nature-academic-search

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Multi-source literature search, citation verification, MeSH search strategy, citation file management (.nbib/.ris/.bib conversion), and reference management (BibTeX, related articles, ID conversion) via MCP tools (PubMed, CrossRef, arXiv). Use when the user needs coordinated multi-step literature workflows beyond a single MCP call.

11installs

Sourceyuan1z0825/nature-skills

Added on2026-05-14

NPX Install

npx skill4agent add yuan1z0825/nature-skills nature-academic-search

SKILL.md Content

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Academic Search

Multi-source literature search, citation verification, citation format conversion, and reference management via MCP tools.

MCP Tools

Core Search

Tool	Source	Best For
`pubmed_search_articles`	PubMed MCP	Biomedical, MeSH, clinical trials
`search_crossref`	paper-search MCP	Cross-disciplinary, citation counts
`search_arxiv`	paper-search MCP	Preprints (physics, math, CS, biology)

Extended Search

Tool	Source	Best For
`search_google_scholar`	paper-search MCP	Broad academic search (scraped)
`search_semantic_scholar`	paper-search MCP	Citation graph, field-of-study filters
`search_biorxiv`	paper-search MCP	Biology preprints
`search_medrxiv`	paper-search MCP	Medical preprints
`search_webofscience`	paper-search MCP	Curated index, citation reports
`search_scopus`	paper-search MCP	Broad scholarly database

PubMed Utilities

Tool	Purpose
`pubmed_fetch_articles`	Full metadata by PMID
`pubmed_find_related`	Related article discovery
`pubmed_format_citations`	APA / MLA / BibTeX / RIS formatting
`pubmed_convert_ids`	DOI ↔ PMID ↔ PMCID conversion
`pubmed_lookup_mesh`	MeSH term exploration and hierarchy
`pubmed_lookup_citation`	Bibliographic citation → PMID lookup

Source Routing

See Source Tiers & Reliability for the complete reliability classification and fallback routing rules. The T1→T2→T3 fallback chain is the standard execution order across all workflows.

Quick guide:

User need	Primary (T1)	Secondary (T2)	Last Resort (T3)
Medical / clinical	PubMed	Semantic Scholar	Google Scholar
Cross-disciplinary	CrossRef	Semantic Scholar	Scopus
Preprints / CS / physics	arXiv	bioRxiv / medRxiv	—
Exhaustive review	PubMed + CrossRef + arXiv	Semantic Scholar + bioRxiv/medRxiv	WoS / Scopus
Citation count sensitive	Semantic Scholar	CrossRef	—
Chinese literature	—	—	CNKI / 万方 (manual)

Workflows

#	Workflow	Reference
1	Multi-Source Literature Search	wf1
2	Citation Verification	wf2
3	MeSH Search Strategy	wf3
4	Citation File Management	wf4
5	Reference Management	wf5

Shared Modules

Module	Purpose
Dedup Engine	Unified deduplication (WFs 1, 2, 5a)
Citation Parser	Extract citations from documents (WF 2)
Search Strategy	Query construction, source selection, ranking
RIS/BibTeX Format	Format specifications and field mappings
Format Converter	Multi-source .nbib/.ris/.bib downloader

Environment Setup

API Keys (optional but recommended)

Service	Env Var	Register At	Free Tier
Semantic Scholar	`SEMANTIC_SCHOLAR_API_KEY`	api.semanticscholar.org	100 req/s with key (1/s without)
NCBI E-utilities	`NCBI_API_KEY`	ncbi.nlm.nih.gov/account	10 req/s with key (3/s without)

Set via

export

or

.env

file.

Proxy (if behind firewall)

bash

export http_proxy=http://127.0.0.1:7890
export https_proxy=http://127.0.0.1:7890

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