Browsing by Author "Hokamp, Karsten"
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A bioinformatics approach to (intra-) genome comparisons Hokamp, Karsten (Trinity College (Dublin, Ireland). School of Genetics and Microbiology, 2002)The analysis of large volumes of genomic data generates special computational needs. A Beowulf-type computer cluster was set up for high-performance computing. Improvements over existing tools for the efficient ...
Aneuploidy influences the gene expression profiles in Saccharomyces pastorianus group I and II strains during fermentation Bond, Ursula; Hokamp, Karsten (2022)The lager yeasts, Saccharomyces pastorianus, are hybrids of Saccharomyces cerevisiae and Saccharomyces eubayanus and are divided into two broad groups, Group I and II. The two groups evolved from at least one common ...
The complex relationship of gene duplication and essentiality. Mc Lysaght, Aoife; Hokamp, Karsten (2009)In yeast and worm, duplicate genes overlap in function so that deleting one of a pair from the genome is less likely to be lethal than deleting a singleton gene. By contrast, previous analyses showed that mouse duplicate ...
CRISPR/Cas9-mediated SARM1 knockout and epitope-tagged mice reveal that SARM1 does not regulate nuclear transcription, but is expressed in macrophages Carty, Michael; Kelly, Vincent; Bowie, Andrew; Hokamp, Karsten (2021)SARM1 is a toll/interleukin-1 receptor -domain containing protein, with roles proposed in both innate immunity and neuronal degeneration. Murine SARM1 has been reported to regulate the transcription of chemokines in both ...
A dual-strategy expression screen for candidate connectivity labels in the developing thalamus Hokamp, Karsten; Mitchell, Kevin (2017)
A Family of Vertebrate-Specific Polycombs Encoded by the LCOR/LCORL Genes Balance PRC2 Subtype Activities Bracken, Adrian; Mc Lysaght, Aoife; Hokamp, Karsten (2018)The polycomb repressive complex 2 (PRC2) consists of core subunits SUZ12, EED, RBBP4/7, and EZH1/2 and is responsible for mono-, di-, and tri-methylation of lysine 27 on histone H3. Whereas two distinct forms exist, PRC2.1 ...
The human tRNA-guanine transglycosylase displays promiscuous nucleobase preference but strict tRNA specificity. Kelly, Vincent; Senge, Mathias; Southern, John; Hokamp, Karsten; Connon, Stephen (Appleyard Lees, 2021)Base-modification can occur throughout a transfer RNA molecule; however, elaboration is particularly prevalent at position 34 of the anticodon loop (the wobble position), where it functions to influence protein translation. ...
Non-photoreceptor Expression of Tulp1 May Contribute to Extensive Retinal Degeneration in Tulp1-/- Mice Humphries, Peter; Farrar, Gwyneth; Hokamp, Karsten (2020)Mutations in tubby like protein 1 gene (TULP1) are causative of early-onset recessive inherited retinal degenerations (IRDs); similarly, the Tulp1-/- mouse is also characterized by a rapid IRD. Tulp1 mRNA and protein ...
A population of proinflammatory T cells coexpresses Î±Î² and Î³Î¿ T cell receptors in mice and humans Mills, Kingston; Moran, Barry; Hokamp, Karsten (2020)T cells are classically recognized as distinct subsets that express αβ or γδ TCRs. We identify a novel population of T cells that coexpress αβ and γδ TCRs in mice and humans. These hybrid αβ-γδ T cells arose in the murine ...
A transcription factor network coordinates attraction, repulsion, and adhesion combinatorially to control motor axon pathway selection. Labrador, Juan; Hokamp, Karsten (2014)Combinations of transcription factors (TFs) instruct precise wiring patterns in the developing nervous system; however, how these factors impinge on surface molecules that control guidance decisions is poorly understood. ...
Transcriptomic analysis of Mecp2 mutant mice reveals differentially expressed genes and altered mechanisms in both blood and brain Tropea, Daniela; Hokamp, Karsten (2019)Rett syndrome is a rare neuropsychiatric disorder with a wide symptomatology including impaired communication and movement, cardio-respiratory abnormalities, and seizures. The clinical presentation is typically associated ...