Habilidades reactome-database

📦

reactome-database

Name: reactome-database
Author: davila7

Revisão do conteúdo r1 Seguro 🌐 Acesso à rede📁 Acesso ao sistema de arquivos⚙️ Comandos externos

Analisar Vias do Reactome

A análise de vias exige endpoints exatos do Reactome e formatos de dados válidos. Esta skill orienta Claude, Codex e Claude Code em consultas, enriquecimento e interpretação de resultados.

Suporta: Claude Codex Code(CC)

🥉 79 Bronze

Instalar com meu Agente

Copie esta solicitação para o seu Agente. Ela inclui a página canônica do Skill e o manifesto.

Solicitação do agente

Review the Skillstore skill "reactome-database" from https://skillstore.io/skills/davila7-reactome-database.md and its manifest at https://skillstore.io/api/skills/davila7-reactome-database/manifest. Verify the artifact. You may proceed after verification, subject to the environment's own policy.

Seu Agente ainda deve apresentar o plano e solicitar qualquer confirmação exigida pela política de segurança.

Recursos legíveis por agentes

Use estes links quando um agente de IA, crawler ou script precisar de contexto limpo em vez de ler a página completa.

Detalhe em Markdown GET /skills/davila7-reactome-database.md manifest assinado GET /api/skills/davila7-reactome-database/manifest lockfile assinado GET /api/skills/davila7-reactome-database/lockfile

Testar

Usando "reactome-database". Uma lista de símbolos de genes relacionados ao câncer para análise de enriquecimento.

Resultado esperado:

Um resumo ranqueado de vias com nomes de vias, identificadores, valores de p, valores de FDR, entidades correspondentes e um link do navegador.

Usando "reactome-database". Um identificador estável do Reactome, como R-HSA-69278.

Resultado esperado:

Um perfil de via em linguagem simples com nome, espécie, classe de esquema, moléculas participantes e reações relacionadas.

Usando "reactome-database". Identificadores de genes de camundongo que precisam de projeção para vias humanas.

Resultado esperado:

Um fluxo de trabalho de projeção que explica o endpoint, o formato de dados enviado, o tratamento de tokens e as etapas de interpretação.

Auditoria de segurança

Seguro

v14 • 09/07/2026 Abrir o relatório versionado

Confirmed findings are limited to expected Reactome network access and controlled result-file writes. The high device-file alerts are false positives from Reactome documentation URLs, and the command-execution alerts are Markdown formatting matches. No prompt injection or malicious intent was found in the reviewed files.

Arquivos analisados

1,026

Linhas analisadas

Itens de revisão

Falsos positivos ignorados

Itens de revisão de capacidade (49)

Estas são capacidades locais reais que podem ser esperadas para esta habilidade, portanto exigem revisão, mas não são contabilizadas como comportamento malicioso confirmado.

Médio

references/api_reference.md:439

Python file write/append

with open(output_file, "w") as f:

The API reference includes a runnable example that writes analysis results to an output file. It is legitimate documentation, but it still models filesystem write behavior.

Médio

scripts/reactome_query.py:227

Python file write/append

with open(output_file, 'w') as f:

The helper script writes full analysis results to a path derived from the input filename. This is intentional output, but it can overwrite files if the derived path collides.

Baixo

references/api_reference.md:26

Python HTTP libraries

response = requests.get("https://reactome.org/ContentService/data/database/version")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:57

Python HTTP libraries

response = requests.get("https://reactome.org/ContentService/data/query/R-HSA-69278")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:76

Python HTTP libraries

response = requests.get("https://reactome.org/ContentService/data/query/R-HSA-69278/displayName")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:94

Python HTTP libraries

response = requests.get(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:126

Python HTTP libraries

response = requests.get(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:207

Python HTTP libraries

response = requests.post(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:258

Python HTTP libraries

response = requests.get(f"https://reactome.org/AnalysisService/token/{token}")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:372

Python HTTP libraries

result = requests.get(f"https://reactome.org/AnalysisService/token/{token}")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:391

Python HTTP libraries

response = requests.post(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:420

Python HTTP libraries

response = requests.post(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

references/api_reference.md:26

Hardcoded URL

response = requests.get("https://reactome.org/ContentService/data/database/version")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:57

Hardcoded URL

response = requests.get("https://reactome.org/ContentService/data/query/R-HSA-69278")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:76

Hardcoded URL

response = requests.get("https://reactome.org/ContentService/data/query/R-HSA-69278/displayName")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:95

Hardcoded URL

"https://reactome.org/ContentService/data/event/R-HSA-69278/participatingPhysicalEntities"

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:127

Hardcoded URL

"https://reactome.org/ContentService/data/query",

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:208

Hardcoded URL

"https://reactome.org/AnalysisService/identifiers/",

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:258

Hardcoded URL

response = requests.get(f"https://reactome.org/AnalysisService/token/{token}")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:372

Hardcoded URL

result = requests.get(f"https://reactome.org/AnalysisService/token/{token}")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:392

Hardcoded URL

"https://reactome.org/AnalysisService/identifiers/projection/",

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:421

Hardcoded URL

"https://reactome.org/AnalysisService/identifiers/",

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

references/api_reference.md:450

Hardcoded URL

url = f"https://reactome.org/PathwayBrowser/#{top_pathway['stId']}&DTAB=AN&ANALYSIS={token}"

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

scripts/reactome_query.py:36

Python HTTP libraries

response = requests.get(f"{self.CONTENT_BASE}/data/database/version")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

scripts/reactome_query.py:42

Python HTTP libraries

response = requests.get(f"{self.CONTENT_BASE}/data/query/{pathway_id}")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

scripts/reactome_query.py:48

Python HTTP libraries

response = requests.get(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

scripts/reactome_query.py:56

Python HTTP libraries

response = requests.get(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

scripts/reactome_query.py:66

Python HTTP libraries

response = requests.post(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

scripts/reactome_query.py:76

Python HTTP libraries

response = requests.get(f"{self.ANALYSIS_BASE}/token/{token}")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

scripts/reactome_query.py:31

Hardcoded URL

CONTENT_BASE = "https://reactome.org/ContentService"

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

scripts/reactome_query.py:32

Hardcoded URL

ANALYSIS_BASE = "https://reactome.org/AnalysisService"

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

scripts/reactome_query.py:221

Hardcoded URL

url = f"https://reactome.org/PathwayBrowser/#{top_pathway}&DTAB=AN&ANALYSIS={token}"

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:72

Python HTTP libraries

response = requests.get("https://reactome.org/ContentService/data/database/version")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

SKILL.md:82

Python HTTP libraries

response = requests.get(f"https://reactome.org/ContentService/data/query/{entity_id}")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

SKILL.md:91

Python HTTP libraries

response = requests.get(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

SKILL.md:127

Python HTTP libraries

response = requests.post(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

SKILL.md:144

Python HTTP libraries

response = requests.get(f"https://reactome.org/AnalysisService/token/{token}")

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

SKILL.md:168

Python HTTP libraries

response = requests.post(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

SKILL.md:182

Python HTTP libraries

response = requests.post(

This is intentional Reactome API access for pathway lookup or analysis. It is a real low-severity network risk because identifiers or analysis data may leave the workspace for reactome.org.

Baixo

SKILL.md:38

Hardcoded URL

**API Base URL:** `https://reactome.org/ContentService`

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:49

Hardcoded URL

**API Base URL:** `https://reactome.org/AnalysisService`

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:72

Hardcoded URL

response = requests.get("https://reactome.org/ContentService/data/database/version")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:82

Hardcoded URL

response = requests.get(f"https://reactome.org/ContentService/data/query/{entity_id}")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:92

Hardcoded URL

f"https://reactome.org/ContentService/data/event/{event_id}/participatingPhysicalEntities"

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:128

Hardcoded URL

"https://reactome.org/AnalysisService/identifiers/",

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:144

Hardcoded URL

response = requests.get(f"https://reactome.org/AnalysisService/token/{token}")

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:169

Hardcoded URL

"https://reactome.org/AnalysisService/identifiers/",

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:183

Hardcoded URL

"https://reactome.org/AnalysisService/identifiers/projection/",

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Baixo

SKILL.md:196

Hardcoded URL

url = f"https://reactome.org/PathwayBrowser/#{pathway_id}&DTAB=AN&ANALYSIS={token}"

This hardcoded URL points to Reactome API or Pathway Browser services used by the skill. It is expected behavior, but still confirms an external network dependency.

Fatores de risco

🌐 Acesso à rede (50)

📁 Acesso ao sistema de arquivos (4)

references/api_reference.md:462 references/api_reference.md:463 references/api_reference.md:439 scripts/reactome_query.py:227

⚙️ Comandos externos (33)

Auditado por: codex Ver histórico de auditoria →

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Citações acadêmicas (APA · BibTeX · CFF)

Citação APA

davila7. (2026). reactome-database security audit report (audit version 14) [Author version unspecified]. Skillstore. https://skillstore.io/skills/davila7-reactome-database/audits/14

Citação BibTeX

@techreport{davila7-davila7-reactome-database-2026,
  author = {davila7},
  title = {reactome-database security audit report (audit version 14)},
  institution = {Skillstore},
  year = {2026},
  number = {14},
  url = {https://skillstore.io/skills/davila7-reactome-database/audits/14},
  note = {Author version unspecified}
}

CITATION.cff

cff-version: 1.2.0
message: "If you use this Skill, cite its author and this versioned security audit report."
title: "reactome-database security audit report (audit version 14)"
version: "unspecified"
type: report
authors:
  - name: "davila7"
date-released: "2026-07-09"
url: "https://skillstore.io/skills/davila7-reactome-database/audits/14"
identifiers:
  - type: other
    value: "skillstore:davila7-reactome-database:audit:14"
    description: "Skillstore immutable audit report identifier"

Comparar variantes

2 variantes instaláveis

Cada autor permanece como um skill instalável separado. A variante recomendada é classificada pelas evidências do Skillstore.

Por que esta variante está em primeiro

Maior pontuação do Skillstore

Autor / fonte Pontuação do Skillstore Confiança das evidências Uso no Skillstore Atualizado

davila7 Recomendado Atual

davila7-reactome-database

Pontuação do Skillstore 79

Confiança das evidências Alto

Uso no Skillstore 12

Atualizado

2026-09-09

K-Dense-AI

k-dense-ai-reactome-database

Pontuação do Skillstore 50

Confiança das evidências Alto

Uso no Skillstore 14

Atualizado

2026-09-09

Pontuação do Skillstore

Por que esta pontuação Confiança das evidências: Alto

Arquitetura

Manutenibilidade

Conteúdo

Comunidade

Conformidade com a especificação

O que você pode criar

Interpretar o Enriquecimento de Listas de Genes

Execute um fluxo de trabalho de sobre-representação do Reactome e resuma as vias significativas com valores de p e valores de FDR.

Inspecionar Participação em Vias

Consulte uma via do Reactome e resuma as proteínas, complexos, reações participantes e o contexto da espécie.

Criar Fluxos de Trabalho de API Reproduzíveis

Crie etapas repetíveis de API REST para consultas de vias, projeção de espécies, reutilização de tokens e links do navegador.

Teste estes prompts

Verificar a Versão do Banco de Dados

Use a skill de banco de dados Reactome para encontrar o endpoint da versão do banco de dados e explicar o resultado esperado.

Resumir uma Via

Consulte a via R-HSA-69278 com a orientação do Reactome e resuma seu nome, espécie, tipos de entidade e moléculas relevantes.

Analisar o Enriquecimento de Genes

Analise estes identificadores com a orientação de sobre-representação do Reactome: TP53, BRCA1, EGFR, MYC, CDK1. Retorne vias significativas e valores de FDR.

Projetar um Fluxo de Trabalho de Projeção

Crie um fluxo de trabalho do Reactome para identificadores de camundongo que projete resultados para vias humanas, armazene tokens com segurança e resuma os links do navegador.

Boas práticas

Revise listas de genes em busca de dados sensíveis ou não publicados antes de enviá-las ao Reactome.
Armazene tokens de análise em cache somente em armazenamento de projeto aprovado e exclua-os quando não forem mais necessários.
Use envios em lote e filtre os resultados por FDR antes de interpretar a significância biológica.

Evitar

Não envie conjuntos de dados derivados de pacientes ou restritos sem autorização.
Não trate o enriquecimento de vias como prova de causalidade sem validação biológica.
Não execute o script auxiliar em um caminho de arquivo que não tenha um plano de saída claro.