Stephanie D. Byrum

This paper develops an AI framework to interpret single-cell RNA-seq data from pediatric solid tumors, identifying tumor-specific surface antigen pairs for targeted therapies.

The paper identifies dynamic acetylation changes in yeast during heat shock, showing acetylation regulates protein activity to enhance the heat shock response.

This study evaluates false discovery rate and statistical power in DIA proteomics using technical replicates and spike-in experiments, revealing discrepancies between nominal and true FDR and showing power dependence on fold change and abundance.

JUMPlion improves DIA proteomics by recovering missing ion-level values, enhancing protein quantification accuracy in low-input and single-cell analyses.

This study characterizes the cargo and biological properties of extracellular vesicles from HAdV-E4-infected lung epithelial cells, showing they carry viral proteins, RNAs, and DNA and can initiate infection.

This study shows that GBPs balance iNOS and ARG-1 in myeloid cells to control Leishmania major infection, with GBPChr3 knockout mice showing increased parasite load and disease severity.

This study identifies increased translational activity and immune activation in lymphatic endothelial cells during cutaneous leishmaniasis.

The paper identifies a rare SNP in the HELB gene that disrupts its interaction with RPA and affects age at natural menopause through impaired DNA repair function.

This study shows that host inflammatory responses, not the parasite, drive HIF-α signaling in macrophages during Leishmania major infection, leading to HIF-α-dependent suppression of protein translation in a pro-inflammatory environment.

This study uses optical imaging to identify metabolic markers in treatment-naive NSCLC that predict metastatic recurrence, finding that higher optical redox ratios correlate with poor prognosis.

This study identifies FAM60A as a regulator of RNA splicing, showing it interacts with HDAC1 and spliceosome components, expanding its known role beyond the Sin3/HDAC complex.

This study investigates how melanoma cells respond to methionine restriction by comparing methionine-dependent and -independent cell lines, revealing differences in methylation, transcriptome, and proteome responses.

This study identifies proteomic changes in human sural nerve after transection injury, revealing upregulated and downregulated proteins associated with regeneration and degeneration.

The paper presents a proteogenomic approach to identify resistance-specific alterations in melanoma PDX models treated with MAPK inhibitors using custom curated databases.

The paper quantifies the dynamic heat shock proteome in budding yeast using TMT-MS3, revealing differential protein expression and PTM regulation over time.

The paper uses metaproteomics to analyze cecum contents in CKD rats with and without resistant starch, revealing shifts in gut microbiota and host proteins associated with improved CKD outcomes.