Dave Constant
@DaveVariable
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Virologist, aspiring immunologist. Codon optimizer. Collector of hobbies. Broad interests + dumb jokes. Views mine.
Joined January 2020
If, like me, you’ve been wondering what the deal with experiencing time is these days @mcsweeneys can help you.
mcsweeneys.net
Here at Time, we’ve made a few changes you may already be experiencing that we think you should know about. Please see below. A Minute A minute use...
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Finally, a simple and easy-to-understand immunology explainer: https://t.co/kI4X1IWJBl
xkcd.com
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Happy to share our new preprint on codon optimization using large language models. It was an honor to co-lead this work with the amazing @DaveVariable and @milesgander. Shoutout to all the team that made this possible @abscibio ! https://t.co/ZcmQk26jWD
biorxiv.org
Increasing recombinant protein expression is of broad interest in industrial biotechnology, synthetic biology, and basic research. Codon optimization is an important step in heterologous gene...
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I’m very proud of this work, and think it’s very rigorous (26 supplemental figures/tables!). Codon optimization is a very hard problem, and we improved substantially on the state of the art. I’m looking for my next opportunity so please drop me a line if you think this is cool!
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I’m very happy to share that my work at Absci is now public! Great tweetorial here by @milesgander on our codon optimization tool. We generated functional expression data to train deep learning models. Many thanks owed to my coauthors! https://t.co/QmqNUTQ9SJ
biorxiv.org
Increasing recombinant protein expression is of broad interest in industrial biotechnology, synthetic biology, and basic research. Codon optimization is an important step in heterologous gene...
Excited to announce our recent paper at @abscibio developing deep learning-based codon optimization. Using LLMs we learn natural patterns of codon usage, predict expression levels and use our models to design high expressing CDSs on proteins outside our training set. Thread (1/N)
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Theres been a lot of negative news lately, but one positive personal development is that my paper on IFN, TNF, and human intestinal epithelial cells with @tim_nicelab, @jakevanwinkle, and many others is officially published! https://t.co/guHLvQbnAb
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Being a science hoarder paid off when the RNA I banked contributed to this cool paper!
Our lab & @Rauchlab's collaborative study on human inflammasome responses to Salmonella Typhimurium in intestinal epithelial cells is now online!
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Great opportunity! I’d do it if I could!
Open tech position funded 1-3yrs to expand our human intestinal organoid biobank. Exciting studies aim to find assoc. between IFN response, genetics, and disease. Great experience to prep for graduate school! Please RT and share with anyone interested.
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Are you a student pursuing a bachelor’s, master’s, or PhD? Do you want to work on the cutting edge of #AI and synthetic biology? The Absci 2022 #Internship Program is accepting applications across multiple departments. Apply today! #unlimit #biotechjobs
https://t.co/F8LITxeuYq
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I am very excited to share the final form of our publication @eLife! Studies by @jakevanwinkle together with @baldridge_lab uncover epithelium-specific antiviral protection stimulated by gut bacteria. Thanks to all contributors! https://t.co/FH85ljdxht
elifesciences.org
The enteric bacterial microbiota stimulates a highly localized interferon-lambda signal within the intestinal epithelium that protects against murine rotavirus infection.
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I sure hope that writing lots of inefficient code leads to writing efficient code
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It’s preprint day! As a postdoc with @tim_nicelab I established an IEC organoid biobank and investigated cytotoxic effects of IFNs and TNFa. While I’ve left the lab now, I’m very excited to share this story and I can’t wait to see what else this biobank leads to!
Transcriptional and Cytotoxic Responses of Human Intestinal Organoids to Interferon Types I, II, and III https://t.co/SVqQBgTiox
#bioRxiv
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It’s so nice to see good work published! It was great to collaborate with Med student and first author Jonathan Wallace on this review in the @tim_nicelab . Plus a constructive review experience!
New Research: Interferon Lambda in the Pathogenesis of Inflammatory Bowel Diseases: Interferon λ (IFN-λ) is critical for host viral defense at mucosal surfaces and stimulates immunomodulatory signals, acting on epithelial cells and few other… https://t.co/GBDALMpa2H
#immunology
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Congrats to @OHSUSOM student Jonathan Wallace and @DaveVariable on publication of this review! I learned a lot about this complex topic from writing with them and am excited to see how studies in this area progress.
Happy to see the latest review I edited in our @FrontImmunol Type III IFN special topic is now out by @tim_nicelab's lab. Thanks to @EdelblumLab & Dr. Gamero for your constructive comments! It is a great mini-review discussing type III #IFNs & #IBD 😀👏
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I helped write a review on innate immunity in IECs with @RauchLab and @tim_nicelab and it’s available for free until 10/20! With the best graphical abstract ever provided by Bella. https://t.co/nGs7UGDXr6
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I’ve never felt more seen
Some people say that when you toss an object into the air, gravity compels it to return to earth. But what if it isn’t gravity at all? What if it’s an invisible man named Dave who likes to swat things out of the sky and has never missed?
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How on earth did I just spend five hours straight cell culture? *refers to research plan* Oh right.
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Not to brag, but... I have an application finished one week before deadline
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