Tag Archives: nanopore

Field-based, real-time metagenomics and phylogenomics for responsive pathogen detection: lessons from nanopore analyses of Acute Oak Decline (AOD) sites in the UK.

Posted on 9 February, 2018 by Joe

Talk presented at the UK-India Joint Bioinformatics Workshop, Pirbright Institute, 09 Feb 2018 Abstract: In a globalised world of increasing trade, novel threats to animal and plant health, as well as human diseases, can cross political and geographical borders spontaneously … Continue reading →

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Real-time phylogenomics or ‘Some interesting problems in genomic big data’

Posted on 6 February, 2018 by Joe

Talk given at a technology/informatics company, London, Feb 2018. An overview of contemporary advances and remaining problems in big-data biology, especially phylogenomics. Tweet this Digg Post to LinkedIn Slashdot Stumble This

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What is ‘real-time’ phylogenomics?

Posted on 15 June, 2017 by Joe

Over the past few years I’ve been developing research, which I collectively refer to as ‘real-time phylogenomics’ – and this is the name of our mini-site for MinION-based rapid identification-by-sequencing. Since our paper on this will hopefully be published soon, … Continue reading →

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Some aspects of BLASTing long-read data

Posted on 2 May, 2017 by Joe

Quick note to explain some of the differences we’ve observed working with long-read data (MinION, PacBio) for sample ID via BLAST. I’ll publish a proper paper on this, but for now: Long reads aren’t just a bit longer than Illumina data, … Continue reading →

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Single-molecule real-time (SMRT) Nanopore sequencing for Plant Pathology applications

Posted on 14 September, 2016 by Joe

A short presentation to the British Society for Plant Pathology’s ‘Grand Challenges in Plant Pathology’ workshop on the uses of real-time DNA/RNA sequencing technology for plant health applications. Doctoral Training Centre, University of Oxford, 14th September 2016. Slides [SlideShare]: cc-by-nc-nd … Continue reading →

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Real-time Phylogenomics

Posted on 2 November, 2015 by Joe

General science talk about the potential of real-time phylogenomics, delivered at the Jodrell Lecture Theatre, Kew Gardens, November 2nd 2015 Slides [SlideShare]: cc-by-nc-nd Tweet this Digg Post to LinkedIn Slashdot Stumble This

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Omics in extreme Environments (Lightweight bioinformatics)

Posted on 7 July, 2015 by Joe

Presentation on lightweight bioinformatics (Raspi / cloud computing) for real-time field-based analyses. Presented at iEOS2015, St. Andrews, 3-6th July 2015. Slides [SlideShare]: cc-by-nc-nd Tweet this Digg Post to LinkedIn Slashdot Stumble This

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