D. Lin

Genomic and single-cell characterization of patient-derived tumor organoid models of head and neck squamous cell carcinoma

This study establishes patient-derived tumor organoids (PDOs) from 31 HNSCC patients, faithfully recapitulating tumor characteristics and predicting cisplatin responses, revealing hEMT-driven resistance and AREG as a therapeutic target.

Hierarchical global and local auxin signals coordinate cellular interdigitation in Arabidopsis

The paper shows auxin signaling coordinates cell shape in Arabidopsis through global and local pathways involving TIR1/AFB and TMK.

Deciphering the Transcription Factor Landscape in Neuroendocrine Prostate Cancer Progression: A Novel Approach to Understand NE Transdifferentiation

This study identifies lineage-specific transcription factor profiles in prostate cancer progression, revealing dynamic shifts during NE transdifferentiation and proposing a three-phase model.

A multi-track landscape of haematopoiesis informed by cellular barcoding and agent-based modelling

This study uses cellular barcoding and agent-based modeling to reveal clonal fate patterns in hematopoiesis, showing that stem and progenitor cells are often less multipotent than previously thought.

Gut microbes of the cecum versus the colon drive more severe lethality and multi-organ damage

This study compares the severity of sepsis caused by intestinal perforations in the cecum versus colon, finding that cecum perforations lead to more severe outcomes due to higher bacterial burden and pathogenic microbial abundance.

Association between the oral microbiome and brain resting state connectivity in schizophrenia

This study investigates the association between oral microbiome composition and brain functional connectivity in schizophrenia, finding significant microbiome shifts and correlations with brain network alterations.

Deletion of CD44 promotes adipogenesis by regulating PPARγ and cell cycle-related pathways

This study shows that deleting CD44 in preadipocytes promotes adipogenesis by suppressing PPARγ and cell cycle pathways, suggesting CD44 as a therapeutic target for obesity-related metabolic diseases.

PAI-1 Deficiency Drives Pulmonary Vascular Smooth Muscle Remodeling and Pulmonary Hy-pertension

This study shows PAI-1 deficiency in PASMC promotes pulmonary vascular remodeling and hypertension by enhancing uPA activity, leading to cell proliferation and reduced apoptosis.

The Quest to Identify USP8 Inhibitors for Parkinsons Disease, a PAINful Experience.

The paper identifies PAINS in a USP8 inhibitor screening campaign for Parkinson's disease and discusses interference mechanisms affecting assay reliability.

Epigenomic Analyses Identify FOXM1 As a Key Regulator of Anti-Tumor Immune Response in Esophageal Adenocarcinoma

This study identifies FOXM1 as an epigenetic regulator in EAC that suppresses anti-tumor immune responses by inhibiting CD8+ T cell infiltration and function.

Injectable ventral spinal stimulator evokes programmable and biomimetic hindlimb motion

This paper describes an injectable spinal stimulator that enables precise and programmable hindlimb movement in mice by targeting ventral spinal regions.

Faulty Metabolism: A Potential Instigator of an Aggressive Phenotype in Cdk5-dependent Medullary Thyroid Carcinoma

This study establishes mouse models of Cdk5-driven Medullary Thyroid Carcinoma (MTC) that recapitulate human tumor aggressiveness and identifies metabolic pathway perturbations as critical for aggressive growth.

Stitching flexible electronics into the brain

This paper introduces a flexible probe that can be stitched into multiple brain regions of mice to monitor chronic neuronal activity with high stability and minimal immune response.

Hepatic conversion of acetyl-CoA to acetate plays crucial roles in energy stresses

The paper identifies acetate as a novel energy stress marker produced in the liver via ACOT12/8-mediated conversion of acetyl-CoA from fatty acids, supporting its role in brain fueling and CoA recycling.

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.

Engineered high-density lipoprotein particles that chaperone bioactive lipid mediators to combat endothelial dysfunction and thromboinflammation

This paper constructs engineered HDL-like particles that chaperone bioactive lipids to reduce inflammation and endothelial dysfunction.

Stromal HIF2 Regulates Immune Suppression in the Pancreatic Cancer Microenvironment

This study shows that deleting HIF2 in cancer-associated fibroblasts reduces pancreatic tumor growth and immunosuppression, suggesting HIF2 as a therapeutic target.

T-cell Repertoire Characteristics of Asymptomatic and Re-detectable Positive COVID-19 Patients

The paper analyzes T-cell receptor repertoires in different phases of COVID-19 to identify immune response patterns and predict recurrent infection risk.

Sequencing of clinical samples reveals that adaptation keeps establishing during H7N9 virus infection in humans

This study analyzes H7N9 virus genome mutations in human clinical samples to identify potential adaptations during infection.

Elucidation of tumor-stromal heterogeneity and the ligand-receptor interactome by single cell transcriptomics in real-world pancreatic cancer biopsies

This study uses scRNA-seq on pancreatic cancer biopsies to characterize tumor-stromal heterogeneity and ligand-receptor interactions, showing its utility over patient-derived organoids for precision oncology.

Deep learning approach for automated cancer detection and tumor proportion score estimation of PD-L1 expression in lung adenocarcinoma

This paper develops a deep learning model to detect cancer regions and estimate PD-L1 tumor proportion scores in lung adenocarcinoma IHC slides, showing strong agreement with pathologists' interpretations.

Simple Behavioral Analysis (SimBA): an open source toolkit for computer classification of complex social behaviors in experimental animals

SimBA provides an open-source toolkit for automated classification of rodent social behaviors using machine learning, offering high accuracy and ease of use without requiring specialized hardware or programming knowledge.

Reprogramming the endogenous type III-A CRISPR-Cas system for genome editing, RNA interference and CRISPRi screening in Mycobacterium tuberculosis

This paper reprograms the endogenous CRISPR-Cas10 system in Mycobacterium tuberculosis for efficient gene editing, RNA interference, and genome-wide screening, enabling functional genomics studies and drug/vaccine development.

Convergent evolution of conserved mitochondrial pathways underlies repeated adaptation to extreme environments

This study identifies convergent genetic and physiological adaptations in multiple fish lineages that enable tolerance to hydrogen sulfide, showing that conserved mitochondrial pathways are repeatedly modified for H2S resistance.

Mycobacterium tuberculosis Rv3194c efficiently facilitates mycobacterial-lung epithelial interaction through its HA-binding site

This study identifies Rv3194c as a hyaluronic acid-binding adhesin in Mycobacterium tuberculosis that facilitates lung epithelial interaction, with its binding site P91-110 serving as a potential therapeutic target.

X-ray Structure of Main Protease of the Novel Coronavirus SARS-CoV-2 Enables Design of α-Ketoamide Inhibitors

The paper determines the X-ray structure of SARS-CoV-2 main protease and uses it to design alpha-ketoamide inhibitors with improved pharmacokinetic properties.

Alpha-ketoamides as broad-spectrum inhibitors of coronavirus and enterovirus replication

This study identifies alpha-ketoamides as broad-spectrum inhibitors effective against coronavirus and enterovirus proteases, with compounds showing low-micromolar activity in cell cultures.

Improved subspecies identification in clinical Mycobacterium abscessus complex isolates using whole genome sequence

This study improves subspecies identification of Mycobacterium abscessus complex using whole genome sequencing by developing a method based on rpoB, erm(41), and rpls genes, achieving 100% accuracy in public and clinical isolates.

Functional angiogenesis requires microenvironmental cues balancing endothelial cell migration and proliferation

This study investigates how microenvironmental cues balance endothelial cell migration and proliferation to regulate angiogenesis and microvascular function.

Metabolic remodeling by TIGAR overexpression is a therapeutic target in esophageal squamous-cell carcinoma

This study identifies TIGAR as a driver of metabolic remodeling in ESCC, showing that targeting the glutamine pathway improves therapeutic outcomes in TIGAR-overexpressed tumors.