alterlab-pubmed

Programmatic PubMed searching uses NCBI E-utilities like ESearch with MeSH terms and field tags such as [mh] and [tiab]. This approach enables precise literature queries for systematic reviews, allowing you to filter by date ranges and publication types.

Yes, batch retrieval of PubMed abstracts is supported via the EFetch utility. You can export fetched abstracts and citation data in XML or JSON format, facilitating downstream analysis and automated literature screening workflows.

The suite supports ESearch, EFetch, ESummary, EPost, and ELINK endpoints. These NCBI E-utilities allow you to search PubMed, fetch full records, summarize results, and retrieve related data links for continuous evidence monitoring.

An API key is optional for NCBI E-utilities but recommended for automated citation extraction. Using an API key increases your rate limit, and the system provides rate-limiting guidance to ensure compliant programmatic access to PubMed.

You can find related articles using the ELINK E-utility. ELINK retrieves related data links for specific PubMed records, enabling you to expand your literature search and identify connected publications for comprehensive systematic reviews.

The best way to export PubMed search results is by fetching data via EFetch in XML or JSON format. This structured data export supports systematic review workflows, automated citation gathering, and direct integration into downstream analysis pipelines.