Jonathan Foox
@jfoox
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Computational biologist in the @mason_lab at Weill Cornell Medicine. Long reads, epigenetics, and evolution.
New York City
Joined June 2012
RT @mason_lab: Elated to release our new @NatureBiotech paper, "Performance assessment of DNA sequencing platforms in the ABRF Next-Generat…
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RT @mason_lab: Our new preprint is out! "Systemic Tissue and Cellular Disruption from SARS-CoV-2 Infection revealed in COVID-19 Autopsies a…
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RT @ShapiraLab: Finally out! Super happy and so grateful for everyone involved -- with a very special thank you to @nicktatonetti and @maso…
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RT @mason_lab: Our @biorxivpreprint "Multi-Platform Assessment of DNA Sequencing Performance using Human and Bacterial Reference Genomes" w…
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RT @mason_lab: Our new paper with @OdedRechavi came out today in @CellCellPress! "Illuminating Genetic Mysteries of the Dead Sea Scrolls" h…
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@NYCuratrix @DrShaena @RGGSatAMNH @sebastian_kvist @SnorriSigur @DrScanley @pedro_peloso @SpencerGalen @KellySpeer @bernardo_santos I'm bad at Twitter and just saw this. Can this still happen sometime? I've got my McAleer's virtual background all ready to go
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RT @mason_lab: Our new @biorxivpreprint is up! "Host, Viral, and Environmental Transcriptome Profiles of SARS-CoV-2." COVID-19 patients (n…
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This is especially interesting after just a few years ago discovering (in a different species) eight large, circular, largely non-coding mitochondrial chromosomes: maybe just the tip of the iceberg for myxozoan mitochondrial evolution?
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RT @PacBio: “We find that long telomeric stretches can be accurately captured with long-read sequencing.” Learn how @LankyCyril @jfoox @mas…
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A major gamechanger!
Nanopolish v0.12 supports live methylation calling, while the sequencer is running. An update worthy of dusting off the old blog for:
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RT @mason_lab: @mitenjain showing the fast Shasta pipeline for fast human genome assembly, with N50 results in the 20-30Mb, a low error rat…
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RT @mason_lab: A 2.44 Mb human read- the longest sequenced DNA molecule to date! @circulomics Kevin Liu shows updates to the @mattloose, @p…
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Like Neo, I can read the epi-Matrix... thanks @mason_lab for the photos!
@jfoox rocking an Epigenomics talk and covering all the @nanopore methods and applications. He noted that the hotel art at #ABRF2020 looks at lot like squiggle plots of Pico-amp current data ;-)
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Sharing slides from my #ABRF2020 talk on detecting base modifications in @nanopore data – with a special shout out to all the fish-based software names! Thanks to @mitenjain @stoibs11 and the many awesome members of the ONT informatics community
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Good days for long reads and epigenetics!
Slides from my #AGBT20 talk, "Diplotype-resolved, single-molecule telomere sequencing reveals elongation during spaceflight and non-canonical repeats" featuring work w @jfoox @LankyCyril @Daniela_Bezdan @dcdanko @danjbuts @mjdmackay @NEBiolabs #YearinSpace
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RT @mason_lab: @jfoox speaking about @NASA twins study and changes in methylation over time with EM-seq #AGBT20
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