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Fabio Barth

dblp:323/5290 · DBLP profile ↗
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6ranked-venue papers
0as first author
6since 2021 · last 2026
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Artificial intelligence and machine learning · 5 · 5 since 2021Graphics, computer vision, multimedia, augmented reality and games · 1 · 1 since 2021Applied, interdisciplinary, general and emerging computing · 1 · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
2 papers
Bioinformatics and computational biology · 39% Computational science and engineering · 35% Medical and health informatics · 26%

Topics — the 5 heaviest of 6, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology
biomedical text mining
0.712023
PEDL+: protein-centered relation extraction from PubMed at your fingertip · Bioinform. 2023
Medical and health informatics
biomedical natural language processing
0.612022
BigBio: A Framework for Data-Centric Biomedical Natural Language Processing · NeurIPS 2022
Computational science and engineering
multi-task learning
0.612022
BigBio: A Framework for Data-Centric Biomedical Natural Language Processing · NeurIPS 2022
Computational science and engineering › scientific data management
database curation
0.212023
PEDL+: protein-centered relation extraction from PubMed at your fingertip · Bioinform. 2023
Bioinformatics and computational biology › systems bioinformatics › pathway analysis
pathway reconstruction
0.212023
PEDL+: protein-centered relation extraction from PubMed at your fingertip · Bioinform. 2023

Methods — techniques the papers use, named apart from their topics

ranking · 0.7natural language processing · 0.7filtering · 0.7language prompting · 0.6instruction tuning · 0.6
YearPublicationVenuePosition
2026 SciLaD: A Large-Scale, Transparent, Reproducible Dataset for Natural Scientific Language Processing
Luca Foppiano, Sotaro Takeshita, Pedro Ortiz Suarez, Ekaterina Borisova 0002, Raia Abu Ahmad, Malte Ostendorff, Fabio Barth, Julián Moreno Schneider, Georg Rehm
LREC7
2026 PolyglotQL: A Pipeline for Multilingual Text-to-SPARQL Dataset Generation
Julio Perez, Fabio Barth, Georg Rehm
LREC2
2025 Teuken-7B-Base & Teuken-7B-Instruct: Towards European LLMs
abstract
We present two multilingual LLMs, Teuken 7B-base and Teuken 7B-instruct, designed to embrace Europe’s linguistic diversity by supporting all 24 official languages of the European Union. Trained on a dataset comprising around 60% non-English data and utilizing a custom multilingual tokenizer, our models address the limitations of existing Large Language Models (LLMs) that predominantly focus on English or a few high-resource languages. We detail the models’ development principles, i.e., data composition, tokenizer optimization, and training methodologies. The models demonstrate strong performance across multilingual benchmarks, as evidenced by their performance on European versions of ARC, HellaSwag, and TruthfulQA.
Mehdi Ali, Michael Fromm 0001, Klaudia Thellmann, Jan Ebert, Alexander Arno Weber, Richard Rutmann, Charvi Jain, Max Lübbering, Daniel Steinigen, Johannes Leveling, Katrin Klug, Jasper Schulze Buschhoff, Lena Jurkschat, Hammam Abdelwahab, Benny Jörg Stein, Karl-Heinz Sylla, Pavel Denisov, Nicolo' Brandizzi, Qasid Saleem, Anirban Bhowmick, Lennard Helmer, Chelsea Maria John, Pedro Ortiz Suarez, Malte Ostendorff, Alex Jude, Lalith Manjunath, Samuel Weinbach, Carolin Penke, Oleg Filatov, Fabio Barth, Paramita Mirza, Lucas Weber, Ines Wendler, Rafet Sifa, Fabian Küch, Andreas Herten, René Jäkel, Georg Rehm, Stefan Kesselheim, Joachim Köhler, Nicolas Flores-Herr
ECAI30
2025 Familarity: Better Evaluation of Zero-Shot Named Entity Recognition by Quantifying Label Shifts in Synthetic Training Data
abstract
Jonas Golde, Patrick Haller, Max Ploner, Fabio Barth, Nicolaas Jedema, Alan Akbik. Proceedings of the 2025 Conference of the Nations of the Americas Chapter of the Association for Computational Linguistics: Human Language Technologies (Volume 1: Long Papers). 2025.
Jonas Golde, Patrick Haller 0002, Max Ploner, Fabio Barth, Nicolaas Paul Jedema, Alan Akbik
NAACL (Long Papers)4
2023 PEDL+: protein-centered relation extraction from PubMed at your fingertip
abstract
SUMMARY: Relation extraction (RE) from large text collections is an important tool for database curation, pathway reconstruction, or functional omics data analysis. In practice, RE often is part of a complex data analysis pipeline requiring specific adaptations like restricting the types of relations or the set of proteins to be considered. However, current systems are either non-programmable web sites or research code with fixed functionality. We present PEDL+, a user-friendly tool for extracting protein-protein and protein-chemical associations from PubMed articles. PEDL+ combines state-of-the-art NLP technology with adaptable ranking and filtering options and can easily be integrated into analysis pipelines. We evaluated PEDL+ in two pathway curation projects and found that 59% to 80% of its extractions were helpful. AVAILABILITY AND IMPLEMENTATION: PEDL+ is freely available at https://github.com/leonweber/pedl.
Leon Weber-Genzel, Fabio Barth, Leonie J. Lorenz, Fabian Konrath, Kirsten Huska, Jana Wolf, Ulf Leser
Bioinform.2
2022 BigBio: A Framework for Data-Centric Biomedical Natural Language Processing
abstract
Training and evaluating language models increasingly requires the construction of meta-datasets -- diverse collections of curated data with clear provenance. Natural language prompting has recently lead to improved zero-shot generalization by transforming existing, supervised datasets into a variety of novel instruction tuning tasks, highlighting the benefits of meta-dataset curation. While successful in general-domain text, translating these data-centric approaches to biomedical language modeling remains challenging, as labeled biomedical datasets are significantly underrepresented in popular data hubs. To address this challenge, we introduce BigBio a community library of 126+ biomedical NLP datasets, currently covering 13 task categories and 10+ languages. BigBio facilitates reproducible meta-dataset curation via programmatic access to datasets and their metadata, and is compatible with current platforms for prompt engineering and end-to-end few/zero shot language model evaluation. We discuss our process for task schema harmonization, data auditing, contribution guidelines, and outline two illustrative use cases: zero-shot evaluation of biomedical prompts and large-scale, multi-task learning. BigBio is an ongoing community effort and is available at https://github.com/bigscience-workshop/biomedical
Jason Alan Fries, Leon Weber-Genzel, Natasha Seelam, Gabriel Altay, Debajyoti Datta, Samuele Garda, Sunny Kang, Rosaline Su, Wojciech Kusa, Samuel Cahyawijaya, Fabio Barth, Simon Ott, Matthias Samwald, Stephen H. Bach, Stella Biderman, Mario Sänger, Bo Wang 0044, Alison Callahan, Daniel León Periñán, Théo Gigant, Patrick Haller 0002, Jenny Chim, José D. Posada, John M. Giorgi, Karthik Rangasai Sivaraman, Marc Pàmies, Marianna Nezhurina, Robert Martin, Michael Cullan, Moritz Freidank, Nathan Dahlberg, Shubhanshu Mishra, Shamik Bose, Nicholas Broad, Yanis Labrak, Shlok Deshmukh, Sid Kiblawi, Ayush Singh, Minh Chien Vu, Trishala Neeraj, Jonas Golde, Albert Villanova del Moral, Benjamin Beilharz
NeurIPS11