Publications

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

Transforming Qualitative Information: Thematic Analysis and Code Development

The Search for the Codable Moment A Way of Seeing Developing Themes and Codes Deciding on Units of Analysis and Units of Coding as Issues of Sampling Developing Themes and a Cod...

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 ...

A Global Geometric Framework for Nonlinear Dimensionality Reduction

Scientists working with large volumes of high-dimensional data, such as global climate patterns, stellar spectra, or human gene distributions, regularly confront the problem of ...

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...

Encoder-Decoder with Atrous Separable Convolution for Semantic Image Segmentation

APACHE II

This paper presents the form and validation results of APACHE II, a severity of disease classification system. APACHE II uses a point score based upon initial values of 12 routi...

A method and server for predicting damaging missense mutations