2026-10-11T11:30:27Z https://api.figshare.com/v2/oai

oai:figshare.com:article/33857336 2026-09-16T15:06:08Z category_4 category_146 category_8 category_13 category_14 category_39 category_46 category_734 category_931 category_62 portal_63 item_type_3 month_year_09_2026

MetaproDB: A Flexible and Reproducible Framework for Biome-Informed Protein Sequence Database Construction for Metaproteomics Muzaffer Arıkan (24072355) Biochemistry Space Science Microbiology Genetics Molecular Biology Ecology Immunology Biological Sciences not elsewhere classified Information Systems not elsewhere classified Marine Biology three case studies provided microbiome profiles provenance tracking within https :// github genome resource linkage curated reference panel protein sequence databases protein sequence assembly informed database design informed protein database generation database construction sequence deduplication variable steps unified workflow specific construction reproducible framework representative biomes practical framework plan generation metaproteomic workflows completeness assessment Metaproteomic analyses commonly rely on protein sequence databases, yet database construction remains one of the most variable steps in metaproteomic workflows. Here, I present MetaproDB, a flexible and reproducible framework for biome-informed protein-sequence-database construction in metaproteomics. MetaproDB integrates ecological taxon selection, build-plan generation, genome resource linkage, protein sequence assembly, exact-sequence deduplication, completeness assessment, and provenance tracking within a unified workflow. It supports both database generation from a curated reference panel of representative biomes and cohort-specific construction from user-provided microbiome profiles. I demonstrate the functionality of MetaproDB through three case studies that compare different database construction strategies. MetaproDB provides a practical framework for explicit and reproducible biome-informed database design in metaproteomics and is available at [https://github.com/arikanlab/MetaproDB]. 2026-09-16T00:00:00Z Dataset Dataset 10.1021/acs.jproteome.6c00326.s002 https://figshare.com/articles/dataset/MetaproDB_A_Flexible_and_Reproducible_Framework_for_Biome-Informed_Protein_Sequence_Database_Construction_for_Metaproteomics/33857336 CC BY-NC 4.0