"publish","type":"page","link":"https:\/\/wordpress.clarku.edu\/polypeet\/datasets\/","title":{"rendered":"Datasets"},"content":{"rendered":"

Binder, Justo et al.<\/strong> (2013). Phylogenetic and phylogenomic overview of the the Polyporales. Mycologia <\/em><\/strong>(accepted)<\/em>
\n<\/strong><\/p>\n

Here we provide the fasta files containing the nucleotide and protein sequences for the 356 single-copy genes as recovered from the Mycocosm<\/a> cluster number 1263 (no longer available).<\/p>\n

Nucleotide data<\/strong><\/a><\/p>\n

Protein data<\/strong><\/a><\/p>\n

Datasets used in the phylogenetic study of Trametes<\/em><\/span><\/h2>\n

A. Justo & D.S. Hibbett.<\/strong> (2011). Phylogenetic classification of Trametes<\/em> (Basidiomycota, Polyporales) based on a five-marker dataset. Taxon <\/strong><\/em>60(6): 1567\u20131583.<\/a>
\n<\/strong><\/p>\n

All Nexus files are saved as plain text (.txt) and can be opened using MacClade (http:\/\/macclade.org\/macclade.html<\/a>), Mesquite (http:\/\/mesquiteproject.org\/mesquite\/mesquite.html<\/a>) or any similar program <\/strong><\/p>\n

If you want to visualize the file just click on the link<\/p>\n

If you want to save the file to your computer right click on the link and then use the “Save link as” option
\n<\/strong><\/p>\n

nLSU + ITS dataset of Polyporales Polyporales_LSU_ITS<\/a><\/strong><\/p>\n

RPB1 dataset of Polyporales Polyporales_RPB1<\/a><\/strong><\/p>\n

RPB2 dataset of Polyporales Polyporales_RPB2<\/a><\/strong><\/p>\n

TEF1 dataset of Polyporales Polyporales_TEF1<\/a><\/strong><\/p>\n

nLSU + ITS + RPB1 + RPB2 +TEF1 dataset of Polyporales Polyporales_COMB<\/a><\/strong><\/p>\n

ITS dataset of Trametes Trametes_ITS<\/a><\/strong><\/p>\n

Additional datasets
\n<\/strong><\/p>\n

RPB1 alignment including all intron regions RPB1_with_introns<\/a><\/strong><\/p>\n

RPB2 alignment including all intron regions RPB2_with_introns<\/a><\/strong><\/p>\n

TEF1 alignment including all intron regions TEF1_with_introns<\/a><\/strong><\/p>\n

ITS dataset of Coriolopsis<\/em> sensu lato Coriolopsis_ITS<\/a><\/strong><\/p>\n

RPB1 dataset with amino acid data RPB1_AA<\/a><\/strong><\/p>\n

RPB2 dataset with amino acid data RPB2_AA<\/a><\/strong><\/p>\n

TEF1 dataset with amino acid data TEF1_AA<\/a>
\n<\/strong><\/p>\n

 <\/p>\n","protected":false},"excerpt":{"rendered":"

Binder, Justo et al. (2013). Phylogenetic and phylogenomic overview of the the Polyporales. Mycologia (accepted) Here we provide the fasta files containing the nucleotide and protein sequences for the 356 single-copy genes as recovered from the Mycocosm cluster number 1263 … Continue reading →<\/span><\/a><\/p>\n","protected":false},"author":29,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"onecolumn-page.php","meta":{"ngg_post_thumbnail":0,"footnotes":""},"class_list":["post-88","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/wordpress.clarku.edu\/polypeet\/wp-json\/wp\/v2\/pages\/88","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/wordpress.clarku.edu\/polypeet\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/wordpress.clarku.edu\/polypeet\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/wordpress.clarku.edu\/polypeet\/wp-json\/wp\/v2\/users\/29"}],"replies":[{"embeddable":true,"href":"https:\/\/wordpress.clarku.edu\/polypeet\/wp-json\/wp\/v2\/comments?post=88"}],"version-history":[{"count":0,"href":"https:\/\/wordpress.clarku.edu\/polypeet\/wp-json\/wp\/v2\/pages\/88\/revisions"}],"wp:attachment":[{"href":"https:\/\/wordpress.clarku.edu\/polypeet\/wp-json\/wp\/v2\/media?parent=88"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}