Andrew

Scientist and Researcher. Molecular and cellular biology with a smattering of microbiology, biochemistry and bioinformatics.

[Andrew @HayesScience]

Great to be a part of this work! If you have a pangenome from your favourite bacteria with some closed genomes (made with Panaroo/ Roary) would recommend running it through Corekaburra https://t.co/x0Hwzr3VnP to see what structural variation you find

[Mark_Davies_Lab @MDaviesLab]

Excited to share our new lab work - driven by our fantastic PhD student (now Dr) @magnus_gj with @HayesScience @syctong: Cataloging of chromosomal inversions in #StrepA reference genomes. Sets an analytical framework for investigations in other pathogens. https://t.co/i5Jd55i5E2

[Mark_Davies_Lab @MDaviesLab]

Pleased to share our latest collaborative research on the genomic epi of typhoid fever in Fiji published in @MicrobioSoc. Wonderful collaboration with public heath parters in Fiji/Aus. Evidence of 'selection' in the S. Typhi Vi capsule locus. https://t.co/qYknuplntX.

[Mark_Davies_Lab @MDaviesLab]

Out now: @magnus_gj latest PhD work: https://t.co/yLxZdHTouH Systematic evaluation of existing #StrepA transposon mutagenesis work using a pan-genome framework. Interactive html is included for searching of your favour strepA gene: https://t.co/IZuun1DolU @HayesScience @syctong

[Andrew @HayesScience]

If you are interested in microbial bioinformatics come join us in @MDaviesLab team @TheDohertyInst @UniMelbMDHS. Great place to work and interesting projects! Applications close 17 June 2024 https://t.co/YfHGKWXBgf

[Mark_Davies_Lab @MDaviesLab]

We have a research position in 'Microbial Bioinformatics' available in our laboratory. Masters/PhD level applicants with bacterial genomics experience are encouraged to apply. Come and join us @TheDohertyInst @UniMelbMDHS! Applications close 17 June 2024 https://t.co/gnpMy96zpt

[Mark_Davies_Lab @MDaviesLab]

Excited to share our latest research which identifies the presence of the 'new' pandemic S. pyogenes clone 'M1uk' in Australian invasive #StrepA cases.
https://t.co/QP9TIn9vXn @NatureComms @TheDohertyInst @UQ_News @UniMelbMDHS

[Andrew @HayesScience]

Great to see this piece of work out! Was great to collaborate with @tim_barnett1, @KalinduRodrigo and others on this study. Some interesting implications for the detection of AMR in laboratory conditions. Would recommend checking out Tim's thread here with the paper summary.

[Magnus Jespersen @magnus_gj]

Magphi is v2.0.0! (https://t.co/8djqjWlszw)
What it new?
1. @HayesScience has implemented tblastn, allowing amino acid seeds as input!
2. fasta and Gff outputs will by default be oriented to have the same strand and start site, for easier passing to alignment tools.

[Andrew @HayesScience]

Particularly useful when extracting #phage or operons from genomes where the flanking genes are known but might not be conserved enough for an in silico PCR approach. It also works with gff files to keep your annotations so you don't need to re-annotate your extractions.

[Andrew @HayesScience]

Great to see this published! Excellent work by @magnus_gj in making something that has saved me hours of work already! Magphi can be found at https://t.co/FgLuUpG0Q6 and is easily installable on conda so definitely worth checking out if you are ever extracting genes from genomes!

[Magnus Jespersen @magnus_gj]

Very happy to finally see Magphi published!
A tool to extract annotations and sequences between two seed sequences across multiple genomes.
It was build out of @HayesScience's and my necessity to extract mobile elements, but we hope others find it useful!
https://t.co/SWHPsUij6m

[Andrew @HayesScience]

Great to see this work out with @Nick_E_Scott, @JessicaLewisMic and @MDaviesLab!

[Nichollas Scott @Nick_E_Scott]

Very happy to see our work looking at Burkholderia glycosylation site preferences out today in @CommsBio. Special thanks to @HayesScience @JessicaLewisMic & @MDaviesLab for getting this together.
https://t.co/LPcOmcWUGn

[Andrew @HayesScience]

@aimeehorsfall I saw a video recently which explained exactly this! In brief compression of sound (to save money) is optimised to speech but doesn't deal well with music. Better explained in the link. https://t.co/VPJr4JnWia

[Andrew @HayesScience]

Anyone who is interested in #microbiology or the history of #science and #healthcare should definitely check out these threads from @Jake_A_Lacey. An interesting dive into the history of #strepA and in this one in our own backyard!

[Jake Lacey @Jake_A_Lacey]

Todays topic in #vintageGAS #strepA #RHD #ARF, is much closer to home.
Rheumatic fever in children in Melbourne, Australia, performed at our very own @unimelb & multiple local hospitals @MCRI
1/

[Andrew @HayesScience]

Really great to have my first #bioinformatics paper published with @MDaviesLab at the @TheDohertyInst. Making use of my #structuralbiology background as well. Hopefully the first of many! @syctong @Jake_A_Lacey