Related papers: EMICSS: Added-value annotations for EMDB entries

Labeling a large number of electronic health records is expensive and time consuming, and having a labeling assistant tool can significantly reduce medical experts' workload. Nevertheless, to gain the experts' trust, the tool must be able…

Electrocardiogram (ECG) plays a foundational role in modern cardiovascular care, enabling non-invasive diagnosis of arrhythmias, myocardial ischemia, and conduction disorders. While machine learning has achieved expert-level performance in…

Error Span Detection (ESD) is a crucial subtask in Machine Translation (MT) evaluation, aiming to identify the location and severity of translation errors. While fine-tuning models on human-annotated data improves ESD performance, acquiring…

Background: Conventional electrocardiogram (ECG) analysis faces a persistent dichotomy: expert-driven features ensure interpretability but lack sensitivity to latent patterns, while deep learning offers high accuracy but functions as a…

\texttt{ml\_edm} is a Python 3 library, designed for early decision making of any learning tasks involving temporal/sequential data. The package is also modular, providing researchers an easy way to implement their own triggering strategy…

Huge DBMSs storing genomic information are being created and engineerized for doing large-scale, comprehensive and in-depth analysis of human beings and their diseases. However, recent regulations like the GDPR require that sensitive data…

The growing volume of omics and clinical data generated for neurodegenerative diseases (NDs) requires new approaches for their curation so they can be ready-to-use in bioinformatics. NeuroEmbed is an approach for the engineering of…

We introduce a dataset for evidence/rationale extraction on an extreme multi-label classification task over long medical documents. One such task is Computer-Assisted Coding (CAC) which has improved significantly in recent years, thanks to…

In this paper, we introduce ReasonEmbed, a novel text embedding model developed for reasoning-intensive document retrieval. Our work includes three key technical contributions. First, we propose ReMixer, a new data synthesis method that…

Large language models (LLMs) call for extension of context to handle many critical applications. However, the existing approaches are prone to expensive costs and inferior quality of context extension. In this work, we propose Extensible…

Electronic theses and dissertations (ETDs) have been proposed, advocated, and generated for more than 25 years. Although ETDs are hosted by commercial or institutional digital library repositories, they are still an understudied type of…

Driven by the need for larger and more diverse datasets to pre-train and fine-tune increasingly complex machine learning models, the number of datasets is rapidly growing. audb is an open-source Python library that supports versioning and…

Dataset search is a well-established task in the Semantic Web and information retrieval research. Current approaches retrieve datasets either based on keyword queries or by identifying datasets similar to a given target dataset. These…

The metadata about scientific experiments published in online repositories have been shown to suffer from a high degree of representational heterogeneity---there are often many ways to represent the same type of information, such as a…

Computationally predicting protein-protein interactions (PPIs) is challenging due to the lack of integrated, multimodal protein representations. DPEB is a curated collection of 22,043 human proteins that integrates four embedding types:…

Large language models (LLMs) call for extension of context to handle many critical applications. However, the existing approaches are prone to expensive costs and inferior quality of context extension. In this work, we proposeExtensible…

Energy-based models (EBMs) exhibit a variety of desirable properties in predictive tasks, such as generality, simplicity and compositionality. However, training EBMs on high-dimensional datasets remains unstable and expensive. In this…

Electrospray ion-beam deposition (ES-IBD) is a versatile tool to study structure and reactivity of molecules from small metal clusters to large protein assemblies. It brings molecules gently into the gas phase where they can be accurately…

Reproducibility remains a significant challenge in machine learning (ML) for healthcare. Datasets, model pipelines, and even task or cohort definitions are often private in this field, leading to a significant barrier in sharing, iterating,…

In materials science and particularly electron microscopy, Electron Back-scatter Diffraction (EBSD) is a common and powerful mapping technique for collecting local crystallographic data at the sub-micron scale. The quality of the…