Paz Polak

MIT researchers have figured out why some cancer treatment drugs don’t work in all cases. Many tumors turn on a backup survival pathway that helps them keep growing when the targeted pathway is knocked out. news.mit.edu/2026/study-rev…

A randomized trial of using an LLM by primary care physicians for referral to specialists (vs no AI) provided substantial improvements in workflow, patient experience and less test ordering @NatureMedicine nature.com/articles/s4159…

latest from the lab --> how we used whole genome passenger somatic mutation patterns 🧬 to trace the origins of never-smoker lung adenocarcinoma (LUAD) to cells of the proximal lung 🫁 @NatureGenet nature.com/articles/s4158… 1/🧵

@SamuelAhuno Ask the genAI

Shot! You can create anything with spoken/written words? but where do ideas come from?

Parabricks, a genomics startup with the goal to GPU-accelerate NGS analysis, was acquired by @NVIDIA in 2019. The Parabricks team has recently published their body of work showing GPU-accelerated, universal analysis that supports a wide range of sequencing platforms - including Illumina, Ultima, Singular, MGI, Element Biosciences, PacBio, and Oxford Nanopore. The suite covers the full end-to-end pipeline --> alignment (BWA-MEM, STAR, Minimap2, and more), best practices like marking duplicates and BQSR, high-accuracy variant calling with tools like DeepVariant and MuTect2, and gVCF preprocessing. The platform shows up to 50% lower compute costs and runs up to 100× faster than traditional CPU-based workflows for whole-genome sequencing. There is also support for retraining DeepVariant on custom datasets, enabling higher accuracy for specific use cases. Preprint: biorxiv.org/content/10.110…

Thrilled to share our paper now out in @Nature that correlates inactivating PPP2R1A somatic mutations with improved survival for patients with cancer receiving immunotherapy, with exciting prelim mechanistic insights! @AmirJazaeri @IamLinghua @Yibo_Dai nature.com/articles/s4158…

1/ 🧵Check out our new study in @NatureGenet, which examines how precancerous conditions (MGUS/SMM) evolve into Multiple Myeloma, and offers new computational methods to predict progression risk and model cancer evolution. doi.org/10.1038/s41588…

Check out new work from @NVIDIAHealth Genomics, @genentech, transcriptome-guided genomic alignment with transformer-based splice junction scoring, delivering SOTA in splice junction detection, indel identification, and resolving complex splicing patterns biorxiv.org/content/10.110…

Tumor-Infiltrating Clonal Hematopoiesis nejm.org/doi/full/10.10…

What a way to close out this year's APS March Meeting! #APSSummit25 #Aurora #Quantum

We are hiring 🎺🎺🎺! As part of our immuno-oncology transformation @MSKCancerCenter we are building the Computational Immuno-Oncology Shared Resource. CIOSR is a key pillar supporting expanded immune monitoring & broad IO efforts. We have two open positions: bioinformatics engineer with experience in IO methods & comp biologist to integrate large datasets around MSK’s groundbreaking IO research. Click on the links below and come be a part of it! 👇👇👇 externaltalent-mskcc.icims.com/jobs/82681/bio… externaltalent-mskcc.icims.com/jobs/82643/sen…

One way to trace AI over the last year is GPQA Diamond. This is a Google-proof question set that experts get 81% right in their fields & highly skilled non-experts with 30 minutes per question and Google access get 22%. GPT-4 got 37% at the start of 2024. o1 got 78%. o3 is 87.7%

Most exciting event of spring 2025! Please come join us!

@ZeynepHG @biovis_net congrats!

Very excited to be elected as a General Chair for @biovis_net 2025! Looking forward to a productive and collaborative new year with advances at the interface of biodata science and visualization!

Cool scientists!

Nobel for the not-junk-DNA! microRNA FTW! 😄😄😄

🚨 New preprint alert! We performed scRNA-seq & scTCR meta-analysis on cancer patients treated with ICIs, revealing key T cell signatures linked to therapeutic response, with insights into clonal replacement vs reinvigoration! #scRNAseq #Immunotherapy biorxiv.org/content/10.110…

Neoantigen immunogenicity landscapes and evolution of tumor ecosystems during immunotherapy with nivolumab @NatureMedicine @GeneCollector @xrtGenomics nature.com/articles/s4159…

אמא כותבת: איבדתי את הבן שלי שנהרג בעת שנלחם בגבורה בקרב בקיבוץ בארי. קצין צעיר רק בן 20. אני רק מבקשת שלא תשכחו את הילד הגיבור שלי!! אשמח שתשתפו לזכרו של הבן שלי יונתן גוטין גיבור ישראל!!

Applications are open for Max Planck Research Group Leaders! this is an amazing opportunity to build an independent research group that comes with 2.7 MEuro support over 6 years. If you're interested in being hosted @mpi_astro, please contact me! mpg.de/career/max-pla…