Yuanting Zheng

This study identifies Neanderthal-derived adaptive variation in Tibetans, showing functional convergence in immune and metabolic pathways, beyond the well-known EPAS1 locus.

The paper introduces Plasmix, a plasma reference suite, to improve cross-platform proteomics integration by identifying proteins with consistent titration responses across platforms.

The paper presents a telomere-to-telomere diploid reference genome for the Chinese Quartet, improving centromere structure annotation and enabling population-specific structural variant analysis.

This paper develops a ratio-based framework using Quartet reference materials to integrate long- and short-read RNA-seq data, showing hybrid-seq achieves the highest quantification accuracy.

The paper introduces POI, a tool that integrates genomic and transcriptomic data to suggest personalized therapies by matching patients to treatments using PreMedKB and predictive algorithms.

This study benchmarks RNA-seq methods across 45 labs to identify sources of variation in detecting subtle differential expression, highlighting experimental and bioinformatics factors affecting reliability.

This study generates haplotype-resolved assemblies and a variant benchmark for a Chinese monozygotic twin quartet using advanced sequencing and computational methods.

This paper introduces Quartet DNA reference materials to comprehensively evaluate germline variant calling accuracy across the genome, including difficult regions and batch effects.

The Quartet Data Portal provides access to multi-omics reference materials and datasets, along with tools for quality control and community integration.

The paper describes EATRIS activities for quality assessment in multi-omics data generation and integration, aiming to support translational medicine through a Multi-Omics Toolbox.

The paper evaluates seven batch-effect correction algorithms for multiomic data and finds the ratio-based method is more effective, especially when batch effects are confounded with biological factors.

The paper develops Quartet, a proteome reference material with built-in truths, to assess label-free proteomics reproducibility across platforms and labs.

The paper uses patient-derived organoids to model metastatic neuroendocrine carcinoma of the cervix and guide personalized treatment based on drug screening.

This study compares transcriptomic profiles of whole blood, plasma-free blood, and serum-free blood samples, finding that plasma-free blood is more similar to whole blood in gene expression and immune characterization.

The paper establishes reference materials and methods to assess inter-laboratory reliability and data integration in metabolomic profiling.

This paper introduces ratio-based multiomics profiling using universal reference materials to improve data integration across omics types and batches.

The paper introduces RNA reference materials and ratio-based datasets to improve the reliability and benchmarking of transcriptomic profiling.

The paper presents whole-genome and whole-exome sequencing datasets from a multi-center, cross-platform study to benchmark NGS technologies and bioinformatics pipelines in cancer genomics.

The paper establishes reference samples with high-coverage whole-genome sequencing to create truth sets for somatic mutation and germline variant detection using NGS technologies.

This study evaluates reproducibility and accuracy of cancer mutation detection using whole-genome and whole-exome sequencing across multiple sequencing centers and bioinformatics pipelines.