GeneForge
GeneForgeby Bajpai Labs
Services

Four gene editing pipelines. Built for therapy timelines.

Every engagement returns ranked guide sequences or codon-optimized constructs plus the technical documentation your team needs for wet-lab validation and regulatory review.

Service 01

CRISPR Guide Design

Designing high-efficiency, high-specificity guide RNAs for Cas9 or Cas12 targets across the human genome.

Timeline
10–14 days
Starting price
Engagements typically $150K–$280K per program
Process
  1. 01Target locus analysis with ClinVar and gnomAD constraint data
  2. 02500K+ guide RNA variant generation and on-target activity prediction (DeepCRISPR ensemble)
  3. 03Genome-wide off-target search with up to 3 mismatches (Cas-OFFinder + BLAST)
  4. 04Tissue-specific chromatin accessibility weighting and manufacturability scoring
  5. 05Deliver top 10–20 ranked guides with safety tiers and validation playbook
Deliverable
Ranked guide sequences with on-target scores, off-target maps, and manufacturing-ready files
Service 02

Off-Target Prediction & Safety Screening

Identifying and classifying unintended genomic edit sites before wet-lab validation or regulatory submission.

Timeline
7–10 days
Starting price
Engagements typically $150K–$250K per program
Process
  1. 01Genome-wide off-target search with Cas-OFFinder, CHANGE-seq validated sites, and bulge tolerance
  2. 02Pathogenic loci and essential gene exclusion list application
  3. 03Tiered risk classification (critical / high / low / none) per off-target site
  4. 04Amplicon sequencing panel design for top predicted off-target sites
  5. 05Safety dossier with genome-wide off-target map for regulatory review
Deliverable
Off-target risk report with tiered classification and confirmation assay design
Service 03

Base Editing Guide Optimization

Optimizing ABE and CBE guide RNAs for maximum on-target edit efficiency with minimal bystander edits.

Timeline
10–14 days
Starting price
Engagements typically $200K–$320K per program
Process
  1. 01Protospacer enumeration across target locus (320K+ variants for ABE/CBE)
  2. 02BE-Hive and DeepABE ensemble scoring for edit efficiency prediction
  3. 03Bystander edit probability modeling across all editable adenines/cytosines
  4. 04Edit outcome simulation with predicted indel and base edit distributions
  5. 05Deliver top 10–15 ranked guides with bystander risk scores and primary cell validation protocol
Deliverable
Ranked base editor guides with edit outcome predictions and bystander risk tiers
Service 04

Codon Optimization & Genome Edit Simulation

Maximizing therapeutic gene expression in AAV or lentiviral payloads while meeting packaging constraints and avoiding immunogenic epitopes.

Timeline
12–14 days
Starting price
Engagements typically $250K–$400K per program
Process
  1. 01Codon variant generation preserving amino acid sequence (millions of variants)
  2. 02CAI and tRNA adaptation scoring for target tissue (muscle, liver, hematopoietic)
  3. 03mRNA secondary structure optimization and cryptic splice site scanning
  4. 04AAV packaging size verification and immunogenic epitope filtering
  5. 05In silico expression simulation and edit outcome modeling for regulatory documentation
Deliverable
Top 10 codon-optimized sequences with expression scores, CMC-ready files, and edit simulation report
Methodology

The science behind CRISPR optimization.

We compose published, peer-reviewed methods with proprietary scoring trained on our own wet-lab validation data across guide design, base editing, and codon optimization.

On-target scoring

DeepCRISPR ensemble, BE-Hive, and DeepABE models calibrated on proprietary validation datasets.

Off-target databases

Cas-OFFinder, CHANGE-seq validated sites, ClinVar, gnomAD, and pathogenic loci exclusion lists.

Tissue chromatin data

ENCODE chromatin accessibility weighting for hepatocyte, erythroid, and skeletal muscle contexts.

Edit simulation

In silico indel and base edit distribution prediction for preclinical and regulatory planning.

Custom & Enterprise Projects

Multi-locus guide panels, LNP delivery optimization, integration with internal sequence databases, and bespoke edit outcome models trained on proprietary wet-lab data.

  • Multi-locus guide panel design
  • Integration with client sequence databases
  • LNP delivery tissue targeting analysis
  • Custom edit outcome model training
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