Dingyao Zhang

StarTrak infers cellular migration and phylogeny by integrating somatic variants, spatial data, and transcriptomics at single-pixel resolution in spatial genomics.

The paper presents a single-cell atlas of noncoding RNAs during mouse organogenesis, revealing their cell-type-specific and lineage-regulated expression patterns.

This study introduces spatial-GPT, a platform for spatial glycan, protein, and transcriptome profiling in human liver tissues, revealing glyco-codes that define disease states and progression.

The paper shows that sustained cell volume expansion in melanoma primes cells to develop drug tolerance while increasing susceptibility to CD8+ T cell killing.

ASTRO is an automated pipeline for spatial transcriptomics analysis, optimized for FFPE samples and capable of detecting coding and non-coding RNAs.

This study identifies pro-regenerative features in TSP2-deficient fibroblasts through single-cell analysis and functional assays, showing enhanced migration, proliferation, and neurogenesis.

The paper expands the lncRNA catalog using capture long-read RNA sequencing, significantly increasing the number of annotated transcripts in human and mouse genomes.

This paper introduces Patho-DBiT, a method for spatial transcriptomics in FFPE tissues, enabling RNA biology analysis including splicing, variants, and regulatory networks in clinical samples.

This paper introduces VirusSi, a computational pipeline for designing siRNAs against existing and future respiratory viruses, showing pre-design feasibility for SARS-CoV-2 and other viruses.

The paper shows that post-transcriptional regulation, not transcription, mainly drives variation in mature miRNA expression across tissues and cancers.

The paper shows that seedless miRNA binding sites reduce the effectiveness of seed site-mediated target repression in 3' UTRs, affecting miRNA-mediated gene regulation.