Datasets
The public demonstration datasets 10x Genomics publishes for its platforms: single-cell gene expression, immune profiling, ATAC and multiome (Chromium), and…
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 complete SARS-CoV-2 reference genome and its gene annotation, in two files small enough to open in a browser.
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.
Images and other data from the JUMP Cell Painting Consortium
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
cz-benchmarks is a package for standardized evaluation and comparison of machine learning models for biological applications.
Formalizing and benchmarking open problems in single-cell genomics
CZ CELLxGENE Discover Census
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 artifact mirrored from the HuggingFace Hub.
Dataset artifact mirrored from the HuggingFace Hub.
Dataset artifact mirrored from the HuggingFace Hub.
[!IMPORTANT] The pdb-rnasecondarystructure dataset is in beta test.
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 for antibiotic resistance prediction from whole-bacterial genomes (protein
Dataset artifact mirrored from the HuggingFace Hub.
To accompany OpenPhenom, Recursion is releasing the RxRx3-core dataset, a challenge dataset in phenomics optimized for the research community.
ESOL (Estimated SOLubility) dataset [[1]](1), part of MoleculeNet [[2]](2) benchmark.
Load and return the ClinTox dataset, part of MoleculeNet [[1]](1) benchmark.
Tox21 dataset [[1]](1), part of MoleculeNet [[2]](2) benchmark.
HIV dataset [[1]](1), part of MoleculeNet [[2]](2) benchmark.
Tahoe-100M Tahoe-100M is a giga-scale single-cell perturbation atlas consisting of over 100 million transcriptomic profiles from 50 cancer cell lines exposed…
OpenGenome2 is a database of nearly 9 trillion base pairs of curated DNA from across all domains of life.
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.