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.
Our 2018 paper describing PubMLST, the BIGSdb platform, and their applications has just reached 2000 citations on Google Scholar. https://t.co/amTn5ftKWf
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.
My first PhD paper is out - exploring mosaicism in the 𝑁𝑒𝑖𝑠𝑠��𝑟𝑖𝑎 𝑝𝑒𝑛𝐴 gene at the population level! Very excited to share this work. Thanks are in order to @OdileHarrison and Martin Maiden @MaidenLab for their excellent supervision. https://t.co/SAWSaJS8JZ
BIGSdb v.1.42.6 has been released. This version expands list query functionality to every table in the database – previously it was only possible to use lists to search by attribute values for isolates, profiles and alleles for single loci.
We have had to implement rate-limiting on the PubMLST API. We have always requested that API calls are limited to no more than 4 concurrent connections. This is now enforced due to abuse and additional connections will automatically be rejected. https://t.co/PlNJNcPMf4
BIGSdb v1.42.5 has been released. This introduces a new plugin that provides a wrapper for ReporTree (https://t.co/7oVnPgtQue) – a tool for the automated identification of genetic clusters. BIGSdb powers all the databases on @PubMLST. https://t.co/rQWQAmnqqZ.
I’d like to think PubMLST as a hub for data AND bioinformatic tools integration. This is one of the many examples. For my thesis, I found hicap very useful for Hinf serotype identification, and asked Keith’s help to do his magic so other users can easily access the tool ✨
PubMLST now incorporates serotype identification using results from hicap (@stephen_watts & @DrKatHolt) in H. influenzae genome records. Example at https://t.co/sMqWN1im0z. Overseen by @made__krisna.
Short-term opportunity to work with me and amazing people in our Gastro Bioinfo Team at @UKHSA. Come join us for sequencing bacterial pathogens and diving into the world of gastro illness investigation.
https://t.co/G7zo6yI4Wb
Had an amazing session at EduCon 2023 which was all about diversity and inclusivity in teaching. Had the honour to deliver a bioinformatics worship for beginners for implementation in undergraduate courses. #educon2023#ASM2023
@AntiMicroBio Sorry, yes it is. The university departmental network we're hosted on (not NCBI) went down on Saturday. No IT response due to it being a public holiday here in the UK. Hope to be up and running again tomorrow.
Presenting one of my DPhil projects at @MaidenLab group: Development and Validation of Haemophilus influenzae core genome MLST scheme at @MicrobioSoc Annual Conference today as a Society Conference Grants recipient.
P.S. The scheme has been implemented at @PubMLST too 😉
BIGSdb v1.41.2 has been released. This introduces a choice of 26 colour palettes for use on front-end and query dashboards that can be selected by users. BIGSdb powers all the databases on @PubMLST. https://t.co/rQWQAmnqqZ.
A new database has been set up for Lactococcus garvieae to support the MLST scheme described in https://t.co/EEFw4joZaD. The database is curated by Guilherme Campos, Universidade Federal de Minas Gerais, Brazil. https://t.co/GnbplO9TLc