{"doi":"10.47611/jsrhs.v11i3.2964","title":"Deep Learning for MS2 Feature Detection in Liquid Chromatography Mass Spectrometry","abstract":"Accuracy of peptide identification is crucial for LC-MS analysis to reveal information regarding many different aspects of proteins that aid in the discovery of biomarkers and profiling of complex proteomes. Preprocessing steps such as feature detection are crucial yet challenging; current feature detection tools are not robust enough to detect low-abundance, low-peak fragments of peptides found in MS2 data from tandem mass spectrometry. In this study, we developed a deep learning-based model with an innovative sliding window process that enables high-resolution processing of quantitative MS/MS data to conduct accurate feature detection on MS2 data. Experimental results show that our model is able to produce more accurate values and identifications than existing feature detection tools. Therefore, we believe that our model can realize the full potential of neural networks in the field of bioinformatics and yields long-term benefits in the advancement of proteomic inquiry.","journal":"Journal of Student Research","year":2022,"id":296280,"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":1,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9581,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2022-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":886184,"name":"Olivia Liu","orcid":"0000-0002-4995-4863","position":1,"is_corresponding":false},{"id":982990,"name":"Xuan Guo","orcid":"0000-0002-7969-4257","position":2,"is_corresponding":false},{"id":983667,"name":"Jonathan He","orcid":null,"position":0,"is_corresponding":true}],"reference_count":26,"raw_metadata":null,"created_at":"2026-07-19T00:31:16.555318Z","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":[]}