Schwach, Frank
My main project is the development of the software tools and web portal supporting PlasmoGEM - a genome-wide resource of gene modification vectors. The software is used to automate the gene modification design process, track constructs though the wet lab pipeline and analyse deep-sequencing data for quality control purposes. In addition, I provide bioinformatics support for various projects in the lab, including transcriptomics and proteomics assays.
I obtained a PhD in plant virology at the University of Hamburg (Germany) in 2002 before joining the lab of David Baulcombe at the Sainsbury Laboratory in Norwich (UK), working on the mechanisms of small-RNA-mediated anti-viral gene silencing. With the advent of next-generation sequencing, I shifted my focus to the computational analysis of high-throughput sequence data. I continued this work at the University of East Anglia, developing a collection of web-based tools for the analysis of large-scale small RNA data. In December 2009, I joined the Billker lab to support the PlasmoGEM team.
Publications
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A genome-scale vector resource enables high-throughput reverse genetic screening in a malaria parasite.
Cell host & microbe 2015;17;3;404-413
PUBMED: 25732065; PMC: 4362957; DOI: 10.1016/j.chom.2015.01.014
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PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites.
Nucleic acids research 2015;43;Database issue;D1176-82
PUBMED: 25593348; PMC: 4383951; DOI: 10.1093/nar/gku1143
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A Plasmodium calcium-dependent protein kinase controls zygote development and transmission by translationally activating repressed mRNAs.
Cell host & microbe 2012;12;1;9-19
PUBMED: 22817984; PMC: 3414820; DOI: 10.1016/j.chom.2012.05.014
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Comparative genomics in Chlamydomonas and Plasmodium identifies an ancient nuclear envelope protein family essential for sexual reproduction in protists, fungi, plants, and vertebrates.
Genes & development 2013;27;10;1198-215
PUBMED: 23699412; PMC: 3672651; DOI: 10.1101/gad.212746.112
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A scalable pipeline for highly effective genetic modification of a malaria parasite.
Nature methods 2011;8;12;1078-82
PUBMED: 22020067; PMC: 3431185; DOI: 10.1038/nmeth.1742
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Phosphoinositide metabolism links cGMP-dependent protein kinase G to essential Ca²⁺ signals at key decision points in the life cycle of malaria parasites.
PLoS biology 2014;12;3;e1001806
PUBMED: 24594931; PMC: 3942320; DOI: 10.1371/journal.pbio.1001806
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A toolkit for analysing large-scale plant small RNA datasets.
Bioinformatics (Oxford, England) 2008;24;19;2252-3
PUBMED: 18713789; DOI: 10.1093/bioinformatics/btn428
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miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii.
Nature 2007;447;7148;1126-9
PUBMED: 17538623; DOI: 10.1038/nature05903
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An RNA-dependent RNA polymerase prevents meristem invasion by potato virus X and is required for the activity but not the production of a systemic silencing signal.
Plant physiology 2005;138;4;1842-52
PUBMED: 16040651; PMC: 1183376; DOI: 10.1104/pp.105.063537
-
A genome-scale vector resource enables high-throughput reverse genetic screening in a malaria parasite.
Cell host & microbe 2015;17;3;404-413
PUBMED: 25732065; PMC: 4362957; DOI: 10.1016/j.chom.2015.01.014
-
PlasmoGEM, a database supporting a community resource for large-scale experimental genetics in malaria parasites.
Nucleic acids research 2015;43;Database issue;D1176-82
PUBMED: 25593348; PMC: 4383951; DOI: 10.1093/nar/gku1143
-
Phosphoinositide metabolism links cGMP-dependent protein kinase G to essential Ca²⁺ signals at key decision points in the life cycle of malaria parasites.
PLoS biology 2014;12;3;e1001806
PUBMED: 24594931; PMC: 3942320; DOI: 10.1371/journal.pbio.1001806
-
Comparative genomics in Chlamydomonas and Plasmodium identifies an ancient nuclear envelope protein family essential for sexual reproduction in protists, fungi, plants, and vertebrates.
Genes & development 2013;27;10;1198-215
PUBMED: 23699412; PMC: 3672651; DOI: 10.1101/gad.212746.112
-
A Plasmodium calcium-dependent protein kinase controls zygote development and transmission by translationally activating repressed mRNAs.
Cell host & microbe 2012;12;1;9-19
PUBMED: 22817984; PMC: 3414820; DOI: 10.1016/j.chom.2012.05.014
-
A scalable pipeline for highly effective genetic modification of a malaria parasite.
Nature methods 2011;8;12;1078-82
PUBMED: 22020067; PMC: 3431185; DOI: 10.1038/nmeth.1742
-
A toolkit for analysing large-scale plant small RNA datasets.
Bioinformatics (Oxford, England) 2008;24;19;2252-3
PUBMED: 18713789; DOI: 10.1093/bioinformatics/btn428
-
miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii.
Nature 2007;447;7148;1126-9
PUBMED: 17538623; DOI: 10.1038/nature05903
-
An RNA-dependent RNA polymerase prevents meristem invasion by potato virus X and is required for the activity but not the production of a systemic silencing signal.
Plant physiology 2005;138;4;1842-52
PUBMED: 16040651; PMC: 1183376; DOI: 10.1104/pp.105.063537
