Visualization roadmap
Public-safe figures for understanding computational protein context.
Roadmap, not a completed gallery. The figures below are the public figure landscape Cellico Bio is building toward. Some surfaces are live today (pipeline, structure- context, ensemble, signal layer, atom-of-aging atlas) and some are proposed / future-facing. Live status is labelled on each item.
The Cellico Bio publication companion uses six figure families to communicate computational protein context. Every public figure on this site is either a schematic or grounded in a public-source reference (UniProt, RCSB PDB, AlphaFold DB, DisProt). Richer private data lives only on internal / NDA-gated reviewer surfaces.
Figure families
Sequence and context tracks
Show position-aligned context along a public protein chain (regions, public motifs, residue-position cues).
Public example. α-synuclein region track on the IDP structure-context panel: N-terminal amphipathic, NAC, C-terminal acidic. Residue ranges only — no raw sequence.
Disorder and confidence maps
Communicate intrinsic-disorder context and model-confidence context as separate, clearly-labeled layers.
Public example. Variable-thickness translucent disorder-context cloud over the schematic α-synuclein backbone, with AlphaFold pLDDT shown as a separate model-confidence band labeled "not a disorder probability".
Fragment-network projections (public-safe)
Convey fragment-neighborhood connectivity and review-priority context using a deterministic public-safe projection — never a private data export.
Public example. The pipeline star-chart on /cellico/pipeline. Nodes carry relative disorder-context clouds, three faint biological-context boundaries (inherited / tissue / chronological context), and a small set of glinting review-priority markers.
Public structure-context panels
Place a public-source structure entry alongside Cellico Bio claim labels for a worked example.
Public example. α-synuclein structure-context panel sourcing UniProt P37840, RCSB PDB 9A1A, and AlphaFold AF-P37840-F1, with explicit claim labels (PUBLIC_STRUCTURE_CONTEXT, MODEL_CONFIDENCE_OVERLAY, PUBLIC_DISORDER_CONTEXT, COMPUTATIONAL_PRIORITIZATION_ONLY).
Ensemble and uncertainty views
Show that intrinsically disordered proteins do not have a single fixed 3D structure by rendering an ensemble of schematic conformer traces with relative context cues.
Public example. The interactive 3D-feeling ensemble panel on /cellico/pipeline. Five deterministic conformer traces in a pseudo-3D rotated frame with three faint biological context shells.
Provenance and release-chain diagrams
Document how a Cellico Bio public artifact was sourced, frozen, and released — without exposing private inputs.
Public example. Public-safe release-chain notes on the citations page and evidence map: source IDs, snapshot timestamps, and claim-label provenance. Never raw fragment data, never private candidate identifiers.
Public / internal boundary
| Family | Public website | Internal / NDA review | Blocked from public |
|---|---|---|---|
| Sequence and context tracks | Public protein region tracks; UniProt-grounded ranges; schematic motifs. | Cohort-level enrichment overlays on public protein tracks (no exact gated counts). | Raw amino-acid sequences. Per-residue AA-letter labels. |
| Disorder and confidence maps | Relative disorder-context clouds; pLDDT band as a separate model-confidence layer. | Public predictor disorder probability for cited proteins, predictor name in caption. | Private model parameters; private decision rules; private feature definitions. |
| Fragment-network projections (public-safe) | Deterministic public-safe projection. Schematic communication layer, not a private data export. | Range-banded projections grounded in public-safe aggregates. | Real fragment identifiers; candidate identifiers; row-level fragment data; private prioritization parameters. |
| Public structure-context panels | Public-source IDs (UniProt / PDB / AlphaFold) and Cellico Bio claim labels. | Public-source structure with reviewer-only annotations. | Private fragment geometry; private peptide design data. |
| Ensemble and uncertainty views | Schematic deterministic ensemble (clearly labeled schematic). | Real-data ensemble drawn from a verified public-safe aggregate (operator-approved). | Private target-specific ensembles tied to candidate IDs. |
| Provenance and release-chain diagrams | Source IDs, snapshot timestamps, claim-label provenance. | Full Merkle release chain for reviewer audit. | Internal repo paths; private architecture details; gated counts; private snapshot identifiers. |
Fig PW.1 — Provenance / release-chain schematic
Governance
Generated figures are reviewed for source grounding, public / private boundaries, claim scope, and provenance before release. Public figures are schematic or public-source context unless explicitly tied to a verified public-safe aggregate; private geometry and private parameters never appear on this site.