GitHub - merv1n34k/sgffp: Read, write, and manipulate SnapGene files (.dna, .rna, .prot) Read, write, and manipulate SnapGene files (.dna, .rna, .prot) - merv1n34k/sgffp

Enabled by the library sgffp: github.com/merv1n34k/sg...

“wait… it parses the history too??”

yep 😄 OpenCloning now imports SnapGene files with the full cloning workflow, not just the final construct.

🎬 sound on

opencloning.org

Thanks a lot to @atinygreencell.bsky.social for these awesome chromoprotein strains!

You may want to tell your agents to check out pydna github.com/pydna-group/.... It has functions for most cloning methods and primer design, and it tracks history. You can export your sequences as .gb files, but also .json that can be opened in the #OpenCloning website to see the cloning history

Try it here: app.opencloning.org
Docs: docs.opencloning.org/methods/phag...
Project website: opencloning.org

🧬 Phage recombinases just landed in hashtag#OpenCloning

Simulate site-specific recombination defining your own recognition sites.

🎥 See it in action below 👇 Links in the comments 🔗

@nicolabiologist.bsky.social

How the assembler works: bsky.app/profile/manu...
Try it here: app.opencloning.org
Docs: docs.opencloning.org/assembler/

🧬 Just pushed new updates to #OpenCloning Assembler based on user feedback!

✍️ Now supports #GoldenBraid and Plant #MoClo

🚀 You can edit assembly product names, view a full syntax overview, and enjoy cleaner visuals.

👉 Try it out (link in comments) — feedback welcome!

Thanks @piatkevich.bsky.social !

#OpenCloning is shaping up to be a really useful tool, and the new Assembler is powerful for defining and using Golden Gate syntaxes. Give it a try!

Someone requested #GoldenBraid Assembly, now it's live on #OpenCloning. Still missing the omega Level 1 assembly (coming very soon).

For GoldenBraid reference: goldenbraidpro.com and pmc.ncbi.nlm.nih.gov/articles/PMC...

I've been working with the OpenCloning Assembler with the syntax of my Open Yeast System - both the Open Yeast Collection and Yeast Protein Expression Toolkit. It is a very powerful open approach for rapidly assembling constructs when you have a library of parts. Try it with your Golden Gate system.

OpenCloning is legit

Another example of a wizard making great free tools for everyone 👏

New feature to help plan Modular Cloning (Golden Gate) experiments and streamline the otherwise confusing dance of overhang compatibility and vector hopping. Gonna find some time to try this out and compare to my current SnapGene workflow. Tools all day!

My favorite tool #Opencloning.org has just released a feature for assembling golden gate cloning fragments. I have not used it **yet**, but I've used the In-Fusion tool, and that ones has worked amazingly. Give it a try! I am sure @manu-lera.bsky.social will be happy to hear from your experience.

Do you like #cloning or #MolBiol?
Do you like #OpenSource software?
Do you like keeping structured research records in a way that can also save you time and help avoid mistakes?

If you answered 'Yes' to any of the above, then check out this new update to #OpenCloning from @manu-lera.bsky.social 👇

Docs: docs.opencloning.org/assembler/
Building your own syntax: docs.opencloning.org/syntax_build...
Project website: opencloning.org

🚀 Excited to launch the #OpenCloning Assembler!

🧬 Built to demystify Golden Gate for beginners and save time for experts -> MoClo assembly blazing fast ⚡

✍️ Use existing syntaxes or design your own!

#SynBio #GoldenGate #MoClo #OpenSource #Biotech

👉 Try it: app.opencloning.org

Feedback welcome!

Empowering biological knowledgebases: advances in human-in-the-loop AI-driven literature curation Abstract. Biological knowledgebases facilitate discovery across the life sciences by structuring experimental findings into human-readable and computable f

Empowering biological knowledgebases: advances in human-in-the-loop AI-driven literature curation url: academic.oup.com/bioinformati... @elixiruknode.org @biocurator.bsky.social

Pombase gene page with an arrow pointing at the link to OpenCloning

🚀 Update from @pombase.bsky.social!

Gene pages now link to OpenCloning. Load the gene region instantly and design primers + cloning strategies in one click 🧬🧪✨

To get started with OpenCloning, check the docs: docs.opencloning.org

Working on a tool to define Golden Gate syntaxes for #OpenCloning. You define your syntax, and then you can drag-and-drop your plasmids in OpenCloning, they will be sorted into the right categories, and you can do combinatorial assembly. Reach out if you'd like to contribute:

syntax.opencloning.org

I got a plasmid map from another lab as *.dna file 🧪. The SnapGene program can open it. I do not want to install their "free" viewer in my linux system. The solution: OpenCloning opencloning.org . With it, I loaded the .dna file and downloaded the sequence plus a nice map. Thanks OpenCloning team 🤩

yarn install not working due to @cloudflare.social #outage :(

Looks definitely worth a try for cloning

Landing page: opencloning.org
Mailing list: eepurl.com/h9-n71

🚀 A long-requested feature just landed in #OpenCloning

🔬🧬 You can now manually annotate sequences and create primers right from the editor

✨ Hope it makes your workflow a bit smoother!

📨 If you want to stay updated with upcoming features, subscribe to the mailing list (link in the comments)

There is also a mailing list if you want to stay updated with the latest changes: eepurl.com/h9-n71

👀

🫡