Supplement: Long-read sequencing reveals rapid evolution of immunity- and cancer-related genes in bats

This dataset includes supplementary tables and data for the manuscript "Long-read sequencing reveals rapid evolution of immunity- and cancer-related genes in bats". Captions for supplementary tables are included in the file and captions for the supplementary data are listed below.<br><b>Supplementary Data</b><br><b>Data S1.</b> Positive selection analysis of orthogroups in bats (order Chiroptera). All orthogroup clusters generated by Orthofinder are shown, including multicopy orthogroups and lineage-specific orthogroups, but only single-copy orthogroups were analysed for positive selection. Gene annotations are based on biomaRt data for the human protein, or, when not available, the protein of mouse or another mammal. Published p-values for the same genes were extracted based on publicly available data from eight studies. Branch-site likelihood ratio test p-values are shown for aBSREL and PAML M2a tests for the bat lineage as well as for Artibeus jamaicensis (Ajamaicensis) and Pteronotus mesoamericanus (Pmesoericanus). Uncorrected p-values are shown as well as p-values adjusted with FDR for multiple tested branches and for multiple tested branches and genes.<br><b>Data S2.</b> Gene-associated microindels detected in five or more bats from a Cactus multiple alignment of six bats with human, mouse and pig. The bats included in the alignment were D. rotundus, A. jamaicensis, P. mesoamericanus, P. discolor, M. myotis and R. ferrumequinum. Only indels occurring within coding sequences, within 1 kilobase of coding sequence or within the core promotor (based on human core promoters downloaded from https://epd.epfl.ch//index.php) were included. Coordinates are based on the human hg38 assembly and coordinates of aligned sequence from A. jamaicensis and P. mesoamericanus are also provided.<br><b>Data S3. </b>Coding sequences and RAxML phylogenies for the type I interferon, interferon-induced transmembrane and PRDM9 orthogroups.<br><b>Data S4.</b> Unfiltered PRANK alignments of all single-copy orthologs where positive selection was detected on the branch leading to the bat most recent common ancestor.<br>