S. Feng

Single cell transcriptome profiling reveals pathogenesis of Bullous Pemphigoid

This study uses single-cell transcriptomics to identify functional changes in skin and blood cells during Bullous Pemphigoid, revealing key pathways and cell interactions involved in disease progression.

Reversible control of kinase signaling through chemical-induced dephosphorylation

This study uses an ABA-induced proximity system to reversibly control kinase signaling by recruiting phosphatases, revealing how phosphatases regulate oncogenic kinases like BCR::ABL1, BRAF(V600E), and MEK1.

Towards Simulation Optimization: An Examination of the Impact of Scaling on Coalescent and Forward Simulations

This paper examines how scaling affects coalescent and forward simulations in human and Drosophila populations, finding that scaling impacts diversity estimates, runtime, and selection effects differently in each species.

Comprehensive Multi-Omic Analysis Reveals Distinct Molecular Features in Early and Advanced Stages of Hepatocellular Carcinoma

This study uses multi-omic analyses to identify molecular features and biomarkers in early and advanced hepatocellular carcinoma stages.

MBD2 couples DNA methylation to Transposable Elements silencing during male gametogenesis.

This study identifies MBD2 as a methyl reader that silences transposable elements during male gametogenesis by acting downstream of DNA methylation.

Glucocorticoid receptor activation reprograms NK cells to drive AREG-mediated immunosuppression in skin cancer

This study identifies glucocorticoid receptor activation in NK cells as a mechanism driving AREG-mediated immunosuppression in skin cancer, with therapeutic implications.

Ser149 is another potential 14-3-3 epsilon binding site of Cdc25B in the G2/M transition of mouse fertilized eggs

This study identifies Ser149 as a 14-3-3 epsilon binding site on Cdc25B, showing its role in regulating G2/M transition in mouse fertilized eggs through phosphorylation and subcellular localization.

Genomic Diversity Illuminates the Environmental Adaptation of Drosophila suzukii

This study uses whole-genome sequencing to analyze genomic diversity and environmental adaptation of Drosophila suzukii across 29 populations, identifying genetic signals linked to environmental factors.

Click-Based Determination of Accumulation of Molecules in Escherichia coli

The paper develops CHAMP, a method to measure cytosolic accumulation of azide-tagged molecules in Gram-negative bacteria, enabling high-throughput screening of over 1,000 compounds.

A mutation-mediated host shift drives Avian paramyxovirus type 1 evolution

This study identifies mutations in the P protein of Avian paramyxovirus type 1 that drive host shift from chickens to pigeons through enhanced degradation of LSm14A.

H1 restricts euchromatin-associated methylation pathways from heterochromatic encroachment

This study shows H1 restricts RdDM from encroaching into heterochromatin, maintaining genomic boundaries through chromatin compaction and preventing methylation gains.

Identification of a novel MCR-1 variant displaying low level of co-resistance to β-lactam antibiotics that uncovers a potential novel antimicrobial peptide

The paper identifies a novel MCR-1 variant with low β-lactam co-resistance and shows synthetic peptides from this variant have broad-spectrum antimicrobial activity.

Coronavirus endoribonuclease nsp15 induces host cellular protein synthesis shutoff

This study shows that coronavirus nsp15 inhibits host protein synthesis and targets host mRNA, with EndoU activity essential for these effects and virus replication.

Filament formation drives catalysis by glutaminase enzymes important in cancer progression

This study shows that filament formation by glutaminase enzymes GAC and GLS2 is directly linked to their catalytic activity and presents cryo-EM structures revealing the conformational changes essential for glutaminolysis in cancer.

Arabidopsis TRB proteins function in H3K4me3 demethylation by recruiting JMJ14

This study shows TRB proteins recruit JMJ14 to demethylate H3K4me3 and coordinate with PRC2 to repress target genes.

The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation.

The paper shows MOM1 recruits RdDM machinery via MORC6 to establish de novo DNA methylation and maintain chromatin state at RdDM sites.

KARS mediates intra-translational deposition of N6-acetyl-L-lysine in nascent proteins to contribute the acetylome in cells

The paper identifies KARS as mediating intra-translational deposition of N6-acetyl-L-lysine in nascent proteins, contributing to the acetylome in mice.

Decomprolute: A benchmarking platform designed for multiomics-based tumor deconvolution

Decomprolute benchmarks multi-omic tumor deconvolution algorithms using proteogenomic data from CPTAC to improve reproducibility and reusability.

Genetic load and adaptive potential of a recovered avian species that narrowly avoided extinction

The paper examines genetic diversity and adaptive potential in the Seychelles paradise flycatcher, showing reduced genetic diversity and masked deleterious mutations after a population bottleneck.

Autophagy protects against high-dose Mycobacterium tuberculosis infection

This study shows autophagy in myeloid cells protects against high-dose Mycobacterium tuberculosis infection by limiting myeloid-derived suppressor cells and promoting T cell responses, distinct from its role in low-dose infection.

Organelle-specific photoactivation and dual-isotope labeling strategy reveals phosphatidylethanolamine metabolic flux

The paper uses photoactivation and dual-isotope labeling to study phosphatidylethanolamine metabolism in living cells, revealing subcellular contributions to phospholipid remodeling.

MORC proteins regulate transcription factor binding by mediating chromatin compaction in active chromatin regions

The paper investigates RdDM-independent functions of MORC proteins, showing they compact chromatin and repress gene expression by reducing TF accessibility, especially under stress.

A gene silencing screen uncovers diverse tools for targeted gene repression in Arabidopsis

The paper identifies multiple proteins that can silence genes in Arabidopsis through various epigenetic mechanisms and develops a machine learning model to predict silencing efficacy.

Histone chaperone ASF1 mediates H3.3-H4 deposition in Arabidopsis

This study shows that ASF1 in Arabidopsis preferentially interacts with the HIRA complex for H3.3-H4 deposition, affecting chromatin structure and gene regulation.

Haplotype resolved DNA methylome of African cassava genome

This study presents a haplotype-resolved DNA methylome of the African cassava genome using long-read sequencing and chromosomal conformation capture techniques.

Species-specific traits mediate avian demographic responses under past climate change

The paper reconstructs demographic histories of 263 bird species using whole-genome sequences and identifies trait networks influencing population size changes in response to climate warming and cooling.

The fitness landscape of the mobilized colistin resistance gene mcr-1

The paper generates and analyzes an mcr-1 mutant library to assess the impact of mutations on colistin resistance, finding that most mutations in the catalytic domain reduce resistance.

Mutations in DNA polymerase δ subunit 1 mediate CMD2-type resistance to Cassava Mosaic Geminiviruses

The paper identifies a nonsynonymous SNP in MePOLD1 as the causal mutation for CMD2-type resistance to Cassava Mosaic Geminiviruses, validated through virus-induced gene silencing and allele analysis.

Development of a ferritin-based nanoparticle vaccine against the SARS-CoV-2 Omicron variant

This paper develops a ferritin-based nanoparticle vaccine targeting the SARS-CoV-2 Omicron variant, showing enhanced immunogenicity compared to a non-nanoparticle version.

Physiologically Based Multiphysics Pharmacokinetic Model for Determining the Temporal Biodistribution of Targeted Nanoparticles

This paper develops and validates physics-based multiscale PBPK models for NP biodistribution, showing model B better matches experimental data and demonstrating neural networks can solve ODE systems with quasi-steady-state approximation.