Elhanan Borenstein, Ph.D.

Dept of Genome Sciences
University of Washington

3720 15th Ave NE
Foege Building, S103B
Box 355065
Seattle, WA 98195-5065

Phone: (206) 685-8165
Fax: (206) 685-7301

NetSeed is a software package for identifying the seed sets of networks (as defined in Borenstein et al., 2008) and is available as an online tool and as a Perl module.
NetCooperate is a software package for determining host-microbe and microbe-microbe cooperative potential and is available as an online tool and as a Python module.
MetaDecon is a computational framework, integrating variation in gene abundances across multiple samples with taxa abundance data to infer taxon-specific gene profiles and to reconstruct the genomic content of community members.
MUSiCC is a software package for normalizing and correcting gene abundance measurements derived from metagenomic shotgun sequencing.
FishTaco is a computational framework for linking taxonomic and functional dynamics observed in metagenomic samples and for identifying taxa that drive disease-associated functional shifts in the microbiome.
CoMiDA is an algorithm for designing simple communities with some predefined metabolic capacities.
MIMOSA is a novel algorithm for mechanistically linking microibome ecology and metabolomic data.
EMPANADA is a tool for evidence-based, non-uniform, and sample-specific assignment of gene families to pathways in metagenomic data.