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Ed Boyden @eboyden3.bsky.social · 6d

Wonderful to collaborate with, and to support as an advisor, E11 Bio - and to announce PRISM, a technology for mapping brains in a self-correcting way, by barcoding neurons followed by expansion microscopy! Thread below by E11 Bio CEO Andrew Payne, with preprint at, www.biorxiv.org/content/10.1...

Andrew Payne @andrewcpayne.bsky.social · 7d

E11 Bio is excited to unveil PRISM technology for mapping brain wiring with simple light microscopes. Today, brain mapping in humans and other mammals is bottlenecked by accurate neuron tracing. PRISM uses molecular ID codes and AI to help neurons trace themselves.

Read more: e11.bio/blog/prism

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Denis Wirtz @deniswirtz.bsky.social · 7d

We have developed a new workflow to map in 3D at single-cell resolution whole human organs.

Prof. Rong Fan (Yale) mapped out immune cell populations in the vicinity of ovarian precancerous lesions in healthy women and found no enrichment.

More here: www.biorxiv.org/content/10.1...

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Yashar Ali 🐘 @yasharali.bsky.social · 7d

BREAKING

Dr. Jane Goodall has died. She was 91.

It is impossible to sum up the impact she has had on our world and on science in a social media post.

She lived a long and incredible life but I am devastated.

Full Story: bit.ly/4pPcNFH

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Calum Gabbutt @calumgabbutt.bsky.social · 28d

Cancer is an evolutionary disease, but does knowing a cancer’s evolutionary past help predict its future? Out today in @nature, we learnt the evolution of 2000 lymphoid cancers and found it was highly correlated with clinical outcomes! (1/7)
rdcu.be/eFrrc

Fluctuating DNA methylation tracks cancer evolution at clinical scale

Nature - Cancer evolutionary dynamics are quantitatively inferred using a method, EVOFLUx, applied to fluctuating DNA methylation.

rdcu.be

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dkotliar.bsky.social @dkotliar.bsky.social · Sep 3

Paper from me, Michelle Curtis, @soumya-boston.bsky.social and co out now in @natmethods.nature.com! We now call it starCAT instead of *CAT but the strategy is the same: Build a catalog of ~50 interpretable T cell gene expression programs + use them to interpret new data nature.com/articles/s41...

Reproducible single-cell annotation of programs underlying T cell subsets, activation states and functions - Nature Methods

TCAT is a pipeline that can simultaneously capture gene expression programs related to T cell subsets and activation states for accurate T cell characterization.

nature.com

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Daniel Durocher @durocher1.bsky.social · Aug 28

JOB ALERT 🚨 We are hiring TWO principal investigators in cell, molecular, systems, or chemical biology in Toronto, Canada at @sinaihealth.bsky.social. We provide a generous startup, fully funded salary and academic appointment at U of Toronto.

www.nature.com/naturecareer...

Please repost!

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Nature Cancer @natcancer.nature.com · Aug 27

⭐️New Article published at Nature Cancer!

'Evolutionary trajectories of IDH-mutant astrocytoma identify molecular grading markers related to cell cycling'

✒️By Wies Vallentgoed and colleagues

🔗 www.nature.com/articles/s43...

Evolutionary trajectories of IDH-mutant astrocytoma identify molecular grading markers related to cell cycling - Nature Cancer

Vallentgoed et al. integrate clinical and multiomic data from persons with matched initial and recurrent IDH-mutant astrocytomas to identify progression-associated mechanisms and report a DNA methylat...

www.nature.com

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Miranda Hunter @mrndhntr.bsky.social · Aug 27

My recent postdoctoral work is out today in @nature.com! We found that physical confinement makes melanoma cells more invasive and drug tolerant. Thanks to all who made this work possible @whitefishlab.bsky.social @mskcancercenter.bsky.social #NIH #NCI www.nature.com/articles/s41...

Mechanical confinement governs phenotypic plasticity in melanoma - Nature

Mechanical confinement of cancer cells at the tumour–microenvironment interface induces phenotype switching through chromatin remodelling by HMGB2, leading to a more invasive and drug-resistant state ...

www.nature.com

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alissa greenwald @alissacg.bsky.social · Aug 27

Thank you very much, Mario!

alissa greenwald @alissacg.bsky.social · Aug 22

Thanks, Daniel! I can't wait to start :)

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alissa greenwald @alissacg.bsky.social · Aug 22

Thank you very much, Granton!

alissa greenwald @alissacg.bsky.social · Aug 22

I am tremendously grateful to my mentor @itaytirosh.bsky.social, to all my dear friends & colleagues at the Weizmann Institute, & to our collaborators at @suvalab.bsky.social‬. Looking forward to building an inclusive, curiosity-driven lab in Toronto and uniting people through science! 4/

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alissa greenwald @alissacg.bsky.social · Aug 22

We are seeking inquisitive, creative, & kind scientists at all levels with interests in combining computational & experimental approaches to address fundamental questions in tumor organization. Please reach out if this sounds interesting to you! 3/

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alissa greenwald @alissacg.bsky.social · Aug 22

Our lab will study the organizational principles of tumors with the goal of therapeutically exploiting these principles to develop better cancer treatments w/ an initial focus on brain tumors. 2/

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alissa greenwald @alissacg.bsky.social · Aug 22

I'm thrilled to share that I'll be starting my lab (www.greenwald-lab.org) at the Lunenfeld-Tanenbaum Research Institute @sinaihealth.bsky.social and joining @moleculargenetics.bsky.social at the University of Toronto as an assistant professor this fall. 1/

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alissa greenwald @alissacg.bsky.social · Aug 22

Our lab will study the organizational principles of tumors with the goal of therapeutically exploiting these principles to develop better cancer treatments w/ an initial focus on brain tumors. 2/

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Teresa Rayon @trayon.bsky.social · Aug 17

Why would anyone want to be a scientist? 👩‍🔬

Very much enjoyed this piece. Of course there may be other reasons, but these resonate well with me.

A reminder for all of us that I find rarely mentioned: “Great work becomes part of the background”

Richard Sever @richardsever.bsky.social · Aug 15

"why [would] anyone intelligent enough to be a scientist choose to be one [given] the unfavorable risk-to-reward ratio "?

One of the most intelligent people you could meet offers some answers: having ideas, watching them develop, and sharing them journals.biologists.com/jcs/article/...

Why would anyone want to be a scientist?

It is difficult to fathom why anyone intelligent enough to be a scientist would actually choose to be one. Doing good science requires the utmost exertion of body, mind and spirit, yet is consistently...

journals.biologists.com

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Will Ratcliff @wcratcliff.bsky.social · Aug 12

Not sure how many scientists here have tried Claude Code or similar command line coding assistants. I had a complicated family property tax problem that was best solved by a brute force Monte Carlo simulation approach, so I spent a few days coding up and analyzing a model with Claude Code.

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Pau Formosa-Jordan @pauformosa.bsky.social · Aug 4

Introducing five concepts from dynamical systems to decode developmental regulatory mechanisms, have a read! @perez-carrasco.bsky.social‬ @roederlab.bsky.social @mpipz.bsky.social This effort started in a morphogenesis meeting @kitp-ucsb.bsky.social‬ in 2023. journals.biologists.com/dev/article/...

Adapted from Fig. 1 from Kadiyala et al 2025.

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Caroline Bartman @cbartman.bsky.social · Aug 1

Ok Louise Penny books are just Redwall books for grownups

Cozy characters and detailed descriptions of food alternating with adventure and violence

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Roel Verhaak @roelverhaak.bsky.social · Jul 16

New preprint on longitudinal treatment response signatures in IDH-mutant glioma from the GLASS Consortium www.biorxiv.org/content/10.1...

Tumor-initiating genetics and therapy drive divergent molecular evolution in IDH-mutant gliomas

Astrocytomas and oligodendrogliomas are slow-growing and treatment-sensitive IDH-mutant gliomas diagnosed at ages 30-50. Local tumor regrowth and treatment resistance is inevitable resulting in 3-10 y...

www.biorxiv.org

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Vinay Ayyappan @vayyappan.bsky.social · Jul 15

[0/8] Stoked to share our work with @arjunraj.bsky.social on tissue organization in the gastruloid. We use lineage tracing and spatial transcriptomics to show that diversity among stem cell clones promotes, rather than hinders, gastruloid development: www.biorxiv.org/content/10.1...

Gastruloid patterning reflects division of labor among biased stem cell clones

Embryonic development typically requires precise coordination among cells to achieve reproducible outcomes, leading to the assumption that cellular heterogeneity must be minimized or buffered against....

www.biorxiv.org

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Yogesh Goyal @goyallab.bsky.social · Jul 6

Excited to share our latest by my postdoc Ben KS: we use statistical physics & Bayesian inference to model genome-wide perturbation outcomes. Remarkably, perturbation responses are encoded in gene "chatter" even before the perturbation–a fundamental insight with broad implications
shorturl.at/2LHbw

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Trevor Graham @trevorgraham.bsky.social · Jul 8

Enjoyed this @natrevcancer.nature.com article on comparative oncology - how we can learn from other species 🐘🐋🦜🐍 about ways to prevent (& possibly treat) cancer. Both a review and a call to action for the research community. www.nature.com/articles/s41... @atjcagan.bsky.social @cmaley.bsky.social

Advancing cancer research via comparative oncology - Nature Reviews Cancer

Comparative oncology combines evolutionary biology, ecology, veterinary medicine and clinical oncology to better understand cancer, for example, by identifying the molecular and cellular mechanisms un...

www.nature.com

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Tim Coorens @timcoorens.bsky.social · Jul 3

The cells in our bodies constantly acquire mutations. But what are the patterns of mutations across tissues? How do mutations in normal cells lead to cancer and disease? These are questions we will tackle within the Somatic Mosaicism across Human Tissues (SMaHT) Network, now described in @nature.com

The Somatic Mosaicism across Human Tissues Network - Nature

The Somatic Mosaicism across Human Tissues Network aims to create a reference catalogue of somatic mosaicism across different tissues and cells within individuals.

www.nature.com

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