Therapeutic Areas
ONCOLOGY RARE DISEASE NEUROLOGICAL DISORDERS INFECTIOUS DISEASE CARDIOVASCULAR METABOLIC DISEASE IMMUNOLOGY GENETIC DISORDERS OPHTHALMOLOGY LIVER DISEASE CNS DISORDERS HAEMATOLOGY ONCOLOGY RARE DISEASE NEUROLOGICAL DISORDERS INFECTIOUS DISEASE CARDIOVASCULAR METABOLIC DISEASE
Computational Biology & Therapeutic Design

GENsilica — precision therapeutic design

Expert computational design for siRNA, ASO, CRISPR, Nanobody, Antibody, and Antibody-Oligonucleotide Conjugates — cutting your discovery timeline by up to 60%.

Core Expertise
siRNA Design ASO Therapy CRISPR / Cas9 Nanobody (VHH) Antibody Design AOC Engineering Off-target Analysis Delivery Optimization
RNA+
Silencing Therapeutics
VHH
Nanobody Engineering
AOC
Conjugate Therapy
CRISPR
Gene Editing Design
100+
Sequences Designed
6
Therapeutic Modalities
60%
Faster Discovery
3
Continents Served
What We Do
Comprehensive in-silico
therapeutic design services

From oligonucleotide sequence to antibody structure — we deliver computation-first designs that reduce wet-lab cost and accelerate IND readiness.

siRNA & ASO Design

Potent gene-silencing sequences with comprehensive off-target profiling and chemical modification strategies.

RNA Therapeutics
Learn more →

CRISPR / Cas9 Design

sgRNA design with PAM analysis, on-target scoring, and full off-target prediction for base and prime editing.

Gene Editing
Learn more →

Nanobody Engineering

VHH domain design, CDR optimization, humanization, and binding affinity prediction via molecular dynamics.

Single-domain Ab
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Antibody Design

Full mAb design pipeline — VH/VL framework selection, humanization, bispecifics, and developability scoring.

Biologics
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AOC Design

Antibody-Oligonucleotide Conjugate design — linker optimization, conjugation site prediction, and dual-payload modeling.

Conjugate Therapy
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Target Validation

Gene prioritization, druggability analysis, pathway enrichment, and multi-omics integration for target ID.

Drug Discovery
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Small Molecule (CADD)

Virtual screening, molecular docking, ADMET profiling, and hit-to-lead optimisation for small molecule drug discovery.

CADD
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Large Molecule & Biosimilars

Homology modelling, biosimilar comparability, immunogenicity prediction, and biologic developability assessment.

Biologics
Learn more →
Why GENsilica
Science-first,
results-driven
Deep modality expertise
Specialized in RNA therapeutics, gene editing, and next-gen antibody formats that most CROs don't support in-house.
Fast, validated outputs
Computational pipelines delivering lead candidates in days, not months — with full documentation for regulatory submissions.
Accessible to every stage
From early-stage biotech startups to big pharma CROs — flexible project-based or retainer engagement models.
India-based, globally competitive
World-class computational biology at cost-effective rates — serving clients in India, USA, Europe, and Southeast Asia.
"We give biotech companies access to best-in-class computational design — without the overhead of building an in-house team."
GENsilica bridges the gap between computational biology and therapeutic development, bringing precision design to companies of every size and stage.
Startup-friendly IND-ready docs Pharma-grade rigor Global reach
How It Works
From target to lead in 4 steps

A streamlined engagement designed to get you validated candidates fast.

1
Share Your Target
Tell us your gene target, disease indication, and any existing data. We sign NDAs before any discussion.
2
Design & Screen
We computationally design and screen hundreds of candidates, scoring them for efficacy, specificity, and safety.
3
Deliver Lead Panel
You receive a ranked panel of top candidates with full annotation — ready for wet-lab validation.
4
Ongoing Support
We iterate based on experimental feedback and support you through lead optimization and IND preparation.
Proprietary Technology
Our in-house
design pipelines

Beyond industry-standard tools, GENsilica has developed proprietary computational pipelines for each therapeutic modality — refined through hundreds of design cycles to maximise candidate quality, reduce off-target risk, and cut design time significantly.

These pipelines are not available commercially. They represent GENsilica's core intellectual property and the reason our lead candidates consistently outperform off-the-shelf design approaches.

In-house developed Continuously refined Proprietary IP
GEN-RNAi™
Proprietary siRNA & ASO design pipeline with multi-parameter scoring
GEN-CRISPR™
sgRNA design pipeline with integrated off-target prediction scoring
GEN-VHH™
Nanobody engineering pipeline — CDR design, humanization & affinity prediction
GEN-Ab™
Full antibody design & humanization pipeline with developability scoring
GEN-AOC™
AOC conjugation & linker design pipeline for targeted oligonucleotide delivery
5 pipelines.
1 partner.
All proprietary. All battle-tested. All yours to leverage.
faster than manual design approaches
98%
candidate documentation completeness rate
Multi
-parameter scoring across all 5 pipelines
IND
-ready output format on every project

Ready to accelerate your pipeline?

Tell us your target — we'll design the therapeutic.

Our Services

Every modality. One partner.

End-to-end computational design across 8 therapeutic modalities — small molecules, large biologics, RNA therapeutics, gene editing, and next-gen conjugates — delivered with pharma-grade rigour and startup-friendly speed.

siRNA & ASO Design

Potent, selective RNA silencing sequences with full off-target profiling and delivery optimization

RNA Therapeutics Liver / CNS / Eye
+

What You Receive

  • Top-ranked siRNA / ASO candidate sequences (typically 5–20 leads)
  • Comprehensive off-target profiling against human transcriptome
  • Chemical modification recommendations (2'-OMe, PS, LNA, GalNAc)
  • Predicted GC content, seed-region analysis, RISC loading scores
  • Delivery vehicle compatibility assessment (LNP, GalNAc, conjugates)
  • Full annotated report, IND-ready documentation

Tools & Methods

RNAfoldsiDirect OffTarget ProfilerBowtie2 Vienna RNABLAST Custom Python pipelines

CRISPR / Cas9 Guide RNA Design

Precision sgRNA design with PAM site analysis, on-target scoring, and comprehensive off-target prediction

Gene Editing Base Editing Prime Editing
+

What You Receive

  • Ranked sgRNA candidates with on-target efficiency scores (Doench, Rule Set 2)
  • Full off-target genomic analysis (Cas-OFFinder, CRISPOR)
  • PAM site mapping and accessibility scoring
  • Base editing and prime editing pegRNA design (where applicable)
  • Delivery vector compatibility analysis (AAV, lentiviral, RNP)
  • Regulatory-ready guide RNA design report

Tools & Methods

CRISPORCas-OFFinder BenchlingDoench Algorithm PrimeDesignBE-Designer

Nanobody (VHH) Engineering

Single-domain antibody design, CDR optimization, humanization, and affinity prediction via MD simulation

Single-domain Ab Bispecific Design
+

What You Receive

  • VHH domain homology models and 3D structures
  • CDR loop design and grafting strategies
  • Humanization scoring and framework optimization
  • Predicted binding affinity (ΔG) via MM-GBSA / MM-PBSA
  • Epitope mapping and paratope analysis
  • Bispecific nanobody linker design and stability prediction

Tools & Methods

AlphaFold2Rosetta GROMACSPyMOL HADDOCKAbNativ

Antibody Design

Full monoclonal antibody design — VH/VL framework selection, humanization, bispecifics, and developability

mAb Design Bispecific Humanization
+

What You Receive

  • VH / VL framework selection and germline alignment
  • CDR grafting and back-mutation strategy for humanization
  • 3D antibody-antigen complex modeling
  • Bispecific antibody format design (IgG-like, scFv-Fc, DVD-Ig)
  • Developability assessment: pI, hydrophobicity, aggregation risk
  • Affinity maturation virtual screening

Tools & Methods

AbDesignRosetta Ab AlphaFold-MultimerIMGT/V-QUEST BioPythonDeepAb

AOC Design (Antibody-Oligonucleotide Conjugates)

Next-generation dual-payload therapy combining antibody targeting with oligonucleotide silencing

AOC / SMDC Targeted Delivery
+

What You Receive

  • Optimal conjugation site prediction on the antibody scaffold
  • Linker design and cleavability modeling (pH, protease, GSH-sensitive)
  • Oligonucleotide (siRNA/ASO) payload design for the conjugate
  • Predicted DAR (drug-to-antibody ratio) and stability assessment
  • Tissue-specific delivery optimization strategy
  • Full AOC candidate report with synthesis recommendations

Tools & Methods

Custom MD pipelinesAlphaFold2 GROMACSRosetta ChemDrawOpenBabel

Small Molecule Design (CADD)

Computer-aided drug design for small molecule lead identification, virtual screening, and hit-to-lead optimisation

CADD Virtual Screening ADMET Profiling Hit-to-Lead
+

What You Receive

  • Virtual screening of compound libraries (up to 100K+ molecules)
  • Molecular docking against your target protein structure
  • ADMET profiling — absorption, distribution, metabolism, excretion, toxicity
  • Binding free energy calculations (MM-GBSA / MM-PBSA)
  • Lead scaffold ranking with structure-activity relationship insights
  • Pharmacophore modelling and fragment-based design
  • Hit-to-lead optimisation strategy with synthetic accessibility assessment
  • Full IND-ready computational report

Tools & Methods

AutoDock Vina Schrödinger Glide RDKit SwissADME GROMACS Open Babel DeepChem PyMOL

Large Molecule & Biosimilar Design

Computational development for biologics, proteins, peptides, and biosimilar comparability assessments

Biologics Biosimilars Protein Design Peptide Therapeutics
+

What You Receive

  • Homology modelling and 3D structure prediction for protein therapeutics
  • Biosimilar structural & functional comparability assessment (regulatory-aligned)
  • Epitope mapping and immunogenicity risk prediction
  • Molecular dynamics simulation for conformational stability analysis
  • Glycosylation site analysis and post-translational modification profiling
  • Peptide therapeutic design — cyclisation, stapling, cell-penetrating strategies
  • In-silico developability assessment for biologic candidates
  • Regulatory-ready comparability documentation

Tools & Methods

AlphaFold 2 & 3 Modeller GROMACS AMBER PyMOL EpiMatrix BioPython Rosetta
Partnership Philosophy
We don't take on projects.
We take on partners.

Every engagement at GENsilica begins with a single commitment — to understand your science as deeply as you do. We bring computational precision; you bring biological vision. Together, we move faster.

Science before scope

We begin every engagement with a deep scientific discussion — no forms, no templates. We need to understand your target, your biology, and your program before we propose anything.

Embedded, not outsourced

We operate as an extension of your internal team — attending your pipeline meetings, speaking your language, and aligning our computational work with your experimental strategy in real time.

Transparent at every step

You receive full methodology, scoring rationale, and ranked candidate data — not just a list of sequences. Every decision we make computationally is traceable, documented, and explainable.

Modality I
Project Collaboration

A defined computational design project with a clear target, scope, and deliverable. You receive a ranked lead panel — validated candidates ready for wet-lab testing. Ideal for early-stage programs with a specific design question.

Scope: Single or multi-modality design (siRNA, ASO, CRISPR, Nanobody, Antibody, AOC)
Timeline: 5–21 days depending on modality complexity
Deliverable: Ranked leads, off-target report, methodology, iteration support
Best for: Startups, academic labs, single-target programs
Modality II
Strategic Retainer

Your dedicated computational biology team — available on demand as your programs evolve. We integrate into your pipeline, attend your science meetings, and move with the speed your discovery requires. No overhead. No delay.

Scope: All 6 modalities, unlimited targets, full pipeline support
Cadence: Weekly syncs, priority turnaround, dedicated Slack channel
Deliverable: Ongoing design, iteration, IND documentation, regulatory support
Best for: Biotech companies, CROs, multi-target pharma programs
Modality III
Scientific Advisory

Not sure which therapeutic modality fits your target? We provide an independent scientific assessment — evaluating your target biology, modality feasibility, competitive landscape, and computational design pathway — before you commit to any development spend. Think of it as your scientific second opinion from a specialist.

First session complimentary
The GENsilica Process
From first conversation
to validated lead candidates
1
Discovery Call
NDA signed. 30 minutes. We listen first — no pitch decks.
2
Scientific Review
We assess your target, literature, and existing data internally.
3
Custom Proposal
Tailored scope, methodology and timeline within 48 hours.
4
Design & Deliver
Computational pipeline runs. You receive ranked lead candidates.
5
Iterate & Advance
We refine based on your wet-lab data and support IND readiness.
NDA
Signed before any scientific discussion
48h
Custom proposal turnaround
100%
Methodology documented & traceable
No commitment required. First consultation is always complimentary.
About Us

The science behind the silence

We are computational biologists on a mission to make next-generation therapeutic design accessible to every biotech company, regardless of size.

Who we are

GENsilica is a specialized computational biology consultancy headquartered in India. We provide expert in-silico design services for the most powerful therapeutic modalities in modern drug development — siRNA, ASO, CRISPR, Nanobody, Antibody, and AOC.

Our founder brings deep hands-on expertise across all six of these modalities, with experience spanning early-stage target identification through lead optimization and regulatory documentation. We have worked on projects targeting oncology, rare disease, neurological disorders, and infectious disease.

We believe the future of drug discovery is computational-first. By building robust in-silico pipelines before any molecule touches a lab bench, we help our clients reduce failures, save millions in wet-lab costs, and reach IND faster.

Whether you are a venture-backed biotech startup with a novel target, a large pharma CRO looking to outsource specialized modalities, or an academic lab transitioning towards translation — GENsilica is your dedicated computational design partner.

🧬 RNA Therapeutics

siRNA, ASO, saRNA design with chemical modification and delivery optimization expertise.

✂️ Gene Editing

CRISPR/Cas9, base editing, and prime editing guide design with rigorous off-target analysis.

🔬 Antibody Formats

mAb, bispecific, nanobody (VHH), and antibody fragment design and humanization.

⚗️ Next-gen Conjugates

AOC design combining antibody precision targeting with oligonucleotide gene silencing.

SC
Founder & Principal Scientist
Computational Biology & Therapeutic Design
siRNA Expert CRISPR Antibody Nanobody AOC

Capabilities

  • siRNA / ASO sequence design & off-target profiling
  • CRISPR guide RNA design (SpCas9, SaCas9, base/prime editing)
  • Nanobody VHH design, humanization & MD simulation
  • Full mAb design & bispecific antibody engineering
  • AOC conjugation site prediction & linker design
  • Target identification & validation
  • IND-ready regulatory documentation
Our Computational Arsenal
Tools & platforms we use

We leverage the world's most validated computational tools — the same platforms used by leading pharma companies and academic institutions globally.

Structure Prediction
AlphaFold 2 & 3 RFdiffusion ESMFold RoseTTAFold
RNA & Oligo Design
RNAfold / Vienna siDirect Bowtie2 / BLAST Custom Python
CRISPR Design
CRISPOR Cas-OFFinder PrimeDesign Benchling
Molecular Dynamics
GROMACS AMBER PyMOL HADDOCK
Antibody Platforms
Rosetta Ab DeepAb IMGT/V-QUEST AbNativ
AI & Data Science
ESM-3 (Meta AI) BioPython Pandas / NumPy Scikit-learn
Our Values
How we work

Precision Over Speed

We never sacrifice scientific rigor for fast turnaround. Every design decision is backed by evidence, validated by multiple computational methods.

True Partnership

We work as an extension of your team — learning your pipeline, your targets, and your regulatory requirements to deliver exactly what you need.

Confidentiality First

We sign NDAs before any scientific discussion. Your targets, data, and IP are protected at every stage of our engagement.

Transparent Reporting

Every deliverable includes full methodology, scoring rationale, and candidate rankings — so you understand exactly why we selected each lead.

Global Accessibility

India-based, internationally competitive. We bring world-class computational biology to clients across Asia, Europe, and North America.

Innovation-Driven

We stay at the cutting edge — continuously integrating the latest AI tools like AlphaFold, RFdiffusion, and large language models for biology.

Let's build your pipeline together

Schedule a free 30-minute discovery call. No commitment required.

Case Studies

Results we're proud of

Real-world design challenges solved with computational precision — from siRNA lead generation to CRISPR off-target remediation.

siRNA Design Oncology

Potent KRAS-targeting siRNA panel for lung cancer

Designed a panel of 15 siRNA candidates targeting KRAS G12D mutation in non-small cell lung cancer. Full off-target profiling against the human transcriptome identified 3 highly selective leads with >85% predicted silencing efficiency.

CRISPR Rare Disease

CRISPR off-target remediation for DMD gene correction

A client's initial sgRNA design for Duchenne muscular dystrophy showed 12 predicted off-target sites. Redesigned using optimized PAM sites and high-fidelity Cas9 variants, reducing off-targets to 0 predicted sites at comparable on-target score.

Nanobody Immuno-oncology

Anti-PD-L1 nanobody humanization and affinity optimization

Humanized a camelid-derived anti-PD-L1 VHH domain while maintaining binding affinity. Molecular dynamics simulation predicted 2-fold improvement in binding ΔG through strategic CDR3 loop redesign. Delivered 6 humanized variants ranked by developability.

AOC Design CNS

First-in-class AOC design for CNS gene silencing

Designed an antibody-oligonucleotide conjugate targeting a blood-brain barrier receptor for CNS delivery of a gene-silencing ASO. Linker design optimized for lysosomal release, with predicted DAR of 2 and full stability analysis across pH 5–7.4.

Small Molecule Drug Discovery

Multi-target CADD screening for kinase inhibitor discovery

Applied computer-aided drug design (CADD) to screen a virtual library of 50,000 small molecule compounds against a novel oncology kinase target. Molecular docking, ADMET prediction, and binding free energy calculations identified 8 high-confidence lead scaffolds for synthesis.

Large Molecule Biosimilar

Computational biosimilar comparability assessment for mAb

Performed in-silico structural and functional comparability analysis for a biosimilar monoclonal antibody candidate. Homology modelling, epitope mapping, and molecular dynamics simulations confirmed structural equivalence to the reference biologic within regulatory-accepted parameters.

Have a similar challenge?

Every project starts with a free 30-minute scientific consultation.

Contact Us

Let's talk about your target

Every engagement begins with a free scientific consultation — no commitment, just a conversation about your therapeutic challenge.

Send us a project brief

We'll respond within 24 hours with a free initial assessment.

Get in touch

📍
Location
India
⏱️
Response Time
Within 24 hours · NDA signed before any discussion

Common questions

Do you sign NDAs?
Always. We sign an NDA before any scientific discussion. Your IP and targets are fully protected.
How long does a project take?
Starter projects are delivered in 5–7 days. Larger multi-modality projects typically take 10–21 days depending on scope.
Can you work with academic labs?
Yes — we offer special pricing for academic and non-profit institutions. Mention this in your project brief.
What do deliverables look like?
You receive a detailed PDF report with ranked candidates, full methodology, off-target data, and synthesis recommendations.