iiinova — where your digital self keeps evolving

Reposted by Travis Gibson

Sean Gibbons 🦠💩 @gibbological.bsky.social · 23/07/2026

Dear microbiome enthusiasts: I'm excited to be moving my lab to New York University this fall (& the NYU Institute for Engineering Health); with joint-appointment @isbscience.org I'm hiring a postdoc @ NYU to look at diet-driven evolution in the gut: apply.interfolio.com/189980 Please share! 🦠🤓

apply.interfolio.com

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

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Reposted by Travis Gibson

bioRxivpreprint @biorxivpreprint.bsky.social · 02/04/2026

Attomolar fecal cytokine profiling reveals gut immune dynamics and disease states www.biorxiv.org/content/10.64898/20…

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Reposted by Travis Gibson

Sean Gibbons 🦠💩 @gibbological.bsky.social · 19/12/2025

It's time for the 2025 Gibbons Lab Research Roundup! Yeehaw! 🤠 @isbscience.org In these dark times, let the joy of scientific discovery and trainee success be your balm ❤️‍🩹 🧵...

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Reposted by Travis Gibson

Sean Gibbons 🦠💩 @gibbological.bsky.social · 17/12/2025

If you missed the 2025 @isbscience.org Virtual Microbiome Symposium (theme: how microbial metabolites influence the brain, the immune system, & metabolism), the videos of the talks and the panel discussion are now available here: youtube.com/playlist?lis... Thanks to all who helped make it happen!

youtube.com

2025 ISB Microbiome Symposium - YouTube

The 2025 ISB Microbiome Symposium was a virtual scientific event hosted by the Institute for Systems Biology (ISB) on December 12, 2025. The symposium brough...

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Sean Gibbons 🦠💩 @gibbological.bsky.social · 10/12/2025

You still have time to register for our @isbscience.org Virtual Microbiome Symposium (Dec. 12th), with 6 speakers discussing how microbial metabolites impact the nervous, immune, and endocrine systems. It's free! Recordings of the talks will be available afterwards. isbscience.org/events/2025-...

isbscience.org

2025 ISB Virtual Microbiome Symposium - Institute for Systems Biology (ISB)

The gut’s microbial ecosystem produces diverse metabolites that actively shape neural, immune, and endocrine function. Join leading researchers on December 12 as they share new discoveries into these ...

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Reposted by Travis Gibson

Segata Lab @cibiocm.bsky.social · 11/06/2025

The new version of MetaPhlAn v4.2.2 released! 📌taxonomic profiling of long-read metagenomes for the first time 📌new version of the MetaPhlAn db (vJan25_202503) containing >21k new SGBs Try it out & @hutlab.bsky.social and we are looking forward to your feedback! forum.biobakery.org/t/metaphlan-...

forum.biobakery.org

MetaPhlAn 4.2.2 release (initial long-read sequencing support and database update)

Announcement We are pleased to share that MetaPhlAn 4.2.2 is now available, which incorporates taxonomic profiling of long-read metagenomes for the first time and includes a new version of the MetaPhl...

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Reposted by Travis Gibson

Gibson Lab @gibsonlab.io · 29/05/2025

Our paper is now open access as well.

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gulliver-lab.bsky.social @gulliver-lab.bsky.social · 05/05/2025

It is a great pleasure to listen to @seppekuehnlab.bsky.social His talk is about ´Learning microbiome design principles from natural variation ´. Below, the #liveSketch painting during the seminar and given at the end! #ArtAndScience #MediationScientifique

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Reposted by Travis Gibson

Gibson Lab @gibsonlab.io · 17/04/2025

Several Postdoctoral Fellow openings. All fellows have triple appointment at HMS,BWH, and Broad - Biological sequence models (theory, design, and application) - Learning single cell dynamics - Bacteriotherapy design, “bugs-as-drugs” (using control theory principles) gibsonlab.io/openings/

gibsonlab.io

Openings

Positions available in the Gibson Lab

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Reposted by Travis Gibson

Hutlab @hutlab.bsky.social · 17/03/2025

We are still accepting registrations for this event! Please come join us and hear about cutting edge microbiome research.

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Reposted by Travis Gibson

Gibson Lab @gibsonlab.io · 07/02/2025

Paper just accepted Gibson et al. "On the stability of gradient descent with second order dynamics for time-varying cost functions" Transactions Machine Learning Research (2025) openreview.net/forum?id=Hlz...

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Reposted by Travis Gibson

Harris Wang @harriswang.bsky.social · 03/02/2025

Happy to share our new paper in @naturemicrobiol.bsky.social on mapping spatial relationships of the human gut microbiome. We identified distinct spatial hubs between gut bacteria that reflect sub-community assemblies at the micron-scale. Led by Miles Richardson & co. www.nature.com/articles/s41...

nature.com

SAMPL-seq reveals micron-scale spatial hubs in the human gut microbiome - Nature Microbiology

Split-And-pool Metagenomic Plot-sampling sequencing (SAMPL-seq) can be applied to complex microbial communities to reveal spatial co-localization of microbes at the micron scale.

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Travis Gibson @travis.gibsonlab.io · 09/01/2025

Are regret based adaptive control strategies deployable? arxiv.org/abs/2501.04572

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Reposted by Travis Gibson

Michael Baym @baym.lol · 08/12/2024

It’s easy to think this is about politics, but Ran’s actually just subtweeting my working style

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Reposted by Travis Gibson

Terence Tao @teorth.bsky.social · 29/11/2024

When can a sum of reciprocals of natural numbers sum to a rational number? There are many unsolved problems in this area, by Erdős and others. With Vjeko Kovac, we have been able to resolve some open questions and make progress on others: terrytao.wordpress.com/2024/11/27/o...

terrytao.wordpress.com

On several irrationality problems for Ahmes series

Vjeko Kovac and I have just uploaded to the arXiv our paper “On several irrationality problems for Ahmes series”. This paper resolves (or at least makes partial progress on) some open q…

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Travis Gibson @travis.gibsonlab.io · 22/11/2024

Ok this is really cool. Using the lab website I can have the lab handle: @gibsonlab.io my handle: @travis.gibsonlab.io

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Travis Gibson @travis.gibsonlab.io · 22/11/2024

@baym.lol are you doing in evolutionary studies with hCom2?

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Reposted by Travis Gibson

Katherine Xue @ksxue.bsky.social · 19/11/2024

Hi friends new and old! I study how microbes interact and evolve in complex communities like the human gut microbiome.🦠🧬💩 I'm thrilled to share that I'm starting a lab at UC Irvine in April 2025 and am recruiting at all levels - please spread the word! kxuelab.com More about my work below...🧵1/n

kxuelab.com

Xue lab at UC Irvine

Ecology and evolution in the human gut microbiome

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Travis Gibson @travis.gibsonlab.io · 18/11/2024

Happening in 20 Minutes this talk will cover their EVO model which was published in Science this week and made the cover

Sequence modeling and design from molecular to genome scale with Evo

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Travis Gibson @travis.gibsonlab.io · 18/11/2024

Monday at 4pm EST on Zoom. All info in link Brian Hie - Stanford “Sequence modeling from molecular to genome scale with Evo” comp-path.bwh.harvard.edu/events-all/b...

comp-path.bwh.harvard.edu

ABC Seminar: Brian Hie, PhD – Stanford University – “Sequence modeling from molecular to genome scale with Evo” – Brigham and Women's Hospital, Division of

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Travis Gibson @travis.gibsonlab.io · 13/11/2024

Most recent work out of joint NSF project with Wang-Gerber-Gibson labs. First author Guillaume Urtecho just started his own group at UCSD! "Spatiotemporal dynamics during niche remodeling by super-colonizing microbiota in the mammalian gut" free-access link authors.elsevier.com/c/1k5Yh8YyDf...

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