Skill · em Dados, IA e pesquisa

hmdb-database

Access Human Metabolome Database (220K+ metabolites). Search by name/ID/structure, retrieve chemical properties, biomarker data, NMR/MS spectra, pathways, for metabolomics and identification.

Procedência

Antes de instalar

2 arquivos · 15,9 KB · só texto, nenhum script

Instalar na sua CLI

O comando baixa a versão fixada (commit 57f899e) direto da origem, para a pasta que a CLI lê. Precisa de curl (macOS e Linux); no Windows não há comando, porque o Rook Labs é para macOS.

Claude Code

Neste projeto: instala em .claude/skills/hmdb-database/.

d=".claude/skills/hmdb-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/hmdb-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/hmdb_data_fields.md" "$u/references/hmdb_data_fields.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.claude/skills/hmdb-database/.

d="$HOME/.claude/skills/hmdb-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/hmdb-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/hmdb_data_fields.md" "$u/references/hmdb_data_fields.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Codex

Neste projeto: instala em .agents/skills/hmdb-database/.

d=".agents/skills/hmdb-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/hmdb-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/hmdb_data_fields.md" "$u/references/hmdb_data_fields.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.agents/skills/hmdb-database/.

d="$HOME/.agents/skills/hmdb-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/hmdb-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/hmdb_data_fields.md" "$u/references/hmdb_data_fields.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Antigravity

Neste projeto: instala em .agents/skills/hmdb-database/.

d=".agents/skills/hmdb-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/hmdb-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/hmdb_data_fields.md" "$u/references/hmdb_data_fields.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Global: instala em ~/.gemini/antigravity-cli/skills/hmdb-database/.

d="$HOME/.gemini/antigravity-cli/skills/hmdb-database"
u="https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/cli-tool/components/skills/scientific/hmdb-database"
curl -fsSL --create-dirs \
  -o "$d/SKILL.md" "$u/SKILL.md" \
  -o "$d/references/hmdb_data_fields.md" "$u/references/hmdb_data_fields.md" \
  -o "$d/LICENSE" "https://raw.githubusercontent.com/davila7/claude-code-templates/57f899e5394bb8ca166f38eacae8f0853cbfe033/LICENSE"

Peça ao Rook

Já usa o Rook Labs? Cole no chat do Rook: instale a skill https://rooklabs.sh/marketplace/cct.hmdb-database

Prévia do SKILL.md

---
name: hmdb-database
description: "Access Human Metabolome Database (220K+ metabolites). Search by name/ID/structure, retrieve chemical properties, biomarker data, NMR/MS spectra, pathways, for metabolomics and identification."
---

# HMDB Database

## Overview

The Human Metabolome Database (HMDB) is a comprehensive, freely available resource containing detailed information about small molecule metabolites found in the human body.

## When to Use This Skill

This skill should be used when performing metabolomics research, clinical chemistry, biomarker discovery, or metabolite identification tasks.

## Database Contents

HMDB version 5.0 (current as of 2025) contains:

- **220,945 metabolite entries** covering both water-soluble and lipid-soluble compounds
- **8,610 protein sequences** for enzymes and transporters involved in metabolism
- **130+ data fields per metabolite** including:
  - Chemical properties (structure, formula, molecular weight, InChI, SMILES)
  - Clinical data (biomarker associations, diseases, normal/abnormal concentrations)
  - Biological information (pathways, reactions, locations)
  - Spectroscopic data (NMR, MS, MS-MS spectra)
  - External database links (KEGG, PubChem, MetaCyc, ChEBI, PDB, UniProt, GenBank)

## Core Capabilities

### 1. Web-Based Metabolite Searches

Access HMDB through the web interface at https://www.hmdb.ca/ for:

**Text Searches:**
- Search by metabolite name, synonym, or identifier (HMDB ID)
- Example HMDB IDs: HMDB0000001, HMDB0001234
- Search by disease associations or pathway involvement
- Query by biological specimen type (urine, serum, CSF, saliva, feces, sweat)
…

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