Associate Principal Scientist @ Merck
Philadelphia, PA
Joined June 2019
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Check out our recent paper! We used DNA barcodes to identify rare cells that are uniquely susceptible to respiratory viruses.
So awesome to have this great paper from @SamReffsin and Sara Cherry out! In it, we use retrospective clone tracing to show that there are particular single cell states that are more susceptible to viral infection (both SARS-CoV-2 and flu)!
cell.com/cell/fulltext/S0092…
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Ever struggled with manual and tedious image analysis pipelines? Check out Piscis, developed by @zwniu!
1/ Very excited to share a preprint of my first, first-author paper @arjunrajlab on Piscis, a fully automatic deep learning algorithm for spot detection in fluorescence microscopy images! (e.g., single-molecule RNA FISH) biorxiv.org/content/10.1101/…
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If you're looking for a postdoc position, definitely check out Yogesh's lab! An amazing scientist, mentor, and all around great person!
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Sam Reffsin retweeted
I'm really excited to present work from @ophirshalem’s group with my outstanding co-first author Yevgeniy Serebrenik @YSereb to tag and manipulate proteins at scale, which we use to study the #proteome and #proteostasis biorxiv.org/content/10.1101/…
Also thank you to @yogeshgoyallab , @BenEmert , Phil Burnham, and the other members of the Raj and Cherry labs for their valuable input!
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A huge thanks to @arjunrajlab and Sara Cherry for their incredible mentorship during this project. In addition, this manuscript wouldn’t be possible without the help of Jesse Miller, Kasirajan Ayyanathan, Maggie Dunagin, @uffdaALLberries , and Dave Schultz.
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We also found higher expression of these genes in various comorbidities for severe COVID-19, such as inflammatory disease and tobacco use.
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Interestingly, we also found that some of the factors expressed in this state that promote infection do so through regulation of the state itself, altering expression of downstream proteins that promote viral entry.
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We further validated that many factors expressed within this susceptible population directly promote infection with SARS-CoV-2. Some of which, by promoting viral entry.
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We applied a retrospective clone tracing method (modified from nature.com/articles/s41587-0…) to rewind time to identify the transcriptional state that infected cells were in prior to infection with SARS-CoV-2. We found a distinct cell state that was highly susceptible to infection.
While amazing work has been done to characterize this variability, previous methods do so after infection has occurred. At this point, the state of infected cells has been rewired by the virus, making it difficult to determine what distinguished infected cells prior infection.
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Viral infection under limiting conditions (a low number of viral particles relative to the number of cells present, similar to the conditions by which person-person transmission can occur) is variable.
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Very excited to share our work on identifying novel transcriptional states that drive variability in SARS-CoV-2 infection at the single cell level! biorxiv.org/content/10.1101/…
Super excited to see what the future holds for the incredibly talented and creative @yogeshgoyal03. A must check out lab for anyone looking for a postdoc position in the fields of cancer bio or development
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Sam Reffsin retweeted
Excited to announce our collaborative research grant awardees. 2 great teams will be working on projects that bridge #regenmed and #covid19 research.
Team 1: @FlyByVirus @arjunrajlab @sydshaffer @ophirshalem
Team 2: @vaughandy @montserrat
Congratulations and good luck!
Sam Reffsin retweeted
If you need a distraction during this immense time, consider checking out a new preprint from the Raj lab.
biorxiv.org/content/10.1101/…
The following thread will summarize what we found.
Sam Reffsin retweeted
Today we are sharing a research protocol for SHERLOCK-based COVID-19 #coronavirus detection, and hope it will help others who are working to combat the outbreak. We will continue to update this as we make further progress: static1.squarespace.com/stat…