Evolutionary alignment and derived data for TMD-proximal synonymous conservation analysis
Abstract
This dataset contains the frozen comparative-alignment inputs and author-generated derived data used to support the evolutionary component of the study “Evolutionary-functional tests constrain links between TMD-proximal synonymous architecture and cotranslational membrane-protein handling.” The archive includes the exact scoring-panel alignment snapshot used in the final evolutionary analysis, comprising 21,126 human–target aligned protein pairs across 1,921 retained human genes. Comparative alignments were retrieved under the frozen Ensembl release 116 / REST API 15.12 workflow. Individual cached responses did not contain per-response release identifiers; the release assignment is supported by the retained retrieval provenance. Ensembl Helpdesk confirmed that redistribution in this reproducibility archive is acceptable (ticket #889724), with appropriate version information and attribution. The archive also contains provenance records, manifests, retained/excluded adjudication records, and author-generated derived tables. Alignment strings for 168 excluded candidates are not redistributed. CDS sequence content and third-party workbook-derived enrichment values are not included. The related software and reproducibility package is archived separately at DOI: 10.5281/zenodo.22705327.
