Keith Jolley
@keithajolley
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Bioinformatician in @MaidenLab working on microbial genomics | Developer of PubMLST and BIGSdb | https://t.co/sKavNIbalL
Oxfordshire, England
Joined August 2015
Gain hands-on training in how to apply the latest molecular and #genomics approaches to clinical #microbiology. #ClinicalMicro2025 🥼 Led by experts in bacteriological diagnostics 💸 Bursaries available ⏰Apply by 15 October 📎Course info: https://t.co/0me5pYNLj4
#Tuberculosis
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Great to have @DanielFalush visiting us today and reminisce about the good old times! @IneosOxford @OxfordBiology @Dunn_School
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I'm very excited to announce my research group. Our focus is on obtaining genomes from clinical samples without culture. For more information on Enriching Microbiology, be sure to check my website:
enrichingmicrobiology.net
Helena Seth-Smith Research Group at the Institute of Medical Microbiology, University of Zurich. Sequence Capture and Target Enrichment of Pathogen Genomes, Genomic Analysis. Microbial Genomics...
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I'm happy to say that I have a 2-year extension on my current post-doc position. I am so grateful to get this opportunity in a job I love🦠
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Genomic insights into the 2022–2023 Vibrio cholerae outbreak in Malawi. https://t.co/jE23zHjci0
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📣📣 #klebsiella and #acinetobacter genomics fans: Kaptive 3 is now available on GitHub. All feedback welcome. Kaptive Web and @TheCGPS PathogenWatch implementations coming soon.
@tomstantonmicro doing a fab job presenting Kaptive 3 for the first time, at #asm2024 Increased sensitivity ✅ Increased accuracy ✅ Increased speed ✅ You can check it out here:
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Submitters can choose an embargo length (default up to 24 months), after which isolates will be published automatically. Further details and release notes at https://t.co/GkaRNAqCh2.
github.com
Version 1.47.0 introduces an embargo system for isolate submissions. This can be enabled in the bigsdb.conf file: ###ISOLATE EMBARGOES######## #Set to enable isolate embargoes and limit the time al...
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BIGSdb v1.47.0 has been released and is now live on @PubMLST. This introduces an embargo system for isolate submissions. If enabled, submitters will now see an option to request an embargo when they submit isolates.
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Our new NIHR Global Health Group on vaccines to control respiratory pathogens & Anti-Microbial Resistance in Africa is looking for two PhD students, one to be based at KEMRI-Wellcome https://t.co/xNq3knsx74 in Kenya, and one at MLW, Malawi Please share widely. @RHeyderman
PhD Studentship Opportunity! 📢📢📢 The NIHR Global Health Group in collaboration with @MLW_Programme and @LSTMnews is offering a studentship focused on the development and evaluation of new tools for assessing vaccine-induced protective immunity.
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1st year PhD student @emPriyanshu with Sam Sheppard attended The 2nd IOI Oxbridge Cohort conference at Selwyn College, Cambridge @Cambridge_Uni
@emPriyanshu talked about exploring Ribosomal protein as a plausible drug target. @IneosOxford @UniofOxford @OxfordBiology
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Our 2018 paper describing PubMLST, the BIGSdb platform, and their applications has just reached 2000 citations on Google Scholar.
pmc.ncbi.nlm.nih.gov
The PubMLST.org website hosts a collection of open-access, curated databases that integrate population sequence data with provenance and phenotype information for over 100 different microbial species...
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After a disastrous 9/11 honeymoon in NYC, we finally made it back a few weeks ago.
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5 Year PhD Project Complete ✅ “Re-visiting clonal-complex #classifications🧫: a novel machine learning approach for investigating population dynamics 🧬of antimicrobial resistance in Campylobacter jejuni💊.” Is complete 🙌🏼 @UniofOxfor @OxfordBiology @foodgov
#Phdone #phdvoice
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Please note that PubMLST will be unavailable from Thursday 21 - Monday 25 March due to essential data centre maintenance. Normal service should resume on Tuesday 26 March.
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It’s out @biorxiv_micrbio @biorxivpreprint Bacterial strain nomenclature in the genomic era: Life Identification Numbers using a gene-by-gene approach
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First talk from the lab by Sam Sheppard titled 'Why publish in Microbial Genomics' . #MNGPopUp @microbesNG
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Delighted to announce that I have been promoted as Professor at @institutpasteur. I feel very honored and thankful. Looking forward to continuing our research on microbial pathogen genomics and public health applications! 👨🎓
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BIGSdb v1.43.0 has been released. This version improves database logging of user access to the web interface and API. BIGSdb powers all the databases on @PubMLST. Release notes at https://t.co/wnLQxM8nMt.
github.com
This version adds optional web logging to record user access. A new table log has been added to the bigsdb_auth database that records IP address, username, and page called with a timestamp. In addi...
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@nottm_bbsrc_dtp projects posted this week. We (@dp_negus @RobAtterbury1) have a project available under Bioscience for Health: "Genomic characterization of Staphyloccus haemolyticus and associated bacteriophage". See
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In addition, multiple optimizations have been made to improve page load times. BIGSdb powers all the databases on @PubMLST. Release notes at https://t.co/JURfvG7oZe.
github.com
This release adds the following functionality and improvements: All tables can now be searched by a list of attributes. This has been possible for isolates, profiles and alleles (when using the sp...
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