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Shawn Burgess

@burgesslab.bsky.social

1.9K followers 660 following 840 posts

zebrafish researcher, genetics and genomics of regeneration All posts are my personal opinions and do not reflect the position of the NIH or US government

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Shawn Burgess @burgesslab.bsky.social · May 15

Some exciting news! NCBI has finished the annotation pipeline for our new #zebrafish reference sequence GRCz12tu:
www.ncbi.nlm.nih.gov/refseq/annot...

This is a big step up in data depth and quality and should be super helpful going forward.

Danio rerio Annotation ReportTwitterFacebookLinkedInGitHubNCBI Insights BlogTwitterFacebookYoutube

www.ncbi.nlm.nih.gov

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Ellie Armstrong @elliecat.bsky.social · 5h

Interested in giving a talk at PAG 2026 in the Wildlife Genomics, Comparative Genomics of Animals, OneHealth, Ancient DNA, or Domestication Genomics sessions? We are extending our abstract submission by a few days. We'd love to hear from you! Submit here and please repost! forms.gle/q7j275Di6umY...

PAG 2026 Abstract Submission: Ancient DNA, Domestication Genomics, Comparative Genomics of Animals, Wildlife Genomics, One Health Hologenomics

****DEADLINE: OCTOBER 12, 2025**** This is the abstract submission form for the following PAG 33 workshops: Paleogenomics and Degraded DNA Domestication Genomics Comparative Genomics of Animals Wildl...

forms.gle

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Ardem Patapoutian @ardemp.bskyverified.social · 1d

During these uncertain times, I’m very happy to see that my institution, @scripps.edu has an open tenure-track Assistant Professor position. Any field in Chemistry or Biology is welcome. I’d especially love to see fellow neuroscientists apply. Please repost!

apply.interfolio.com/174756

Apply - Interfolio {{$ctrl.$state.data.pageTitle}} - Apply - Interfolio

apply.interfolio.com

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Gaia Vince @wanderinggaia.bsky.social · 12h

Actually the moves are widely popular with two-thirds supporting

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Kate Clancy @kateclancy.bsky.social · 1d

I am being asked to tell my department which pieces of lab equipment should be supported with backup power because they expect rolling blackouts and brownouts in 2026 due to increased energy demands from AI. In case you're wondering how my day is going.

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Alex Wild @alexwild.bsky.social · 1d

If you are applying for a faculty job in Texas, argue for a higher salary than you'd get at other institutions. The lack of real tenure protections is a de facto compensation cut and you should negotiate accordingly.

Texas search committees know that getting good candidates is an uphill battle.

Don Moynihan @donmoyn.bsky.social · 1d

If you make "controversial statements" outside of classroom, that the President of the university dislikes, you can be summarily fired even if you are tenured.

Julie Greene @greeneland.bsky.social · 1d

I just learned, Thomas Alter, tenured professor, has been terminated effective immediately. Shame on Texas State! We mst build support for Tom. spectrumlocalnews.com/tx/south-tex...

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Adam Phillippy @aphillippy.bsky.social · 2d

The pangenome resources and genome assembly/inference approaches we are building will eventually enable complete, personalized “T2T” genomes for everyone. This is the thesis of the Q100 project (www.biorxiv.org/content/10.1...) and what my group is currently working towards. Stay tuned... [10/10]

A complete diploid human genome benchmark for personalized genomics

Human genome resequencing typically involves mapping reads to a reference genome to call variants; however, this approach suffers from both technical and reference biases, leaving many duplicated and ...

www.biorxiv.org

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Adam Phillippy @aphillippy.bsky.social · 2d

Vivien is always fun to chat with and I was in a slightly opinionated mood from the start -- “The idea of a single reference genome is outdated,” says NIH researcher Adam Phillippy [2/10]

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Adam Phillippy @aphillippy.bsky.social · 2d

In honor of ASHG week (since I won’t be there), see "Choose your human genome reference wisely", in which Vivien Marx interviewed me @fergalmartin.bsky.social @lh3lh3.bsky.social @danrdanny.bsky.social @heidirehm.bsky.social and others on the state of the human reference rdcu.be/eJejg 🧵[1/10]

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Zebrafish Rock! @zebrafishrock.bsky.social · 3d

Pigment pattern evolution of Danio varieties. Credit to @dparichy.bsky.social et al. #ZebrafishZunday 🧪

Close-up of different danio species. They are some with horizontal or vertical stripes and some with spots.

Evolutionary tree of danio species with their respective pigment pattern

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Teresa Rayon @trayon.bsky.social · 3d

Model organisms as platforms for training scientific minds

www.nature.com/articles/s41...

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Zebrafish Rock! @zebrafishrock.bsky.social · 4d

Published October 25 years ago, “Effective targeted gene ‘knockdown’ in zebrafish” by Nasevicius & Ekker detail use of antisense morpholino-modified oligonucelotides or #morpholinos that inhibit translation. This landmark spurred a revolution in targeted gene knockdown in vivo. #ZebrafishFunFacts 🧪

Structures of DNA and morpholino oligonucleotides. R and R' denote continuation of the oligomer chain in the 5' or 3' direction, respectively. Credit to Corey & Abrams (2001) Genome Biology.

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Cells & Development @cellsdev.bsky.social · 4d

In honor of the passing of Sir John Gurdon, we will revisit the concept of chimerism across scales in this review from the lab of @drmichaellevin.bsky.social. Grafting and nucleus transplanting have been the cornerstone of modern #devbio. We have come so far!
www.sciencedirect.com/science/arti...

Schematic of the study of multiscale chimerism.

Chimeras at different scales: subcellular, molecular, cellular, tissue, organ, and population.

What determines the anatomical setpoint of regenerative homeostasis?

Planarian flatworms regenerate after amputation using a resident population of stem cells. This process reliably stops when the correct species-specific head shape is restored. The following thought experiment illustrates the profound knowledge gap in our understanding of the rules of morphogenesis despite ample information about genes required for neoblast differentiation.

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James Briscoe @jamesbriscoe.bsky.social · 5d

The @crick.ac.uk is recruiting Early Career Group Leaders

- Lab set-up, research costs, salaries for up to 5 researchers
- Support for up to 12 years
- Access to our core facilities
- Competitive salary
- Fantastic colleagues
- All areas of biology

Deadline 27 Nov

www.crick.ac.uk/careers-stud...

Early career group leaders

We appoint researchers from across biology and biomedicine to set up their first groups at the Crick.

www.crick.ac.uk

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Shawn Burgess @burgesslab.bsky.social · 4d

So good!

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Alliance of Genome Resources @alliancegenome.bsky.social · 5d

The next Alliance webinar "A practical guide to Using the Alliance as a research resource" is Thurs. Oct 16, noon EDT Paul Sternberg will demonstrate how he uses the Alliance for comparative genomics in support of his research.

Register here to get the Zoom link by Weds Oct 15 tinyurl.com/4f9ycybt

Alliance Of Genome Resources Event Registration

Webinar recordings are posted at https://www.youtube.com/@AllianceOfGenomeResources A schedule of future events is on the Alliance Events Calendar https://www.alliancegenome.org/event-calendar

tinyurl.com

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Shawn Burgess @burgesslab.bsky.social · 5d

Breakfast is better during a shutdown anyway.

Reposted by Shawn Burgess

Coleen Murphy @ctmurphy1.bsky.social · 5d

Begging scientists (and media posts about science) to stop using ChatGPT-generated images

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Profit Greenly @profitgreenly.bsky.social · 5d

~40% of the ENTIRE corn crop of the US is used to make ethanol. This gets blended with gasoline to power well under 10% of our vehicle miles. If we converted 100% of our vehicles to EVs installing solar on a small fraction of the land this corn is grown on would power them all.

US domestic corn use graph from 1980 to 2020. The orange bar representing "Alcohol for fuel use" (aka ethanol) starts growing in early 2000s, explodes before 2010 and stays huge through the graphs 2022 end. This explains most of the increased corn production in the US.

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Shawn Burgess @burgesslab.bsky.social · 5d

Saw Noga Erez Wed night. It was 🔥🔥🔥

Shawn Burgess @burgesslab.bsky.social · 8d

Since a kid, it went right past my grandparents house in NH. Never had the right moment and I’m worried I probably missed the window of opportunity.

Shawn Burgess @burgesslab.bsky.social · 8d

Got out on a stretch of MD’s Appalachian Trail this weekend.

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Shawn Burgess @burgesslab.bsky.social · 8d

Cat Scratch Fever?

Shawn Burgess @burgesslab.bsky.social · 8d

More like Dawdle these days.

Shawn Burgess @burgesslab.bsky.social · 13d

I can’t believe I pay for the Disney/Hulu/ESPN bundle and yet I can’t watch the Red Sox game without paying for some extra tier of ESPN to watch any actual sports someone might care about. This version of tv sucks

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Charlie Warzel @cwarzel.bsky.social · 14d

feels like we're living through some kind of cultural gas leak

The Verge @theverge.com · 16d

Microsoft launches ‘vibe working’ in Excel and Word

Vibe working is all about Office’s new Agent Mode.

buff.ly

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