Paper-grounded synthesis
Research questions, claims, methods, entities, caveats, and suggested follow-ups stay tied to source chunks.
DNA Dojo
Biology workspace
The AI-native workspace for biology
DNA Dojo turns papers into structured experimental intelligence: citation-backed answers, methods cards, entity memory, and reusable context for life-science projects.
Evidence-bound answers
Methods extraction
Project memory
Paper intelligence run
Evidence locked
Paper Card
MAPK rebound after KRAS inhibition
Extracts models, perturbations, controls, readouts, limitations, and source-backed follow-up questions.
KRAS G12C
phospho-ERK
vehicle control
Citation graph
Answers route through embedded chunks and return citations before they become saved project memory.
Methods p.4Results p.7
DNA Dojo Paper is the first active module
The first release focuses on a narrow but high-value loop: private PDF upload, text extraction, chunk embeddings, structured Paper Card generation, Methods Card extraction, citation-backed Q&A, and saved research cards.
Parse PDFs into page-aware chunks for traceable retrieval.
Extract experimental model systems, perturbations, assays, controls, and readouts.
Generate answers only from retrieved paper evidence, with citation labels.
KRAS inhibitor resistance
3 papers · 12 questions · 8 saved cards
Evidence ready
Paper Card
Adaptive resistance after pathway inhibition, core finding, limitations, and next questions.
Methods Card
Cell line, animal model, perturbation, assay, control group, variable, and readout extraction.
Citation Q&A
Each answer is generated from retrieved chunks and saved with citation metadata.
Project memory
Save paper summaries, methods, and answers as reusable research cards.
Designed around biological evidence, not generic chat
DNA Dojo treats papers as experimental records. The interface privileges methods, controls, model systems, entities, and citations so researchers can evaluate evidence quickly.
Experimental method extraction
Model systems, perturbations, assays, controls, readouts, and protocol notes are normalized into reusable cards.
Biology memory layer
Saved cards turn papers and answers into project memory for genes, pathways, compounds, and assays.
A workspace that can grow beyond papers
Paper is live first. Molecule, sequence, tutoring, experiment, and discovery modules are intentionally reserved so future tools can share one project memory layer.
Paper
Active in V1Read, query, and card biology papers with citations.
Molecule
ReservedTrack compounds, targets, mechanisms, and assay evidence.
DNA / Protein
ReservedAnnotate sequences and connect variants to literature.
Tutor
ReservedTurn project context into guided explanations and checks.
Experiment
ReservedDraft experiment plans from methods and constraints.
Discovery
ReservedSurface hypotheses, gaps, and next papers to read.
Built for the loop researchers actually run
Upload a paper, extract the evidence, ask follow-up questions, then save the useful pieces back into the project.
1
Ingest
Private PDFs, metadata, and project scope are captured together.
2
Extract
Methods, entities, controls, and limitations are structured into reusable cards.
3
Ask
Questions return citation-backed answers that can be saved to project memory.