@MKarimzade Profile picture

Mehran Karimzadeh

@MKarimzade

Computational biologist @exaibio | Previously CIHR Post-doctoral fellow with Hani Goodarzi and Bo Wang

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Pinned

I had the chance to stop by the Terry Fox historic plaque in Thunder Bay. Very inspiring memorial.

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Mehran Karimzadeh Reposted

Super excited to finally share the results of a massive effort with @ProfTimHughes to characterize the intrinsic sequence binding specificities of human transcription factors, led by @ArttuJolma, @ahcorcha, @AliFathi125, Ally Yang, and Kaitlin Laverty biorxiv.org/content/10.110… 1/n


Mehran Karimzadeh Reposted

Excited to share CpGPT, a new foundation model for DNA methylation, crafted to understand the 'language' of epigenetics! 🧬🤖 What’s CpGPT? CpGPT is a transformer model pre-trained on CpGCorpus, a huge dataset of public DNA methylation info. By integrating sequence, positional,…

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Mehran Karimzadeh Reposted

Check out our latest research by @MNaghipourfar and others in our team on building language models of coding sequence. In this preprint, we introduce cdsFM, a suite of codon-resolution language models!👇 biorxiv.org/content/10.110…


Mehran Karimzadeh Reposted

🚀 We're thrilled to introduce Orthrus 🧬🐕—a groundbreaking mature RNA foundation model designed to push the boundaries of RNA property prediction! 🔬 What is Orthrus? Orthrus is a Mamba-based RNA foundation model, pre-trained using a novel self-supervised contrastive learning…


Mehran Karimzadeh Reposted

🚨 Check out our new preprint “An intrinsically disordered RNA-binding region provides local target selectivity and is essential for LARP6 function”, out now on bioRxiv: biorxiv.org/content/10.110… A fun joint project with Conte’s lab @KingsCollegeLon @QMBCI @BiochemOxford (1/10)


Mehran Karimzadeh Reposted

📢 We have an opening for a postdoctoral researcher, working on statistical and ML models in (transcript)omics. If you're interested in gene regulation and its role in determining cell identity and function, check out our job posting: bioinformatics.ca/jobs/postdocto…


Mehran Karimzadeh Reposted

Out today from the Goodarzi lab! @genophoria SwitchSeeker combines computation and experiment to identify functional RNA structural switches. Applied to the human transcriptome, it identified a novel RNA switch in the 3ʹUTR of RORC, linked to NMD. nature.com/articles/s4159…

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Mehran Karimzadeh Reposted

The Bioinformatics team led by Alex Dobin within the Computational Technology Center at the Arc Institute is seeking a Senior Scientist. Come join us and tackle some of the most fundamental problems in the intersection of biology and computation. boards.greenhouse.io/arcinstitute/j…


Mehran Karimzadeh Reposted

(1/5) Very excited to announce that our paper titled "Tandem mass spectrum prediction for small molecules using graph transformers" has been published in Nature Machine Intelligence! Paper: nature.com/articles/s4225… Code: github.com/Roestlab/massf… This method, MassFormer, was…

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Mehran Karimzadeh Reposted

Our AI Hub @UHN is expanding, and we're on the lookout for talented individuals passionate about AI and healthcare. We're hiring data scientists and engineers ready to dive into AI research and deployment. If that's you, send us your resume! Join our dynamic team and help shape…

🚀 Join our dynamic team at the AI Hub! 🧠 We're #hiring for two key positions: 1️⃣ Data Science Specialist 2️⃣ Technical Specialist (Engineer) If you're passionate about #AI and healthcare, we want to hear from you! Apply now and be part of groundbreaking research and #Innovation.

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Mehran Karimzadeh Reposted

Read our newest preprint to learn about orphan non-coding RNAs (oncRNAs) and how they form blood-readable digital molecular barcodes that capture the identity of cancer cells. A very long 🧵 biorxiv.org/content/10.110…


Mehran Karimzadeh Reposted

Thrilled to share our latest review on translational adaptation in breast cancer metastasis and the promising therapeutic opportunities it unveils! Immense thanks to @genophoria and @a_navickas !

Translational adaptation in breast cancer metastasis and emerging therapeutic opportunities dlvr.it/T3lByZ

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Mehran Karimzadeh Reposted

Do current genomic language models (pre-trained on whole genomes) learn a foundational understanding of biology in the non-coding region of human genomes? A new evaluation led by @AmberZqt suggests not yet! 1/N paper: biorxiv.org/content/10.110…


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