Changqing Wang

seqsizzle is a tool for visualizing and troubleshooting long-read sequencing data, enabling primer sequence identification and quality control through fuzzy matching and k-mer analysis.

SpatialBench evaluates spatial transcriptomics platforms using a mouse spleen model, finding consistent biological signals but varying resolution across technologies.

FLAMESv2 is a flexible R/Bioconductor package for analyzing long-read single-cell RNA-seq data, demonstrating field-leading performance in isoform analysis and cell-type identification.

LongBench benchmarks long-read RNA-sequencing technologies using a cross-platform dataset of cancer cell lines, showing high gene-level concordance but reduced transcript-level consistency across platforms.

stPipe provides a flexible R/Bioconductor pipeline for preprocessing spatial transcriptomics data from multiple platforms, enabling standardized analysis and benchmarking.

TIRE-seq streamlines RNA-seq workflows by integrating mRNA purification into library preparation, improving efficiency and data quality in perturbation studies.

Benchmarking six long-read RNA-seq protocol-platform combinations and 14 tools across human, mouse, and manatee shows read length and accuracy drive isoform detection, depth drives quantification.

The paper benchmarks spatial transcriptomics technologies using a multi-sample dataset from mouse spleen tissue, finding improved data quality with probe-based capture methods and CytAssist.

Flexiplex is a versatile sequence searching and demultiplexing tool for omics data that balances accuracy and efficiency, demonstrated on single cell RNA-seq and genotyping tasks.

The paper introduces scRaCH-seq, a method for single-cell long-read sequencing that improves detection of isoform usage and mutations in targeted genes, demonstrating its application in CLL samples.