# Ginkgo Cloud Lab

> Envía y gestiona protocolos en Ginkgo Bioworks Cloud Lab (cloud.ginkgo.bio): expresión y purificación de proteínas, cuantificación HiBiT/A280/LabChip, síntesis IVT, thermal shift, Echo-MS, onboarding SPR y más.

Fuente: https://skillsagentes.com/skills/k-dense-ai/scientific-agent-skills/ginkgo-cloud-lab
Markdown: https://skillsagentes.com/skills/k-dense-ai/scientific-agent-skills/ginkgo-cloud-lab.md

Repositorio: https://github.com/K-Dense-AI/scientific-agent-skills
Autor: K-Dense-AI
Licencia: MIT license
Actualizado: hace 2 meses
Coste de contexto: 148 tok instalada, 1.8k tok al activarse, 11.7k tok con todos los archivos del bundle
Bundle: 18 archivos, 46 KB
Permisos que pide: read

## Instalación

Un skill son archivos markdown: los mismos archivos valen para cualquier agente y lo único que cambia es el directorio de destino, es decir la bandera `--agent`. Añade `-g` para instalarlo en todos los proyectos de la máquina.

```bash
# Claude Code
npx -y skills add K-Dense-AI/scientific-agent-skills --skill ginkgo-cloud-lab --agent claude-code
# Cursor
npx -y skills add K-Dense-AI/scientific-agent-skills --skill ginkgo-cloud-lab --agent cursor
# Codex
npx -y skills add K-Dense-AI/scientific-agent-skills --skill ginkgo-cloud-lab --agent codex
# Gemini CLI
npx -y skills add K-Dense-AI/scientific-agent-skills --skill ginkgo-cloud-lab --agent gemini
# Windsurf
npx -y skills add K-Dense-AI/scientific-agent-skills --skill ginkgo-cloud-lab --agent windsurf
# Cline
npx -y skills add K-Dense-AI/scientific-agent-skills --skill ginkgo-cloud-lab --agent cline
```

## Qué hace

- Cataloga los protocolos disponibles en Ginkgo Cloud Lab: expresión y purificación, caracterización, onboarding de método/target y protocolos especiales
- Da precio, turnaround y estado (Certified/Beta) de cada protocolo, con enlace a su archivo de referencia con inputs y outputs
- Explica el flujo general de pedido: elegir protocolo, configurar parámetros, subir inputs, añadir detalles y enviar
- Describe cómo usar EstiMate, el agente de IA de Ginkgo, para cotizar protocolos personalizados no listados en el catálogo

## Cuándo usarla

- Quieres ejecutar expresión y purificación de proteínas (cell-free, E. coli o Pichia) en un lab remoto autónomo
- Necesitas cuantificación HiBiT, A280 o LabChip, síntesis de mRNA/circRNA por IVT, o un ensayo de thermal shift
- Quieres hacer onboarding de un método Echo-MS o un target SPR, o pedir un protocolo especial
- Necesitas cotizar un protocolo personalizado que no está en el catálogo mediante EstiMate

## Qué la activa

- "¿Qué protocolo de Ginkgo Cloud Lab me conviene para expresar esta proteína?"
- "Compara los precios de los protocolos de purificación con A280"
- "¿Cómo pido un onboarding de target SPR en Ginkgo?"
- "Explícame el flujo para pedir un protocolo en cloud.ginkgo.bio"

## Antes de instalar

- Necesita una cuenta en cloud.ginkgo.bio; puede requerirse creación de cuenta o acceso institucional, y se contacta a cloud@ginkgo.bio para dudas de acceso.

## Archivos

- SKILL.md — 7 KB
- references/cell-free-protein-expression-hibit.md — 2 KB
- references/cell-free-protein-expression-optimization.md — 3 KB
- references/cell-free-protein-expression-validation.md — 2 KB
- references/cfps-expression-purification-quantification.md — 2 KB
- references/cfps-strep-purification-thermal-shift.md — 3 KB
- references/cfps-strep-tag-purification-a280.md — 2 KB
- references/echo-ms-cfps-detection.md — 2 KB
- references/echo-ms-method-onboarding.md — 2 KB
- references/ecoli-expression-purification-quantification.md — 2 KB
- references/ecoli-minibinder-expression-histag-a280.md — 2 KB
- references/ecoli-protein-expression-hibit.md — 2 KB
- references/ecoli-protein-expression-histag-a280.md — 2 KB
- references/fluorescent-pixel-art-generation.md — 3 KB
- references/ivt-rna-synthesis-qpcr.md — 2 KB
- references/minibinder-strep-tag-a280.md — 2 KB
- references/pichia-protein-expression-labchip.md — 2 KB
- references/spr-target-onboarding.md — 2 KB

## SKILL.md

Reproducido tal cual desde K-Dense-AI/scientific-agent-skills bajo MIT license. Esta sección es el documento original y está en inglés.

# Ginkgo Cloud Lab

## Overview

Ginkgo Cloud Lab (https://cloud.ginkgo.bio) provides remote access to Ginkgo Bioworks' autonomous lab infrastructure. Protocols are executed on Reconfigurable Automation Carts (RACs) -- modular units with robotic arms, maglev sample transport, and industrial-grade software spanning 70+ instruments.

The platform also includes **EstiMate**, an AI agent that accepts human-language protocol descriptions and returns feasibility assessments and pricing for custom workflows beyond the listed protocols.

The catalog is organized into **Expression & Purification** (in vitro / cell-free / E. coli / Pichia), **Characterization & Assay**, **Method & Target Onboarding**, and **Specialty**. Pick a protocol below, then read its reference file for inputs, outputs, the automated workflow, and ordering details.

## Available Protocols

### Expression & Purification - In vitro

| Protocol | Readout | Price | Turnaround | Status |
|---|---|---|---|---|
| [IVT mRNA/circRNA Synthesis](references/ivt-rna-synthesis-qpcr.md) | qPCR (mRNA or circRNA, 384-well) | $99/sample | up to 12 business days | Certified |

### Expression & Purification - Cell-free (E. coli CFPS)

| Protocol | Readout | Price | Turnaround | Status |
|---|---|---|---|---|
| [Validate sequence expression](references/cell-free-protein-expression-validation.md) | Go/no-go titer + purity (up to 1800 bp) | $39/sample | up to 10 days | Certified |
| [Optimize expression conditions](references/cell-free-protein-expression-optimization.md) | DoE across 24 conditions | $199/sample | up to 11 days | Certified |
| [Express + quantify (HiBiT)](references/cell-free-protein-expression-hibit.md) | Luminescence, no purification | $39/sample | up to 11 days | Certified |
| [Express + purify (A280)](references/cfps-strep-tag-purification-a280.md) | Strep-tag, A280 yield | $149/sample | up to 11 days | Certified |
| [Express + purify minibinder](references/minibinder-strep-tag-a280.md) | Strep-tag, A280, LabChip | $149/sample | up to 11 days | Certified |
| [Express + purify (A280 + LabChip)](references/cfps-expression-purification-quantification.md) | Strep-tag, A280 + purity/size | $159/sample | up to 12 days | Certified |

### Expression & Purification - E. coli

| Protocol | Readout | Price | Turnaround | Status |
|---|---|---|---|---|
| [Express + quantify (HiBiT)](references/ecoli-protein-expression-hibit.md) | Luminescence (up to 384 constructs) | $79/sample | up to 3 weeks | Certified |
| [Express + purify (A280)](references/ecoli-protein-expression-histag-a280.md) | His-tag, A280 yield | $199/sample | up to 3 weeks | Certified |
| [Express + purify minibinder](references/ecoli-minibinder-expression-histag-a280.md) | His-tag, A280 yield | $199/sample | up to 3 weeks | Certified |
| [Express + purify (A280 + LabChip)](references/ecoli-expression-purification-quantification.md) | His-tag, A280 + purity/size | $209/sample | up to 3 weeks | Certified |

### Expression & Purification - Pichia

| Protocol | Readout | Price | Turnaround | Status |
|---|---|---|---|---|
| [Express + quantify (LabChip)](references/pichia-protein-expression-labchip.md) | Secreted protein, size/purity (up to 96) | $89/sample | up to 4 weeks | Certified (New) |

### Characterization & Assay

| Protocol | Readout | Price | Turnaround | Status |
|---|---|---|---|---|
| [Express + thermal shift](references/cfps-strep-purification-thermal-shift.md) | SYPRO Orange Tm (Tonset, TM1-3) | $159/sample | up to 12 days | Certified |
| [Detect enzymatic products (Echo-MS)](references/echo-ms-cfps-detection.md) | Substrate/product by Echo-MS | $44/sample | up to 13 days | Beta |

### Method & Target Onboarding

| Protocol | Readout | Price | Turnaround | Status |
|---|---|---|---|---|
| [Onboard Echo-MS method](references/echo-ms-method-onboarding.md) | Calibration curve, LOD/LOQ | $799/molecule | up to 3 weeks | Certified |
| [Onboard SPR target](references/spr-target-onboarding.md) | Validated SPR capture method | $1,399/target | up to 4 weeks | Beta |

### Specialty

| Protocol | Readout | Price | Turnaround | Status |
|---|---|---|---|---|
| [Generate fluorescent pixel art](references/fluorescent-pixel-art-generation.md) | UV photo, 7-color E. coli palette | $25/plate | up to 7 days | Beta |

**Coming soon:** Protein Expression and Binding Affinity Characterization (express + purify, then screen binding affinity against a target).

## Choosing a Protocol

- **Quick expressibility screen?** Cell-free HiBiT ($39) or Validate sequence expression ($39).
- **Need purified protein + yield?** A280 tiers (cell-free or E. coli); add LabChip for purity/size.
- **Difficult / membrane / disulfide / cofactor targets?** Cell-free Optimize (24-condition DoE).
- **Secreted or eukaryotic targets?** Pichia expression.
- **Screening de novo binders/minibinders?** Cell-free or E. coli minibinder tiers, then SPR onboarding for kinetics.
- **Enzyme activity / biocatalysis?** Echo-MS enzymatic detection (onboard the analyte method first).
- **Stability / developability ranking?** Thermal shift assay.
- **RNA (mRNA/circRNA)?** IVT synthesis + qPCR.

## General Ordering Workflow

1. Select a protocol at https://cloud.ginkgo.bio/protocols
2. Configure parameters (number of proteins/samples/molecules/targets, replicates, plates)
3. Download the protocol's input template and upload inputs (FASTA/CSV/XLSX for sequence protocols; Design Tool for pixel art; vendor catalog numbers for onboarding)
4. Add any special requirements in the Additional Details field
5. Provide an email, agree to the protocol terms, and add to cart / submit to receive a feasibility report and price quote

For protocols not listed above, use the **EstiMate** chat (https://cloud.ginkgo.bio/estimate) to describe a custom protocol in plain language and receive a compatibility assessment and pricing.

## Authentication

Access Ginkgo Cloud Lab at https://cloud.ginkgo.bio. Account creation or institutional access may be required. Contact Ginkgo at cloud@ginkgo.bio for access questions.

## Key Infrastructure

- **RACs (Reconfigurable Automation Carts):** Modular robotic units with high-precision arms and maglev transport
- **Catalyst Software:** Protocol orchestration, scheduling, parameterization, and real-time monitoring
- **70+ integrated instruments:** Agilent Bravo liquid handlers, Beckman/Labcyte Echo acoustic dispensers, BMG PHERAstar / Tecan Spark readers, Revvity LabChip, Bio-Rad CFX Opus, Nicoya Alto SPR, SciEx Echo-MS, Inheco/Cytomat incubators, and more
- **Nebula:** Ginkgo's autonomous lab facility in Boston, MA

## Dónde encaja

- Categoría: [Investigación](https://skillsagentes.com/categorias/investigacion.md) — Investigación estructurada, búsqueda de fuentes y síntesis.
- Creador: [K-Dense-AI](https://skillsagentes.com/creators/k-dense-ai.md) — 163 skills en el directorio
- [Todas las skills](https://skillsagentes.com/skills.md)
- [Ranking de instalaciones](https://skillsagentes.com/ranking.md)

## Otras skills del mismo repositorio

- [Citation Management](https://skillsagentes.com/skills/k-dense-ai/scientific-agent-skills/citation-management.md): Gestión integral de citas académicas: busca en OpenAlex, PubMed y Google Scholar, extrae metadatos precisos, valida citas y genera entradas BibTeX correctamente formateadas.
- [Scientific Slides](https://skillsagentes.com/skills/k-dense-ai/scientific-agent-skills/scientific-slides.md): Crea decks de diapositivas y presentaciones para charlas de investigación: PowerPoint, presentaciones de conferencia, seminarios, defensas de tesis. Da estructura, plantillas, guía de tiempos y validación visual.
- [Literature Review](https://skillsagentes.com/skills/k-dense-ai/scientific-agent-skills/literature-review.md): Realiza revisiones bibliográficas sistemáticas y completas usando varias bases académicas (PubMed, arXiv, bioRxiv, Semantic Scholar). Genera markdown y PDF con citas verificadas en varios estilos (APA, Nature, Vancouver).
- [Infographics](https://skillsagentes.com/skills/k-dense-ai/scientific-agent-skills/infographics.md): Crea infografías profesionales con Nano Banana Pro AI y refinamiento iterativo inteligente. Usa Gemini 3.6 Flash para revisar la calidad e integra investigación con Perplexity Sonar. Soporta 10 tipos, 8 estilos y paletas para daltonismo.
- [Latex Posters](https://skillsagentes.com/skills/k-dense-ai/scientific-agent-skills/latex-posters.md): Crea pósteres de investigación profesionales en LaTeX con beamerposter, tikzposter o baposter, para conferencias y comunicación científica: layout, colores, columnas múltiples e integración de figuras.

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