install
source · Clone the upstream repo
git clone https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills-
Claude Code · Install into ~/.claude/skills/
T=$(mktemp -d) && git clone --depth=1 https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- "$T" && mkdir -p ~/.claude/skills && cp -r "$T/Skills/External_Collections/Antigravity_Skills/crispr-designer" ~/.claude/skills/mdbabumiamssm-llms-universal-life-science-and-clinical-skills-crispr-designer && rm -rf "$T"
manifest:
Skills/External_Collections/Antigravity_Skills/crispr-designer/SKILL.mdsource content
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# COPYRIGHT NOTICE
# This file is part of the "Universal Biomedical Skills" project.
# Copyright (c) 2026 MD BABU MIA, PhD <md.babu.mia@mssm.edu>
# All Rights Reserved.
#
# This code is proprietary and confidential.
# Unauthorized copying of this file, via any medium is strictly prohibited.
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# Provenance: Authenticated by MD BABU MIA
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name: 'crispr-designer' description: 'Designs guide RNA (gRNA) sequences for CRISPR-Cas9 editing, including off-target analysis. Use when a user needs to edit a gene or asks for gRNA sequences.' measurable_outcome: Execute skill workflow successfully with valid output within 15 minutes. allowed-tools:
- read_file
- run_shell_command
CRISPR gRNA Designer
This skill designs high-efficiency guide RNAs for gene editing experiments.
When to use this skill
- When a user provides a gene name (e.g., "TP53"), Ensembl ID, or DNA sequence.
- When the user wants to perform "knockout", "activation" (CRISPRa), or "interference" (CRISPRi).
- When specificity and off-target minimization are requested.
How to use it
- Identify Target Locus:
- Resolve the gene name to the current reference genome (GRCh38 for humans).
- Identify functional domains (exons) that are constitutively expressed.
- Design gRNAs:
- Select 20nt targets adjacent to NGG PAM sites.
- Prioritize 5' constitutive exons for knockouts to ensure early truncation.
- Score Candidates:
- Calculate On-Target Efficiency (e.g., Rule Set 2 score).
- Calculate Off-Target Specificity (CFD score) by searching the whole genome for mismatches.
- Output Table:
- Return a markdown table with: Sequence, PAM, On-Target Score, Off-Target Score, and Genomic Location.
- Recommend the top 3 guides.