@dbacsik

@UW_MSTP student studying severe respiratory virus infections Previous work with: @jbloomlab Greninger Lab @UWVirology @pablotsukayama

 Seattle, WA
Joined June 2015
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virological.org/t/preliminar… Three groups have independently sequenced specimens from this hantavirus outbreak and they worked together to rapidly resolve any uncertainty in regard to technical artifacts.

Preliminary analysis of Orthohantavirus andesense virus sequences from a cruise-ship related...

Preliminary analysis of Orthohantavirus andesense virus sequences from a cruise-ship related cluster, May 2026. In May 2026, an Andes virus (ANDV) outbreak occurred aboard the Dutch-flagged cruise...

virological.org
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They report only 2 true nucleotide differences among the 5 consensus genomes generated.
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David Bacsik retweeted
Aaron Ring
@aaronmringMar 17
How specific are therapeutic monoclonal antibodies, really? In our new paper, @Yile_Dai led a collaboration with Adimab to profile 174 FDA-approved and clinical-stage mAbs against 6,172 human extracellular proteins. What we found surprised us.🧵 sciencedirect.com/science/ar…
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2) Since there was a recent fatal H5N5 infection in the US, we also assessed population immunity to N5. Compared to N1, where we see a lot of neuraminidase inhibition activity to H5N1, this is basically absent for H5N5. Humans don't have a lot of antibodies to N5.
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UW DLMP Division of Infectious Disease Diagnostics detected an H5 influenza virus in a patient and, through whole-genome sequencing, identified the 1st-ever documented human case of influenza A(H5N5). dlmp.uw.edu/news/article/uw-…
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1/ How has H5N1 affected this year’s flu season in Seattle? Despite ongoing outbreaks in birds & cattle nationally, we detected zero H5N1 cases in 675 influenza A-positive specimens tested at UW Medicine.
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8/ The final version of this manuscript is now published in the Journal of Clinical Microbiology. It includes updated results from 150 clinical tests performed through the end of April, none of which detected subtype H5 influenza A virus. journals.asm.org/doi/10.1128…

Validation of H5 influenza virus subtyping RT-qPCR assay and low prevalence of H5 detection in...

The spread of H5N1 influenza virus in the United States has led to the culling of almost 200 million birds, infected cow herds across 17 states, and resulted in 70 human infections as of July 2025....

journals.asm.org
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7/ Clinicians: The H5 subtyping PCR is available to order now through UW Medicine: testguide.labmed.uw.edu/view…
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6/ Read more in our manuscript from the @GreningerLab at @UWVirology: medrxiv.org/cgi/content/shor…. Many people contributed to this work, including @MargaretGMills, Ailyn Perez-Osorio, and @pavitrarc.
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5/ The CDC recommends subtyping all hospitalized flu A+ cases. With H5N1 still circulating widely in birds & cattle, monitoring remains critical—especially for patients with close animal contact, who face the highest risk.
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4/ This suggests that, in Seattle, the 2024-2025 flu season has been driven by seasonal strains, with no H5N1 detected among this cohort of patients with lab-confirmed influenza A infections.
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3/ So far, none of the samples tested have been H5-positive. All sequenced samples contained seasonal H3N2 or H1N1 viruses.
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2/ In Dr. Alex Greninger’s lab at UW Virology, we developed a clinical RT-qPCR assay for H5 subtyping. We used it to differentiate seasonal influenza A infections from subtype H5 infections during Seattle’s 2024-2025 influenza season.
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Happy to share our latest preprint describing clinical assay validation for RSV whole genome sequencing using a modified version of the ARTIC RSV panel doi.org/10.1101/2025.01.26.6… <thread> 1/
bioRxiv Genomics@biorxiv_genomic28 Jan 2025
Clinical performance evaluation of a tiling amplicon panel for whole genome sequencing of respiratory syncytial virus biorxiv.org/cgi/content/shor… #biorxiv_genomic
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To facilitate rapid testing, production of fluorescent and bioluminescent variant strains using RG system. These strains useful in high-throughput evaluation of antiviral interventions 👉journals.asm.org/doi/epub/10…
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Extremely honored and ecstatic to be named a 2024 #STATWunderkind ! Many thanks to @statnews for highlighting my work on using genomic epi and phylodynamics to understand mpox dynamics affecting queer communities around the globe. Read more here: statnews.com/meet-the-2024-s…
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Congrats to @NathanGrubaugh and colleagues on this very important new resource
Yale Epidemiology of Microbial Diseases@YaleEMD30 Sep 2024
A global team of scientists including current and past EMD researchers have developed a new lineage system to help track dengue virus outbreaks across the world Find out more 👇 @viralverity @NathanGrubaugh #Dengue #genomicsurveillance #PublicHealth news.yale.edu/2024/09/27/new…

New dengue virus naming system will help identify and track variants

The system will allow researchers worldwide to better track new variants of dengue virus — which affects millions — and create new vaccines.

news.yale.edu
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David Bacsik retweeted
Bloom Lab
@jbloom_lab15 Sep 2024
Here is analysis of HA mutations in H5 influenza case in Missouri resident without known contact w animals or raw milk. TLDR: there is one HA mutation that strongly affects antigenicity, and another that merits some further study.
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We tracked a pandemic decimating beetle colonies and used cryoEM for sequencing-free discovery of the new virus that caused it. This virus is crazy; parvoviruses aren't supposed to have such structured protein-DNA interactions. We fulfilled all 4 of Koch's postulates for etiology
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I'm proud to present you my newly accepted article: "Phylogenetic tree statistics: A systematic overview using the new R package ‘treestats’", which you can find here: doi.org/10.1016/j.ympev.2024… What is it about? Want to know more? 1/20
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