University of California, San Diego

Self-Consistent Equations Including Exchange and Correlation Effects

From a theory of Hohenberg and Kohn, approximation methods for treating an inhomogeneous system of interacting electrons are developed. These methods are exact for systems of sl...

Co-Integration and Error Correction: Representation, Estimation, and Testing

The relationship between co-integration and error correction models, first suggested in Granger (1981), is here extended and used to develop estimation procedures, tests, and em...

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

The lion's share of bacteria in various environments cannot be cloned in the laboratory and thus cannot be sequenced using existing technologies. A major goal of single-cell gen...

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

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

A critical component in the interpretation of systems-level studies is the inference of enriched biological pathways and protein complexes contained within OMICs datasets. Succe...

Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function

ABSTRACT: A novel and robust automated docking method that predicts the bound conformations of flexible ligands to macromolecular targets has been developed and tested, in combi...

Finding Structure in Time

Time underlies many interesting human behaviors. Thus, the question of how to represent time in connectionist models is very important. One approach is to represent time implici...

Immunity, Inflammation, and Cancer

Design and validation of a histological scoring system for nonalcoholic fatty liver disease†

Nonalcoholic fatty liver disease (NAFLD) is characterized by hepatic steatosis in the absence of a history of significant alcohol use or other known liver disease. Nonalcoholic ...

QUAST: quality assessment tool for genome assemblies

Abstract Summary: Limitations of genome sequencing techniques have led to dozens of assembly algorithms, none of which is perfect. A number of methods for comparing assemblers h...