🧫 ↔️ 🧫 cell communication, 🧬 mol tools, 🧠 🪰computational anatomy. PhD @karolinskainst ➡️ postdoc @CSHL ➡️ PI @scilifelab/@UU_University

Joined July 2014
Williamson’s and Fennell’s paper that first demonstrated DAPI could be used for fluorescent staining of DNA was published 1974 it only has 460 citations to date. None of the authors on the paper is the person, Otto Dann, who first made DAPI. 1/2
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ANNOUNCING THE 2026 WOLF PRIZE LAUREATES IN CHEMISTRY The 2026 Wolf Prize in Chemistry is awarded to Pascal Mayer, Shankar Balasubramanian and David Klenerman for developing impactful, low-cost, next generation DNA sequencing methods for genomic medicine. Their work helped transform DNA sequencing into a technology capable of operating at extraordinary speed and scale. Balasubramanian and Klenerman pioneered a massively parallel sequencing approach that contributed to a million-fold improvement in sequencing speed and cost, helping make it possible to sequence a human genome for under $200. Mayer played a pivotal role in turning those breakthroughs into a practical high-throughput sequencing system, integrating the chemistry, microfluidics, optics and computational components needed to make the technology work at scale. Today, the sequencing platform that grew from this work forms the technological foundation for more than 90% of global sequencing data, powering major advances in genomics and precision medicine. Congratulations to the 2026 Wolf Prize Laureates in Chemistry! @Cambridge_Uni @universitedestrasbourg – at West University Place, TX
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Today, we had the pleasure of hosting Dr. Iakovos Lazaridis @iaklaz from @MIT for a special seminar with his talk: “The striatum across timescales: dopamine, astrocytes and behavioral context”👏 A fantastic lecture, thank you! #SeminarsIN
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NEW PREPRINT! An evo-devo look at how new cerebellar nuclei are made. Spoiler: region-specific excitatory progenitors in the early rhombic lip drive it; inhibitory neurons fill in later. Check it out if you care about evolution or cerebellar development: tinyurl.com/CNdevelopment
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New analysis panel in NimbusImage let's you do flow cytometry-style gating on your objects!
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Excited to share our latest work, led by Surbhi Sharma! We study the kinetics of RNA localization to the outer mitochondrial membrane (OMM), building on our 2019 APEX-seq work showing that hundreds of RNAs go to the OMM for local translation. biorxiv.org/content/10.64898…
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Our new paper with mechanistic studies to understand the surprising reactivity of the 2'-OH group in RNA has now appeared - doi: 10.1002/chem.71285
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Holy Soma Batman! You never know what you may find when you cruise our MICrONS Explorer, such as a blood vessel piercing the soma of a neuron! 👀 See this incredible find up close using this shortcut: ngl.microns-explorer.org/#!%…
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#eNeuro | StereoPylot: An Open-Source Raspberry Pi-Based Stereotaxic Apparatus Controller with 3D Printed Components for Fully Motorized Control, Digital Display, and Customizable Features doi.org/10.1523/ENEURO.0460-…
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Excited to share our newest work! We asked whether RNA molecules need to be in a specific place in the cell to do their job. We found that a single RNA must reach the midbody, the structure that pinches two dividing cells apart, for cell division to finish efficiently. 🧵⬇️
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Nassim Taleb is quite a confident person for someone who’s big on uncertainty
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Excited to share our recent paper (doi.org/10.1016/j.cell.2026.…)! In this multi-year effort, we developed RT&T-AMP-MERFISH, enabling whole-transcriptome-scale, isoform-resolved single-cell spatial transcriptomics and imaging ~33,000 RNAs in the brain.
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“In addition to overreliance on AI, Garcia also pointed out that many students are underprepared mathematically, a concern echoed by campus associate teaching professor Gireeja Ranade… Both Garcia and Ranade have joined more than 1,300 UC faculty in signing a petition calling for the reinstatement of ACT and SAT standardized testing scores for STEM admissions in the UC system. The petition and its accompanying open letter detail similar concerns with students’ mathematical preparation.”
Students are failing UC Berkeley CS classes at an alarming rate. More than 35% of students failed CS 10, a course described as “a gentle but thorough introduction to computer science.” In the past few semesters, less than 10% of students failed the class.
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Very excited for our new paper, now out in @CellCellPress! /🧵The protein Tau forms intracellular toxic tangles in neurons in Alzheimer’s disease and Tauopathies. Tau pathology slowly spreads from cell-to-cell but the mechanisms of Tau transmission are not clear. /1
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This new Nature paper on “language-building-block neurons” (Cai, Williams et al., 17 June 2026) is published as if it cracked how the brain composes sentences. But if you need to understand their methods properly ... Their unit of analysis is a “neuron” … whatever Kilosort 3 clusters out of a 150 Hz–8 kHz extracellular trace from a Utah array, and its “activity” is firing rate binned at 100 ms with a 3-bin moving average. That pipeline discards roughly four orders of magnitude of intracellular dynamics before any analysis begins. Every subsequent claim is about that derived shadow, not about the cell. The headline result — neurons and LLMs both “track 5 words of context” — is ridge regression from Vicuna-7B hidden states (PCA’d to 30 dims) onto binned spike rates. Population predictivity peaks at r ≈ 0.05. That is a faint statistical echo of a shared surface signal (spoken English), not evidence that cortex implements transformer-like context aggregation. It is the classic encoding-model fallacy: fitting a model to data and then citing the fit as evidence the brain is shaped like the model. Their selectivity numbers are quietly damning, actually… 9.2% of 579 units are part-of-speech selective. 10.2% dependency-relation selective. Single-word decoding lands at 18.4% vs 10% chance for parts of speech, 31.5% vs 14.3% for constituency depth. 84–91% of units carry no detectable signal for any given feature. The paper frames the sparse hits as the story. There is no spike-timing analysis, no burst microstructure, no sub-millisecond synchrony, no spike–LFP phase analysis — known information carriers in cortex (Panzeri et al. 2010; Engel et al. 2001). Everything is collapsed to rate over a 300 ms window. No causal perturbation. The entire edifice is correlation between two coarse observables. Sample: 8 refractory-epilepsy patients, arrays placed in tissue already scheduled for resection. Spike sorting explicitly excludes units whose waveforms are “inconsistent with cortical neurons” — a theory-laden filter that presupposes the conclusion. The LFP-vs-spike dissociation (χ² = 141) is read as proof the computation lives in single cells. The opposite inference is at least as warranted: two lossy readouts of the same upstream process disagree, which means the upstream process is richer than either. What the paper actually shows: extracellular spike rates from ~600 units in pathological cortex carry a small, left-lateralized, non-random correlation with parser labels and LLM embeddings of spoken English. Real signal. Modest. Says nothing about where or how language is computed.
Researchers have tracked the electrical crackle of individual brain cells in real time during unscripted conversations, capturing how sentences are built before a single word is spoken go.nature.com/4eTaVbm
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New paper! How do RNAs "know" where to go inside a cell? We dug into the sequence elements that route RNAs to the right place. It turns out that, in mammals, they're surprisingly massive (>200 nt), multipartite, and wonderfully complicated. 🧵
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FINAL CALL! Register by the end of May to this year's edition 23-26 June 2026 Focus will OMICS data integration, with hands-on computation🧬 💻 Check out the program and your stellar teachers: trippus.net/summerschool2026 @scilifelab @KAWstiftelsen @Remeseiro_Lab
Join 🇸🇪 🌞 The PALS Summer School in TranscriptOMICS 🧬 🧪 23-26 June 2026 To learn ➡️ Autoimmune Disease from the Molecular to Tissue Scale ⬅️ by ⭐ professor Alexa McIntyre⭐ @liu_universitet @KAWstiftelsen @scilifelab @Remeseiro_Lab REGISTER NOW trippus.net/summerschool2026
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Surprised to discover that Thermo Fisher appears to show a fake western blot for the validation of one of their p53 antibodies. I've added a diagram to show the very similar bands. This does not appear to be one of the "published figures", but their own internal data.
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The best thing about AI is that I no longer have to wonder what my lab would look like as a level in the 90ies point-and-click computer game Myst. 🏛️🧪✨
🤖 Made with AI
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Watch Dr. Emily Isko discuss her work on the brain circuit changes associated with the rapid evolution of song production in the Costa Rican singing mouse
In a new study published in @Nature, CSHL graduate student Emily Isko in the @ArkaupBanerjee Lab discovered an evolutionary difference in Alston’s singing mice that allows for enhanced vocal capabilities. Read more: cshl.edu/what-can-singing-mi… @TonyZador #InspiringDiscovery #ScienceMakesLifeBetter
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"They're all wearing solid colors. People here don't wear patterns. This is my kind of place." — Jessica on Stockholm
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