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PubMed agent skills for Claude Code, Codex and other agents.
- skills
- 130
- Type
- Other
- Website
- pubmed.ncbi.nlm.nih.gov
PubMed skills, ranked
Ranked by score. Sort bymost stars,trending,newest,recently updated
| # | Skill | Repository | Stars | Used in | Tokens | Auto-check | Licence | Updated |
|---|---|---|---|---|---|---|---|---|
| 1 | Screens records for systematic, scoping and rapid reviews against fixed eligibility rules, using two blinded AI reviewers and a third adjudicator, with traceable PRISMA counts. | Imbad0202/ | 51k | — | ~8.4k | Automated safety check: Pass | Unknown | 4 days ago |
| 2 | Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.). | neflibata-feng/ | 126 | 21 repos | ~5.9k | Automated safety check: Notes | MIT | 3 days ago |
| 3 | Finds papers in OpenAlex, PubMed and Google Scholar, turns DOIs, PMIDs and arXiv IDs into clean BibTeX, and validates citations for a manuscript or thesis. | K-Dense-AI/ | 2.4k | 2 repos | ~3.9k | Automated safety check: Notes | MIT | 7 days ago |
| 4 | Comprehensive citation management for academic research. An agent skill from neflibata-feng/MyArxiv-Agent. | neflibata-feng/ | 126 | 20 repos | ~8.1k | Automated safety check: Notes | MIT | 3 days ago |
| 5 | Search, download, and read academic papers from 20+ sources (arXiv, PubMed, Semantic Scholar, CrossRef, etc). | openags/ | 2.8k | — | ~1.2k | Automated safety check: Notes | MIT | 5 days ago |
| 6 | Deterministic deep research via RivalSearchMCP. An agent skill from damionrashford/RivalSearchMCP. | damionrashford/ | 132 | 1 repo | ~796 | Automated safety check: Pass | MIT | today |
| 7 | A skill your agent uses when users ask to 找文献、做文献检索、查论文、查临床试验、核验引用、去重文献、设计 PubMed/MeSH 检索式、追踪上下游引文、解析 DOI/PMID/PMCID/arXiv/OpenAlex/Semantic Scholar/NCT ID, 或导出 RIS、BibTeX、NBIB、ENW;also use for… | wp-a/ | 297 | — | ~1.4k | Automated safety check: Pass | MIT | 6 days ago |
| 8 | Routes literature searches through the PaperSeek launcher, picks suitable scholarly sources, parses JSON output and keeps API keys out of the chat. | MingfengHong/ | 200 | — | ~1.6k | Automated safety check: Pass | Apache-2.0 | 2 days ago |
| 9 | Recommends journals for a manuscript by filtering a bundled impact-factor catalog, verifying scope and quality online, and writing a ranked Markdown report. | huangwb8/ | 2.9k | — | ~1.7k | Automated safety check: Pass | MIT | 3 days ago |
| 10 | 10.Paper Search Search, download, and read academic papers through the paper-search MCP tools (mcppaper-search), covering arXiv, PubMed, bioRxiv, Semantic Scholar, Crossref, OpenAlex and 15+ other sources. | openags/ | 2.8k | — | ~794 | Automated safety check: Notes | MIT | 5 days ago |
| 11 | Finds papers across literature sources, verifies and converts citations, builds MeSH strategies and audits independent citations of a paper. | Yuan1z0825/ | 46k | — | ~884 | Automated safety check: Pass | Apache-2.0 | today |
| 12 | Multi-source literature search, citation verification, MeSH search strategy, citation file management (.nbib/.ris/.bib conversion), and reference management (BibTeX, related articles, ID conversion)… | jing1312/ | 161 | — | ~1.3k | Automated safety check: Notes | MIT | 29 days ago |
| 13 | Query 14+ biomedical databases for drug repurposing, target discovery, clinical trials, and literature research. | FreedomIntelligence/ | 3.1k | 1 repo | ~2.4k | Automated safety check: Pass | No licence | 2 mo ago |
| 14 | 14.Paper Search 学术文献检索与论文获取调度器,基于 paper-search CLI,而不是 MCP server. An agent skill from dr-dumpling/paper-search-cli. | dr-dumpling/ | 135 | — | ~1.1k | Automated safety check: Pass | MIT | 3 mo ago |
| 15 | Search and retrieve clinical practice guidelines across 12+ authoritative sources including NICE, WHO, ADA, AHA/ACC, NCCN, SIGN, CPIC, CMA, CTFPHC, GIN, MAGICapp, PubMed, EuropePMC, TRIP, and… | wu-yc/ | 1.1k | 2 repos | ~4.9k | Automated safety check: Pass | No licence | 6 mo ago |
| 16 | 16.Paper Lookup Search 10 academic literature APIs for papers, preprints, citations, and open-access full text, and return results with reproducible provenance. | spacering-net/ | 3.8k | — | ~3.7k | Automated safety check: Notes | MIT | today |
| 17 | Publish proofread VDJdb chunks through dev, reconcile publication issues, preserve record identity, keep validation changes separate, and close completed imports while tracking unresolved… | antigenomics/ | 157 | — | ~1.5k | Automated safety check: Pass | Unknown | today |
| 18 | Exhaustively verify English and Chinese manuscript references before journal submission. | Liuxiangjian-ai/ | 138 | — | ~5.4k | Automated safety check: Pass | MIT | 4 mo ago |
| 19 | 中文文献检索、筛选、批量采集和合法全文获取助手。用于用户需要查找论文、下载可合法获取的 PDF/HTML/XML 全文、生成关键词和检索式、查询 DOI/PMID、筛选高影响因子或高分区期刊、检查开放获取、做引用链扩展、批量文献候选表、下载日志、去重清单、Zotero/BibTeX 整理,或解决文献难下载问题;禁止绕过付费墙、盗版下载、共享账号或规避版权限制。 | Lucaswangzcx/ | 234 | — | ~1.4k | Automated safety check: Pass | MIT | 5 mo ago |
| 20 | Runs systematic, scoping or narrative literature reviews across PubMed, arXiv, bioRxiv and Semantic Scholar, with citation checks and Markdown or PDF output. | K-Dense-AI/ | 48k | 1 repo | ~3.2k | Automated safety check: Notes | MIT | 2 days ago |
| 21 | 多源深度调研与专业报告生成。适用场景广泛——只要用户的问题涉及需要深度分析的专业话题,就应使用此技能。包括但不限于:(1) 用户明确要求调研/research/综述/报告/发现;(2) 用户提出一个技术或科学话题,话题复杂度需要多源深度分析;(3) 用户要求对比多种技术方案的优劣;(4) 涉及生物医药、蛋白质、基因、药物靶点等需要专业数据库支撑的问题。核心能力:根据问题性质自动组合 arXiv… | AgentTeam-TaichuAI/ | 670 | — | ~5.7k | Automated safety check: Pass | No licence | 5 mo ago |
| 22 | Searches PubMed directly through its E-utilities REST API, with guidance on Boolean and MeSH query syntax, batch retrieval and citation data. | davila7/ | 32k | 15 repos | ~3.9k | Automated safety check: Pass | MIT | today |
| 23 | 23.Paper Lookup Search 10 academic paper databases via REST APIs for research papers, preprints, and scholarly articles. | zLanqing/ | 4.6k | 3 repos | ~2.4k | Automated safety check: Notes | MIT | 4 mo ago |
| 24 | Local workflow that searches PubMed, Europe PMC, Crossref and OpenAlex for topic keywords, downloads accessible PDFs into a PDF-only folder and removes duplicates. | Jinze-Lee/ | 108 | — | ~952 | Automated safety check: Pass | MIT | 5 mo ago |
| 25 | A skill your agent uses when writing literature review sections - guides searching, organizing, and synthesizing academic sources | Norman-bury/ | 3.3k | — | ~2.2k | Automated safety check: Notes | MIT | 3 mo ago |
| 26 | 26.Biopython Primary Python toolkit for molecular biology. An agent skill from davila7/claude-code-templates. | davila7/ | 32k | 13 repos | ~3.4k | Automated safety check: Pass | MIT | today |
| 27 | Conduct literature searches for meta-analysis using Python with uv, query PubMed and other databases, deduplicate results, and store round-based bibliographies with notes. | htlin222/ | 134 | — | ~2.1k | Automated safety check: Notes | Unknown | 14 days ago |
| 28 | Search PubMed for scientific literature, including published clinical trials. | google-deepmind/ | 3.2k | 2 repos | ~2.1k | Automated safety check: Notes | Apache-2.0 | 22 days ago |
| 29 | 29.Tooluniverse Access 1000+ scientific tools through ToolUniverse for drug discovery, protein analysis, genomics, literature search, clinical data, ADMET prediction, molecular docking, and more. | AgentTeam-TaichuAI/ | 670 | — | ~1.2k | Automated safety check: Pass | No licence | 5 mo ago |
| 30 | Retrieve protein and nucleotide sequences from NCBI databases using E-utilities. | google-deepmind/ | 3.2k | 1 repo | ~2.3k | Automated safety check: Notes | Apache-2.0 | 22 days ago |
| 31 | Recommends target journals for manuscript submission by analyzing the paper topic/abstract and the journal distribution of similar PubMed literature; use when users ask for journal… | aipoch/ | 2k | — | ~1.7k | Automated safety check: Pass | MIT | 20 days ago |
| 32 | Turns DOIs, PMIDs and arXiv IDs into clean BibTeX, searches Google Scholar and PubMed, and checks and deduplicates a reference list. | foryourhealth111-pixel/ | 3.6k | — | ~7.6k | Automated safety check: Notes | MIT | 1 mo ago |
| 33 | Benchmark LLM reference recommendation capabilities by verifying every cited paper against Crossref, PubMed, arXiv, and DBLP. | agentscope-ai/ | 867 | 1 repo | ~2.4k | Automated safety check: Pass | Apache-2.0 | 26 days ago |
| 34 | Zero-cost fallback for the argo search skill, wrapping 29 local engines for web, news, academic, code and reference queries when paid API quota should be saved. | taxueseek/ | 184 | — | ~949 | Automated safety check: Pass | MIT | yesterday |
| 35 | 35.Sci Search Academic paper search and metrics analysis. An agent skill from ShZhao27208/Aut_Sci_Write. | ShZhao27208/ | 207 | — | ~1.7k | Automated safety check: Notes | MIT | 1 mo ago |
| 36 | Programmatic PubMed access via NCBI E-utilities REST API. An agent skill from jaechang-hits/SciAgent-Skills. | jaechang-hits/ | 370 | 1 repo | ~4.4k | Automated safety check: Pass | CC-BY-4.0 | 8 days ago |
| 37 | Lays out a systematic literature review method: PICO-based search strategy, inclusion criteria, PRISMA screening, quality assessment tools and synthesis approaches. | aiming-lab/ | 15k | — | ~709 | Automated safety check: Pass | MIT | 1 mo ago |
| 38 | Direct PubMed and NCBI E-utilities search workflows for biomedical literature, MeSH queries, PMID lookup, citation retrieval, and API-backed literature monitoring. | affaan-m/ | 274k | 1 repo | ~1.2k | Automated safety check: Pass | MIT | 2 days ago |
| 39 | Semantic Similarity Index for disease research literature using PubMedBERT embeddings | ClawBio/ | 1.2k | 3 repos | ~1.4k | Automated safety check: Pass | MIT | yesterday |
| 40 | Produce an intensive, cited analytical report: executive summary, multi-angle findings, contrarian views, open questions, and full sources. | firecrawl/ | 115 | — | ~1.4k | Automated safety check: Pass | ISC | yesterday |
| 41 | Searches and fetches PubMed and PMC via NCBI E-utilities (ESearch then EFetch/ESummary) to gather biomedical evidence and build text corpora. | maziyarpanahi/ | 5.5k | — | ~1.7k | Automated safety check: Pass | Apache-2.0 | yesterday |
| 42 | 42.Sci Download 学术论文 PDF 下载。支持 8 个数据源:Elsevier、Springer Nature、IEEE Xplore、 arXiv、Unpaywall、Semantic Scholar、PubMed Central、知网(CNKI)。 | ShZhao27208/ | 207 | — | ~1k | Automated safety check: Notes | MIT | 1 mo ago |
| 43 | Multi-database literature search and search-strategy design that outputs structured, reproducible result lists; use when you need reference retrieval, systematic searching, review topic selection… | aipoch/ | 2k | — | ~2k | Automated safety check: Pass | MIT | 20 days ago |
| 44 | 44.Biopython Provides Biopython workflows for sequence manipulation, file parsing (FASTA/GenBank/PDB), phylogenetics, and programmatic NCBI/PubMed access (Bio.Entrez). | K-Dense-AI/ | 48k | 1 repo | ~4.3k | Automated safety check: Notes | MIT | 2 days ago |
| 45 | analyze a professor from google scholar, publication lists, personal websites, lab pages, and field-specific bibliographic databases (e.g., DBLP, PubMed, SSRN, PhilPapers, MathSciNet, arXiv, Scopus)… | voidful/ | 132 | — | ~13k | Automated safety check: Pass | MIT | 6 mo ago |
| 46 | 46.Biopython Computational molecular biology library (sequence I/O, alignment, phylogenetics). | lamm-mit/ | 244 | — | ~3.9k | Automated safety check: Pass | Apache-2.0 | 1 mo ago |
| 47 | Multi-source literature search, citation verification, strict independent other-citation audits, article-level citation metric tables, influential citer profiling with citation-context extraction… | Tai609/ | 100 | — | ~1.2k | Automated safety check: Pass | Unknown | 1 mo ago |
| 48 | 48.Bgpt MCP Search scientific papers via the BGPT MCP server and retrieve structured experimental data — methods, results, conclusions, quality scores, and 25+ metadata fields per paper. | ClawBio/ | 1.2k | 1 repo | ~3.2k | Automated safety check: Pass | MIT | yesterday |
Questions, answered from the data.
What is the best PubMed skill?
Systematic Review Screener from Imbad0202/academic-research-skills ranks first of the 130 PubMed skills listed here, with the highest score: its repository has 51k GitHub stars, its SKILL.md loads about 8.4k tokens and it passes the automated safety check with no findings. Next come Literature Review and Citation Management.
Is there an official PubMed skill?
None yet. All 130 PubMed skills listed here come from community repositories; a skill counts as official when the product's own GitHub organization publishes it.
How are these skills ranked?
By Skill Navigator score, which combines the GitHub stars of the skill's repository (shared across that repo's skills and discounted for large collections), how many other GitHub owners carry a copy of the skill, and automated SKILL.md quality checks, minus penalties for safety-check warnings and for each further skill from the same repository. Skills that fail the safety check are not listed.