Childhood Cancer Data Lab

Are you attending #ENAR2026 in Indianapolis next week? Don’t miss the Data Lab’s presentation on machine learning in pediatric cancer research, presented by our director Dr. Jaclyn N. Taroni, on March 16! #MachineLearning #PediatricCancer

Advanced Single-cell RNA-Seq Workshop (Virtual, June 8-12) We will cover: -Integrating multiple single-cell RNA-seq libraries -Working with CITE-Seq data -Differential expression analysis -Pathway analysis ccdatalab.org/blog/virtual-a…

Introduction to Single-cell RNA-Seq Workshop (Virtual, May 11-15) We will introduce: -R programming, R Notebooks, and reproducible research practices -Select pipelines for single-cell RNA-seq analysis -Cell type annotation ccdatalab.org/blog/virtual-i…

Applications are open! We’re excited to announce two opportunities for pediatric cancer researchers to build their skills in single-cell RNA-Seq data analysis. Learn more and apply to our upcoming workshops. 🧵

Advanced Single-cell RNA-Seq Workshop (Virtual, June 8-12) We will cover: -Integrating multiple single-cell RNA-seq libraries -Working with CITE-Seq data -Differential expression analysis -Pathway analysis ccdatalab.org/blog/virtual-a…

Did you know the Data Lab can support your data-intensive research projects? Our science team specializes in working with large datasets from designing pipelines to ensuring reproducible analysis. Learn more! ccdatalab.org/scientific-col…

📢Exciting news from the #SingleCell #PediatricCancer Atlas Portal! We’ve rolled out new features to help you extract deeper insights from your ScPCA datasets. Read our blog to see how these updates can help you save time and work more efficiently. ccdatalab.org/blog/new-featu…

Stay tuned! We’ll be announcing even more new features early next year. Until then, explore these updates at scpca.alexslemonade.org. 🚀

InferCNV: We now perform copy number variation inference using InferCNV on samples that contain at least 100 non-malignant reference cells, based on updated consensus cell types. The InferCNV output is available in processed objects and can aid in identifying malignant cells.

Doublet detection: We ran doublet detection on all samples using scDblFinder. We do not remove doublets, but these results are now included in the filtered and processed objects for downstream filtering.

🎉 As we wrap up the year, we’re excited to share new updates to the #SingleCell #PediatricCancer Atlas (ScPCA) Portal! All datasets have been updated with features that improve data quality and usability. Here’s what’s new! 🧵

🔬 FREE WEBINAR 12/17! Join us for the seminar "Newborn Screening for Cancer Risk: Has the Time (Finally) Come" from Dr. Lisa Diller, pediatric oncologist at the Dana-Farber Cancer Institute and Boston Children’s Hospital. Dr. Diller's lecture will have three learning objectives: 🍋 Understand the potential benefit of early identification of children at-risk for cancer due to genetic predisposition. 🍋 Understand the pitfalls and risks of genetic testing for childhood cancer. 🍋 Understand how retinoblastoma outcomes might be changed if RB1 genetic risk testing were included in newborn screening. Register here> alexslemonade.org/childhood-canc…

📢New blog post! Starting a new research project? Make life easier for your future self! Check out this guide from Data Lab on organizing your code, files, and workflows so your research stays reproducible. ccdatalab.org/blog/help-you-… #ReproducibleResearch #OpenScience

Save the date and SHARE: Giving Tuesday is December 2! 🎗️ We know research works. That's why this year we are asking you to help us reach our goal of raising $100,000 for kids with cancer on #GivingTuesday. Research grants give scientists the time to discover cures for kids with cancer. Clinical trials give kids the chance to get their cures. This is where your donation is going: to ensure that funding doesn’t stop. By donating to Alex's Lemonade Stand Foundation on this day, you will get us closer to $100,000, and closer to giving kids their cures.💛

Applications are still open! Expand your data analysis skills during our Advanced #SingleCell RNA-Seq Workshop for #PediatricCancer researchers. 📆 December 8-12, 2025 💻 Virtual ⬇️ Learn more and apply! ccdatalab.org/blog/data-lab-…

What you will learn: -Integration of multiple single-cell RNA-seq libraries -Approaches to differential expression analyses with single-cell data -Working with CITE-seq data -Common approaches for pathway analysis Learn more and apply! ccdatalab.org/blog/data-lab-…

📢 Apply for our final workshop of the year! If you're a #PediatricCancer researcher looking to build on your foundational skills in #SingleCell #RNASeq analysis, this workshop may be for you. 🎓 Advanced Single-cell RNA-Sequencing 📅 December 8-12, 2025 📍 Virtual