Hockey player for @cambsouthhc. Also... a blogger and tweeter about #genomics and a marketer of #NGS at @nanopore. Ex @illumina . Views are my own.
Cambridge, England
Joined January 2015
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Joe Whittaker retweeted
Mmmmm, fresh genome. This is a peek at the nanopore data ahead of Illumina run next week. Amazingly fast turnaround time of TWO DAYS. Thanks, @plasmidsaurus!!! Already designing knockout cassettes as we speak. Engineering microbes for nice smells at @SenseoryPlants.
Anyway, gonna try out @plasmidsaurus's hybrid genome sequencing for a work microbe I'm developing at @SenseoryPlants. Price seems decent. Let's see how good the coverage is on this 7ish Mbp actino. We'll upload genome to genbank once assembled and polished. Yay, sequencing!
Using 'only' a MinION device with adaptive sampling to generate long reads. Pocket-sized cancer detection for you🔥🔥
Hanlee Ji and team are unlocking the mutational landscape of cancer at single-cell resolution. From BCL2 fusions to KRAS mutations — read how they’re revealing more about tumour heterogeneity: bit.ly/4ilS4FM
Joe Whittaker retweeted
Excited to share our new study of #genomics🧬, #EHR📈 + treatment outcomes of 78K patients across 20 #cancers!
We identified >700 mutations predicting which drugs💊 are effective for individual patients. Our #ML model predicts who respond well to immunotherapy #precisioncancer
Nice. I remember doing a BBSRC summer internship in the UK on wheat varieties and the affect of take-all on them....both by hand, visual scoring, and a few basic molecular techniques...! 🤣
How times have changed in Ag!
Scientists from the Earlham Institute will head to #PAG32 next month, presenting their work during the '#wheatgenomics to breeding' session on using #genomeassemblies and ultra-long #Nanopore reads to identify key variations in wheat.
okt.to/vE34sY
ALT Talk details for upcoming PAG conference: Jonathan Wright, Bioinformatician. Talk title: High-quality genome assemblies to explore genetic variation in wheat. Second speaker: Graham Etherington, Senior Computational Biologist. Talk title: Structural variant discovery in the Watkins Landrace Wheat Collection using ultra-long Nanopore reads
Nice
Towards Next Generation Protein Sequencing
review on nanopore protein sequencing
chemistry-europe.onlinelibra…
P24! One of my favourites. I wonder what the T2T genome of Santa looks like…
🎄 Christmas has arrived a little bit earlier than expected here!
Ready to roll out #T2T #genome #assembly of complex genomes by Christmas Eve. 🎅✨
@nanopore #LongReadSequencing
Joe Whittaker retweeted
Tis the season for #holiday lights. #avianinfluenza sequencing up and running on our new #mk1d from @nanopore at @PasteurCambodia . #nanopore #oxfordnanopre #genomic #h5n1 #alliwantforchristmas #anywhereanything
Joe Whittaker retweeted
Excited to show our latest attempt at a clinically meaningful clinical cancer genome with rapid turn around (24 hours!) times using Oxford Nanopore sequencing technology for patients who need a rapid, whole genome assessment of their tumour and germline, offering them (1/n):
Joe Whittaker retweeted
PromethION 2 Integrated (P2i) is moving to open early access.
With its onboard compute and integrated screen, the self-contained device is bringing high-quality, real-time sequencing to a wider range of labs.
Learn more: bit.ly/48PDCQ9 #WYMM
Joe Whittaker retweeted
Direct RNA sequencing update!
We are pleased to announce that RNA004 is moving into open Early Access.
RNA004 provides higher outputs and accuracy compared to the previous version RNA002.
Learn more: bit.ly/40KRtVI 1/9
Joe Whittaker retweeted
Great accuracy using @nanopore DRS RNA004 on total RNA. ~96-98% identity using sup calling. Example of a ~10.8 Kb full length 🥬 transcript below. 💥
Joe Whittaker retweeted
Well here's the @nanopore update.. we have carried out a hereditary cancer panel screen:
* ~200 genes
* 15mbases panel
* Coverage between 50-70x on target; 5x off target
* 16hr run time LSK114 + R10.4.1
This is PMS2 exon 10&11 - a notoriously difficult place to sequence with SR
Looks so good...
Some serious psychedelic art going on here. Putting the sticker was definitely harder than doing a library 😝. @nanopore
And you get to see these beauties too #nanoporeconf
London Calling 2023 about to begin. Come and visit the live lounge to see the P2 integrated @nanopore #NanoporeConf
Looking forward to @nanopore #nanoporeconf LC23 this week. Been practising on the GridION… haven’t been in the lab for years but managed a whole workflow in just one morning 🔥 🔥! 🔨 ⭕️
