CTMC - a joint venture between Resilience + MD Anderson Cancer Center’s Post

Interested in simultaneously detecting RNA and protein on tissue images but want to learn more? Join Sammy Ferri Borgogno for a discussion about implementing a multi-omic approach to tissue imaging that can reliably characterize the tumor microenvironment. She will present the capabilities of #ImagingMassCytometry, which is used to generate high-dimensional spatial data from tissues at subcellular resolution, and why this technology is ideal for large studies involving many samples. Join the webinar hosted by Genetic Engineering & Biotechnology News: https://lnkd.in/gyJ5PaRT

Intratumoral Heterogeneity: Example HER2 by IHC The video shows breast cancer core biopsies (7 cores) showing variable expression of HER2 protein by immunohistochemistry (3+, 2+, 1+, and 0). Intratumoral heterogeneity can also be seen at different levels, morphological, protein expression, genetic…etc. that makes it more challenging for healthcare professionals. #tumorheterogeneity #tumorclones #pathology #Intratumoral #Heterogeneity #digitalpathology EXPRESSMED Diagnostics & Research

This interesting image shows tumour cell diversity of clinical significance in a breast biopsy. The origin of tumour cell diversity is usually consisdered primarily genetic, but our work suggests that in addition, the separate mechanism of what we have called ‘cell-projection pumping’ (CPP), whereby cytoplasm from surrounding cells is pumped into less stiff cancer cells, plays a major role. Please do have a quick look at our recent paper demonstrating by single cell tracking, significant cancer cell diversity due to CPP in vitro, while you might also be interested in a more detailed description of the relevant biophysics in the second link provided. https://lnkd.in/gnYR4sYe https://lnkd.in/gf2EVGvy

📣 ⚡🔬 🧬 What would you do with 1000+ spatial transcriptomics samples with corresponding H&E-stained whole-slide images? Meet HEST-1k, a collection of 1,108 ST samples assembled from 131 public and internal cohorts encompassing 25 organs, 2 species. HEST-1k includes over 1.5 million expression–morphology pairs. 🔍Explore 3 use-cases for HEST-1k: - HEST-Benchmark: Evaluate gene expression prediction from histology across 10 organs and 9 cancer types, testing multiple foundation models for pathology including UNI, and GigaPath. - HEST for discovery: Explore our proof-of-concept for multimodal biomarker characterization using Xenium breast cancer samples. - HEST for fine-tuning pathology foundation models: See how HEST-1k can enhance foundation models for histology with expression-guided fine-tuning. 📄Preprint: https://lnkd.in/dMQvrJxC 👩💻 Code and Data access: https://lnkd.in/drYbW5xW Congratulations to Guillaume Jaume, Paul Doucet and everyone else who contributed to this work. Huge thanks to everyone who helped curate the dataset. #SpatialTranscriptomics #ComputationalPathology #CancerResearch #Bioinformatics

Biology Seminar Today! Presentation by Dr. Fatemeh Momen-Heravi, Ph.D., DDS, MPH, MS. Dr. Momen-Heravi is an Associate Professor at the College of Dental Medicine, a clinician-scientist, a board-certified periodontist, and a member of the Herbert Irving Comprehensive Cancer Center at Columbia University Medical Center. The title of her talk is "Exosomes as Precision Couriers: Harnessing Targeted Therapy and Gene Editing with CRISPR and RNAi"

Last week, Adam King and Franco Tavarozzi described Anthony Nolan's journey in the implementation of molecular methods for HLA typing. Here are some key takeaways: -       HLA typing is used for three main applications: transplantation, disease association, and pharmacogenetics. -       The resolution and sample throughput of HLA typing have evolved significantly from serological typing to PCR-based techniques and, more recently, NGS. At Anthony Nolan, three different molecular methods have been developed and automated with Hamilton systems within the last ten years. -       Hamilton Robotics offers multiple solutions to automate molecular workflows, including nucleic acid extraction, pooling and reformatting, PCR setup, NGS Library prep and sample prep for optical genome mapping. If you missed the Webinar, you can now access it (on-demand) here: https://hubs.ly/Q02c12fG0 #automation #hamiltonrobotics #HLAtyping #NGS

WEBINAR ALERT! Interested in #singlecell experiments but worried about #dataanalysis? Attend this #webinar on 25th of January and learn more about Loupe Browser and community-developed tools for data analysis. Also, learn how different cell types are revealed in a lung cancer dataset. Registration link: https://lnkd.in/d-99niGn PS: choose 8.00 AM PST #10xGenomics #webinar

Our paper "DeMoS: Dense Module based Gene Signature Detection through Quasi-Clique: An Application to Cervical Cancer Prognosis" is accepted in Network Modeling Analysis in Health Informatics and Bioinformatics (NHIB), Springer. Suparna Saha, Soumita Seth, Soumadip Ghosh, Guimin Qin, Tapas Bhadra, Soumen Kumar Pati, Somenath Chakraborty, Saurav Mallik*, "DeMoS: Dense Module based Gene Signature Detection through Quasi-Clique: An Application to Cervical Cancer Prognosis", Network Modeling Analysis in Health Informatics and Bioinformatics (NHIB), Springer, 2024 (accepted) [Impact Factor: 2.3].

Penn Medicine debuts iStar, an advanced AI tool for precision oncology." The iStar application, crafted by researchers at the Perelman School of Medicine, aims to provide clinicians with enhanced insights into gene activities within medical images. This innovative AI tool has the potential to aid in the diagnosis of previously undetected cancers. #PennMedicine #iStar #DetectedCancer

📊 The widespread availability and longevity of #FFPE samples make them invaluable in #clinicalstudies. Traditionally analyzed with bulk RNA-seq, these samples have unveiled critical insights into tumor biology and aided in identifying novel biomarkers for tumor classification, prognostics, and treatment resistance. However, bulk RNA-seq obscures cellular heterogeneity and molecular profiles of rare cell types within tumor microenvironments, potentially missing crucial biological contributors. 🔬 Challenges such as RNA crosslinking and fragmentation have limited the application of high-resolution methods like single-cell RNA sequencing. Our #randomprimer-based #M20Seq technology, alongside our #VITA Platform, provides a cutting-edge solution to access the rich information within FFPE samples at single-cell resolution. 🔎 Learn how our cutting-edge technology can enhance your research: https://lnkd.in/eaw6sGnA #scrnaseq #clinicalresearch #tumorbiology #precisionmedicine #tumorclassification #prognosticmarker #treatmentresistance