Related papers: PubMed-OCR: PMC Open Access OCR Annotations
Vision-language models hold considerable promise for ophthalmology, but their development depends on large-scale, high-quality image-text datasets that remain scarce. We present PubMed-Ophtha, a hierarchical dataset of 102,023…
The development of vision-language models (VLMs) is driven by large-scale and diverse multimodal datasets. However, progress toward generalist biomedical VLMs is limited by the lack of annotated, publicly accessible datasets across biology…
This paper proposes OCR++, an open-source framework designed for a variety of information extraction tasks from scholarly articles including metadata (title, author names, affiliation and e-mail), structure (section headings and body text,…
We present OCR-Quality, a comprehensive human-annotated dataset designed for evaluating and developing OCR quality assessment methods. The dataset consists of 1,000 PDF pages converted to PNG images at 300 DPI, sampled from diverse…
As an important biomedical database, PubMed provides users with free access to abstracts of its documents. However, citations between these documents need to be collected from external data sources. Although previous studies have…
We introduce Biomed-Enriched, a biomedical text dataset constructed from PubMed via a two-stage annotation process. In the first stage, a large language model annotates 400K paragraphs from PubMed scientific articles, assigning scores for…
Causal relation extraction (CRE) is central to biomedical text mining, but current resources often conflate causal relations with broader associations, restrict annotation to sentence-level examples, or focus mainly on explicit causal cues.…
Optical Character Recognition (OCR) is an established task with the objective of identifying the text present in an image. While many off-the-shelf OCR models exist, they are often trained for either scientific (e.g., formulae) or generic…
We present the construction of an annotated corpus of PubMed abstracts reporting about positive, negative or neutral effects of treatments or substances. Our ultimate goal is to annotate one sentence (rationale) for each abstract and to use…
Automatically extracting organization names from the affiliation sentences of articles related to biomedicine is of great interest to the pharmaceutical marketing industry, health care funding agencies and public health officials. It will…
We present ACL OCL, a scholarly corpus derived from the ACL Anthology to assist Open scientific research in the Computational Linguistics domain. Integrating and enhancing the previous versions of the ACL Anthology, the ACL OCL contributes…
We introduce S2ORC, a large corpus of 81.1M English-language academic papers spanning many academic disciplines. The corpus consists of rich metadata, paper abstracts, resolved bibliographic references, as well as structured full text for…
Digitization of newspapers is of interest for many reasons including preservation of history, accessibility and search ability, etc. While digitization of documents such as scientific articles and magazines is prevalent in literature, one…
Manually curated biomedical repositories -- spanning bioactivity, genomics, and chemistry -- are expensive to maintain, lag behind primary literature, and discard experimental context, obscuring nuances needed to assess data correctness and…
Academic documents are packed with texts, equations, tables, and figures, requiring comprehensive understanding for accurate Optical Character Recognition (OCR). While end-to-end OCR methods offer improved accuracy over layout-based…
The Optical Character Recognition (OCR) systems have been widely used in various of application scenarios, such as office automation (OA) systems, factory automations, online educations, map productions etc. However, OCR is still a…
Scientific knowledge is predominantly stored in books and scientific journals, often in the form of PDFs. However, the PDF format leads to a loss of semantic information, particularly for mathematical expressions. We propose Nougat (Neural…
Clinical narratives encode temporal dynamics essential for modeling patient trajectories, yet large-scale temporally annotated resources are scarce. We introduce PMOA-TTS, a corpus of 124,699 single-patient PubMed Open Access case reports…
OpenCitations Meta is a new database for open bibliographic metadata of scholarly publications involved in the citations indexed by the OpenCitations infrastructure, adhering to Open Science principles and published under a CC0 license to…
We present Multimodal OCR (MOCR), a document parsing paradigm that jointly parses text and graphics into unified textual representations. Unlike conventional OCR systems that focus on text recognition and leave graphical regions as cropped…