Robert L. Moritz

Newly identified COPD GWAS protein interactors reveal a potential disease network module

The paper identifies protein interactors of COPD GWAS genes using AP-MS and network analysis, revealing a disease network module involving 8 proteins.

Extending structural surfaceomics to identify aberrant conformations of tumor surface proteins as potential immunotherapy targets

This paper expands structural surfaceomics to identify cancer-specific protein conformations across multiple tumor models, revealing potential immunotherapy targets through crosslinking mass spectrometry and structural modeling.

High-quality peptide evidence for annotating non-canonical open reading frames as human proteins

The paper identifies 25% of 7,264 non-canonical open reading frames (ncORFs) as producing translated gene products, supported by over 3,000 peptides from 3.8 billion mass spectra.

UBR-1 enzyme network regulates glutamate homeostasis to affect organismal behavior and developmental viability

This study identifies UBR-1 as a hub regulating glutamate homeostasis through a signaling axis, affecting locomotion and developmental viability in C. elegans.

An expanded reference catalog of translated open reading frames for biomedical research

The paper expands and refines a reference catalog of human non-canonical open reading frames (ncORFs) by incorporating more datasets and introducing a translation signature score framework to prioritize high-quality ncORFs.

Glycosylation of Plasmodium falciparum TRAP supports sporozoite motility and invasion.

This study shows that glycosylation of PfTRAP's TSR domain is essential for sporozoite motility and invasion, as glyco-null mutants exhibit severe fitness defects.

A community audit of error control in crosslinking mass spectrometry

The paper audits error control in twelve crosslinking mass spectrometry pipelines using ground-truth designs, finding some pipelines exceed false discovery rates by up to 29-fold.

Candida albicans: a comprehensive view of the proteome

The paper provides an updated Candida albicans PeptideAtlas proteomics resource with detailed PTM data and tools for analysis.

Limelight - An open, web-based tool for visualizing, sharing, and analyzing mass spectrometry data from DDA pipelines

Detection of human unannotated microproteins by mass spectrometry-based proteomics: a community assessment

The paper assesses MS-based identifications of unannotated human microproteins, finding large variation in reported proteins and PSM quality across studies.

The major surface protein of malaria sporozoites is GPI-anchored to the plasma membrane

This study confirms that the circumsporozoite protein (CSP) of Plasmodium sporozoites is GPI-anchored using metabolic labeling and mass spectrometry.

A genome-scale atlas reveals complex interplay of transcription and translation in an archaeon

This study integrates omics data to reveal post-transcriptional regulation mechanisms in Halobacterium salinarum NRC-1, showing 54% of genes are regulated by multiple mechanisms and 7% show conditional regulation.

The Crux toolkit for analysis of bottom-up tandem mass spectrometry proteomics data

The paper summarizes recent developments in the Crux toolkit for analyzing bottom-up proteomics data, including speedups, new features, and tools.

A community-driven roadmap to advance research on translated open reading frames detected by Ribo-seq

This paper outlines a community-driven initiative to create a consolidated catalog of human Ribo-seq ORFs, addressing the lack of standardized annotation for these features.

Mouse Organ Specific Proteins and Functions

The paper examines organ-specific proteins in mice across different genetic backgrounds to assess their diversity and define robustness scores for quality assessment.

Non-responder phenotype reveals microbiome-wide antibiotic resistance in the murine gut

The paper identifies a non-responder phenotype in the murine gut microbiome that exhibits resistance to cefoperazone, showing upregulated antimicrobial resistance genes and reduced central metabolism during antibiotic treatment.

Measurement of organ-specific and acute-phase blood protein levels in early Lyme disease

The paper identifies 10 blood proteins with altered serum levels in early Lyme disease patients, developing a 10-protein panel for potential diagnostic use.

Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0

The paper updates the HPP MS Data Interpretation Guidelines to improve accuracy and address new workflows and data standards.

PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline

PTMProphet provides localization confidence for post-translational modifications in proteomics data, improving accuracy for downstream analysis.

Transcriptome and histone epigenome of Plasmodium vivax salivary-gland sporozoites point to tight regulatory control and potential mechanisms for liver-stage differentiation.

This study characterizes the transcriptome and histone epigenome of Plasmodium vivax sporozoites, revealing transcriptional and post-transcriptional control mechanisms and potential pathways for hypnozoite formation.

Cross-linking/Mass Spectrometry: A Community-Wide, Comparative Study Towards Establishing Best Practice Guidelines

This paper summarizes current XL-MS practices, compares strategies, and proposes common protocols to establish best practice guidelines for accurate and reproducible results.

Whole genome sequence and comparative analysis of Borrelia burgdorferi MM1

The paper presents the complete genome sequence of Borrelia burgdorferi MM1 strain, identifies it as a new sequence type, and provides the first contiguous assembly of a specific plasmid.