Yuval Avnir

Profile photo: Image from the RCSB PDB ( of PDB ID 5JO4

[Dr. Jean Fan @JEFworks]

Thanks to the authors for sharing all components of this mouse embryo spatial transcriptomics data from cell gene counts to per-molecule coordinates: https://t.co/LVkzsL8GGT 🥳

So I vibe coded an app to explore the 3D subcellular transcript organization: https://t.co/GMiJ8ejZxt

[Leo Zang @LeoTZ03]

A comprehensive survey of genome language models in bioinformatics
https://t.co/07dHxqwHXk

[Alex Prompter @alex_prompter]

R.I.P. basic prompting.

MIT just dropped a technique that makes ChatGPT reason like a team of experts instead of one overconfident intern.

It’s called “Recursive Meta-Cognition” and it outperforms standard prompts by 110%.

Here’s the prompt (and why this changes everything) 👇

[nature @Nature]

Nature research paper: Mitochondrial transfer from glia to neurons protects against peripheral neuropathy

https://t.co/8k0LBCxfyn

[Daily Dose of Data Science @DailyDoseOfDS_]

NN-SVG: Create neural network architecture drawings parametrically!

Export them to SVG files and use them in your work!

[Jorge Bravo Abad @bravo_abad]

Mapping 3.4 billion gene circuit designs with AI

Designing synthetic gene circuits is like tuning a complex instrument in the dark. You have dozens of genetic parts—promoters, transcription factors, binding motifs—that must work together precisely, yet each combination behaves unpredictably due to context-dependent molecular interactions. Traditional approaches test circuits one at a time, making optimization painfully slow.

Kshitij Rai and coauthors just changed the rules of the game. Their platform, CLASSIC (Combining Long- And Short-range Sequencing to Investigate genetic Complexity), combines Nanopore and Illumina sequencing to profile over 100,000 multi-kilobase gene circuit designs in a single experiment—then uses machine learning to predict the behavior of billions more.

The workflow is elegant: pooled DNA assembly with barcodes, long-read sequencing to index composition-to-barcode mappings, phenotypic sorting in human cells, and short-read sequencing to link barcodes to function. The result? Quantitative expression data for 121,000 single-input circuits and 128,000 dual-input circuits, used to train neural networks that predict circuit behavior with r² values of 0.86–0.90.

The insights are remarkable. High-fold-change circuits don't emerge from a single "optimal" design but from multiple balanced combinations of medium-activity components. AND-gate logic requires clustered transcription factor binding sites; OR-gates need interspersed patterns. These rules were invisible before—now they're learnable from data.

The message: by scaling the design-build-test-learn cycle by orders of magnitude and combining it with ML, we can finally navigate genetic design spaces too vast for human intuition, accelerating everything from metabolic engineering to cell therapies.

Paper: https://t.co/d622fMqVDI

[antisense. @razoralign]

HERMES: Hierarchical Encoding of Regulatory Mechanisms and Expression Syntax by a foundational genomic sequence-to-function model https://t.co/gBjgUj5tND

[Techinvention Lifecare @TechinventionL]

A warm welcome to Mr Anirban Ray, who joins us as Senior Manager – R&D.

With over 14 years of experience in vaccine development, translational biotechnology, cell culture, and end-to-end bioprocess optimisation, including cGMP process development, scale-up, and technology transfer, he brings strong scientific and leadership expertise to our organisation.

His passion for translational science aligns closely with our R&D vision, and we look forward to working together to advance innovation and research excellence.

#Techinvention #OneHealth #Team

@DBTIndia @BIRAC_2012 @startupindia @iitbbs
@investindia @BMGFIndia @vaxhub @BactiVac
@WHO @UNOPS @LuckyInvest_ARK @IndiaDST
@ICMRDELHI

[CHO Cell Papers🧬 @CHOculturePaper]

🤖 Text mining of CHO bioprocess bibliome: Topic modeling and document classification.
PloS one(2023)
https://t.co/AUuhmMDCzy

@grok summary⬇️ #Biotechnology #Science

[Healthcare Asia @_HealthcareAsia]

The expansion is attributed to the collaboration between CDMOs, biotech firms, and academic institutions to advance bioprocess innovation and scale microbiome research into GMP-compliant production. https://t.co/MtrZ8uc2lf

[Olufemi Bolarinwa @dafemlions]

PhD opportunity in bioprocess engineering

[BioProcess Intl. @BioProcessIntl]

Please join us for a #BPIAskTheExpert on "J. Media™: Market Leading Perfusion Medium for CHO Cell Culture Productivity and Robust Scalability."

Date: Tues. Jan. 20.

Feat: Arnav Deshpande & Matthew Stebbins, Just-Evotec Biologics.

Register Now:
https://t.co/kMS5XzHbMK

[nature @Nature]

Nature research paper: Nutrient requirements of organ-specific metastasis in breast cancer

https://t.co/jTEIa2LJEL

[Nature Methods @naturemethods]

SpatialZ generates virtual single-cell transcriptomics slices between experimentally measured sections, enabling accurate and efficient building of 3D cell atlases of different tissues. @Forestlin030 @Zachary_Zhikang @Y4nCu1 @qizou97 @CS_HCY

https://t.co/151sg5NOsq

[Faheem Ullah @Faheem_uh]

Use this FREE tool to analyze data in 10 sec.

This tool is used by more than 500,000 researchers.

1. Go to https://t.co/37yW1qMmPE
2. Click on Data Analysis and upload your data file.
3. Write your prompt for data analysis.
4. For example, generate graphs from data.
5. @answerthisio will generate variety of graphs
6. It also generates an insightful data analysis report.

You can download the graphs and the report.

Try AnswerThis today. It’s FREE.

[Ming "Tommy" Tang @tangming2005]

Organoid analytical toolkits https://t.co/wbiQiD9zh7

[Google Research @GoogleResearch]

Announcing our latest open medical AI models for developers: MedGemma 1.5, which is small enough to run offline & improves performance on 3D imaging (CT & MRI), & MedASR, a speech-to-text model for medical dictation. Both available on Hugging Face + Vertex AI. https://t.co/jPm4UodeAH

#MedGemma #HealthAI #GenerativeAI

[Nature Medicine @NatureMedicine]

Including data from 1,047 patients across 19 inflammatory diseases, a new atlas presents a comprehensive model of inflammation in circulating immune cells.
https://t.co/lX3sd237du

[Science News @SciencNews]

A seat by a window with an outside view significantly enhances cognitive performance