Publications by authors named "K R Clauser"
Article Synopsis
- The study focuses on T cell alloreactivity against minor histocompatibility antigens (mHAgs), which play a crucial role in the success of allogeneic hematopoietic cell transplantation (allo-HCT) by affecting graft-versus-leukemia (GvL) and graft-versus-host disease (GvHD) reactions.
- A new analytic framework was developed to identify mHAgs by integrating data from whole-exome sequencing, organ-specific expression, and proteome analysis from donor-recipient pairs.
- The research found that the overall and organ-specific mHAg load in 220 matched D-R pairs could predict the risk of acute and chronic Gv
A hallmark of high-risk childhood medulloblastoma is the dysregulation of RNA translation. Currently, it is unknown whether medulloblastoma dysregulates the translation of putatively oncogenic non-canonical open reading frames (ORFs). To address this question, we performed ribosome profiling of 32 medulloblastoma tissues and cell lines and observed widespread non-canonical ORF translation.
View Article and Find Full Text PDFTargeted synthetic vaccines have the potential to transform our response to viral outbreaks, yet the design of these vaccines requires a comprehensive knowledge of viral immunogens. Here, we report severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) peptides that are naturally processed and loaded onto human leukocyte antigen-II (HLA-II) complexes in infected cells. We identify over 500 unique viral peptides from canonical proteins as well as from overlapping internal open reading frames.
View Article and Find Full Text PDFUnveiling the complete proteome of viruses is crucial to our understanding of the viral life cycle and interaction with the host. We developed Massively Parallel Ribosome Profiling (MPRP) to experimentally determine open reading frames (ORFs) in 20,170 designed oligonucleotides across 679 human-associated viral genomes. We identified 5,381 ORFs, including 4,208 non-canonical ORFs, and show successful detection of both annotated coding sequences (CDSs) and reported non-canonical ORFs.
View Article and Find Full Text PDFArticle Synopsis
- Post-translational modifications (PTMs) significantly influence cell signaling and physiology in both healthy and cancerous cells, with recent advancements in mass spectrometry allowing for precise analysis of these modifications.* -
- This study utilizes the largest dataset of proteogenomics from 1,110 cancer patients to uncover widespread patterns of protein changes, particularly focusing on acetylation and phosphorylation across 11 cancer types.* -
- Findings show that specific cancer types exhibit unique PTM-related alterations linked to processes like DNA repair, immune response, kinase activity, and histone regulation, suggesting new potential therapeutic targets.*