Data from: Sexual selection and the evolution of the Major Histocompatibility Complex

Ejsmond MJ, Radwan J, Wilson AB

Date Published: September 25, 2014

DOI: http://dx.doi.org/10.5061/dryad.26k11

 

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Title Data files (Matlab worksapces) packed in a ZIP archive - scenarios with no pathogens
Downloaded 131 times
Description Scenarios with no interaction between pathogens and hosts Data set is packed in a ZIP archive. Names of catalogue in the archive indicate scenario parameters: host population size N and simulated mechanism of partner choice (RM - random mating, h0 - soft assortative mating, h1 - hard assortative mating; see Materials and Methods for details). Each scenario catalogue contains 100 files (Matlab workspaces) with saved variables of each of 100 independent replications. Saved variables: HED_scen – partner choice scenario (random mating HED_scen=NaN, soft assortative mating h0 HED_scen=0, hard assortative mating h1 HED_scen=1) N – host population size off_val_occ – offspring reproductive value at birth in subsequent mating attempts h_mut_rat – host mutation rate host_n_all – allelic richness across generations host_time – host generation number mat_occ_distr – number of mating pairs in subsequent mating attempts (first row indicate first mating attempt) saved every host generation Compl_all_hist – frequency distribution of MHC alleles saved in last 1400 host generations (host generations 1600-3000). Matrix of allele frequency distribution is saved as Matlab sparse matrix, (type full(Compl_all_hist) to transform Compl_all_hist into trajectories of allele frequency) in_pres_al – decimal labels of MHC alleles in allele frequency history matrix Compl_all_hist
Download Pathogens_off.zip (105.5 Mb)
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Title Data files (Matlab worksapces) packed in a ZIP archive - scenarios with pathogens, mutation rate 1*10^-3
Downloaded 125 times
Description Scenarios in which pathogens interact with hosts Data set is packed in a ZIP archive. Names of catalogue in the archive indicate scenario parameters: host population size N and simulated mechanism of partner choice (RM - random mating, h0 - soft assortative mating, h1 - hard assortative mating; see Materials and Methods for details). Each scenario catalogue contains 100 files (Matlab workspaces) with saved variables of each of 100 independent replications. Saved variables: HED_scen – partner choice scenario (random mating HED_scen=NaN, soft assortative mating h0 HED_scen=0, hard assortative mating h1 HED_scen=1) N – host population size off_val_occ – offspring reproductive value at birth in subsequent mating attempts h_mut_rat – host mutation rate bits_num – number of bits in MHC molecule match – number of matching bits necessary for antigen presentation num_pat_spec – number of pathogen species p_mut_rat – pathogen mutation rate pat_gen – number of pathogen generations per one host generation pept_num – number of antigens produced by a pathogen host_n_all – allelic richness across generations host_time – host generation number mat_occ_distr – number of mating pairs in subsequent mating attempts (first row indicate first mating attempt) saved every host generation Compl_all_hist – frequency distribution of MHC alleles saved in last 1400 host generations (host generations 1600-3000). Matrix of allele frequency distribution is saved as Matlab sparse matrix, (type full(Compl_all_hist) to transform Compl_all_hist into trajectories of allele frequency) in_pres_al – decimal labels of MHC alleles in allele frequency history matrix Compl_all_hist mean_pres_pat – mean proportion of presented pathogens SD_pres_pat – standard deviation for the proportion of presented pathogens
Download Pathogens_on_1x10min3.zip (155.5 Mb)
Download README.docx (14.42 Kb)
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Title Data files (Matlab worksapces) packed in a ZIP archive - scenarios with pathogens, mutation rate 2*10^-3
Downloaded 100 times
Description Scenarios in which pathogens interact with hosts Data set is packed in a ZIP archive. Names of catalogue in the archive indicate scenario parameters: host population size N and simulated mechanism of partner choice (RM - random mating, h0 - soft assortative mating, h1 - hard assortative mating; see Materials and Methods for details). Each scenario catalogue contains 100 files (Matlab workspaces) with saved variables of each of 100 independent replications. Saved variables: HED_scen – partner choice scenario (random mating HED_scen=NaN, soft assortative mating h0 HED_scen=0, hard assortative mating h1 HED_scen=1) N – host population size off_val_occ – offspring reproductive value at birth in subsequent mating attempts h_mut_rat – host mutation rate bits_num – number of bits in MHC molecule match – number of matching bits necessary for antigen presentation num_pat_spec – number of pathogen species p_mut_rat – pathogen mutation rate pat_gen – number of pathogen generations per one host generation pept_num – number of antigens produced by a pathogen host_n_all – allelic richness across generations host_time – host generation number mat_occ_distr – number of mating pairs in subsequent mating attempts (first row indicate first mating attempt) saved every host generation Compl_all_hist – frequency distribution of MHC alleles saved in last 1400 host generations (host generations 1600-3000). Matrix of allele frequency distribution is saved as Matlab sparse matrix, (type full(Compl_all_hist) to transform Compl_all_hist into trajectories of allele frequency) in_pres_al – decimal labels of MHC alleles in allele frequency history matrix Compl_all_hist mean_pres_pat – mean proportion of presented pathogens SD_pres_pat – standard deviation for the proportion of presented pathogens
Download Pathogens_on_2x10min3.zip (214.0 Mb)
Download README.docx (14.42 Kb)
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Title Data files (Matlab worksapces) packed in a ZIP archive - scenarios with pathogens, mutation rate 5*10^-3
Downloaded 69 times
Description Scenarios in which pathogens interact with hosts Data set is packed in a ZIP archive. Names of catalogue in the archive indicate scenario parameters: host population size N and simulated mechanism of partner choice (RM - random mating, h0 - soft assortative mating, h1 - hard assortative mating; see Materials and Methods for details). Each scenario catalogue contains 100 files (Matlab workspaces) with saved variables of each of 100 independent replications. Saved variables: HED_scen – partner choice scenario (random mating HED_scen=NaN, soft assortative mating h0 HED_scen=0, hard assortative mating h1 HED_scen=1) N – host population size off_val_occ – offspring reproductive value at birth in subsequent mating attempts h_mut_rat – host mutation rate bits_num – number of bits in MHC molecule match – number of matching bits necessary for antigen presentation num_pat_spec – number of pathogen species p_mut_rat – pathogen mutation rate pat_gen – number of pathogen generations per one host generation pept_num – number of antigens produced by a pathogen host_n_all – allelic richness across generations host_time – host generation number mat_occ_distr – number of mating pairs in subsequent mating attempts (first row indicate first mating attempt) saved every host generation Compl_all_hist – frequency distribution of MHC alleles saved in last 1400 host generations (host generations 1600-3000). Matrix of allele frequency distribution is saved as Matlab sparse matrix, (type full(Compl_all_hist) to transform Compl_all_hist into trajectories of allele frequency) in_pres_al – decimal labels of MHC alleles in allele frequency history matrix Compl_all_hist mean_pres_pat – mean proportion of presented pathogens SD_pres_pat – standard deviation for the proportion of presented pathogens
Download Pathogens_on_5x10min3.zip (305.6 Mb)
Download README.docx (14.42 Kb)
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When using this data, please cite the original publication:

Ejsmond MJ, Radwan J, Wilson AB (2014) Sexual selection and the evolution of the Major Histocompatibility Complex. Proceedings of the Royal Society B 281(1796): 20141662. http://dx.doi.org/10.1098/rspb.2014.1662

Additionally, please cite the Dryad data package:

Ejsmond MJ, Radwan J, Wilson AB (2014) Data from: Sexual selection and the evolution of the Major Histocompatibility Complex. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.26k11
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