Datasets
Synapse is a collaborative, open-source research platform that allows teams to share data, track analyses, and collaborate.
The training corpus of Fully Open Meditron (EPFL, LiGHT laboratory): about 601k examples ( 150M tokens) for supervised fine-tuning of clinical LLMs.
The BioStudies database holds descriptions of biological studies, links to data from these studies in other databases at EMBL-EBI or outside, as well as data…
Image Data Resource (IDR) is an online, public data repository that seeks to store, integrate and serve image datasets from published scientific studies.
BindingDB is the first public database of protein-small molecule affinity data.
PubChem provides information on the biological activities of small molecules.
ChEMBL is a database of bioactive compounds, their quantitative properties and bioactivities (binding constants, pharmacology and ADMET, etc).
RNAcentral is a public resource that offers integrated access to a comprehensive and up-to-date set of non-coding RNA sequences provided by a collaborating…
The Rfam database is a collection of RNA families, each represented by multiple sequence alignments, consensus secondary structures and covariance models (CMs).
The database of Genotypes and Phenotypes (dbGaP) archives and distributes the results of studies that have investigated the interaction of genotype and…
The Genotype-Tissue Expression (GTEx) project aims to provide to the scientific community a resource with which to study human gene expression and regulation…
The ENCODE Consortium is integrating multiple technologies and approaches in a collective effort to discover and define the functional elements encoded in the…
The UniProt Knowledgebase (UniProtKB) is a comprehensive resource for protein sequence and functional information with extensive cross-references to more than…
The Protein Data Bank is the single worldwide archive of structural data of biological macromolecules.
Benchmark datasets, data loaders, and evaluators for graph machine learning
Foster the development of impactful AI models in drug discovery.
Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science
Benchmarking DNA Language Models on Biologically Meaningful Tasks
Plausibility checks for generated molecule poses.
PEER Benchmark, appear at NeurIPS 2022 Dataset and Benchmark Track (https://arxiv.org/abs/2206.02096)
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein…
A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design
Official repository for the ProteinGym benchmarks
Dataset Card for
Dataset artifact mirrored from the HuggingFace Hub.
Dataset Overview This dataset features the 8 evaluation tasks presented in the AgroNT (A Foundational Large Language Model for Edible Plant Genomes) paper.
Dataset artifact mirrored from the HuggingFace Hub.
Dataset artifact mirrored from the HuggingFace Hub.
Repository: Nucleotide Transformer - Paper: The Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human
Dataset Card for Dataset Name The nucleotidetransformerdownstreamtasks dataset features the 18 downstream tasks presented in the Nucleotide Transformer paper.
Complete UniRef90 dataset from UniProt, converted from XML to sharded Parquet.
Dataset artifact mirrored from the HuggingFace Hub.
ProteinGym is a benchmark suite for evaluating protein fitness prediction and design models.
Description Gold standard annotations for profession detection in Spanish COVID-19 tweets The entire corpus contains 10,000 annotated tweets.
Dataset artifact mirrored from the HuggingFace Hub.
Dataset artifact mirrored from the HuggingFace Hub.
Table of Contents - Table of Contents - Dataset Description - Dataset Summary - Supported Tasks and Leaderboards - Languages - Dataset Structure - Data…
1 Source Source:
MACCROBAT-biomedical-ner This data is the same data from here, the only difference is that it has been converted into the Huggingface dataset format.
Dataset artifact mirrored from the HuggingFace Hub.
Dataset artifact mirrored from the HuggingFace Hub.
Dataset artifact mirrored from the HuggingFace Hub.
Homepage: https://github.com/pubmedqa/pubmedqa - Pubmed: True - Public: True - Tasks:
Homepage: http://www.biocreative.org/tasks/biocreative-v/track-3-cdr/ - Pubmed: True - Public: True - Tasks:
Original dataset introduced by Jin et al.
Table of Contents - Dataset Description - Dataset Summary - Supported Tasks - Languages - Dataset Structure - Data Instances - Data Fields - Data Splits -…
Table of Contents - Dataset Description - Dataset Summary - Supported Tasks and Leaderboards - Languages - Dataset Structure - Data Instances - Data Fields -…