Login

u/_pranayjoshi_

r/bioinformaticscareers r/genomics r/CRISPR
▲ 0 r/CRISPR+1 crossposts

Shoot your gene sequence -> I'll design your guides and 3D structure for free!

Hey everyone! I recently built Crisprr, an AI platform that takes a gene sequence and generates optimized gRNAs, predicts guide performance, creates 3D structures, and exports experiment-ready results in seconds.

I'm looking for interesting sequences to test and improve the platform.

Drop a gene name or DNA sequence in the comments, and I'll run it through Crisprr and share the results here. I'd also love feedback on the outputs and what features would actually be useful in your research workflow.

reddit.com
u/_pranayjoshi_ — 5 days ago
▲ 2 r/CRISPR+1 crossposts

Built a free tool that goes sequence → scored gRNAs → 3D structure in ~5s, looking for feedback.

Quick context: I've spent the last while building CRISPRR with a research collaborator, aimed at cutting down the time between "I have a target gene" and "I have a guide I'm confident enough to order."

What it does: you paste in a sequence, and you get back gRNAs ranked by CRISPRon efficiency scoring, off-target risk across the genome, and a 3D model of the Cas9-gRNA complex so you can actually look at the structure before committing to a guide. All in about 5 seconds.

The motivation was pretty simple — designing guides well usually means juggling 3-4 tools and a lot of manual cross-referencing, and that's before you've touched a pipette.

What I'd love feedback on from people actually running CRISPR experiments:

- Does seeing the 3D structure actually change how you'd pick between two similarly-scored guides, or is it more of a nice-to-have?

- What's missing that would make this part of your actual workflow rather than just a curiosity?

- Any horror stories about a guide that scored well computationally but failed at the bench? Curious what scoring tends to miss.

It's free, no account needed: crisprr.bio. Would rather hear what's wrong with it than just feedback that's nice to hear. Link in the comments

u/_pranayjoshi_ — 6 days ago
▲ 1 r/bioinformaticscareers

Built a tool that chains CRISPRon scoring + off-target analysis + 3D Cas9 structure into one pipeline

I kept seeing the same workflow repeated across labs: CRISPOR or similar for initial gRNA design, a separate off-target check, then PyMOL or ChimeraX for structure if anyone bothered, with manual reformatting between every step. None of the individual tools are bad, there's just no pipeline connecting them.

I built a tool to chain this together. It's completely free!! Sequence in, and you get:

- gRNAs scored with CRISPRon (Xiang et al., Nature Methods 2021) for on-target efficiency

- Genome-wide off-target prediction

- A 3D model of the Cas9-gRNA complex generated from structure prediction

- Exportable, formatted outputs

Runtime is around 5 seconds end to end, scoring inference is sub-second, the rest is structure generation.

I'd genuinely like critique from this sub more than upvotes. Specifically:

- Is CRISPRon still the right call vs. an ensemble approach, given how fast scoring models have moved?

- Reference genome support is currently hg38/mm10 only — what else should be prioritized?

- Any obvious failure modes I should stress-test for (repetitive sequences, low-complexity regions, etc.)?

Link's in the comments since I didn't want this flagged as a drive-by promo post — happy to answer anything about the implementation.

reddit.com
u/_pranayjoshi_ — 6 days ago