Data from: Geometric morphometrics and paleoproteomics in tandem enlighten the paleodiversity of Pongo

This folder contains the data used for the creation of the phylogenetic trees for the manuscript 'Geometric morphometrics and paleoproteomics in tandem enlighten the paleodiversity of Pongo'. Ancient_Sequences.fa is a fasta file containing all palaeoproteomic sequences reconstructed in the context of the above study. (15 fosil pongo samples) 'Raw_Reference_Dataset' is a folder containing 9 fasta files. Each fasta contains the reference sequences of multiple samples (6 H.sapiens,27 Pongo, 30 Gorilla, 38 Pan, 2 Macaca, 1 Nomascus, 1 Microcebus, 1 Papio ) for one protein. 'Alignments' is a folder containing 9 fasta files with the name of a protein. Each fasta file contains the aligned sequences of the reference dataset and the ancient samples for that protein. Additionally, the fasta file 'CONCATENATED.fa' contains all proteins concatenated, aligned and I/L fixed.本文件夹包含为论文《几何形态测量学与古蛋白质组学联用阐明红毛猩猩属古多样性》（Geometric morphometrics and paleoproteomics in tandem enlighten the paleodiversity of Pongo）构建系统发育树所用的全部数据。Ancient_Sequences.fa为FASTA格式文件，内含本研究中重构的所有古蛋白质组序列，对应15个化石红毛猩猩样本。Raw_Reference_Dataset文件夹包含9个FASTA格式文件，每个文件对应一种蛋白质，内含多物种样本的参考序列：6份智人（Homo sapiens）、27份红毛猩猩属（Pongo）、30份大猩猩属（Gorilla）、38份黑猩猩属（Pan）、2份猕猴属（Macaca）、1份Nomascus属、1份倭狐猴属（Microcebus）、1份狒狒属（Papio）。Alignments文件夹包含9个以蛋白质名称命名的FASTA格式文件，每个文件内含对应蛋白质的参考数据集序列与古样本的比对序列。此外，CONCATENATED.fa为FASTA格式文件，内含所有蛋白质经拼接、比对并完成I/L残基一致性修正后的序列。