Lightnews — Scholar-powered news

OpenCravat.bsky.social

@opencravat.bsky.social

180 followers 500 following 80 posts

Developed at Johns Hopkins, a platform to annotate and prioritize variants and genes in cancer and germline sequencing projects! https://opencravat.org

opencravat.org

Posts Media Videos Starter Packs

Pinned

OpenCravat.bsky.social @opencravat.bsky.social · Aug 15

Help shape the future of genomic variant annotation! We’re looking for community contributors to support OpenCRAVAT — from testing new features to improving documentation and outreach.
📝 Sign up here: forms.gle/v5t2ErBxYzqn...
#Genomics #Bioinformatics #OpenScience #Annotation

OpenCRAVAT Community Contributor Interest Form

Help shape the future of genomic variant annotation! We’re looking for members of the genomics, bioinformatics, and clinical variant interpretation community to help improve OpenCRAVAT. As a…

forms.gle

2 4

OpenCravat.bsky.social @opencravat.bsky.social · 21d

; (3) run non-sensitive analyses locally and scale compute in cloud for bulk jobs; (4) automate QC and reporting templates; (5) train non-programmer staff using the GUI. #annotator #opencravat #bioinformatics #opensource #genomics

1 3

OpenCravat.bsky.social @opencravat.bsky.social · 21d

Stuck with a three-month VCF backlog? Try these five rapid changes to cut turnaround time in half. (1) prioritize with calibrated predictors; (2) use OpenCRAVAT modular annotators to remove tool fragmentation#annotator #opencravat #bioinformatics #opensource #genomics🧬 🖥️ 🧪

1 1

OpenCravat.bsky.social @opencravat.bsky.social · Aug 23

We are planning to launch a new collection of Jupyter notebooks and would love to know if you're interested. If so, please share topics or features you'd like included. Your feedback will help us tailor these notebooks to your needs and preferences.#annotator #opencravat #opensource 🧬 🧪 🖥️

1 3

OpenCravat.bsky.social @opencravat.bsky.social · Aug 22

Introducing our latest offering: the Calibrated Classification Package for clinical interpretation of variant effect predictor scores. This innovative package aids users in applying ACMG/AMP variant interpretation guidelines.#annotator #opencravat #bioinformatics #opensource #genomics 🧬 🧪 🖥️

3 5

OpenCravat.bsky.social @opencravat.bsky.social · Aug 15

@moezdawood.bsky.social created the AllofUs 250k annotator for OpenCRAVAT to improve genomic research by integrating diverse data, including ancestry-specific allele frequencies. You can read more about Moez's experience developing the annotator here: www.opencravat.org/bringing-gen...
#opensource

Bringing Genetic Diversity to the Forefront: Moez Dawood on the AllofUs 250k Annotator for OpenCRAVAT

Moez Dawood, an MD/PhD student at Baylor College of Medicine, has recently developed the AllofUs 250k annotator for OpenCRAVAT, a genomic annotation platform designed to handle both single variant…

www.opencravat.org

1 4

OpenCravat.bsky.social @opencravat.bsky.social · Aug 15

OpenCRAVAT Community Contributor Interest Form

Help shape the future of genomic variant annotation! We’re looking for members of the genomics, bioinformatics, and clinical variant interpretation community to help improve OpenCRAVAT. As a…

forms.gle

2 4

OpenCravat.bsky.social @opencravat.bsky.social · Jul 7

Would you be interested in organizing or speaking at meetups, writing blog posts, or promoting the project?
Are you part of any communities or organizations where you could share our project?
#annotator #opencravat #bioinformatics #opensource #genomics

OpenCravat.bsky.social @opencravat.bsky.social · Jul 7

Would you be open to helping improve documentation or writing user guides?
Do you have skills in UI/UX design, and would you be interested in helping us improve the user interface?
#annotator #opencravat #bioinformatics #opensource #genomics

1 3

OpenCravat.bsky.social @opencravat.bsky.social · Jul 7

Would you be willing to review pull requests or help triage GitHub issues?
Can you help test new features or provide feedback on pre-release versions?
Would you be interested in setting up automated test cases or improving test coverage?
#annotator #opencravat #bioinformatics #opensource #genomics

1 2

OpenCravat.bsky.social @opencravat.bsky.social · Jul 7

We are seeking community members interested in taking part in OpenCRAVAT's future.
Let us know if you might contribute in any of these areas:
Would you be interested in contributing code, bug fixes, or performance improvements?
Are there features or issues you’d like to help implement or debug?🧬🖥️

1 2

OpenCravat.bsky.social @opencravat.bsky.social · Jul 1

🧪 🧬 Want to explore your own genome?

Join our free webinar on how to use OpenCRAVAT to annotate & interpret your personal variants.

📅 July 10 | 🕐 1 PM EDT
🎙️ With Jasmine Baker, PhD & Rachel Karchin, PhD
🔗 tinyurl.com/3ur6vv35
#Genomics #Bioinformatics #OpenSource #OpenCRAVAT🖥️

Welcome! You are invited to join a webinar: Exploring Personal Genomes with OpenCRAVAT. After registering, you will receive a confirmation email about joining the webinar.

One-hour webinar teaching how to utilize OpenCRAVAT as an annotation tool for personal genomic data.

tinyurl.com

1 4

OpenCravat.bsky.social @opencravat.bsky.social · Jun 16

🧬 Curious about your genome?
Join our free webinar on OpenCRAVAT to explore and annotate your own data!

📅 July 10 – 1 PM EDT
🎙️ Baker & Karchin (JHU)
🔗 tinyurl.com/3ur6vv35
#Genomics #Bioinformatics #OpenScience
#annotator #opencravat #bioinformatics #opensource #webinar #genomes 🖥🧪

OpenCravat.bsky.social @opencravat.bsky.social · Jun 10

Ever wonder what secrets your personal genome might hold? 🧬
Join us live on July 10 to explore how OpenCRAVAT helps annotate your data & turn it into meaningful insight.
Perfect for researchers & curious minds alike.
🔬 Registration link coming soon!🖥

OpenCravat.bsky.social @opencravat.bsky.social · Jun 6

Discover the power of OpenCRAVAT's cutting-edge annotation features that ensure seamless collaboration among users. Its intuitive design makes it easy for everyone to navigate, while enhancing productivity across the board.#annotator #opencravat #bioinformatics #opensource #genomics 🖥️ 🧬

OpenCravat.bsky.social @opencravat.bsky.social · May 31

Discover the power of the All of Us annotator with Open Cravat! This tool uses allele frequency data from the All of Us Research Program to explore genetic variations in diverse populations, enhancing precision medicine. Let's innovate healthcare together! #PrecisionMedicine #Genomics #AllOfUs🖥️ 🧬

OpenCravat.bsky.social @opencravat.bsky.social · May 31

Introducing the Regeneron Million Exome Annotator curated by Regeneron Genetics Center. Developed with major biobanks and health systems, it provides valuable genetic insights for research. We encourage its use in your research toolkit. #annotator #bioinformatics #opensource #genomics 🧪 🖥️🧬

1 1

OpenCravat.bsky.social @opencravat.bsky.social · Apr 18

Need variant annotation fast? OpenCRAVAT makes it easy—whether you're analyzing one variant or thousands. Free, flexible, and built for discovery. Try it today at opencravat.org 🧪🖥🧬

OpenCRAVAT

mouse

www.opencravat.org

OpenCravat.bsky.social @opencravat.bsky.social · Mar 28

🧬 🖥OpenCRAVAT will integrate the All of Us dataset. That's BILLIONS of gene variation annotations for better understanding our DNA.
Check out the blog: www.opencravat.org/opencravat-i...

Preprint coming soon from @moezdawood.bsky.social

OpenCRAVAT Integrates All of Us Dataset for Variant Annotation

At ACMG 2025, Dr. Moez Dawood announced a groundbreaking initiative: the global democratization of deidentified allele count and frequency data from the first ~250,000 short-read Whole Genome…

www.opencravat.org

OpenCravat.bsky.social @opencravat.bsky.social · Mar 21

The cat is out of the bag! We are excited to be a part of this collaboration. Global democratization of deidentified allele count + frequency data with population breakdown from the first ~250k short-read WGS in All of Us designed to plug straight into clinical workflows.🖥️🧪🧬

Moez Dawood @moezdawood.bsky.social · Mar 21

🚨 Big news at #ACMG2025! 🚨
Today we’re announcing global democratization of deidentified allele count + frequency data with population breakdown from the first ~250k short-read WGS in All of Us designed to plug straight into clinical workflows. It is ~1.1 billion unique variants! 🧬💡
🧵 (1/4)

OpenCravat.bsky.social @opencravat.bsky.social · Mar 11

🖥️ New to OpenCRAVAT? Explore our Vignettes—tutorials designed for easy genomic variant analysis! 🧬

📖 Learn to:
✅ Annotate variants
✅ Interpret results for clinical & research
✅ Utilize powerful analysis tools

Start here: karchinlab.github.io/oc_vignettes/

#Genomics #VariantAnnotation #OpenSource

OpenCravat.bsky.social @opencravat.bsky.social · Feb 22

🧬 We Want Your Feedback! 🧬\

Do you use variant annotation software? We’re gathering insights from the genomics community to improve OpenCRAVAT and understand what features matter most to you.💡 Take this quick survey (it takes less than 2 minutes!): https://shorturl.at/iOvMt

2 1

OpenCravat.bsky.social @opencravat.bsky.social · Jan 19

Have you seen our updated website? Head over to opencravat.org and check it out! 🖥🧪

OpenCRAVAT

mouse

buff.ly

OpenCravat.bsky.social @opencravat.bsky.social · Jan 14

Do you have research goals for 2025!? We'd love to hear them! #annotation #OpenCRAVAT #2025 🧪🖥

OpenCravat.bsky.social @opencravat.bsky.social · Jan 6

All OpenCRAVAT systems are back up!

OpenCravat.bsky.social @opencravat.bsky.social · Jan 6

❗We are experiencing a power outage at our data center due to the polar vortex. All OpenCRAVAT systems are currently down. We will update as systems come back online.