- In-situ cross-linking mass spectrometry reveals compartment-specific proteasomal interactions and structural heterogeneity https://www.nature.com/articles/s41467-025-65752-6—#proteomics #prot-paper
- Have any #proteomics information analysis systems been developed that try to explain experimental results in terms of transcription factors & E3 ligases rather than metabolic/functional pathways?
- Content warning:Contains proteomics information involving observation of splice variantsHuman ligand dependent nuclear receptor corepressor (LCOR:p) has 2 easily observed splice variants, 433 aa & 1557 aa, in which the 3rd exon gets swapped out for a very different sequence. The shorter one has a homeodomain that isn't in the long one replaced by multiple PUZZLE domains. #proteomics
- News in Proteomics Research blog post | DIA Multiplexed proteomics with off-the-shelf TMTPro reagents! https://proteomicsnews.blogspot.com/2025/11/dia-multiplexed-proteomics-with-off.html—#proteomics #prot-other
- Ring finger protein 187 (RNF187:p) initiates translation at a "CGT" triplet (Leu), rather than the much more commonly used "AGT" (Met). Interestingly (for me) is the fact that the N-terminal L is co-translationally removed & N-acetyl is added to alanine exposed by that operation. #proteomics
- Opt-TMT: An optimized and scaled-down TMT labeling strategy for limited sample https://www.sciencedirect.com/science/article/abs/pii/S1874391925002039?dgcid=rss_sd_all—#proteomics #prot-paper
- Mass spectrometry-based proteomics of FFPE tissues: progress, limitations, and clinical translation barriers https://link.springer.com/article/10.1186/s12014-025-09567-z—#proteomics #prot-paper
- SpecQuality: A Tool for Reliable Spectral Quality Assessment in Proteomics and Proteogenomics https://pubs.acs.org/doi/10.1021/jasms.5c00168—#proteomics #prot-paper
- Propionic acid outperforms formic and acetic acid in MS sensitivity for high-flow reversed-phase LC-MS bottom-up proteomics https://chemrxiv.org/engage/chemrxiv/article-details/69257a21a10c9f5ca1a5b63a—#proteomics #prot-preprint
- Like NCOR1:p, nuclear receptor corepressor 2 (NCOR2:p) has ~5% of its sequence tied up in rigid structure (2× homeobox domains of unknown DNA specificity). The remaining 95% of the protein is chopped up into >10 evolutionarily conserved dynamic PUZZLE domains that do the work here. #proteomics
- CrossPPI: A Cross – Fusion Based Model for Protein – Protein Binding Affinity Prediction. https://www.biorxiv.org/content/10.1101/2025.11.25.690371v1.full.pdf+html—#proteomics #prot-preprint
- A genome-wide association study of mass spectrometry proteomics using a nanoparticle enrichment platform https://www.nature.com/articles/s41588-025-02413-w—#proteomics #prot-paper
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