Arjun Krishnan

This preprint is now out after peer review! Check it out: www.cell.com/cell-genomic.... Huge congrats (and thanks!) to the whole team that contributed!

Very proud to be a member of this team. A huge group effort to improve the lives of those with Down syndrome. Thank you to everyone that has helped us along the way.

Congratulations! Kudos to @richabdill.com & @samanthagraham.bsky.social for leading this huge project!

Thanks for bring us onboard! Mansooreh Ahmadian & Parker Hicks lead the part of the work on inferring study annotations from unstructured metadata and text from the linked publications.

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We just use the #papers-articles channel our group’s Slack workspace.

A favorite!

Interestingly, Goodhart stated (in 1975): “Any observed statistical regularity will tend to collapse once pressure is placed upon it for control purposes.”

Marilyn Strathern generalized it in 1997 to its famous version👇🏽

pmc.ncbi.nlm.nih.gov/articles/PMC...

Regularly tempted to write in my NIH grants innovation section: "Funding software that already exists and works well would be highly innovative for the NIH."

(I bet half the panel would break down ROFL, but I'm also highly skeptical that I'd get a good score, or that the PO would be amused.)

Last update of our databases for the year.

Download them here:

493 early-career funding opportunities: research.jhu.edu/rdt/funding-...

313 postdoc fellowships: research.jhu.edu/rdt/funding-...

189 PhD fellowships: research.jhu.edu/rdt/funding-...

A morning landscape shot from the rooftop of a building in Aurora, CO. The scene faces west towards the Front Range mountains, with the city skyline of Denver in the center of the shot. The view, rows of scattered buildings, evergreens, and brown branches of leafless deciduous trees, rising up into the mountains, is blanketed in a crisp white layer of snow. The sky is a sharp blue to white gradient with clouds enveloping the highest mountain peaks including Mt. Blue Sky in the distance. Some goofy Canadian geese are in mid-flight at around the level of the horizon, and while you can't hear them in a photo, I certainly could at the time.

The views from the office are another real perk of working here at @cubiomedinfo.bsky.social.

Incidentally, on ping with this discussion…

bsky.app/profile/harm...

86. Prachee Avasthi, CSO at Arcadia Science, on exercising agency and doing science differently Podcast Episode · Once a Scientist · 07/17/2024 · 1h 8m

… And what I hear is that we need smthing to be good for ourselves, our careers, & our personal advancement in order to do smthing that's good for science[/world]. And I just don't believe that's true.”

Love it: what’s the best thing to do, the right thing to do?

podcasts.apple.com/us/podcast/o...

Monday motivation from the wonderful @pracheeac.bsky.social:

“[I hate the term] incentive structure… if you ask people to do a thing that they perceive to be against those processes and principles, well, you can't ask that — that it's somehow unacceptable…

I participated in a faculty panel a few weeks ago in which senior (ahem) faculty gave advice on careers in academia by pretending luck had very little to do with our success. One piece of advice riled me up, in which it was argued that a reason for their success was their ability to say no. 1/

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I’ve seen some posts recently, about the value of basic research, in light of funding cuts and demands that research have immediate economic justification.

Let me collect some info here, in a thread, about why it’s a bad idea to attach those sorts of demands to funding. 🧵 🧪 ⚛️

Same reason that nanopore work with direct clinical application gets published in Annals of Obscurities while the tumor poopome and AlphaFold3 (which wasn’t even competitive in CASP16!) get published in Nature over the objections of highly qualified reviewers

Because it makes for a better $$$ barrier to entry.

Broke: we fit a linear model and predicted results of a CRISPR screen

Woke: we burned down the Amazon to train a 96-head transformer on 500 million cells and did ALMOST AS WELL as the linear model that runs on my phone

Sharing a Shiny app I've been working on at
@leviwaldron1.bsky.social 's lab: BugSigDBEnrich. The app lets you compare a list of bacteria with published microbial signatures curated in bugsigdb.org.

shiny.sph.cuny.edu/BugSigDBEnri...

#rstats #microbiome #microbiomeresearch

The art of invention with Nathan Myhrvold Podcast Episode · WorkLife with Adam Grant · 11/26/2024 · 27m

As a fan of the super @nightsciencepod.bsky.social (highly recommend it!), I enjoyed listening to the latest episode of another favorite — Work Life — where @adamgrant.bsky.social talks to Nathan Myhrvold about invention and creativity!

podcasts.apple.com/us/podcast/w...

Meeting topics and invited list of speakers

Abstract submissions are still open for the CSHL Network Biology meeting in March 11 - 15 2025 (abstract deadline: Jan 10). A large fraction of talks will be selected from the abstracts. On behalf of the organizers, we look forward to welcoming you there.
meetings.cshl.edu/meetings.asp...

We present NetworkCommons, a unified platform 🪐 for network biology, providing access to omics data, knowledge, and contextualization methods, all with a consistent API 👇🧵
Paper: doi.org/10.1101/2024...
Docs: networkcommons.readthedocs.io

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I feel this in my bones. In early career, I had access to more support and flexible funding. As I transitioned to mid-career, not only did a lot of those buffers go away, I was taking on more institutional responsibility, including to fix systemic issues and protect more people.

homer simpson from the simpsons is holding a cup in front of a picture ALT: homer simpson from the simpsons is holding a cup in front of a picture

A bluetorial about some challenges for our two-career family and some flaws in the culture of biomedical research.

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This is important. Please count need in.

Only five days left to apply for our Functional Genomics in animal model systems faculty position at Michigan State University!
🦋🐍🐸🐟🐢🐞🐓🦀🐙🐛🦎🐜🦇🐀🦗🦜🦞🐊🪱🪸🪰🕷️🐚🐖🐝🦄
We love research connecting genomes to biodiversity and are highly supportive of developing non-traditional model systems. Come join us in MI!

Check out our updated database of 189 PhD fellowships and funding opportunities.

For each fellowship, we provide a description, $ amount, deadline, link to funder and eligibility criteria (such as citizenship).

Good luck!

Download freely here: research.jhu.edu/rdt/funding-...

Thank you to everyone who joined our Town Hall on Opportunities for Allyship in Computational Biology last week, our largest event yet!

We are grateful to have partnered with Chrissie Bonner of Illustrating Progress, who provided a live graphic recording of our event.

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