Q. Yang

Benchmarking RNA velocity methods across 17 independent studies

This study benchmarks 14 RNA velocity methods across 17 datasets, finding no single method outperforms all others and highlighting the need for method comparison in analysis.

IDH1 regulates human erythropoiesis by eliciting chromatin state reprogramming

This study shows that IDH1 deficiency causes chromatin state reprogramming in human erythropoiesis by altering H3K79me3 distribution and upregulating SIRT1, leading to impaired erythropoiesis.

Negatively charged α-Synuclein condensate modulates partitioning of molecules

This study shows that negatively charged α-Synuclein condensates influence molecular partitioning based on charge differences, revealing electrostatic effects on phase separation.

Nuclear stiffening in neoplastic cells aggregates T cell exhaustion via pFAK/SP1/IL-6 axis in colorectal cancer

The paper shows that nuclear stiffening in colorectal cancer cells promotes T cell exhaustion through the pFAK/SP1/IL-6 axis, and inhibiting pFAK improves antitumor immunity.

BOOST: a robust ten-fold expansion method on hour-scale

BOOST is a rapid expansion microscopy method that achieves ~10x linear expansion in 90 minutes using microwave-assisted chemistry, improving throughput for various biological specimens.

A vacuolar invertase gene SlVI modulates sugar metabolism and postharvest fruit quality and resistance in tomato

This study investigates the role of the tomato vacuolar invertase gene SlVI in sugar metabolism, fruit quality, and postharvest resistance, finding that its knockout increases sucrose content, firmness, and resistance to Botrytis cinerea.

Hair follicle-resident progenitor cells are a major cellular contributor to heterotopic subcutaneous ossifications in a mouse model of Albright hereditary osteodystrophy

This study identifies hair follicle-resident progenitor cells as a major contributor to heterotopic subcutaneous ossifications in AHO mice and shows SFRP2 upregulation and its role in SCO development.

Glutamate (E299) is a key residue in the evolutionarily divergence of the SAM-dependent methyltransferases DnrK and RdmB in anthracycline biosynthesis

The paper identifies residue E299 as critical for the divergent catalytic functions of DnrK and RdmB in anthracycline biosynthesis, revealing distinct mechanisms for 10-hydroxylation and 4-O-methylation.

Discovery of orally bioavailable SARS-CoV-2 papain-like protease inhibitor as a potential treatment for COVID-19

The paper identifies a potent orally bioavailable SARS-CoV-2 PLpro inhibitor with in vitro and in vivo antiviral activity against SARS-CoV-2 and related coronaviruses.

Brain-wide neuronal circuit connectome of human glioblastoma

This study shows human glioblastoma cells integrate into brain-wide neuronal circuits, exhibit diverse connectivity, and respond to neuromodulatory inputs like acetylcholine, which promotes invasion and survival.

Super Pangenome of Grapevines Empowers Improvement of the Oldest Domesticated Fruit

The paper assembles and annotates haplotype-resolved genomes of grapevines to uncover genetic diversity and disease resistance mechanisms, identifying structural variants linked to downy mildew resistance.

Disconnection Between Microvascular Damage and Neurodegeneration in Early Diabetic Retinopathy

This study identifies early microvascular damage in diabetic retinas before clinical DR diagnosis and finds no spatial correlation between capillary dropout and neural cell loss in the inner nuclear layer.

Postharvest partial dehydration of blueberries enhanced blueberry wine aroma via upregulating phenylalanine metabolism and terpene biosynthesis

This study shows that postharvest partial dehydration of blueberries increases phenylalanine-derived and terpene compounds, enhancing blueberry wine aroma through upregulated metabolic pathways.

Nephrectomy and high-salt diet inducing pulmonary hypertension and kidney damage by increasing Ang II concentration in rats

This study develops a CKD-PH rat model through 5/6 nephrectomy and high-salt diet, showing increased Ang II and RAAS imbalance, ACE2 downregulation, and metabolic changes linked to pulmonary hypertension.

YamOmics: A comprehensive data resource on yam multi-omics

YamOmics compiles and organizes multi-omics data from 41 yam species, providing genomic, transcriptomic, and plastomic data along with variant and expression information for yam research and breeding.

Mitotic waves in frog egg extracts: Transition from phase waves to trigger waves

The paper observes a transition from phase waves to trigger waves in Xenopus egg extracts and shows how these waves coordinate the cell cycle over long distances.

Mutation of OsCDS5 confers broad-spectrum disease resistance in rice

This study shows that mutating OsCDS5 in rice enhances resistance to multiple diseases by increasing ROS production and defense gene expression.

'Drifting' Buchnera genomes track the microevolutionary trajectories of their aphid hosts

The paper analyzes Buchnera genome variation across aphid clones to show genetic drift with host evolution, finding no plant host or geographic associations.

Adaptation of CD4 in gorillas and chimpanzees conveyed resistance to simian immunodeficiency viruses

The paper investigates how CD4 receptor variants in gorillas and chimpanzees confer resistance to SIVs, showing that selective pressure shaped these variants to block viral entry.

Comparing the outputs of intramural and extramural grants funded by National Institutes of Health

This study compares scholarly outputs from intramural and extramural NIH grants, finding extramural grants are more cost-effective for publications and citations, while intramural grants are better for clinical impact.

Paternal genomic resources from the YanHuang cohort suggested a Weakly-Differentiated Multi-source Admixture model for the formation of Hans founding ancestral lineages

The paper analyzes paternal genomic data from the YanHuang cohort to propose a Weakly-Differentiated Multi-source Admixture model for the formation of Han Chinese ancestral lineages.

High clonal diversity and spatial genetic admixture in early prostate cancer and surrounding normal tissue

Metagenomic Analysis Reveals the Transfer of Antibiotic Resistance from Manure-Fertilized Soil to Carrot Microbiome

The paper investigates the transfer of antibiotic resistance genes from manure-fertilized soil to carrot microbiomes, finding that beta-lactamases are transferred via rhizosphere microbes despite limited plasmid-mediated resistance.

A human pluripotent stem cell-based somitogenesis model using microfluidics

This study develops a microfluidic hPSC-based model to control biochemical and biomechanical signals during somitogenesis, revealing their roles in somite formation.

Acute toxicity effects of pesticides on predatory snout mites (family Bdellidae)

This study assesses the acute toxicity of 22 pesticides on the predatory snout mite Odontoscirus lapidaria, revealing taxon-specific responses and highlighting the need for broader species representation in pesticide testing.

ONECUT2 Activates Diverse Resistance Drivers of Androgen Receptor-Independent Heterogeneity in Prostate Cancer

This study identifies ONECUT2 as a master transcription factor that drives resistance in prostate cancer through multiple mechanisms, including activation of neuroendocrine and adenocarcinoma variants, and shows that its inhibition can suppress treatment-resistant lineage plasticity.

Characterization of sinking and suspended microeukaryotic communities in spring Oyashio waters

This study characterizes sinking and suspended microeukaryotic communities in Oyashio waters using 18S rDNA metabarcoding, revealing depth-related differences and functional roles in the biological carbon pump.

Gene expression analysis suggests immunosuppressive roles of endolysosomes in glioblastoma

The paper analyzes gene expression in glioblastomas to show endolysosomes in non-tumor cells and immunosuppressive macrophages contribute to a pro-tumorigenic microenvironment.

Comparative single-nucleus RNA-seq analysis captures shared and distinct responses to beneficial and pathogenic microbes in roots

The paper uses single-nucleus RNA-seq to compare plant root responses to beneficial and pathogenic microbes, identifying triterpene biosynthesis as a novel response to pathogens.

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.