From Single-Cell Data
To Scientific Discovery

From raw sequencing data to publication-ready biological insights — fully automated, AI-interpreted, no code required.

End-to-end automated AI interpretation layer 12-step pipeline Publication-ready outputs
Cells Analyzed
14,203
↑ 94.2% QC pass rate
Clusters Found
14
↑ 3 condition-specific
AI Confidence
96%
↑ Annotation score
UMAP · Healthy / Disease / Treatment
Isaac AI says
CD8+ T-cell exhaustion signature enriched in disease cluster 3. Treatment partially restores effector function via IL-7R upregulation.
Built by Texas Medical Center Scientists, Engineers & Surgeons
The Pipeline
12 steps. One platform.
Zero code required.

Every step of the scRNA-seq workflow — from raw upload to mechanistic report — handled automatically with AI interpretation at each decision point.

01
📁
Upload & Configure
10x MEX, h5ad, loom. Multi-sample. Reference genome + organism selection.
02
🔬
QC & Filtering
Adaptive thresholds for genes, UMI counts, mitochondrial %, and doublet detection.
✦ AI-suggested
03
⚙️
Normalize & Scale
Scran, SCTransform, library size normalization with HVG selection.
04
📐
PCA & Integration
Harmony, Scanorama, scVI batch correction across conditions.
✦ AI-recommended
05
🧬
Clustering
Leiden/Louvain graph clustering with UMAP visualization.
✦ AI-guided
06
🏷️
Cell Type Annotation
Marker genes cross-referenced against CellTypist, SingleR, PanglaoDB with confidence scores.
✦ AI-powered
07
🌡️
Heatmap Explorer
Expression profiles across clusters and conditions with customizable color scales.
08
🌋
Volcano Plots
Interactive DEG analysis across any contrast with AI-written interpretation.
✦ AI-interpreted
09
🔀
Pathway Analysis
GSEA, ORA across MSigDB, KEGG, Reactome, GO with mechanistic summaries.
✦ AI-interpreted
10
⏱️
Trajectory
Monocle 3, scVelo RNA velocity, PAGA for time-course and pseudotime analysis.
11
📡
Ligand–Receptor
CellChat, NicheNet, LIANA+ intercellular communication across conditions.
✦ AI-interpreted
12
📋
Mechanism Report
Publication-ready narrative synthesis of all findings with proposed figures and methods.
✦ AI-generated
Why Isaac
The platform researchers
have been waiting for

The analytical rigor of Seurat and Scanpy — without writing a single line of code.

🤖
AI interpretation at every step
Isaac doesn't just run the analysis — it tells you what it means. Probabilistic cell type annotation, biological hypothesis generation, and plain-language mechanistic summaries at every decision point.
Confidence scores included
Weeks to hours
A complete scRNA-seq analysis pipeline that used to require weeks of iterative coding runs end-to-end in hours. No scripts to debug, no packages to install, no environment conflicts.
Cloud-native compute
🔬
Built by scientists, for scientists
Designed by Texas Medical Center scientists who have personally run these pipelines for over 5 years across MGH/Harvard, BCM, and Rice University. Every decision reflects real laboratory workflows.
Previously NIH-funded
📄
Publication-ready outputs
Every figure exports at journal quality. The mechanism report generates a complete methods section, proposed figure panels, and a statistical summary table ready to drop into a manuscript.
Nature / Cell style
🧩
No bioinformatician required
Isaac democratizes single-cell analysis for the entire biomedical research community — from basic science labs to clinical research groups to pharmaceutical R&D teams — without requiring dedicated computational staff.
Zero coding required
🔗
Complete mechanistic picture
The only platform that integrates clustering, DEG, pathway, trajectory, and ligand-receptor analysis into a single coherent mechanistic narrative — from healthy state to disease to treatment response.
L-R + pathway + trajectory
By the numbers
Built for the scale of
modern sequencing
12×
Pipeline steps automated end-to-end in a single platform
~10h
From raw data to publication-ready mechanistic report
$0
Bioinformatician salary required for standard analyses
1M+
Cells supported per analysis with cloud-native compute
The Team
Built by scientists
surgeons and engineers

Isaac was built by engineers, scientists, and surgeons trained across the Texas Medical Center, MGH/Harvard, and Rice University.

Michael Tyler Guinn
Michael Tyler Guinn, MD PhD
Surgery Resident · Bioengineer
Surgery resident, bioengineer, and computational scientist with bioinformatics experience at Massachusetts General Hospital / Harvard, Baylor College of Medicine, and Rice University.
IK
Ishan Khurjekar, PhD
Research Associate · Computational Biology
PhD computational biologist and research associate with deep expertise in bioinformatics, single-cell genomics, and pipeline development.
RG
Ravi Ghanta, MD
Professor of Surgery · Cardiac Surgeon
Professor of Surgery and cardiac surgeon with deep expertise in translational research and clinical outcomes at the intersection of surgery and biomedical innovation.
Pricing
Simple pricing for every
stage of research

Academic, laboratory, and enterprise plans. Early access members lock in founder pricing.

Academic
$49/month
For individual researchers and trainees at academic institutions.
Up to 500K cells per analysis
Full 12-step pipeline
AI interpretation layer
5 projects concurrent
Export to PDF & Jupyter
Join Waitlist
Enterprise / Pharma
Custom
For pharmaceutical companies, CROs, and large biotech organizations.
Unlimited cells & projects
Dedicated compute infrastructure
Custom AI model fine-tuning
SSO & enterprise security
API access
Dedicated success manager
SLA guarantee
Contact Us
Early Access
Accepting early access applications
Be the first to
try Isaac

Join researchers from academia, pharma, and biotech who are transforming how single-cell data becomes biological discovery.

No spam. Early access members receive founder pricing.