R. Aebersold

The paper identifies an 18-protein signature from proteomic data to stratify intermediate-risk prostate cancer patients into low- and high-risk groups for biochemical recurrence.

The paper uses patient-derived organoids and phosphoproteomics to study signaling crosstalk in colorectal cancer and identify off-target effects of kinase inhibitors.

The paper determines the solution structure of a PTBP1-viral IRES complex using integrative modeling, revealing compaction, ordering, and residual flexibility essential for IRES-mediated translation.

The paper identifies two distinct nuclear pore complex remodeling events during budding yeast meiosis, revealing conserved mechanisms of nuclear basket organization.

This paper improves a CLIR-MS workflow for protein-RNA cross-linking, increasing detected products and enabling structural restraint analysis.

This study presents biochemical and structural analysis of the human tRNA ligase complex, revealing its molecular architecture and catalytic mechanism.

This study develops two novel castration-resistant prostate cancer cell lines and characterizes their transcriptomic and proteomic profiles to understand resistance mechanisms.

This paper reports the cryo-EM structure of human PRC2 with cofactors JARID2 and AEBP2 bound to a nucleosome containing H2AK119ub1, revealing their roles in PRC2 activity regulation and histone modification crosstalk.

The paper uses proteomic data to show that paralogues influence protein complex evolution through co-expression patterns and functional divergence.

The paper introduces a high-throughput proteomic method to profile protease activity and substrate specificity in native conditions, achieving high throughput and accuracy.

This study shows that inhibiting both mitochondrial translation and dynamics in C. elegans synergistically extends lifespan through HLH-30-dependent lysosome biogenesis and autophagy.

This paper introduces an accelerated SWATH MS method for protein biomarker discovery in FFPE tissues, showing reduced instrument time and batch effects while maintaining good protein quantification and clinical separation.

This study compares two proteomic methods, 2DLC-MS/MS and SWATH-MS, showing they both identify differentially expressed proteins in HGSOC subtypes but differ in workflow complexity and proteome coverage.

The paper identifies shared targets of Ypk1, PKA, and Sch9 by comparing phospho-proteomes under chemical inhibition, revealing Ypk1's role in phosphorylating and activating Nth1.

The paper generates a comprehensive Arabidopsis proteome atlas and library, then uses DIA-MS to study abscisic acid effects, identifying differentially expressed proteins.

This study develops a proteomic workflow for FFPE tissues to stratify prostate cancer and DLBCL samples, identifying MPO as a prognostic marker and showing FFPE's utility for biomarker discovery.

This study uses SWATH mass spectrometry to classify breast cancer subtypes and identifies key proteins that improve patient stratification for precision medicine.

The paper characterizes the ATG2A-WIPI4 complex's role in autophagosome biogenesis through structural and biochemical analyses.

This study investigates the structure of the Importin4_histone H3/H4_Asf1a complex and identifies key interactions between Importin4 and the histone H3 tail.