Bioinformatician and more
Calgary
Joined March 2009
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GitHub update: 'Tamor' is a 1st try at an easy-to-use workflow for rapid Personal Cancer Genome Report (amazing work from @sigven et al.) generation using @Illumina Dragen + Snakemake (@johanneskoester) + @condaproject. Instrument files ➡️ Web report. github.com/nodrogluap/tamor
ALT Screenshot of PCGR FlexDB Web page summarizing somatic mutation and germline susceptibility finding for a head and neck cancer case. Mutations are categorized into 4 tiers, and details of proetin changes are listed.
Paul Gordon retweeted
1) 🚨🚨 Story update coming// Here's why Marin Co and CDPH called the case of the Marin Co child a "presumptive" #H5N1 : Child is a toddler. Child was visiting Marin Co. -- not a resident. Child brought to ER by mom. The child had a "high" fever and had been vomiting for 3 days
Paul Gordon retweeted
A previously reported bottleneck in human ancestry 900 kya is likely a statistical artifact biorxiv.org/content/10.1101/…
At one point there were only ~1280 humans left on the planet.
Genomic inference of a severe human bottleneck during the Early to Middle Pleistocene transition science.org/doi/10.1126/scie…
GitHub update: Tamor, a Snakemake pipeline for Personal Cancer Genome Reports from FASTQ files + Dragen genome/transcriptome analysis, has been updated to work with @sigven’s 2.0 PCGR system! Now comes with working a public leukaemia data example. GitHub.com/nodrogluap/tamor
Paul Gordon retweeted
🚨SCAM ALERT🚨
There’s a new parking ticket scam we want to warn you about. Scammers are printing and placing fake parking tickets on vehicles, falsely claiming to be from Calgary Parking.
Paul Gordon retweeted
DRC - Mpox update: "The cumulative, from wk 1 -wk 21, 2024, is 7851 suspected cases and 384 deaths (lethality of 4.9%) reported in 22/26 provinces (84.6%)" flutrackers.com/forum/forum/… h/t Pathfinder
Paul Gordon retweeted
Y’all can read about this absolutely distressing situation of me trying to buy a home + learning that the seller didn’t want to sell to me because I’m Black, in @nytimes. Thank you @debra_kamin for your hard work investigating this + educating people about the Fair Housing Act 1/
Paul Gordon retweeted
Would you believe me if I told you that a single variant in a non-coding RNA explains ~0.5% of all undiagnosed individuals with neurodevelopmental disorders (NDD) in @GenomicsEngland ???
I didn’t initially either, but here is the story of RNU4-2 🧵1/9
Thrilled to share our latest discovery on a spliceosomal snRNA gene causing neurodevelopmental disorders: medrxiv.org/content/10.1101/… Thank you to everyone who contributed; it’s been a phenomenal effort to collaborate with clinicians and researchers for what would help many families!
Paul Gordon retweeted
We're #hiring a #MolecularBiology expert 👨🔬🧪🧬at @ramacgenomics @UNSWScience: Join an amazing team in stunning #Sydney to work with the latest @illumina & @nanopore workflows and devices. Salary $96k-$103K + 17% super & leave loading.
Apply here 👉 shorturl.at/fBISW
Paul Gordon retweeted
The difference in @10xGenomics' Cell Ranger's default between version 6 and 7 is discussed in this thread, but it's such a big deal that it's worth its own thread.
tl;dr: in v7 Cell Ranger changed how it produces the gene count matrix leading to a huge difference in results. 1/
The choice of whether to use Seurat or Scanpy for single-cell RNA-seq analysis typically comes down to a preference of R vs. Python. But do they produce the same results? In biorxiv.org/content/10.1101/… w/ @Josephmrich et al. we take a close look. The results are 👀 1/🧵
Paul Gordon retweeted
W.O. Mitchell was born on March 13, 1914, in Weyburn, SK. He was a prolific novelist, playwright, short story writer and scriptwriter.
He also served as our first Literary Arts director from 1974-86 and played a fundamental role in establishing the program’s philosophy #TBT
Paul Gordon retweeted
When I was in the West Bank settlers attacked olive pickers, saying they were Hamas agents. IDF soldiers used the same pretext to stop the harvest. One soldier told me picking olives was a “political act.” A thread on things I saw while reporting for The New Yorker:
Paul Gordon retweeted
Did you notice that there was not a @DoonesburyComic in your Sunday Paper (basically any @Gannett paper, including the @DMRegister) here it is! See the thread for all six panels! (1)
Paul Gordon retweeted
Oh hey the Alberta government is having an townhall about the drought. I don't remember seeing any notification of this at all, but anyway Minister Schulz is up now. "I don't think Alberta will receive enough precipitation to prevent a severe drought," she says #ableg
Paul Gordon retweeted
Want to annotate HLA/KIR genes and genotype them in a phased assembly? Try Immuannot, a new method from our group. It can identify novel alleles and reveal complex haplotype structures that short-read based methods may have troubles with. Available at github.com/YingZhou001/Immua…
My first method work in a new field, we developed an assembly based annotation tool for HLA/KIR genes. Enjoyed working with Heng @lh3lh3 and Li @mourisl !
biorxiv.org/content/10.1101/…
Paul Gordon retweeted
What if you could recombine any two DNA sequences in a programmable manner? We discovered an RNA-guided recombinase that can do just that! So happy to have co-led this project with @ntperry13
Just shared at @KeystoneSymp a new @ArcInstitute discovery of the bridge RNA recombinase mechanism: a new class of natural RNA-guided systems that retains the key property of programmability from RNAi and CRISPR while enabling large-scale genome design beyond RNA and DNA cuts
