Lynn Yi

Identification of transcriptional signatures for cell types from single-cell RNA-Seq

The paper introduces a method to identify cell types and their transcriptional signatures from single-cell RNA-Seq data by analyzing transcript compatibility counts.

A direct comparison of genome alignment and transcriptome pseudoalignment

The paper compares genome alignment and transcriptome pseudoalignment, finding they produce similar quantifications and are interchangeable for many applications.

Gene-level differential analysis at transcript-level resolution

The paper introduces a method to perform gene-level differential analysis with transcript-level resolution by aggregating transcript-level results and p-value aggregation methods, enhancing sensitivity and enabling application to perturbation analysis.

Zika infection of neural progenitor cells perturbs transcription in neurodevelopmental pathways

The paper analyzes RNA-Seq data from Zika-infected human neural progenitor cells to identify transcriptional changes and isoform divergence in neurodevelopmental pathways.