List of works by David J. Sherman

A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum

scientific article

A community standard format for the representation of protein affinity reagents

scientific article

A genome-scale metabolic model of the lipid-accumulating yeast Yarrowia lipolytica

scientific article

A systematic nomenclature of chromosomal elements for hemiascomycete yeasts

scientific article published in April 2005

Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions

scientific article

Common interchange standards for proteomics data: Public availability of tools and schema

scientific article

Comparative genomics of protoploid Saccharomycetaceae

scientific article

Diversity and variability of NOD-like receptors in fungi

scientific article

Draft Genome Sequence of Rhodosporidium toruloides CECT1137, an Oleaginous Yeast of Biotechnological Interest

scientific article published on 10 July 2014

Extrapolation of metabolic pathways as an aid to modelling completely sequenced nonSaccharomyces yeasts.

scientific article published on 22 August 2007

Family relationships: should consensus reign?--consensus clustering for protein families

scientific article published in January 2007

Fusion and fission of genes define a metric between fungal genomes

scientific article published in October 2008

Genome Sequence of Lactobacillus saerimneri 30a (Formerly Lactobacillus sp. Strain 30a), a Reference Lactic Acid Bacterium Strain Producing Biogenic Amines

scientific article published on January 2013

Genome Sequence of the Yeast Clavispora lusitaniae Type Strain CBS 6936.

scientific article

Genome evolution in yeasts

scientific article

Génolevures: protein families and synteny among complete hemiascomycetous yeast proteomes and genomes

scientific article

How to decide which are the most pertinent overly-represented features during gene set enrichment analysis

scientific article

Implementing biological hybrid systems: Allowing composition and avoiding stiffness

article

IntAct: an open source molecular interaction database

scientific article

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

scientific article published in Nature Communications

Knowledge-based generalization of metabolic models

scientific article published on 25 April 2014

Knowledge-based generalization of metabolic networks: a practical study

scientific article published on 6 March 2014

Many interspecific chromosomal introgressions are highly prevalent in Holarctic Saccharomyces uvarum strains found in human-related fermentations.

scientific article published on 05 August 2017

Mimoza: web-based semantic zooming and navigation in metabolic networks

scientific article published on 26 February 2015

Minimum information about a protein affinity reagent (MIAPAR)

scientific article published on 01 July 2010

Minimum information requirements: Neither bandits in the Attic nor bats in the belfry

Mining the semantics of genome super-blocks to infer ancestral architectures

scientific article published on September 2009

Modeling acclimatization by hybrid systems: Condition changes alter biological system behavior models

scholarly article by Rodrigo Assar et al published July 2014 in BioSystems

New strategy for the representation and the integration of biomolecular knowledge at a cellular scale

scientific article published on 07 July 2004

Novel Transporters from Hemiascomycete Yeasts

article published in 2003

Optimization of equational programs using partial evaluation

article

Pantograph: A template-based method for genome-scale metabolic model reconstruction

scientific article published on 08 January 2015

Phylogenomic Analysis of Oenococcus oeni Reveals Specific Domestication of Strains to Cider and Wines

scientific article

Pichia sorbitophila, an Interspecies Yeast Hybrid, Reveals Early Steps of Genome Resolution After Polyploidization

scientific article published on February 2012

ProViz: protein interaction visualization and exploration

scientific article published on 03 September 2004

ProteomeBinders: planning a European resource of affinity reagents for analysis of the human proteome

article

QTL dissection of Lag phase in wine fermentation reveals a new translocation responsible for Saccharomyces cerevisiae adaptation to sulfite

scientific article published on 28 January 2014

Reconciling Competing Models: A Case Study of Wine Fermentation Kinetics

article by Rodrigo Assar et al published 2012 in Lecture Notes in Computer Science

Reusing and composing models of cell fate regulation of human bone precursor cells

Squeezing intermediate construction in equational programs

Swarming along the evolutionary branches sheds light on genome rearrangement scenarios

The Génolevures database

scientific article published on 30 June 2011

The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data

scientific article (publication date: February 2004)

The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest

scientific article

Unusual composition of a yeast chromosome arm is associated with its delayed replication

scientific article published on 10 July 2009

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