Plant genomics researcher Natural History Museum (London), technology developer especially around genomics and next generation sequencing.
Joined May 2008
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Matthew Clark retweeted
🧬 What can DNA in the air tell us?
New research co-authored by Agnos CTO @richardmleggett & CSO @matholomoo shows airborne metagenomics can detect biodiversity rapidly and at scale — with results in under 3 hours.
Read more: biorxiv.org/content/10.64898…
#Metagenomics #eDNA
Matthew Clark retweeted
@SpringerNature sat down with our co-founder Niv Mastboim and asked the question many researchers are asking: Can an AI actually judge whether a scientific claim holds up? His answer: yes! If it’s trained to spot weak evidence as well as strong. Null results, failed replications, contradictions… not just what gets published. In a blind test, experts agreed with our calls 75% of the time on the toughest comparisons.
bit.ly/4wj2Xhk
@nivmast @OdedRechavi
Happy to report that our @richardmleggett MARTi (Metagenome Analysis in Real Time) paper is published. We find it a useful front and backend for metagenomics (HPC or laptop). For nanopore it can pipe new reads into analysis and give live graphic results genome.cshlp.org/content/ear…
New BBSRC Transformative Research Technologies grant funded postdoc, combining CRISPR and nanopore sequencing. Based @NHM_Science ideal for a super molecular biologist, with coI @richardmleggett bringing additional nanopore bioinformatics expertise. Apply jobs.nhm.ac.uk/Job/JobDetail…
Matthew Clark retweeted
One of the coolest exhibits at the @royalsociety Summer School! @LEGO_Group model of @nanopore sequencing! Well done @JonHaleBio #partnershipgrants
New publication on the HPC resources shared between @niabscience @JamesHuttonInst @NHM_Science @KewScience @RBGE_Science @SRUC @univofstandrews which is more efficient and aids collaboration - funded twice by @BBSRC ALERT
NEW PAPER: UKCropDiversity-HPC: A collaborative high-performance computing resource approach for sustainable agriculture and biodiversity conservation. Read open access paper ➡️
nph.onlinelibrary.wiley.com/…
Matthew Clark retweeted
NEW PAPER: UKCropDiversity-HPC: A collaborative high-performance computing resource approach for sustainable agriculture and biodiversity conservation. Read open access paper ➡️
nph.onlinelibrary.wiley.com/…
Matthew Clark retweeted
Very happy to see @annaliisalaine's & my article out in @ScienceMagazine today! We reveal that the more a plant species invests in defense, the less potential it has for growth. All made possible by lots of public data & amazing open science contributions! science.org/doi/10.1126/scie…
Matthew Clark retweeted
KRILLGUARD is a @NERCscience funded project that uses genome sequencing of krill and comparisons with historic specimens at the Museum to investigate the impact of climate change on this keystone species. @matholomoo with @BAS_News and Uni of East Anglia
nhm.ac.uk/discover/news/2024…
ALT Microscope image of a krill.
Matthew Clark retweeted
The code can be found here github.com/o-william-white/s…, github.com/o-william-white/s…, github.com/o-william-white/g… which is ready to go with all dependencies managed by Snakemake. Pease do try it out on your own data and let me know how it goes!
Matthew Clark retweeted
A special thank you to everyone who attended the @BioGenEurope hackathon in Leiden, testing the pipeline to help their efforts to barcode over 30,000 museum collections.
Matthew Clark retweeted
We show that the toolkit can recover mitochondrial and ribosomal genes from poorly preserved museum specimens of the gastropod family Solariellidae.
Matthew Clark retweeted
The pipelines perform the batch assembly, annotation and phylogenetic analysis of mitochondrial genomes and nuclear ribosomal genes in a robust and scalable way using snakemake.
Matthew Clark retweeted
Museum collections are a vast repository of historical biological data that remains largely untapped as genetic resources due to challenges associated with DNA degradation and contamination. Our pipelines provide a method to sequence mitochondrial and ribosomal genes at scale.
Matthew Clark retweeted
Our latest study developing a Snakemake framework for the assembly and phylogenetic analysis of mitochondrial and ribosomal sequences from genome skims of museum collections is now published in @molecology with @NHM_Science onlinelibrary.wiley.com/doi/…
Matthew Clark retweeted
I remain of the view that the disengagement of academics from this forum was a hugely self-defeating gesture. It scuttled what had been an unprecedented resource for academic communication and a valuable platform for public outreach.
Matthew Clark retweeted
Very grateful to have been awarded the John Innes Foundation prize for Excellence in Science Communication. Especially pleased that it was alongside @beeshaw_ who has always supported me in my SciComm journey 🌿
ALT Rebecca Shaw receiving the award and shaking hands with Graham Moore
ALT Mia Berelson receiving the award and shaking hands with Graham Moore
Congratulations to @MiaBerelson and @beeshaw_ who won the 2024 #JohnInnesFoundation prizes for Excellence in #ScienceCommunication, awarded yesterday at the @JohnInnesCentre Annual Science Meeting.
okt.to/Zc2YdT
@WHaerty @Richardmleggett @NRPBIODTP @ARIES_DTP
Matthew Clark retweeted
Really pleased to see our paper developing exome capture in Antarctic krill (Euphausia superba) published in @molecolgy resources, from our collaboration with @NHM_Science @BAS_News @ueaenv and @NERC_EOF. Here’s a thread on why we did this study
Matthew Clark retweeted
Thrilled to announce the release of CarpeDeam, the first assembler designed for ancient metagenomics! It tackles the challenges of ancient DNA with a Bayesian read overlap algorithm and introduces RYmers—novel kmers impervious to ancient DNA damage. 🧬 biorxiv.org/content/10.1101/…
Am I the only person who every time they hear about RFK Junior driving a bear into Manhattan, immediately thinks of that old (60s) Moose story in Woody Allen's 1960s standup? youtu.be/xmnLRVWgnXU?si=vSr6…