Getting started
GeneLoop overview
GeneLoop is a molecular biology workspace for designing, inspecting, editing, and documenting DNA constructs with AI help. It combines a sequence editor, project records, registry and inventory views, and approval-gated assistant workflows.
Start with a project, add the sequence and lab context, ask the assistant for analysis or design help, then review exact changes before anything sequence-changing is saved.
Get started
Most work in GeneLoop follows a simple loop: load context, ask for help, review evidence, approve the exact change, and keep the record close to the construct.
Create a project
Use projects as the source of truth for sequences, notes, protocols, experiments, chats, and design context.
Add sequence context
Import DNA, paste a construct, create a blank sequence, or ask the assistant to draft something for review.
Inspect before changing
Use the circular map, linear map, selected-region tools, annotations, restriction sites, and diffs before accepting edits.
Capture the lab record
Keep protocols, notebook entries, registry records, inventory context, and PLASMID.md notes near the construct.
What is live
This page keeps the claims surface-level and practical. Some GeneLoop areas are complete workspace surfaces, while others are template or composer flows.
Live surfaces
- Project workspace and sequence tabs
- AI chat with active project context
- Sequence maps, selection tools, and annotation review
- Registry, inventory, and project document surfaces
Approval-gated work
- Insert and replace sequence edits
- Cassette-style construct changes
- Plan mode for higher-risk design work
- Protocol and execution confirmation flows
Preview-level surfaces
- Automation templates and scheduled-thread composer
- GeneLoop template launchers
- Some inventory controls before full UI wiring
- Create-menu shortcuts marked as coming soon
What you can do
Use the dashboard as a working surface for sequences and the surrounding experimental record, not just as a chat box.
Dashboard navigation
Move between Home, Projects, Registry, Inventory, Search, and creation flows from the persistent sidebar.
Project browser
Organize folders, sequences, documents, protocols, experiments, and project instructions in one tree.
Sequence workspace
Open sequence tabs, inspect maps, select regions, run analysis tools, and review artifacts beside the active construct.
AI chat panel
Ask for analysis, design help, edit drafts, troubleshooting, protocol notes, or context-aware explanations.
Sequence design
GeneLoop treats exact sequence state as the artifact that matters. AI can help draft and reason, but inspection happens through maps, selections, tool results, and diffs.
Sequence tools
AI workflows
Choose the assistant mode based on risk. Direct analysis can move quickly; construct-changing work should leave a review trail.
Action mode
Best for direct work: explain a sequence, draft a construct, add annotations, prepare an edit card, or write project notes.
Plan mode
Best for risky or multi-step design work. The assistant gathers evidence and writes a plan before execution is approved.
Human approval
Sequence-changing operations are reviewed with explicit confirmation before the saved construct is changed.
Human approval
AI-generated edits are not treated as invisible background changes. The user sees the proposed insert, replacement, or plan execution step before accepting it.
Review before save
For sequence-changing work, compare what changed, which annotations were affected, and whether the result still fits the intended cloning or expression context.
Keep wet-lab judgment in the loop
Generated designs should still be checked against primers, restriction sites, host assumptions, safety constraints, and lab-specific protocols.
Lab records
Project records make the assistant more useful and make design decisions easier to audit later.
Lab notebook
Write experiment entries and protocols next to the sequences and project decisions they describe.
Registry
Track reusable biological entities such as plasmids, strains, oligos, proteins, antibodies, and custom records.
Inventory
Browse storage locations and samples, inspect audit trails, and connect physical materials to project work.
Project documents
Keep generated artifacts, design notes, protocols, and PLASMID.md conventions in the same workspace.
Automation
GeneLoop includes templates and composer surfaces for follow-up work. Treat them as structured prompts and scheduled workflow setup, not as a replacement for experiment review.
Automations
Draft recurring prompts for checks such as status reports, synthesis reviews, registry cleanup, or alignment review.
GeneLoops
Launch focused assistant threads from templates for expression optimization, vector comparison, insert design, literature review, and related workflows.
Reference
Developer access is available through the GeneLoop Bio API and the checked-in OpenAPI schema.
Authentication
Use bearer-token style authentication for API calls. Keep tokens out of shared notebooks, screenshots, and prompts.
OpenAPI
Inspect the schema served at /openapi.json for route shapes, request bodies, and generated SDK alignment.
Backend health
Use the public health endpoint before debugging client behavior against the API.
curl "https://api.geneloop.bio/health"Review rules
These are the operating rules for keeping AI-assisted biology work grounded in exact sequence evidence.