Publications

Benchmarking AlphaSC: A Leap in Single-Cell Data Processing

IC-VAE: A Novel Deep Learning Framework for Interpreting Multiplexed Tissue Imaging Data.

Venice: A New Algorithm for Finding Marker Genes in Single-Cell Transcriptomic Data

An Entropy Approach for Choosing Gene Expression Cutoff

Hera-T: an efficient and accurate approach for quantifying gene abundances from 10X-Chromium data with high rates of non-exonic reads

A revisit of RSEM generative model and its EM algorithm for quantifying transcript abundances

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

Differential responses to lithium in hyperexcitable neurons from patients with bipolar disorder

Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons

Ragout—a reference-assisted assembly tool for bacterial genomes

Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci

Sibelia: a scalable and comprehensive synteny block generation tool for closely related microbial genomes

Paired de bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers

ExSPAnder: a universal repeat resolver for DNA fragment assembly