Maximilian Zwiebel

FastaLake constructs compact metaproteomic databases from sequence resources to improve peptide identification without requiring matched metagenomic sequencing.

The paper quantifies proteins and transcripts in the same cell, finding that the proteome defines stable cell states while the transcriptome reflects transitions.

The paper demonstrates a method to simultaneously measure genome and proteome from the same cells in archival FFPE tissue, applied to melanoma.

The paper introduces QuantSelect, a deep learning method for fragment ion selection in DIA proteomics, improving quantification accuracy and differential expression sensitivity.

nanoPhos improves phosphoproteomics sensitivity and enables cell-type resolved spatial analysis of mouse brain tissue.

This study uses spatial proteomics and machine learning to analyze AATD in human liver tissue, revealing peroxisomal upregulation and a terminal hepatocyte state with distinct proteomic signatures.

The paper develops a high-throughput AP-MS method to map a comprehensive yeast interactome, doubling the number of proteins and tripling reliable interactions.

Namco provides a user-friendly R Shiny application for comprehensive microbiome analysis, covering data processing to complex tasks like machine learning and network analysis.