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Article
Open AccessSimultaneous targeted and discovery-driven clinical proteoty** using hybrid-PRM/DIA
Clinical samples are irreplaceable, and their transformation into searchable and reusable digital biobanks is critical for conducting statistically empowered retrospective and integrative research studies. Cur...
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Article
Open AccessProteogenetic drug response profiling elucidates targetable vulnerabilities of myelofibrosis
Myelofibrosis is a hematopoietic stem cell disorder belonging to the myeloproliferative neoplasms. Myelofibrosis patients frequently carry driver mutations in either JAK2 or Calreticulin (CALR) and have limited t...
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Article
Open AccessEx vivo drug response heterogeneity reveals personalized therapeutic strategies for patients with multiple myeloma
Multiple myeloma (MM) is a plasma cell malignancy defined by complex genetics and extensive patient heterogeneity. Despite a growing arsenal of approved therapies, MM remains incurable and in need of guideline...
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Article
Open AccessIntegrated multi-omics reveals anaplerotic rewiring in methylmalonyl-CoA mutase deficiency
Methylmalonic aciduria (MMA) is an inborn error of metabolism with multiple monogenic causes and a poorly understood pathogenesis, leading to the absence of effective causal treatments. Here we employ multi-la...
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Article
Open AccessUse of MS-GUIDE for identification of protein biomarkers for risk stratification of patients with prostate cancer
Non-invasive liquid biopsies could complement current pathological nomograms for risk stratification of prostate cancer patients. Development and testing of potential liquid biopsy markers is time, resource, a...
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Article
Open AccessMap** specificity, cleavage entropy, allosteric changes and substrates of blood proteases in a high-throughput screen
Proteases are among the largest protein families and critical regulators of biochemical processes like apoptosis and blood coagulation. Knowledge of proteases has been expanded by the development of proteomic ...
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Article
Open AccessStandardization and harmonization of distributed multi-center proteotype analysis supporting precision medicine studies
Cancer has no borders: Generation and analysis of molecular data across multiple centers worldwide is necessary to gain statistically significant clinical insights for the benefit of patients. Here we conceive...
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Article
MassIVE.quant: a community resource of quantitative mass spectrometry–based proteomics datasets
MassIVE.quant is a repository infrastructure and data resource for reproducible quantitative mass spectrometry–based proteomics, which is compatible with all mass spectrometry data acquisition types and comput...
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Article
Open AccessHATRIC-based identification of receptors for orphan ligands
Cellular responses depend on the interactions of extracellular ligands, such as nutrients, growth factors, or drugs, with specific cell-surface receptors. The sensitivity of these interactions to non-physiolog...
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Article
Organization of the amplified type I interferon gene cluster and associated chromosome regions in the interphase nucleus of human osteosarcoma cells
The organization of the amplified type I interferon (IFN) gene cluster and surrounding chromosomal regions was studied in the interphase cell nucleus of the human osteosarcoma cell line MG63. Rather than being...
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Article
Ladder-like amplification of the type I interferon gene cluster in the human osteosarcoma cell line MG63
The organization of the type I interferon (IFN) gene cluster (9p21.3) was studied in a human osteosarcoma cell line (MG63). Array comparative genomic hybridization (aCGH) showed an amplification of ∼6-fold whi...
