Biomedical Information Retrieval

Benchmarks archive 2025-07-28

3 leaderboard tables shown for this task, 3 with rows (a “benchmark” on this site is a table with at least one row, as on /sota), ordered by row count. “Best model” is the first row in the archive's own order at snapshot; nothing is re-ranked here and metric direction is not recorded in the archive. PwC's Trend sparklines are not in the archive, so that column is omitted.

Syntology column: samples harvested from the paper's repositories and executed on synthesized fixtures; “ran” is not a correctness claim and does not order the table. A dash means no Syntology record for that paper, not a recorded non-run. Read from the graph 2026-09-24.

Libraries

Not in the archive: the export carries no per-task library table, so there is nothing to show at snapshot 2025-07-28.

Datasets archive 2025-07-28

4 datasets whose archive record lists this task, ordered by the archive's paper count.

Subtasks archive 2025-07-28

2 subtasks in the archive's task tree.

Most implemented papers archive 2025-07-28

7 shown of 7 papers with code (15 tagged with this task in all), ordered by repositories listed in the archive, not by stars (the archive holds no stars, so PwC's “Social” and “Latest” sorts cannot be reproduced). Papers without a page here are shown as plain text.

• BEIR: A Heterogenous Benchmark for Zero-shot Evaluation of Information Retrieval Models
  17 Apr 2021 3 repositories listed Syntology ran 3 of 4 samples · 1 unverified
  To address this, and to facilitate researchers to broadly evaluate the effectiveness of their models, we introduce Benchmarking-IR (BEIR), a robust and heterogeneous evaluation benchmark for information retrieval.
• MedCPT: Contrastive Pre-trained Transformers with Large-scale PubMed Search Logs for Zero-shot Biomedical Information Retrieval
  2 Jul 2023 2 repositories listed
  In response, we introduce MedCPT, a first-of-its-kind Contrastively Pre-trained Transformer model for zero-shot semantic IR in biomedicine.
• No Parameter Left Behind: How Distillation and Model Size Affect Zero-Shot Retrieval
  6 Jun 2022 1 repository listed
  This has made distilled and dense models, due to latency constraints, the go-to choice for deployment in real-world retrieval applications.
• SGPT: GPT Sentence Embeddings for Semantic Search
  17 Feb 2022 1 repository listed Syntology ran 1 of 1 samples · 0 unverified
  To this end, we propose SGPT to use decoders for sentence embeddings and semantic search via prompting or fine-tuning.
• Querying Across Genres for Medical Claims in News
  1 Nov 2020 1 repository listed
  We present a query-based biomedical information retrieval task across two vastly different genres {--} newswire and research literature {--} where the goal is to find the research publication that supports the primary…
• Resolving the Scope of Speculation and Negation using Transformer-Based Architectures
  9 Jan 2020 1 repository listed
  Speculation is a naturally occurring phenomena in textual data, forming an integral component of many systems, especially in the biomedical information retrieval domain.
• edge2vec: Representation learning using edge semantics for biomedical knowledge discovery
  7 Sep 2018 1 repository listed
  We propose this method for its added value relative to existing graph analytical methodology, and in the real world context of biomedical knowledge discovery applicability.

Syntology lines on 2 of the papers shown; no Syntology record for the others (a paper without an arXiv id cannot be joined to the graph, and absence from the graph layer is not a recorded non-run). “Ran” means the sample executed on a synthesized fixture, not that the paper's result was reproduced. Read from the graph 2026-09-24.