Data from: Latent homology and convergent regulatory evolution underlies the repeated emergence of yeasts

Nagy LG

Date Published: July 24, 2014

DOI: http://dx.doi.org/10.5061/dryad.4rp68

 

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Title concat100_singleML_reroot
Downloaded 18 times
Description Organismal phylogeny
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Title Dollo_mapping_withorphangenes
Downloaded 34 times
Description Dollo-parsimony reconstruction of duplication-loss histories across 49 genomes. Mapping includes orhpan genes
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Title Dollo_mapping_withoutorphangenes
Downloaded 84 times
Description Dollo-parsimony mapping without orhpan genes
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Title MCLclustering_infl2
Downloaded 34 times
Description MCL clustering of proteins in the 49 genomes.
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Title OrthogroupMatrix_withorphangenes
Downloaded 9 times
Description Nexus matrix of reconstructed orthogroups, including orphan genes
Download OrthogroupMatrix_withorphangenes.nex (266.3 Mb)
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Title OrthogroupMatrix_withoutorphangenes
Downloaded 8 times
Description Nexus matrix of reconstructed orthogroups, excuding orphan genes.
Download OrthogroupMatrix_withoutorphangenes.nex (87.73 Mb)
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Title outfile95_new
Downloaded 16 times
Description Nexus data file used for organismal phylogeny reconstruction under a site exclusion threshold of 0.95.
Download outfile95_new.nex (11.21 Mb)
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Title outfile98_new
Downloaded 14 times
Description Nexus data file used for organismal phylogeny reconstruction under a site exclusion threshold of 0.98.
Download outfile98_new.nex (7.904 Mb)
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Title outfile100_new
Downloaded 15 times
Description Nexus data file used for organismal phylogeny reconstruction under a site exclusion threshold of 1.0.
Download outfile100_new.nex (3.666 Mb)
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Title Proteins_seqs_all59species_input
Downloaded 11 times
Description Merged protein fasta file of all predicted proteins used in the analyses.
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When using this data, please cite the original publication:

Nagy LG, Ohm RA, Kovács GM, Floudas D, Riley R, Gácser A, Sipiczki M, Davis JM, Doty SL, de Hoog GS, Lang BF, Spatafora JW, Martin FM, Grigoriev IV, Hibbett DS (2014) Latent homology and convergent regulatory evolution underlies the repeated emergence of yeasts. Nature Communications 5: 4471. http://dx.doi.org/10.1038/ncomms5471

Additionally, please cite the Dryad data package:

Nagy LG (2014) Data from: Latent homology and convergent regulatory evolution underlies the repeated emergence of yeasts. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.4rp68
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