Ahmed Hassan, Non Davies
Expert Insight Into the Use of eHealth Interventions to Aid Medication Adherence During COVID-19
Patient preference and adherence
clinical metaproteomics potential offer insights hostmicrobiome interactions underlying diseases however field faces challenges characterizing microbial proteins found clinical samples usually present low abundance relative host proteins solution developed integrated workflow coupling mass spectrometrybased analysis customized bioinformatic identification quantification prioritization microbial proteins enabling targeted assay development investigate hostmicrobe dynamics disease bioinformatics tools implemented galaxy ecosystem offering development dissemination complex bioinformatic workflows modular workflow integrates metanovo generate reduced protein database searchguipeptideshaker maxquant generate peptidespectral matches psms quantification pepquery2 verify quality psms unipept taxonomic functional annotation msstatstmt statistical analysis utilized workflow diverse clinical samples characterization nasopharyngeal swab samples bronchoalveolar lavage fluid demonstrate effectiveness via analysis residual fluid cervical swabs complete workflow including training data documentation available via galaxy training network empowering nonexpert researchers utilize powerful tools clinical studies clinical metaproteomics immense potential offer functional insights microbiome contributions human disease however numerous challenges metaproteomic analysis clinical samples including handling large protein sequence databases sensitive accurate peptide protein identification mass spectrometry data well taxonomic functional annotation quantified peptides proteins enable interpretation results address challenges developed novel clinical metaproteomics workflow provides customized bioinformatic identification verification quantification taxonomic functional annotation bioinformatic workflow implemented galaxy ecosystem used characterize diverse clinical sample types nasopharyngeal swabs bronchoalveolar lavage fluid demonstrate effectiveness availability use research community via analysis residual fluid cervical swabs