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Alexandre Almeida @alexmsalmeida.bsky.social · 7d

Applications to the first training event: "Introduction to Experimental Design and Core Statistics" of the UK GIBA Network+ (@ukgibanetwork.bsky.social) are now open! Taking place Dec 8-10 in Cambridge.

Further info: www.giba-uk.org/training-opp...
Apply here: forms.office.com/Pages/Respon...

Home | Giba Network UK | Gut Immune Brain Axis Network

Gut Immune Brain Axis Network (GIBA Network)

www.giba-uk.org

Reposted by Alexandre Almeida

UK GIBA Network+ @ukgibanetwork.bsky.social · 7d

📊 Want to boost your research skills?

Join our 3-day training on Experimental Design and Core Statistics in Cambridge (Dec 8–10).

✅ Free to attend
🙋‍♀️ Open to all career stages
🚆 Travel and accommodation costs reimbursed

Apply by October 17th 👉 www.giba-uk.org/training-opp...

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Reposted by Alexandre Almeida

UK GIBA Network+ @ukgibanetwork.bsky.social · 16d

Our working groups support the development of effective collaborations across the UK to advance research.

Introduced by Franziska Denk (@denklab.bsky.social) at our #GIBANetworklaunch.

Want to know our first 5️⃣ topics? Find out here 👇
www.giba-uk.org/working-groups

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Reposted by Alexandre Almeida

UK GIBA Network+ @ukgibanetwork.bsky.social · 16d

✔️ Flexible funds
✔️ Fellowships
✔️ Mobility awards

Our director Jonathan Swann shares some of the ways we will expand the mechanistic understanding of the gut-immune-brain axis.

More details will appear on our Network website in the coming days 👇
www.giba-uk.org/funding-oppo... #GIBANetworklaunch

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Reposted by Alexandre Almeida

UK GIBA Network+ @ukgibanetwork.bsky.social · 16d

“One of the key pillars of our network is training,” says
@alexmsalmeida.bsky.social.

We are committed to equip our members with the skills, tools and methods essential for research.

Our first course was announced at our #GIBANetworklaunch 🌟

Want to know more? 👇
🔗 giba-uk.org/training-opp...

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Alexandre Almeida @alexmsalmeida.bsky.social · 16d

Representing the bioinformatics crowd at the #GIBANetworklaunch

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Reposted by Alexandre Almeida

UK GIBA Network+ @ukgibanetwork.bsky.social · 16d

The past two decades have seen a global explosion of research into the gut-immune-brain axis.

There is great energy in #Southampton today for our #GIBANetworklaunch.

Together, we are building a vibrant and diverse research community to fully realise GIBA's potential.

Learn more 👉 www.giba-uk.org

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Alexandre Almeida @alexmsalmeida.bsky.social · 27d

Thanks Florian! That's very cool. Would be great to connect at some point. We would be very interested in following this up and explore potential collaboration opportunities.

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Alexandre Almeida @alexmsalmeida.bsky.social · 28d

Really excited about this work, showing how the understudied portion of the microbiome may have important clinical relevance.

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Alexandre Almeida @alexmsalmeida.bsky.social · 28d

🚨 New pre-print from the lab! We performed a large-scale meta-analysis of the uncultured gut #microbiome in >10,000 metagenomes enabling us to identify a new candidate biomarker of health. www.biorxiv.org/content/10.1...

Meta-analysis of the uncultured gut microbiome across 11,115 global metagenomes reveals a new candidate biomarker of health

The human gut microbiome plays an important biological role in host health, yet over 60% of gut species remain uncultured and hence inaccessible to experimental manipulation. Here we analysed 11,115 h...

www.biorxiv.org

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Alexandre Almeida @alexmsalmeida.bsky.social · Jul 14

The GIBA network will be launching on September 22nd with an in-person event in Southampton. Do come along to hear and share your thoughts on our plans to drive innovation in the gut-immune-brain axis field in the UK. Sign-up here: www.eventbrite.com/e/uk-giba-ne...

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Reposted by Alexandre Almeida

School of Biological Sciences @cambridgebiosci.bsky.social · Apr 28

A new UK research network supported by UKRI will investigate how gut health impacts the brain, immune system, and mental wellbeing.

Dr Alexandre Almeida (@alexmsalmeida.bsky.social) is part of the interdisciplinary team leading this new initiative.

Read more: www.bio.cam.ac.uk/news/cambrid...

Cambridge partners on a new UK research network to unlock

A groundbreaking UK research network has been launched by UKRI to uncover how gut health influences the brain, immune system, and mental well-being – potentially leading to new treatments for

www.bio.cam.ac.uk

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Reposted by Alexandre Almeida

University of Cambridge Vet School @camvetschool.bsky.social · Apr 28

We're delighted that researchers from the @camvetschool.bsky.social are contributing to this important new network, advancing understanding of the gut-immune-brain connection.🧠👇🏽

Alexandre Almeida @alexmsalmeida.bsky.social · Apr 28

Excited to be part of the leadership team of a new @ukri.org BBSRC Gut-Immunology-Brain Axis (GIBA) Network+ to drive further mechanistic understanding of the GIBA. See more: www.bio.cam.ac.uk/news/cambrid.... @camvetschool.bsky.social @cambridgebiosci.bsky.social

Cambridge partners on a new UK research network to unlock

A groundbreaking UK research network has been launched by UKRI to uncover how gut health influences the brain, immune system, and mental well-being – potentially leading to new treatments for

www.bio.cam.ac.uk

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Alexandre Almeida @alexmsalmeida.bsky.social · Apr 28

Working with Jon Swann, Jessica Teeling,
@parker-aim.bsky.social and
@denklab.bsky.social we will be bringing together everyone across the UK interested in any facet of the GIBA (academia, industry, public). Do register your interest here: www.giba-uk.org

Home | Giba Network UK | Gut Immune Brain Axis Network

Gut Immune Brain Axis Network (GIBA Network) is ......

www.giba-uk.org

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Alexandre Almeida @alexmsalmeida.bsky.social · Apr 28

Excited to be part of the leadership team of a new @ukri.org BBSRC Gut-Immunology-Brain Axis (GIBA) Network+ to drive further mechanistic understanding of the GIBA. See more: www.bio.cam.ac.uk/news/cambrid.... @camvetschool.bsky.social @cambridgebiosci.bsky.social

Cambridge partners on a new UK research network to unlock

A groundbreaking UK research network has been launched by UKRI to uncover how gut health influences the brain, immune system, and mental well-being – potentially leading to new treatments for

www.bio.cam.ac.uk

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Reposted by Alexandre Almeida

Svetlana Ugarcina Perovic @svetlanaup.bsky.social · Apr 17

argNorm is published now academic.oup.com/bioinformati...

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Reposted by Alexandre Almeida

Jack A Gilbert @gilbertjacka.bsky.social · Apr 11

Me and a few of my mates got together and wrote a review on the current state of clinical translation of microbiome research.

A great summary of the state of the art for microbiome research.

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

Clinical translation of microbiome research - Nature Medicine

This Review summarizes recent and compelling examples of microbiome-based interventions that are ripe for clinical adoption while also discussing the challenges and opportunities facing the field.

www.nature.com

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Reposted by Alexandre Almeida

Guillaume Méric @gmeric.bsky.social · Apr 9

Everyone thinking of using MR for microbiome studies should read this! So many microbiome MR work is published w/o any validation😠 Here, Kaitlin Wade et al. explain (very well!) that a good MR result can be inconclusive after appropriate subsequent sensitivity checks
🔗 www.nature.com/articles/s41...

Exploring the causal role of the human gut microbiome in endometrial cancer: a Mendelian randomization approach - Scientific Reports

Scientific Reports - Exploring the causal role of the human gut microbiome in endometrial cancer: a Mendelian randomization approach

www.nature.com

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Reposted by Alexandre Almeida

Ryan Wick @rrwick.bsky.social · Mar 27

Do you (like me) create a bunch of conda environments, then later forget what they're for, when they were last updated, or which tools are in them?

If so, you might this little project: github.com/rrwick/conda...

GitHub - rrwick/condaenvlist: a simple tool for listing conda environments with descriptions

a simple tool for listing conda environments with descriptions - rrwick/condaenvlist

github.com

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Reposted by Alexandre Almeida

Sebastian Eves-van den Akker @sebastianevda.bsky.social · Feb 26

New to bluesky - would appreciate a "retweet" please, so I can find everyone from twitter.

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Reposted by Alexandre Almeida

Gut Microbiota for Health @gmfhx.bsky.social · Jan 23

An in-depth analysis of 12,000 metagenomes looks at Enterobacteriaceae interactions in healthy humans

These findings from @alexmsalmeida.bsky.social et al. highlight the critical role of the intestinal milieu in the colonization success of opportunistic pathogens

Ecological dynamics of Enterobacteriaceae in the human gut microbiome across global populations - Nature Microbiology

Assessing more than 12,000 metagenomic samples from across the world using computational approaches, the authors determined interactions between species that co-colonize or co-exclude Enterobacteriaceae in terms of functional pathways and metabolites in healthy human gut microbiomes.

www.nature.com

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Reposted by Alexandre Almeida

Ran Blekhman @blekhman.bsky.social · Jan 24

Use the Human Microbiome Compendium data!

We made the data and code available, & created a website and R package to navigate the compendium. Links:

- Website: microbiomap.org

- Data: zenodo.org/records/1373...

- R package: blekhmanlab.github.io/MicroBioMap/

- Code: github.com/blekhmanlab/...

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Reposted by Alexandre Almeida

Sorek Lab @soreklab.bsky.social · Jan 23

Our paper out @CellCellPress: Structure guided discovery of viral proteins that inhibit host immunity

Congrats Erez Yirmiya, Azita Leavitt, Gil Amitai, our collaborators at the Kranzusch lab, and coauthors

A 🧵 1/10

www.cell.com/cell/abstrac...

Structure-guided discovery of viral proteins that inhibit host immunity

Large-scale, structure-guided computational pipeline sifts through millions of phage proteins to identify those that bind and antagonize host immune proteins. Detected proteins are shown to inhibit no...

www.cell.com

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Reposted by Alexandre Almeida

Svetlana Ugarcina Perovic @svetlanaup.bsky.social · Jan 17

New #MicrobiomeDigest is OUT microbiomedigest.com/2025/01/16/j...

• Enterobacteriaceae in the human gut / @alexmsalmeida.bsky.social

• microGalaxy / @bebatut.bsky.social

• bacterial vaginosis /‬ @mikeusyk.bsky.social

• invitation for the next week @microbiomevif.bsky.social
& more.

Happy 2025!

January 17, 2025

Starting the new year with a new digest out, full of interesting findings.Check it out and see you at MVIF next week! Human gut microbiome Early life microbial succession in the gut follows common …

microbiomedigest.com

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Reposted by Alexandre Almeida

Quadram Institute @quadraminstitute.bsky.social · Jan 17

🆕 Blog! Our experts Prof @mjpallen.bsky.social Dr Falk Hildebrand @bioinf.bsky.social and Dr Aimee Parker explain that there is no evidence for a brain microbiome 🧠
https://buff.ly/40gVxNH

Is there a “brain microbiome”? No - Quadram Institute

There is no scientific evidence of a brain microbiome, including no imaging, DNA-sequence-based or culture-based or immunological evidence.

quadram.ac.uk

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