Senior Data Scientist @sangerinstitute | Antimicrobial resistance evolution | Researcher and coffee drinker
Cambridge, UK
Joined June 2013
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Andrew Balmer retweeted
[New pre-print🚨] When a single genotype (pbp) confer resistance to multiple antibiotics (penicillin and cephalosporins), how do we make sense of genetic changes and their impact on AMR?
A new concept - AMR cartography is invented by @Quackscience
biorxiv.org/content/10.1101/…
Andrew Balmer retweeted
Antimicrobial Resistance Cartography: A Generalisable Framework for Studying Multivariate Drug Resistance biorxiv.org/content/10.1101/… #biorxiv_genomic
Andrew Balmer retweeted
Announcing the latest version of MalariaGEN’s world-leading malaria parasite data resource: Pf8! 📢
In this release, you’ll find:
🦠 33,325 parasite whole genomes
🌍 Samples from 122 different locations
🗓️ 56 years of data
Read more:
malariagen.net/article/pf8-r…
Andrew Balmer retweeted
Our next Journal Club will be all about the new Pf8 data release!
Join Dr Nina White, Senior Data Scientist at the Genomic Surveillance Unit (@sangerinstitute) to learn to make the most of this unique malaria parasite data resource.
📅July 22, 1:30pm
sanger.zoom.us/webinar/regis…
ALT Malaria Genomic Epidemiology Journal Club, 22 July, 1:30pm, on Zoom. It will feature Dr Nina White, a Senior Data Scientist at the Genomic Surveillance Unit at the Wellcome Sanger Institute. The talk description is: Nina will showcase the Pf8 data resource, the latest MalariaGEN release of curated genome variation data on over 33,000 Plasmodium falciparum samples from 99 partner studies and 122 locations over more than 50 years. She will walk through the suite of tools which accompany Pf8, guiding users on how to get the most out of this resource.
Andrew Balmer retweeted
morning coffee and @Quackscience
Global Spread of Artemisinin Resistance: Insights from over 100K P falciparum Samples
Thx @MESAmalaria @ChatWithChauke @ninawaleEEB @eselimnl @cl32_sanger @RichardDPearson @ingeneswetrust @cristina_ariani
youtube.com/watch?v=s0by0c42…
Andrew Balmer retweeted
Egypt declared malaria-free after 100-year effort, BBC reports. bbc.com/news/articles/cm2yl8…
Andrew Balmer retweeted
Our October Journal Club is all about drug-resistant #malaria parasites💊
Dr Andrew Balmer will delve into a recent review that maps data from 112,000+ P. falciparum genome sequences worldwide to track kelch13 mutations: biorxiv.org/content/10.1101/…
Register: sanger.zoom.us/webinar/regis…
ALT Malaria Genomic Epidemiology Journal Club with Dr Andrew Balmer 22nd October 2024, 1:30pm UK time on Zoom Andrew will delve into the findings from a recent review with aggregated data from 112,000+ Plasmodium falciparum parasite samples to track mutations in the kelch13 gene, a key marker of artemisinin resistance.
Andrew Balmer retweeted
Would you like to know more about artemisinin resistance globally? Look no further!
Our paper reviews data of more than 112k P. falciparum samples since 1980 to provide a global overview of resistance.
biorxiv.org/content/10.1101/…
@malariagenomics @gatesfoundation @EsteeTorok
Andrew Balmer retweeted
Understanding the Global Spread of Artemisinin Resistance: Insights from over 100K Plasmodium falciparum Samples biorxiv.org/cgi/content/shor… #biorxiv_genomic
Andrew Balmer retweeted
We're excited to introduce Pf-HaploAtlas, a new app to track malaria parasite mutations across time and space 🔎
malariagen.net/article/intro…
Read on to find out how this innovative tool will help track genetic mutations of Plasmodium falciparum to fight #malaria 🧵1/5
ALT Pf-HaploAtlas - A new open tool for researchers and public health officials to study patters of mutations in malaria parasite genomes
Andrew Balmer retweeted
I am thrilled to announce our new free tool Pf-HaploAtlas! It enables any user with an internet connection to study and track genetic mutations across any gene of more than 16k P. falciparum samples.
@malariagenomics @EsteeTorok @gatesfoundation
pf-haploatlas.streamlit.app/
Andrew Balmer retweeted
Three more weeks to the PhD application deadline 10 Dec 2023. If you’d like to have a chat on your application, please feel free to get in touch.
I am recruiting a PhD to work with me to understand why some pneumococcal lineages undergo more recombinations?
You will learn molecular microbiology, bioinformatics & programming analyse genome data.
In collaboration with @StephenBentley5 @EpicFeil_
findaphd.com/phds/project/el…
Andrew Balmer retweeted
Big congratulations to @mayajuman on her award which will fund part of her second thesis chapter, which uses AI to advance viral host prediction methods - acceleratescience.github.io/… @CamVetSchool @Selwyn1882
We are delighted to announce the 11 projects funded through our 2023 Accelerate-@CambridgeC2D3 funding call for novel applications of AI for research and innovation! Find out more about the funded projects here: bit.ly/3MlqtWL
Andrew Balmer retweeted
Our new paper on antimicrobial resistance evolution: pnas.org/doi/10.1073/pnas.23…
Andrew Balmer retweeted
Really happy to see the final version of our paper is now out in @PLOSPathogens!
We investigated whether the evolutionary relationships between bacterial 🦠 hosts could explain variation in #susceptibility to infection with a #bacteriophage. 🧵1/8
tinyurl.com/bdhejf8z
Andrew Balmer retweeted
I find myself both loving the creativity of this and deeply uneasy with it. At the very least, it's a fascinating provocation for what it means to be a scientist, a coder, and a writer in the era when nearly unlimited medium-quality papers can be generated on demand
Andrew Balmer retweeted
🚨New paper on🐷💊🗺!
We tested the perception that high-yield (“intensive”) 🐷 farms have higher antibiotic use. We only found weak evidence to support this - and importantly we found several farms bucked the trend and combined high yields AND low antibiotic use. 1/4
Andrew Balmer retweeted
Delighted to see this paper led by @loolibear out finally
thelancet.com/journals/lanmi… Looking prospectively at all ESBL+ samples (primarily carriage) in 2 ICUs in Hanoi over 6 months, taking weekly samples from all patients, we found huge amounts of AMR and of recent transmission 1/n
Andrew Balmer retweeted
My PhD work is now published! Thank you to my PhD lab and advisors for all your help.
Want to have a go at repressing C.jejuni genes of interest? Interested in CRISPR technology? Have a look into this tool! 🧬🧫👇
bmcmicrobiol.biomedcentral.c…
@e_stoakes @CamVetSchool
Andrew Balmer retweeted
Have we got a philosophical transaction for you!
royalsocietypublishing.org/d…
We implemented an embedding algorithm (similar to t-SNE, PCA, UMAP etc) to work with genetic data. You can use it to rapdily visualise large collections and find clusters within them.
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