First-timer UX: identifier fix + goal router + contextual topbar + results key

Add one-click "Try an example" to every tool

Retention 90→45 days + live auto-delete countdown in the saved hub

Unified "My designs" hub: save every tool, not just CRISPR

Workbench hub + full-capability docs + fix stuck toolbar dropdowns

Rename vague nav tabs to descriptive tool names

Fix reported production bugs: stuck dropdowns, blocked SNP, session loop

Adversarial audit of Plasmid Studio: fix XSS, DoS, and input-validation gaps

Plasmid Studio M5: hand a construct (or region) to CRISPR + Primer Picker

Plasmid Studio M3 + M4: sequence editor + cloning simulation

Plasmid Studio (M1+M2): import/annotate/map + restriction/digest + library

Primer Picker: add strict 3'-end matching knob for the specificity scan

Primer Picker: separate intended product from off-targets; collapse redundant hits

Primer Picker: full in-silico PCR specificity — no more "go to NCBI Primer-BLAST"

Gate the Primer Picker behind sign-in (mirror CRISPR)

Add Primer Picker: batch-analyse primers, rank, recommend the best

Fix: Identify/AlphaFold dead-ends on heavily-sequenced proteins (e.g. Cas9)

DE engine: add AlphaFold next to ESMFold for large proteins

IP Radar: make it runnable per-guide, not just guide #1

Oracle: gate ALL synthesis vendors + the directed-evolution export

IP Radar patents (env-gated) + Toxicity & Synthesis Oracle (Red Team)

Live Collision IP Radar v1 — opt-in literature scan (Europe PMC)

Mobile CRISPR cards: compact-by-default + clean edges

Paste editor: cap height + fit bases/line to the box (not a fixed 10)

Fix CRISPR form horizontal overflow + base-ruler paste gutters

Mobile cards for CRISPR results + dark Mol* structure viewers

Harden AlphaFold viewer + add CSV export to CRISPR download

Living logo: choreograph the plasmid⇄helix morph (calmer, not chaotic)

Living logo: closed plasmid ⇄ double-helix metamorphosis (engine sidebar)

Fix AlphaFold viewer showing nothing (stale model version + silent 404)

Default the engine to dark mode; fix research strip on dark

Add light / dark theme toggle

CRISPR UI: fix results-header layout, add My designs nav, surface 3-D viewer

CRISPR M4: save & revisit designs (per-user, 90-day TTL)

CRISPR M5: structure viewer — cut site on the AlphaFold model

CRISPR M3: results UX — sortable columns, filters, plain-English "why"

CRISPR M2: paste-anything input + fix phantom progress bar

CRISPR M1: base-editing design mode (CBE/ABE + iSTOP + AA consequence)

CRISPR — scrub internal jargon from user-facing copy

Genome off-target — non-blocking + background prewarm + status banner

CRISPR — port DE synth UX: per-row vendor buttons + gradient style + auto-copy

CRISPR polish — progress bar, paste-wrap to FASTA 60, fix row-height blowout

CRISPR paste textarea — line-numbered gutter matching directed-evolution

CRISPR Phase 2C-1 — cloning oligos + vendor buttons + vector picker

CRISPR Phase 2B-1 — E. coli genome off-target + Ensembl exon-aware design

CRISPR Phase 2A polish — replace Cleanliness (saturated at 6) with Dominance %

CRISPR Phase 2A — inDelphi-inspired indel prediction + base-editor flag

Replace CRISPR CSV export with native XLSX (fixes ;-locale Excel mangle)

CRISPR Phase 1 — Doench-inspired scoring + CFD self-off-target + Cas12a + KO efficacy

Kill CRISPR reload loop + ship friendly anon modal