Patrick Rynkiewicz

Cool service and idea. Microbiome science benefits greatly from efforts like this and BugSigDB, among others, to better curate data.

straininfo.dsmz.de/about

GitHub - patrynk/oura_sync: Service for extracting Oura Ring data to PostgreSQL database with OAuth2 authentication Service for extracting Oura Ring data to PostgreSQL database with OAuth2 authentication - patrynk/oura_sync

Working on a tool for pulling Oura Ring data into a Postgres database:
github.com/patrynk/oura...

Claude helped. Not vibe-coded. Nice exercise in learning new data engineering techniques while playing with new development toys.

When you buy a cutting board from bioinformaticians

Claude for Life Sciences Discover how Claude accelerates life sciences research with new scientific connectors, skills, and improved performance for drug discovery and clinical work.

Excited to see Anthropic leaning into streamlining life sciences research with the Claude for Life Sciences initiative. Should be interrogated for accuracy like any other LLM output but it could help define research questions and make bioinformatics more accessible

www.anthropic.com/news/claude-...

Clostridioides difficile pathogenesis and control Nature Reviews Microbiology, Published online: 02 October 2025; doi:10.1038/s41579-025-01242-2Clostridioides difficile infection is challenging to diagnose and treat and is associated with considerable mortality, morbidity and economic costs worldwide. In this Review, Chilton et al. discuss changes in global epidemiology, breakthroughs in pathogenesis and antibiotic resistance, the role of microbiota dysbiosis and the potential for microbiota-based therapeutics for Clostridioides difficile infection.

ICYMI: New online! Clostridioides difficile pathogenesis and control

Looking forward to this special issue!

New research article

Single-gene transcripts for subclinical #tuberculosis: an individual participant data meta-analysis

www.thelancet.com/journals/lan...

#IDSky #ClinMicro #TB #OpenAccess #OA

Really interested to see how the phenomenon of fungal domestication across food microbiomes plays into this discussion around phylosymbiosis. We exogenously select for traits in beer yeast like flavor and fermentation performance, and then endogenously interact with these living microbes. Incredible

Gut fungal profiles reveal phylosymbiosis and codiversification across humans and nonhuman primates Fungi in the gut microbiome (the "mycobiome") are a neglected component of the human holobiont. This study of gut fungal profiles across natural populations of humans and non-human primates reveals si...

The gut MYCOBIOME is akin to the tiny group of kids in the corner of a huge homecoming dance. Their story is largely unknown. In our latest, @emilyvansyoc.bsky.social dives into the evolutionary associations of gut fungi with @erdavenport.bsky.social & Andres Gomez

journals.plos.org/plosbiology/...

A salient experiment that elegantly examines how context dependent is hologenome evolution in response to selection on diet quality? The short answer. It is resilient, even when faced with abiotic and biotic disruptors such as post-selection socialization and diet. Brilliant evaluation; a must read

HIGH Nationally, the wastewater viral activity level for COVID-19 is currently high.

Just FYI: while CDC is no longer tracking much of anything, wastewater data is still being reported. COVID-19 levels have just been nationally upgraded to “high”

Looking forward to the peer-reviewed version but very exciting direction.

Big achievement and a lot of work, congratulations Lars!

When other journals were too nervous to lean into this topic, this one leaned in. They specifically have a discovery report section for new insights based on initial observations. Can’t recommend this @plosbiology.org team enough!

YouTube video by Institute for Systems Biology Forecasting Gut Health: Predicting C. diff Risk with Digital Twins

Great pop-sci digest by Alex Carr of his recent C. diff modeling work in Cell Systems youtu.be/shp-TjniW48?...

here's the paper --> doi.org/10.1016/j.ce...

@isbscience.org

Amazing! The localization in Fig 4 is especially interesting. I wonder if there is an advantage to pumping DCAs back into the host epithelial cells rather than the lumen.

Allogeneic CD19-targeting T cells for treatment-refractory systemic lupus erythematosus: a phase 1 trial - Nature Medicine In a small trial of patients with severe systemic lupus erythematosus and nephritis, treatment with allogeneic T cells with a CD19 chimeric antigen receptor inserted into the T cell receptor locus and...

Severe, refractory lupus successfully treated with engineered T cells derived from a healthy donor
nature.com/articles/s41...

Full or Associate Professor in Infectious Disease Modeling APPLICATION INSTRUCTIONS: CURRENT PENN STATE EMPLOYEE (faculty, staff, technical service, or student), please login to Workday to complete the internal application process. Please do not apply here, a...

🎙️ JOB ANNOUNCEMENT: @ciddpsu.bsky.social Ctr for Infectious Disease Dynamics at PSU is searching for a Full or Associate Professor in Infectious Disease Modeling. This is a unique, cross-university search for someone to become a leader in our community!

psu.wd1.myworkdayjobs.com/en-US/PSU_Ac...

"using our custom designed experimental set-up, we found that mosquitoes are drawn to those who avoid sunscreen, drink beer, and share their bed. They simply have a taste for the hedonists among us."
LOL

Love when great scientists amplify each others' work!

It had to be from Spongebob of course 😂

The emoji-laden lists read like a dead giveaway to AI generated stuff nowadays, even if for some people its a genuine organizational/eye catching convention.

solid foundation in statistics is even more important in the age of AI.
This interactive app explaining statistic concepts is great
seeing-theory.brown.edu/index.html

The human skin microbiome: from metagenomes to therapeutics Nature Reviews Microbiology, Published online: 04 August 2025; doi:10.1038/s41579-025-01211-9In this Review, Oh and Voigt explore the major characteristics and functions of the skin microbiome, and they highlight potential therapeutic targets in the skin microbiome and ongoing progress in the development of skin microbiome-based therapeutics.

ICYMI: New online! The human skin microbiome: from metagenomes to therapeutics

The South American MicroBiome Archive (saMBA): enriching the microbiome field by studying neglected populations - Nature Communications Here, Valderrama et al., introduced ‘saMBA’, the largest collection of uniformly analyzed microbiome data from South America, the worlds most biodiverse yet less characterized region. The article prop...

I'm beyond excited to share that our last work is now published in Nature Communications.

The South American MicroBiome Archive (saMBA): enriching the microbiome field by studying neglected populations

📄: shorturl.at/wq9pr

One of my favorites!

"I must not fear. Fear is the mind-killer. Fear is the little-death that brings obliteration. I will face my fear. I will permit it to pass over me and through me. And when it has gone past I will turn the inner eye to see its path. Where the fear has gone there will be nothing. Only I will remain."

The updated version of the database of PhD fellowships produced and maintained by my team can be downloaded by anyone here:

research.jhu.edu/rdt/funding-...

For each of the 187 fellowships, you will find a short description, deadline, $ amount, link, etc.

Good luck!

Tal does great work! Check his group out.

Have you explored the NMDC Field Notes mobile app yet? Check out our new tutorial video for a quick walkthrough! buff.ly/Dohg4gH 🧪