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antimicrobial resistance citizen science clinical microbiology

BashTheBug Coordinator post advertised

We are advertising for a Part-time Citizen Science Project Co-ordinator to come and work with us in Oxford improving BashTheBug, in particular how the project engages, informs and educates its existing base of volunteers, as well as reaching out to new audiences. The closing date is Monday 25 November 2019. For more information please see […]

Categories
antimicrobial resistance citizen science clinical microbiology publication tuberculosis

New publication: Automated detection of bacterial growth on 96-well plates for high-throughput drug susceptibility testing of M. tuberculosis

In this Microbiology paper we show how a Python package, called the Automated Mycobacterial Detection Growth Algorithm (AMyDGA for short), can be used to independently read a 96-well plate designed for determining the minimum inhibitory concentration of 14 different anti-tubercular drugs. AMyGDA is reproducible and shows promising levels of accuracy. Where it fails, it does in […]

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antimicrobial resistance citizen science clinical microbiology tuberculosis

BashTheBug reaches one million classifications

  BashTheBug, a citizen science project I run that is helping us measure how different clinical samples of M. tuberculosis grow in the presence of 14 different antibiotics, reached its first million classifications earlier this week. To read more head over to its blog.   The photo mosaic on the left is made up of images […]

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antimicrobial resistance citizen science clinical microbiology publication tuberculosis

New publication: Assessing Drug Susceptibility in Tuberculosis

A paper was published in the New England Journal of Medicine earlier this week by the CRyPTIC project, of which I am part, with help from the 100,000 genomes project. It demonstrates how whole genome sequencing can be used to accurately predict drug susceptibility for the four first-line anti-tubercular drugs (isoniazid, rifampicin, pyrazinamide and ethambutol) […]

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citizen science

BashtheBug podcast

BashTheBug is a Zooniverse citizen science project I setup in April 2018 to help the large CRyPTIC tuberculosis (TB) consortium analyse the thousands of TB samples it is collecting over the next few years. To determine its drug susceptibility and resistance profile, each sample is being grown on a 96-well plate that contains 14 different anti-TB […]

Categories
citizen science clinical microbiology computing research tuberculosis

Automated detection of bacterial growth on 96-well plates (AMyGDA)

I am involved in an international collaboration, the Comprehensive Resistance Prediction for Tuberculosis: an International Consortium (CRyPTIC), that is collecting 30-50,000 clinical samples from patients with tuberculosis (TB). Although often viewed as a historical disease, TB kills more people globally than any other infectious disease, with 1.7 million people dying from it in 2016. The ultimate […]

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citizen science tuberculosis

BashTheBug has won an NIHR Let’s Get Digital Award!

The National Institute for Health Research hold an annual competition, called Let’s Get Digital, to “recognise those people involved in NIHR research using video, photography, websites, infographics and online communities to promote research”. I was encouraged to enter BashTheBug back in June 2017 and was pleased to see in August that we had been shortlisted […]

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antimicrobial resistance citizen science meetings tuberculosis

Diagnosing antibiotic resistance: future trends?

It is Sunday, I’m in Vienna at the European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) congress. As is traditional at all large conventions, I’m sitting on the floor outside one of the halls because the organisers have put one of the most popular sessions (Gram-negative resistance) in one of the smallest rooms. A […]

Categories
antimicrobial resistance citizen science tuberculosis

BashTheBug.net Zooniverse Citizen Science project launches today!

My citizen science project, BashTheBug, is launched today. Head over to the website or go straight to the Zooniverse project page and help us start classifying bacterial growth and fighting antibiotic resistance! Alternatively, read the news article on the University of Oxford website or see how the project is doing via its Twitter feed.

Categories
antimicrobial resistance citizen science tuberculosis

BashTheBug.net Beta Testing Results

Zooniverse have finished beta-testing my BashTheBug citizen science project. To verify that the task is easy to do and the tutorial and help text understandable, the first version of the project was sent to a number of experienced Zooniverse beta-testers. Over a period of two weeks, 672 volunteers made 34,791 classifications which is, on average, […]