{"doi":"10.1101/2020.01.17.910943","title":"Quantitative Method for Assessing the Role of Lysine & Arginine Post-Translational Modifications in Nonalcoholic Steatohepatitis","abstract":"Abstract Proteoforms containing post-translational modifications (PTMs) represent a degree of functional diversity only harnessed through analytically precise simultaneous quantification of multiple PTMs. Here we present a method to accurately differentiate an unmodified peptide from its PTM-containing counterpart through data-independent acquisition-mass spectrometry, leveraging small precursor mass windows to physically separate modified peptidoforms from each other during MS2 acquisition. We utilize a lysine and arginine PTM-enriched peptide assay library and site localization algorithm to simultaneously localize and quantify seven PTMs including mono-, di-, and tri-methylation, acetylation, and succinylation in addition to total protein quantification in a single MS run without the need to enrich experimental samples. To evaluate biological relevance, this method was applied to liver lysate from differentially methylated non-alcoholic steatohepatitis (NASH) mouse models. We report altered methylation and acetylation together with total protein changes drive the novel hypothesis of a regulatory function of PTMs in protein synthesis and mRNA stability in NASH. Graphical Abstract","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2020,"id":130047,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9537,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2020-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":582309,"name":"Aleksandra Binek","orcid":"0000-0001-5764-7137","position":1,"is_corresponding":false},{"id":471724,"name":"Vidya Venkatraman","orcid":"0000-0002-7549-6536","position":2,"is_corresponding":false},{"id":237002,"name":"Brian C. Searle","orcid":"0000-0001-8760-6731","position":3,"is_corresponding":false},{"id":353426,"name":"Ronald J. Holewinski","orcid":"0000-0002-3337-3984","position":4,"is_corresponding":false},{"id":279384,"name":"George Rosenberger","orcid":"0000-0002-1655-6789","position":5,"is_corresponding":false},{"id":419682,"name":"Sarah J. Parker","orcid":"0000-0001-8911-3615","position":6,"is_corresponding":false},{"id":106297,"name":"Nathan Basisty","orcid":"0000-0001-6173-1139","position":7,"is_corresponding":false},{"id":522338,"name":"Xueshu Xie","orcid":"0000-0002-5605-1961","position":8,"is_corresponding":false},{"id":582310,"name":"Peder J. Lund","orcid":"0000-0002-2146-8724","position":9,"is_corresponding":false},{"id":582884,"name":"Gautam Saxena","orcid":null,"position":10,"is_corresponding":false},{"id":260311,"name":"José M. Mato","orcid":"0000-0003-1264-3153","position":11,"is_corresponding":false},{"id":227837,"name":"Benjamin A. García","orcid":"0000-0002-2306-1207","position":12,"is_corresponding":false},{"id":106307,"name":"Birgit Schilling","orcid":"0000-0001-9907-2749","position":13,"is_corresponding":false},{"id":260310,"name":"Shelly C. Lu","orcid":"0000-0003-2128-5407","position":14,"is_corresponding":false},{"id":112291,"name":"Jennifer E. Van Eyk","orcid":"0000-0001-9050-148X","position":15,"is_corresponding":false},{"id":227296,"name":"Aaron Robinson","orcid":"0000-0002-2906-5815","position":0,"is_corresponding":true}],"reference_count":60,"raw_metadata":null,"created_at":"2026-07-18T23:15:53.196774Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}