Publications

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

TBtools: An Integrative Toolkit Developed for Interactive Analyses of Big Biological Data

Integrated analysis of multimodal single-cell data

ezSingleCell is an interactive and easy-to-use application for the analysis of multiple single-cell and spatial omics data types for biologists. It combines the best-performing ...

Mapping and quantifying mammalian transcriptomes by RNA-Seq

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

Abstract IQ-TREE (http://www.iqtree.org, last accessed February 6, 2020) is a user-friendly and widely used software package for phylogenetic inference using maximum likelihood....

Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

Integrating single-cell transcriptomic data across different conditions, technologies, and species

The Sequence of the Human Genome

A 2.91-billion base pair (bp) consensus sequence of the euchromatic portion of the human genome was generated by the whole-genome shotgun sequencing method. The 14.8-billion bp ...

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Gene Expression Omnibus: NCBI gene expression and hybridization array data repository

The Gene Expression Omnibus (GEO) project was initiated in response to the growing demand for a public repository for high-throughput gene expression data. GEO provides a flexib...

A method and server for predicting damaging missense mutations

Twelve years of SAMtools and BCFtools

Abstract Background SAMtools and BCFtools are widely used programs for processing and analysing high-throughput sequencing data. They include tools for file format conversion an...