Publications

Fast and sensitive protein alignment using DIAMOND

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 ...

<i>Ab initio</i> effective core potentials for molecular calculations. Potentials for the transition metal atoms Sc to Hg

Ab initio effective core potentials (ECP’s) have been generated to replace the Coulomb, exchange, and core-orthogonality effects of the chemically inert core electron in the tra...

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...

Obesity: preventing and managing the global epidemic. Report of a WHO consultation.

Overweight and obesity represent a rapidly growing threat to the health of populations in an increasing number of countries. Indeed they are now so common that they are replacin...

A method and server for predicting damaging missense mutations

Robust enumeration of cell subsets from tissue expression profiles

We introduce CIBERSORT, a method for characterizing cell composition of complex tissues from their gene expression profiles. When applied to enumeration of hematopoietic subsets...

On a Test of Whether one of Two Random Variables is Stochastically Larger than the Other

Let $x$ and $y$ be two random variables with continuous cumulative distribution functions $f$ and $g$. A statistic $U$ depending on the relative ranks of the $x$'s and $y$'s is ...

Ten lectures on wavelets Contains lectures delivered at the CBMS conference organized in June 1990 by the Mathematics Dept. at the University of Lowell, Mass

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...

InterViews: An introduction to qualitative research interviewing.

PART ONE: INTRODUCTION Interviewing as Research PART TWO: CONCEPTUALIZING THE RESEARCH INTERVIEW The Interview as a Conversation Postmodern Thought, Hermeneutics, Phenomenology,...

Trim and Fill: A Simple Funnel‐Plot–Based Method of Testing and Adjusting for Publication Bias in Meta‐Analysis

Summary. We study recently developed nonparametric methods for estimating the number of missing studies that might exist in a meta‐analysis and the effect that these studies mig...