ArticleNature communications2023
DECIMER.ai: an open platform for automated optical chemical structure identification, segmentation and recognition in scientific publications.
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 31 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
31 citing papers in PubMed.
- Data-Driven Materials Science for Energy-Sustainable Applications.Advanced materials (Deerfield Beach, Fla.) · 2026Review
- Fine-Tuning DeepSeek-OCR‑2 for Molecular Structure Recognition.ACS omega · 2026Article
- A Benchmark Evaluation of Chemical Structure Extraction from Patents: Insights and Challenges in Chemical Structure Recognition.Chemical research in toxicology · 2026Article
- TeLLAgent: a dual-agent framework for reliable scientific discovery with tool-enhanced LLMs.Chemical science · 2026Article
- Practical Use of Advanced AI Frameworks on Real-Life Scientific Problems: Three Case Studies.bioRxiv : the preprint server for biology · 2026Article
- Librarian of Alexandria: A Modular Chemical Data Extraction Pipeline to Compare LLM Performance.Journal of chemical information and modeling · 2026Article
- Efficient Binding Affinity Estimation for Fragment-Based Compounds Using a Separated Topologies Approach.Journal of chemical information and modeling · 2026Article
- Verification and execution of the scientific literature via chemputation augmented by large language models.Communications chemistry · 2026Article
- AI-assisted interpretation of Markush structures in pharmaceutical patents: a review of emerging tools, datasets, and challenges.Journal of cheminformatics · 2026Review
- RGReco: a unified framework for automated R-group recognition in chemical publications.Journal of cheminformatics · 2026Article
- DyeDactic workflow to predict halochromism of biosynthetic colourants.Communications chemistry · 2026Article
- The IUPHAR/BPS Guide to PHARMACOLOGY in 2026.Nucleic acids research · 2026Article
- Machine-Readable Structural Information Is Essential for Natural Products Research.Journal of natural products · 2025Review
- Metabolite Identification Data in Drug Discovery, Part 1: Data Generation and Trend Analysis.Molecular pharmaceutics · 2025Article
- Natural Products Repository of Costa Rica (NAPRORE-CR): An Open-Access Database.Journal of chemical information and modeling · 2025Article
- Subgrapher: visual fingerprinting of chemical structures.Journal of cheminformatics · 2025Article
- Cheminformatics Microservice V3: a web portal for chemical structure manipulation and analysis.Journal of cheminformatics · 2025Article
- Finding the dark matter: Large language model-based enzyme kinetic data extractor and its validation.Protein science : a publication of the Protein Society · 2025Article
- ChronobioticsDB: The Database of Drugs and Compounds Modulating Circadian Rhythms.Clocks & sleep · 2025Article
- What I Learned from Analyzing Accurate Mass Data of 3000 Supporting Information Files.Organic letters · 2025Article
Corrections and comments
- Erratum issued
Authors and funding
5 authors.
Funding
Abstract
The number of publications describing chemical structures has increased steadily over the last decades. However, the majority of published chemical information is currently not available in machine-readable form in public databases. It remains a challenge to automate the process of information extraction in a way that requires less manual intervention - especially the mining of chemical structure depictions. As an open-source platform that leverages recent advancements in deep learning, computer vision, and natural language processing, DECIMER.ai (Deep lEarning for Chemical IMagE Recognition) strives to automatically segment, classify, and translate chemical structure depictions from the printed literature. The segmentation and classification tools are the only openly available packages of their kind, and the optical chemical structure recognition (OCSR) core application yields outstanding performance on all benchmark datasets. The source code, the trained models and the datasets developed in this work have been published under permissive licences. An instance of the DECIMER web application is available at https://decimer.ai .
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.