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prot_papers @protpapers.bsky.social · 01/10/2026

Beyond HCD: complementary fragmentation chemistries expand HLA class I immunopeptidome discovery www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 30/09/2026

Immunopeptidomics reveals conserved and abundant Francisella tularensis proteins as immunogenic CD4 T cell antigens in mice pubmed.ncbi.nlm.nih.gov/42809615

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prot_papers @protpapers.bsky.social · 28/09/2026

Integrated immunopeptidomics and transcriptomics reveal a cancer-restricted non-canonical HLA class I ligandome in medulloblastoma www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 27/09/2026

Mutanome-guided immunopeptidomics of blood plasma for neoepitope detection in solid tumors is constrained by cfDNA variant calling sensitivity and MS detection limits www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 26/09/2026

Allele-Skewed HLA-DR Immunopeptidomes of Bordetella pertussis pubmed.ncbi.nlm.nih.gov/42797554

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prot_papers @protpapers.bsky.social · 24/09/2026

Structure of PCPE-2 in complex with the BMP-1 metalloprotease reveals the molecular basis of its mechanism of inhibition www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 23/09/2026

Linking HLA class II susceptibility to HSPC transcriptomics and antigen presentation in aplastic anemia pubmed.ncbi.nlm.nih.gov/42774213

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prot_papers @protpapers.bsky.social · 22/09/2026

How conformational dynamics shape hydrogen-deuterium exchange isotopic envelopes pubmed.ncbi.nlm.nih.gov/42770763

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prot_papers @protpapers.bsky.social · 21/09/2026

Beyond the Generic Tumor: Engineering Patient-Specific Immune Ecosystems for Cancer pubmed.ncbi.nlm.nih.gov/42764098

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prot_papers @protpapers.bsky.social · 20/09/2026

Structural Basis for Activation of HRI by the DELE1 C-terminal domain www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 20/09/2026

A Practical Workflow for Reliable MALDI-Based Hydrogen/Deuterium Exchange Mass Spectrometry pubmed.ncbi.nlm.nih.gov/42761390

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prot_papers @protpapers.bsky.social · 19/09/2026

Ara h 2 and FcϵRIα binding elicit state-dependent allostery in IgE www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 19/09/2026

Cancers modulate processing and presentation of p53 neoantigens to evade T cell detection pubmed.ncbi.nlm.nih.gov/42753739

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prot_papers @protpapers.bsky.social · 18/09/2026

Structural Characterization of Calcium-Dependent Calmodulin-Calmidazolium Binding Using Capillary Vibrating Sharp-Edge Spray Ionization-Based Native Mass Spectrometry and In-Droplet Hydrogen-Deuterium Exchange Mass Spectrometry pubmed.ncbi.nlm.nih.gov/42757150

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prot_papers @protpapers.bsky.social · 18/09/2026

Immunopeptidomics-driven MHC class II peptide-binding motif discovery for 2 common canine DR alleles pubmed.ncbi.nlm.nih.gov/42752862

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prot_papers @protpapers.bsky.social · 17/09/2026

Oncogenic fusions induce an extensive cancer-restricted cryptic proteome in Ewing sarcoma www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 16/09/2026

Immunopeptidomics-guided cancer vaccine design: Advances, challenges, and emerging opportunities pubmed.ncbi.nlm.nih.gov/42743775

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prot_papers @protpapers.bsky.social · 15/09/2026

Therapeutic cancer vaccines: development, challenges, and future perspectives pubmed.ncbi.nlm.nih.gov/42736453

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prot_papers @protpapers.bsky.social · 15/09/2026

Impact of the functional ERAP2 rs2248374 polymorphism on the HLA class I immunopeptidome in primary human epidermal keratinocytes pubmed.ncbi.nlm.nih.gov/42735508

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prot_papers @protpapers.bsky.social · 12/09/2026

HDX-MS-Guided computational modeling for rapid and accurate antibody-antigen interface mapping pubmed.ncbi.nlm.nih.gov/42725674

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prot_papers @protpapers.bsky.social · 11/09/2026

A peptidomimetic inhibitor blocks Vibrio cholerae adhesin FrhA. www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 08/09/2026

Discovery of CD4+ T cell-recognized B. pertussis antigens that reduce airway colonization pubmed.ncbi.nlm.nih.gov/42708360

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prot_papers @protpapers.bsky.social · 08/09/2026

Understanding HLA risk in immune-mediated inflammatory diseases requires antigen discovery pubmed.ncbi.nlm.nih.gov/42705941

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prot_papers @protpapers.bsky.social · 07/09/2026

ExchangeXplorer: an R/Shiny application for processing and visualization of LC-HDX-MS data in metabolomics, lipidomics, and exposomics pubmed.ncbi.nlm.nih.gov/42702477

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prot_papers @protpapers.bsky.social · 05/09/2026

Immunopeptidomics in gliomas: Decoding antigen presentation for precision immunotherapy pubmed.ncbi.nlm.nih.gov/42697339

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prot_papers @protpapers.bsky.social · 05/09/2026

Mass Spectrometry-Based Profiling of Personalized Immunopeptidomes in Thai Renal Cell Carcinoma pubmed.ncbi.nlm.nih.gov/42695889

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prot_papers @protpapers.bsky.social · 03/09/2026

HLA-II peptide-binding diversity shapes humoral immune responses and susceptibility to infections pubmed.ncbi.nlm.nih.gov/42686785

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prot_papers @protpapers.bsky.social · 02/09/2026

Cryo-EM Structure of a Triazole alpha-Conotoxin GI Mimetic Bound to the Muscle-Type Nicotinic Acetylcholine Receptor www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 02/09/2026

Normal-immunopeptidome denominator: a safety atlas for immunotherapies targeting non-canonical and aberrantly expressed tumor antigens pubmed.ncbi.nlm.nih.gov/42680204

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prot_papers @protpapers.bsky.social · 01/09/2026

Mapping Light-Induced Conformational Dynamics of Pigeon Cryptochrome 4 by HDX-MS: Structural Transitions from Spin Pair Formation to Activated Conformational States www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 30/08/2026

Systematic Workflow Optimization for Ultra-sensitive Targeted Immunopeptidomics pubmed.ncbi.nlm.nih.gov/42551630

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prot_papers @protpapers.bsky.social · 29/08/2026

LemonCatcher Acidic Pull-Down Enables Selective In-Cell Hydrogen-Deuterium Exchange Mass Spectrometry www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 29/08/2026

Fusion-derived phospho-neoepitopes define a prioritized candidate neoantigen repertoire in MASLD-HCC www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 28/08/2026

Phosphorylation shapes antigen presentation and immune recognition: mechanistic insights and translational perspectives pubmed.ncbi.nlm.nih.gov/42657027

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prot_papers @protpapers.bsky.social · 27/08/2026

Skewed MHC Class I Peptide Presentation in Psoriatic Arthritis pubmed.ncbi.nlm.nih.gov/42653321

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prot_papers @protpapers.bsky.social · 24/08/2026

Micropeptides encoded by lncRNAs associated with cancer progression reveal novel immunogenic epitopes pubmed.ncbi.nlm.nih.gov/42635236

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prot_papers @protpapers.bsky.social · 21/08/2026

Association analysis between HLA evolutionary divergence and CMV serological status in a cohort of 526 adult subjects pubmed.ncbi.nlm.nih.gov/42624171

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prot_papers @protpapers.bsky.social · 19/08/2026

Probing protein-lipid interactions by hydrogen/deuterium exchange-mass spectrometry: advances, challenges and future directions pubmed.ncbi.nlm.nih.gov/42609751

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prot_papers @protpapers.bsky.social · 14/08/2026

HDX-MS Detects Steric Protection and Trimeric Compaction of TNFalpha after It Binds Receptors or Antibodies pubmed.ncbi.nlm.nih.gov/42597968

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prot_papers @protpapers.bsky.social · 14/08/2026

Benchmarking Spectral Library Prediction Platforms for Neuropeptidomics Applications www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 13/08/2026

Molecular Dynamics of PPAR Nuclear Receptors: From Ligand Binding to Transcriptional Regulation pubmed.ncbi.nlm.nih.gov/42587803

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prot_papers @protpapers.bsky.social · 12/08/2026

12-plex DiLeu enables robust quantification of the feeding neuropeptidome www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 11/08/2026

Latent effector T cells mediate immunotherapy responses in the bone marrow microenvironment pubmed.ncbi.nlm.nih.gov/42575099

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prot_papers @protpapers.bsky.social · 11/08/2026

Neoantigen cancer vaccines in the mRNA Era: antigen selection, platform engineering, and clinical translation pubmed.ncbi.nlm.nih.gov/42574874

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prot_papers @protpapers.bsky.social · 08/08/2026

Exploratory spatial peptidomic profiling during incubation of drug seeking following cocaine plus alcohol self-administration in young adult rats www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 05/08/2026

Systematic De-Risking of TCR-Mimic Therapeutics Through Proteome-Wide Off-Target Landscaping and a Generalizable Design Rule Framework www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 05/08/2026

Systematic Workflow Optimization for Ultra-Sensitive Targeted Immunopeptidomics pubmed.ncbi.nlm.nih.gov/42551630

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prot_papers @protpapers.bsky.social · 03/08/2026

Distinct mechanisms of antibody-mediated HCV neutralization revealed by nanobody-guided epitope mapping www.biorxiv.org/content/10.64898/20…

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prot_papers @protpapers.bsky.social · 31/07/2026

Multimodal Imaging Reveals Spatial Host-Pathogen Microenvironments in Escherichia coli Meningoencephalitis www.biorxiv.org/content/10.64898/20…

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