E. Chen

3D in-situ characterization reveals the instability-induced auxetic behavior of collagen scaffolds for tissue engineering

This study uses 3D tomography to show collagen scaffolds exhibit auxetic behavior due to instability under compression, which affects their performance in tissue engineering.

Single cell profiling of bone metastasis ecosystems from multiple cancer types reveals convergent and divergent mechanisms of bone colonization.

The paper analyzes bone metastases from six cancer types using single-cell RNA-seq to identify three immune archetypes and their mechanisms of bone colonization.

Unbiased metastatic niche-labeling identifies estrogen receptor-positive macrophages as a barrier of T cell infiltration during bone colonization

CAR Tregs mediate linked suppression and infectious tolerance in islet transplantation

A2-CAR Tregs reduce BDC2.5 T cell engraftment, proliferation, and cytokine production, protecting mice from diabetes and inducing systemic tolerance.

14-3-3 binding motif phosphorylation disrupts Hdac4 organized condensates to stimulate cardiacreprogramming

This study identifies a phosphorylation code in 14-3-3 binding motifs that stimulates induced cardiomyocyte formation by disrupting Hdac4 condensates.

Transient BRD4 degradation improves cardiac reprogramming by inhibiting macrophage/Oncostatin M induced JAK/STAT pathway

This study identifies BRD4 degradation as a method to enhance cardiac reprogramming by inhibiting the JAK/STAT pathway activated by macrophages and oncostatin M.

Environment-Dependent Modes of Adaptive Evolution in Neuroblastoma: Plasticity as a Selectable Trait

This study identifies three modes of plasticity in neuroblastoma that shape tumour evolution under selective pressures and therapy resistance.

Supporting materials: Endothelial cells differentiated from patient dermal fibroblast-derived induced pluripotent stem cells resemble vascular malformations of Port Wine Birthmark

This study generates iPSCs from PWB fibroblasts and differentiates them into ECs that recapitulate disease phenotypes, identifying dysregulated pathways and genes involved in vascular malformations.

Pharmacological inhibition of CLK2 activates YAP by promoting alternative splicing of AMOTL2

The paper identifies SM04690, a CLK2 inhibitor, as a YAP activator by promoting alternative splicing of AMOTL2, leading to reduced YAP phosphorylation and membrane localization.

Informing Extinction Risk: Summarizing Population Viability through a Meta-analysis of Multiple Long-term Monitoring Programs for a Declining Estuarine Fish Species

This study combines multiple population viability analyses to estimate extinction risk for Longfin Smelt, finding a >20% probability of quasi-extinction over two decades.

PRMT1 is a critical dependency in clear cell renal cell carcinoma through its role in post-transcriptional regulation of DNA damage response genes

High-Dimensional Spectral Cytometry Reveals Therapeutically Relevant Immune Subtypes in Gastric Cancer

This study uses high-dimensional spectral cytometry to identify immune subtypes in gastric cancer, finding that certain subtypes correlate with better responses to immunotherapy.

RNA Sensing and Innate Immunity Constitutes a Barrier for Interspecies Chimerism

This study identifies RNA sensing and innate immunity in host embryos as a barrier to interspecies chimerism and shows that modifying host embryos can enhance human cell survival in chimeric embryos.

Computationally restoring the potency of a clinical antibody against SARS-CoV-2 Omicron subvariants

This paper computationally redesigns an antibody to restore potency against SARS-CoV-2 Omicron subvariants while maintaining efficacy against Delta and other variants.

CHRONO participates in multi-modal repression of circadian transcriptional complexes

This paper identifies CHRONO as a repressor of the circadian clock by modulating interactions between BMAL1 and PER2, revealing its role in fine-tuning circadian rhythmicity.

The coupling between healthspan and lifespan in Caenorhabditis depends on complex interactions between compound intervention and genetic background

This study evaluates how compound interventions and genetic background affect healthspan and lifespan in C. elegans under stress conditions.

Antioxidants green tea extract and nordihydroguaiaretic acid confer species and strain specific lifespan and health effects in Caenorhabditis nematodes

This study evaluates the lifespan and health effects of five compounds in Caenorhabditis nematodes, finding species- and strain-specific responses, assay-dependent outcomes, and uncoupling of lifespan and health effects.

CRISPR-Cas9 mediated nuclear transport and genomic integration of nanostructured genes in human primary cells

This study delivers DNA nanostructures into human primary cells using CRISPR-Cas9, achieving efficient genomic integration with lower toxicity than dsDNA.

Impact of Protein Identity on Tumor-Associated Antigen Uptake into Infiltrating Immune Cells: A Comparison of Different Fluorescent Proteins as Model Antigens

This study compares six fluorescent proteins as model antigens to assess their uptake and distribution in tumor-infiltrating immune cells and draining lymph nodes, finding variability in detection and transport based on fluorophore properties.

Identification of Potent Small Molecule Inhibitors of SARS-CoV-2 Entry

This study identifies small molecule inhibitors of SARS-CoV-2 entry through high-throughput screening and validates Calpeptin as a potent inhibitor of SARS-CoV-2 and some variants.

Oral drug repositioning candidates and synergistic remdesivir combinations for the prophylaxis and treatment of COVID-19

The paper identifies 66 compounds that inhibit SARS-CoV-2 replication and 24 that synergize with remdesivir, suggesting potential oral drug repositioning candidates for COVID-19.

Non-destructive Chemical Imaging of Bone Tissue for Intraoperative and Diagnostic Applications

This study uses multimodal imaging and machine learning to analyze bone tissue, achieving >90% accuracy in distinguishing cancer-related diagnostic categories.

Analysis of immune subtypes across the epithelial-mesenchymal plasticity spectrum

The paper analyzes immune subtypes across the epithelial-mesenchymal plasticity spectrum in cancers, finding heterogeneity in EMT status and associations between immune subtypes and EMT scores.

High-Throughput and High-Dimensional Single Cell Analysis of Antigen-Specific CD8+ T cells

This study introduces TetTCR-SeqHD, a method to profile antigen-specific CD8+ T cells, revealing unique phenotypes and cross-reactive TCRs in type 1 diabetes.

Hidden dynamics of ubiquitin-mediated autoregulation of human 26S proteasome during substrate degradation

The paper uses cryo-EM and deep learning to analyze human 26S proteasome conformers, revealing dynamics of ubiquitin-mediated autoregulation during substrate degradation.

A machine learning approach to optimizing cell-free DNA sequencing panels: with an application to prostate cancer

This paper uses machine learning to design a targeted sequencing panel for detecting tumor variants in cell-free DNA from prostate cancer patients, showing improved performance over existing methods.

Chemical inhibition of ENL/AF9 YEATS domains in acute leukemia

This study identifies a potent inhibitor of the ENL/AF9 YEATS domain and demonstrates its selective suppression of ENL-dependent leukemia genes.

The effects of low-carbohydrate diets on the metabolic response to androgen-deprivation therapy in prostate cancer

This study investigates how low-carbohydrate diets affect metabolic changes in prostate cancer patients undergoing androgen deprivation therapy, finding that the diet reverses some adverse metabolic effects while slightly lowering androgen levels.

Discovery of a Novel Inhibitor of Coronavirus 3CL Protease as a Clinical Candidate for the Potential Treatment of COVID-19

This study identifies PF-00835321 as a potent inhibitor of SARS-CoV-2 3CL protease with in vitro antiviral activity and clinical evaluation potential.

Cell-free DNA as a biomarker for prostate cancer: elevated concentration and decreased fragment size

This study finds that higher plasma cfDNA concentrations and smaller fragment sizes are associated with more advanced prostate cancer.