Ayush Semwal

Tranquillyzer: A Flexible Neural Network Framework for Structural Annotation and Demultiplexing of Long-Read Transcriptomes

Tranquillyzer is a deep learning framework for processing long-read single-cell RNA-seq data, enabling accurate identification of structural elements and demultiplexing despite sequencing errors and library variability.

D4Z4End2End: complete genetic and epigenetic architecture of D4Z4 macrosatellites in FSHD, BAMS and reference cohorts

This paper develops D4Z4End2End, a workflow using long-read sequencing to characterize D4Z4 macrosatellite genetics and methylation in FSHD, BAMS, and reference cohorts, revealing new variants and methylation patterns.

Efficient profiling of total RNA in single cells with STORM-seq

STORM-seq improves single-cell RNA sequencing by enhancing detection of non-coding transcripts and transcript-level complexity, revealing new cell states in human fallopian tube epithelium.