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List of works by Karsten Hokamp

A Family of Vertebrate-Specific Polycombs Encoded by the LCOR/LCORL Genes Balance PRC2 Subtype Activities.

scientific article published in April 2018

A common microRNA signature in mouse models of retinal degeneration

scientific article published on 13 September 2008

A dual-strategy expression screen for candidate connectivity labels in the developing thalamus

scientific article

A model system for studying the transcriptomic and physiological changes associated with mammalian host-adaptation by Leptospira interrogans serovar Copenhageni

scientific article

A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome

scientific article

A transcription factor network coordinates attraction, repulsion, and adhesion combinatorially to control motor axon pathway selection

scientific article published on 20 February 2014

Adding function to the genome of African Salmonella Typhimurium ST313 strain D23580

scientific article published on 15 January 2019

Altered retinal microRNA expression profile in a mouse model of retinitis pigmentosa

scientific article published on January 2007

An infection-relevant transcriptomic compendium for Salmonella enterica Serovar Typhimurium

scientific article published on December 2013

Analysis of the Bovine Monocyte-Derived Macrophage Response to Mycobacterium avium Subspecies Paratuberculosis Infection Using RNA-seq

scientific article

Aneuploidy influences the gene expression profiles in Saccharomyces pastorianus group I and II strains during fermentation

scientific article published on 07 April 2022

ArrayPipe: a flexible processing pipeline for microarray data

scientific article

BOSC 2019, the 20th annual Bioinformatics Open Source Conference

scientific article published on 20 December 2019

BOSC 2021, the 22nd Annual Bioinformatics Open Source Conference

scientific article published in 2021

BOSC 2022: the first hybrid and 23rd annual Bioinformatics Open Source Conference

scientific article published in 2022

Bovine and human cathelicidin cationic host defense peptides similarly suppress transcriptional responses to bacterial lipopolysaccharide.

scientific article published on 30 August 2006

CD10-/ALDH- cells are the sole cisplatin-resistant component of a novel ovarian cancer stem cell hierarchy.

scientific article published on 19 October 2017

CRISPR/Cas9-mediated SARM1 knockout and epitope-tagged mice reveal that SARM1 does not regulate nuclear transcription, but is expressed in macrophages

scientific article published on 16 November 2021

Cell envelope gene expression in phosphate-limited Bacillus subtilis cells.

scientific article

Characterization of protein C receptor expression in monocytes

scientific article (publication date: November 2001)

Circadian control of innate immunity in macrophages by miR-155 targeting Bmal1.

scientific article published on 20 May 2015

Comparative transcript profiling of Candida albicans and Candida dubliniensis identifies SFL2, a C. albicans gene required for virulence in a reconstituted epithelial infection model

scientific article

Compensatory evolution of gene regulation in response to stress by Escherichia coli lacking RpoS.

scientific article published on 2 October 2009

Complete Genome Sequence of Salmonella enterica Serovar Agona Pulsed-Field Type SAGOXB.0066, Cause of a 2008 Pan-European Outbreak

scientific article published on 23 January 2014

Delineating transcriptional networks of prognostic gene signatures refines treatment recommendations for lymph node-negative breast cancer patients

scientific article published on 20 June 2015

Distinct histone methylation and transcription profiles are established during the development of cellular quiescence in yeast

scientific article

Dysregulated mitogen-activated protein kinase signalling as an oncogenic basis for clear cell sarcoma of the kidney.

scientific article

Effect of stress on viral-bacterial synergy in bovine respiratory disease: novel mechanisms to regulate inflammation

scientific article

Extensive genomic duplication during early chordate evolution

scientific article (publication date: 28 May 2002)

Fam60a defines a variant Sin3a-Hdac complex in embryonic stem cells required for self-renewal.

scientific article published on 29 May 2017

G-protein-coupled receptor independent, immunomodulatory properties of chemokine CXCL9.

scientific article

Gene expression changes during retinal development and rod specification

scientific article published on 20 January 2015

Genome-wide analysis of phosphorylated PhoP binding to chromosomal DNA reveals several novel features of the PhoPR-mediated phosphate limitation response in Bacillus subtilis

scientific article

Genome-wide analysis of the H-NS and Sfh regulatory networks in Salmonella Typhimurium identifies a plasmid-encoded transcription silencing mechanism

scientific article

Genome-wide transcriptional profiling of peripheral blood leukocytes from cattle infected with Mycobacterium bovis reveals suppression of host immune genes

scientific article

Global gene expression and systems biology analysis of bovine monocyte-derived macrophages in response to in vitro challenge with Mycobacterium bovis

scientific article

Initial sequencing and analysis of the human genome

scientific article published on 15 February 2001

InnateDB: facilitating systems-level analyses of the mammalian innate immune response.

scientific article

Intracellular niche-specific profiling reveals transcriptional adaptations required for the cytosolic lifestyle of Salmonella enterica

scientific article published on 30 August 2021

Key Hub and Bottleneck Genes Differentiate the Macrophage Response to Virulent and Attenuated Mycobacterium bovis

scientific article

LeuO is a global regulator of gene expression in Salmonella enterica serovar Typhimurium

scientific article published on 23 July 2012

Microarray analysis of Streptococcus pneumoniae gene expression changes to human lung epithelial cells

scientific article

Modulation of the TLR-mediated inflammatory response by the endogenous human host defense peptide LL-37.

scientific article published on February 2006

Pan-genomic analysis of bovine monocyte-derived macrophage gene expression in response to in vitro infection with Mycobacterium avium subspecies paratuberculosis

scientific article

Perl One-Liners: Bridging the Gap Between Large Data Sets and Analysis Tools

scientific article

ProbeLynx: a tool for updating the association of microarray probes to genes

scientific article published on July 2004

Proteome-wide analysis of functional divergence in bacteria: exploring a host of ecological adaptations

scientific article

PubCrawler: keeping up comfortably with PubMed and GenBank

scientific article

RNA-seq Brings New Insights to the Intra-Macrophage Transcriptome of Salmonella Typhimurium

scientific article published on 12 November 2015

RNA-seq Transcriptional Profiling of Peripheral Blood Leukocytes from Cattle Infected with Mycobacterium bovis

scientific article

Re-engineering cellular physiology by rewiring high-level global regulatory genes.

scientific article published on 3 December 2015

Receptor-mediated recognition of mycobacterial pathogens

scientific article published on 29 July 2013

Role of a single noncoding nucleotide in the evolution of an epidemic African clade of Salmonella.

scientific article

Streptococcus pneumoniae early response genes to human lung epithelial cells

scientific article

Telomeric ORFs (TLOs) in Candida spp. Encode mediator subunits that regulate distinct virulence traits.

scientific article

The 2015 Bioinformatics Open Source Conference (BOSC 2015)

scientific article

The 2016 Bioinformatics Open Source Conference (BOSC)

scientific article

The 2017 Bioinformatics Open Source Conference (BOSC).

scientific article published on 19 October 2017

The 2018 Bioinformatics Open Source Conference (GCCBOSC 2018)

scientific article published on 17 August 2018

The 21st annual Bioinformatics Open Source Conference (BOSC 2020, part of BCC2020)

scientific article published on 21 September 2020

The 2R hypothesis and the human genome sequence

scientific article

The Candida albicans TOR-Activating GTPases Gtr1 and Rhb1 Coregulate Starvation Responses and Biofilm Formation

scientific article

The Impact of 18 Ancestral and Horizontally-Acquired Regulatory Proteins upon the Transcriptome and sRNA Landscape of Salmonella enterica serovar Typhimurium.

scientific article

The WalRK (YycFG) and σ(I) RsgI regulators cooperate to control CwlO and LytE expression in exponentially growing and stressed Bacillus subtilis cells

scientific article published on 30 November 2012

The complex relationship of gene duplication and essentiality

scientific article published on 13 March 2009

The extracellular Leucine-Rich Repeat superfamily; a comparative survey and analysis of evolutionary relationships and expression patterns.

scientific article

The extracellular leucine-rich repeat superfamily; a comparative survey and analysis of evolutionary relationships and expression patterns

scientific article

The growth phase-dependent regulation of the pilus locus genes by two-component system TCS08 in Streptococcus pneumoniae

scientific article

The impact of common genetic variants in the mitochondrial glycine cleavage system on relevant metabolites.

scientific article published on 11 June 2018

The primary transcriptome, small RNAs and regulation of antimicrobial resistance in Acinetobacter baumannii ATCC 17978

The transcriptional landscape and small RNAs of Salmonella enterica serovar Typhimurium.

scientific article

Transcriptome studies on Streptococcus pneumoniae, illustration of early response genes to THP-1 human macrophages

scientific article

Whole-transcriptome, high-throughput RNA sequence analysis of the bovine macrophage response to Mycobacterium bovis infection in vitro

scientific article

Wrapping up BLAST and other applications for use on Unix clusters

scientific article published on 01 February 2003

microRNA regulatory circuits in a mouse model of inherited retinal degeneration

scientific article

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