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List of works by Wynand Alkema

Application of text mining in the biomedical domain

scientific article published on 30 January 2015

Autoantibody profiles in systemic sclerosis; a comparison of diagnostic tests

scientific article published in 2021

BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams

scientific article

Clustering analyses in peptidomics revealed that peptide profiles of infant formulae are descriptive

scientific article published on 30 December 2014

CoPub update: CoPub 5.0 a text mining system to answer biological questions

scientific article published on 27 May 2011

CoPub: a literature-based keyword enrichment tool for microarray data analysis

scientific article

Diversity in robustness of Lactococcus lactis strains during heat stress, oxidative stress, and spray drying stress

scientific article published on 8 November 2013

Draft Genome Sequence of Lactobacillus delbrueckii subsp. bulgaricus LBB.B5.

scientific article published on 6 October 2016

Fermentation-induced variation in heat and oxidative stress phenotypes of Lactococcus lactis MG1363 reveals transcriptome signatures for robustness

scientific article published on 4 November 2014

Genome-wide analysis of mammalian promoter architecture and evolution

scientific article (publication date: June 2006)

Homer3 regulates the establishment of neutrophil polarity

scientific article

Hydrogenosomes in the anaerobic fungus Neocallimastix frontalis have a double membrane but lack an associated organelle genome.

scientific article published on May 1997

Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm.

scientific article published in January 2003

Identification of new biomarker candidates for glucocorticoid induced insulin resistance using literature mining

scientific article (publication date: 4 February 2013)

JASPAR: an open-access database for eukaryotic transcription factor binding profiles

scientific article (publication date: 2004)

Kinetics of enzyme acylation and deacylation in the penicillin acylase-catalyzed synthesis of beta-lactam antibiotics.

scientific article published in September 2003

Literature mining for the discovery of hidden connections between drugs, genes and diseases

scientific article

Literature-based compound profiling: application to toxicogenomics

scientific article

Microbial bioinformatics for food safety and production

scientific article

Molecular pathway profiling of T lymphocyte signal transduction pathways; Th1 and Th2 genomic fingerprints are defined by TCR and CD28-mediated signaling

scientific article

Mutation of Residue βF71 of Escherichia coli Penicillin Acylase Results in Enhanced Enantioselectivity and Improved Catalytic Properties.

scientific article

Org 214007-0: a novel non-steroidal selective glucocorticoid receptor modulator with full anti-inflammatory properties and improved therapeutic index

scientific article

Prednisolone induces the Wnt signalling pathway in 3T3-L1 adipocytes.

scientific article published on 19 March 2013

Prednisolone-induced beta cell dysfunction is associated with impaired endoplasmic reticulum homeostasis in INS-1E cells

scientific article published on 13 June 2011

Prednisolone-induced changes in gene-expression profiles in healthy volunteers

scientific article published on 02 June 2011

Prednisolone-induced differential gene expression in mouse liver carrying wild type or a dimerization-defective glucocorticoid receptor.

scientific article

Primary cilia-regulated transcriptome in the renal collecting duct

scientific article published on 8 February 2018

Quantifying the accessibility of the metagenome by random expression cloning techniques.

scientific article published in September 2004

Regulog analysis: detection of conserved regulatory networks across bacteria: application to Staphylococcus aureus

scientific article published on July 2004

Role of alphaArg145 and betaArg263 in the active site of penicillin acylase of Escherichia coli.

scientific article published on July 2002

Strain-Dependent Transcriptome Signatures for Robustness in Lactococcus lactis

scientific article

Structural and kinetic studies on ligand binding in wild-type and active-site mutants of penicillin acylase.

scientific article published in May 2004

Target validation in silico: does the virtual patient cure the pharma pipeline?

scientific article published in October 2006

The role of hydrophobic active-site residues in substrate specificity and acyl transfer activity of penicillin acylase.

scientific article published in April 2002

The use of chromogenic reference substrates for the kinetic analysis of penicillin acylases

scientific article published on 01 November 1999

Understanding the language of gene regulation

scientific article

ss-TEA: Entropy based identification of receptor specific ligand binding residues from a multiple sequence alignment of class A GPCRs

scientific article

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