Koshi Imami

Recording proteome dynamics in the late-stage embryo at hour-timescale, spatial, and single-cell resolution with MEMBRYO

The paper introduces MEMBRYO, a method for continuous SILAC proteomics in live embryos, revealing post-transcriptional regulation during neurogenesis.

Expanding N-terminomics Coverage by Extending N-terminal Peptide Length

This paper introduces two modified CHAMP-N methods to extend N-terminal peptide length, improving N-terminome coverage while maintaining technical reproducibility.

SPIN1 selectively silences evolutionarily young transposable elements through chromatin regulation

This study identifies SPIN1 as a chromatin regulator that selectively represses young transposable elements in mouse embryonic stem cells through histone modification recognition.

Elucidation of the anti-inflammatory mechanism of isoliquiritigenin from Glycyrrhiza uralensis using activity-based protein profiling

This study identifies L-PGDS as a covalent target of isoliquiritigenin, revealing its anti-inflammatory mechanism through suppression of PGD2 production.

Systemic Inflammation Modulates Clearance and drives Extra-Hepatic Distribution of Extracellular Vesicles

This study shows that systemic inflammation significantly prolongs EV plasma half-life and enhances their accumulation in inflamed organs like the liver and spleen.

Seamless workflow of hydroxy acid-modified metal oxide chromatography for rapid and sensitive phosphoproteomics sample preparation

This paper introduces Rapid HAMMOC, a phosphoproteomics workflow that improves sensitivity and reduces sample loss, identifying more phosphosites from low-input samples.

Unraveling anti-inflammatory metabolic signatures of Glycyrrhiza uralensis and isoliquiritigenin through multiomics

This study uses multiomics to analyze the anti-inflammatory effects of Glycyrrhiza uralensis and isoliquiritigenin in macrophages, identifying metabolic and phosphorylation changes associated with inflammation suppression.

Primary Cilium-dependent Humoral Bioactive Factors Acts in a Paracrine Manner to Control Fibroblast Cell Migration

The paper shows primary cilia in fibroblasts release bioactive factors like LPC(14:0) that promote wound healing via paracrine signaling by enhancing ECM remodeling.

SETD2 methyltransferase activity aids gene definition by promoting correct transcription initiation and termination

This study shows SETD2 methyltransferase activity is crucial for correct transcription initiation and termination, with distinct effects on gene classes in RCC.

Storage Protein-Mediated Translation Control Links Juvenile Diet to Longevity in Drosophila

This study shows that larval protein restriction in Drosophila extends adult lifespan by reducing storage proteins, which control translation and are enriched in aromatic amino acids.

Surface display of proximity labeling enzymes on extracellular vesicles for surfaceome and target cell mapping

This paper introduces a method to map EV surfaceomes and target cells using APEX2 proximity labeling on EVs, revealing novel EV-sorting domains.

Prediction of Protein Half-lives from Amino Acid Sequences by Protein Language Models

The paper develops a protein half-life prediction model, PLTNUM, using a protein language model trained on NIH3T3 mouse data, achieving 71% accuracy and identifying key sequence features affecting half-life.

Proteomic analysis to classify extracellular vesicles and plasmodesmata in Arabidopsis cell culture supernatants

The paper identifies and distinguishes extracellular vesicle and plasmodesmata proteins in Arabidopsis cell culture supernatants using proteomic and imaging analyses.

Pathogenic mutations of human phosphorylation sites affect protein-protein interactions

The paper investigates how pathogenic mutations at phosphorylation sites affect protein-protein interactions, showing that such mutations disrupt phosphorylation-dependent motifs and alter cellular functions.

Znf598-mediated Rps10/eS10 ubiquitination contributes to the ribosome ubiquitination dynamics during zebrafish development

The paper investigates ribosome ubiquitination dynamics during zebrafish development, identifying Znf598-mediated ubiquitination of Rps10/eS10 as a key regulatory mechanism.

One thousand samples per day capillary-flow LC/MS/MS for high-speed, high-sensitivity and in-depth proteomics

This paper develops a high-speed LC/MS/MS system achieving 1,000 samples per day with high sensitivity and depth, demonstrating its application in spatial proteomics of mouse brain.

A critical period of translational control during brain development at codon resolution

The paper measures translation dynamics in mouse neocortex neurogenesis, revealing a critical period of translational control that regulates protein expression and neuronal differentiation.

Novel roles of small extracellular vesicles in regulating the quiescence and proliferation of neural stem cells

This study investigates the role of small extracellular vesicles in regulating neural stem cell quiescence and proliferation, finding that exosome inhibition affects cell cycle entry and maintenance of quiescence.

Escherichia coli S2P family intramembrane protease RseP is engaged in the regulated sequential cleavages of FecR in the ferric citrate signaling

This study identifies RseP as an intramembrane protease that cleaves FecR, a regulator of ferric citrate uptake, revealing a novel role in iron homeostasis in E. coli.

The architecture of protein synthesis in the developing neocortex at near-atomic resolution reveals Ebp1-mediated neuronal proteostasis at the 60S tunnel exit

The paper reveals Ebp1's role in neuronal proteostasis by analyzing ribosomal architecture and proteomic changes in the developing mouse neocortex.

Proximity Labeling-assisted Identification of Endogenous Kinase Substrates

This study identifies endogenous kinase substrates using proximity labeling and phosphoproteomics, finding 33 CK2 and 52 PKA substrates and linking mutations to altered phosphorylation.