Differential gene flow, reductions in diversity following linked selection and/or features of the genome can structure patterns of genomic differentiation during the process of speciation. Possible sources of reproductive isolation are well studied between coastal and inland subspecies groups of Swainson's thrushes, with differences in seasonal migratory behaviour likely playing a key role in reducing hybrid fitness. We assembled and annotated a draft reference genome for this species and generated whole-genome shotgun sequence data for...

Additional file 3: Table S2. Sequencing details per sample and condition.

Additional file 5: Table S4. Non-HhaI amplicons used for cell selection.

Additional file 8: Table S7 and Table S8. Correlation analysis between target CpGs and gene expression.

Additional file 2: Table S1. Design overview of the panel of targeted regions.

Additional file 1: Supplementary Table 1. Characteristics of Single Nucleotide Polymorphisms (SNPs) associated with longer telomere length. The effect allele refers to the allele that is associated with longer telomere length. Chromosomal position of the SNPs (genome assembly GRCh37 (hg19)) according to the public archive for genetic variation within and across different species developed and hosted by the National Center for Biotechnology Information (NCBI) in collaboration with the National Human Genome Research Institute (NHGRI) (dbSNP).

Additional file 2: Supplementary Table 1. Linear regression estimates for cognition outcomes in the entire sample. All models are adjusted for covariates: age, sex, education, and APOE status. Supplementary Table 2. Linear regression estimates for neuroimaging outcomes (i.e., Alzheimer’s disease and aging signatures) outcome in the entire sample. All models are adjusted for covariates: age, sex, education, and APOE status. Supplementary Table 3. Linear regression estimates for CSF biomarkers outcomes in the entire sample. All...

Additional file 2: Supplementary Table 1. Linear regression estimates for cognition outcomes in the entire sample. All models are adjusted for covariates: age, sex, education, and APOE status. Supplementary Table 2. Linear regression estimates for neuroimaging outcomes (i.e., Alzheimer’s disease and aging signatures) outcome in the entire sample. All models are adjusted for covariates: age, sex, education, and APOE status. Supplementary Table 3. Linear regression estimates for CSF biomarkers outcomes in the entire sample. All...

Additional file 4: Supplementary Table 1. Results of the effect of genetically predicted longer telomere length on AD endophenotypes in the entire sample. Supplementary Table 2. Results of the effect of genetically predicted longer telomere length on AD endophenotypes among APOE-ɛ4 carriers. Supplementary Table 3. Results of the effect of genetically predicted longer telomere length on AD endophenotypes among APOE-ɛ4 non-carriers. Supplementary Table 4. Results of the effect of genetically predicted longer telomere length on...

This folder contains data for "Eighty million years of rapid evolution of the primate Y chromosome" gene_set.zip contains gene annotation (GFF, CDS, PEP, POS.ADD) for the 30 species used in this study XY_location.zip contains the genomic coordinates for PAR, nonPARX and nonPARY (BED format). Species names are in the 4th column. gametolog_alignment.tar.gz contains gametolog alignment (PHY format) used to calculate pairwise dN/dS. S5.tree.zip contains alignment (FASTA format) and constructed phylogeny (NWK format) for each S5...