datasets
Training and evaluation data, with the modality, task and licence stated up front. Listed live from the Hugging Face Hub.
wholebrain_crispr_atlas
PerturbAI Brain-Wide In Vivo CRISPR Atlas
This dataset represents a landmark in functional genomics: spanning 8 million single cells in living tissue and hundreds of distinct neuronal cell types, this is the most expansive in vivo functional genomics resource ever created. By mapping the language of biology at an unprecedented scale, our platform provides the foundation for the next generation of AI-driven therapeutic discovery.
Manuscript: “Genome-scale functional mapping of… See the full description on the dataset page: https://huggingface.co/datasets/perturbai/wholebrain_crispr_atlas.crispr-depmapbeacon-crispr-on-target
BEACON — CRISPROnTarget
CRISPR RNA on-target activity prediction data.
Official data from the shared BEACON/RNABenchmark Drive folder:
https://drive.google.com/drive/folders/19ddrwI8ycvIxkgSV3gDo_VunLofYd4-6?hl=en.
This repository is the standardized Hugging Face publication of the official
task data. The data/ directory is the canonical viewer-friendly layer, and
the original files and directory layout are preserved for reproducibility.
beacon_manifest.json records source file… See the full description on the dataset page: https://huggingface.co/datasets/jiahaozhang2003/beacon-crispr-on-target.crisprme-data
CRISPRme reference data & precomputed indexes
A fast, reliable mirror of the reference resources CRISPRme needs, plus
precomputed indexes for the default references — so users can skip the slow
raw-data download, the multi-hour variant enrichment, and the index build
entirely.
Status: 🚧 work in progress — this repository is being populated. Layout and
filenames below are the target structure; not all assets are uploaded yet.
Why this exists
A genuine… See the full description on the dataset page: https://huggingface.co/datasets/lucapinello/crisprme-data.CRISPRviva-3B
Dataset Card for CRISPRviva-3B
Dataset Summary
CRISPRviva-3B is a large transcriptome sequence corpus consisting of over 3.7 billion sequences extracted from the specific transcriptome of 23 cell lines and over 200 segmented genomes of RNA virus.
Supported Tasks
Based on this nucleotide sequence corpus, we are able to establish a foundation model to characterize the manifold of CRISPR guide RNA targeting regions in order to undertake further downstreaming task… See the full description on the dataset page: https://huggingface.co/datasets/bm2-lab/CRISPRviva-3B.CRISPR_AI
Introduction
This dataset is used to train the model in CRISPR_AI. A file dataset.json.gz is generated by these [code]https://github.com/ljw20180420/CRISPR_AI/tree/main/AI/dataset. This dataset is further generated from dataset.json.gz.
crispr-bf-master
Dataset Card for Dataset Name
crispr-bf-master: BF_master_Xu_Feng_Tm_sup_screens_042320
Dataset Details
Dataset Description
This dataset contains the results of genome-wide CRISPR screens using isogenic knockout cells to uncover vulnerabilities in tumor suppressor-deficient cancer cells. The data was originally published by Feng et al., Sci. Adv. 8, eabm6638 (2022) and is available on Figshare.
Curated by: Feng et al., Sci. Adv. 8, eabm6638 (2022)
Funded by:… See the full description on the dataset page: https://huggingface.co/datasets/dwb2023/crispr-bf-master.atlas-crispr-10k-benchmark
🧬 ATLAS CRISPR 10k Benchmark
Contribution communauté LeWorldModel — Benchmark CRISPR 10k guides ARNUtilisé pour fine-tuner aguennoune17/negenWM-jepa-v2 — ATLAS NWM Sprint 3Self-supervised I-JEPA · Encodage téléologique (κ, τ, λ)
Description
10 000 guides ARN Cas9 de 20 nucléotides consolidés depuis 12 études expérimentales
de criblage CRISPR génomique à grande échelle. Ce dataset est le benchmark officiel du
Sprint 3 ATLAS NWM v2 — entraînement I-JEPA… See the full description on the dataset page: https://huggingface.co/datasets/aguennoune17/atlas-crispr-10k-benchmark.human-crispr-fitness-agreements
Human CRISPR Fitness Agreements
Traceable, group-aware evidence for recurrent gene fitness effects in human cell cultures
8,633 gene-symbol records supported by at least three audited authorship/supervision groups in retained human-cell CRISPR fitness screens. This is a versioned derivative of BioGRID ORCS 2.0.18 and the project's publication/provenance audit.
One row per gene. Every counted agreement links to the publications and exact screens that support it.… See the full description on the dataset page: https://huggingface.co/datasets/transhumanist-already-exists/human-crispr-fitness-agreements.beacon-crispr-off-target
BEACON — CRISPROffTarget
CRISPR RNA off-target activity classification data.
Official data from the shared BEACON/RNABenchmark Drive folder:
https://drive.google.com/drive/folders/19ddrwI8ycvIxkgSV3gDo_VunLofYd4-6?hl=en.
This repository is the standardized Hugging Face publication of the official
task data. The data/ directory is the canonical viewer-friendly layer, and
the original files and directory layout are preserved for reproducibility.
beacon_manifest.json records source… See the full description on the dataset page: https://huggingface.co/datasets/jiahaozhang2003/beacon-crispr-off-target.CRISPRI_50TF
CRISPRI 50 TF anndata with mixscape classifications and PS scores
ML_CRISPR_Diabetescrispr-raw-read-counts
Dataset Card for Dataset Name
crispr-raw-read-counts: Table_S1_Raw_read_counts_master_Xu_Feng_Tm_sup_screens
Dataset Details
Dataset Description
This dataset contains the results of genome-wide CRISPR screens using isogenic knockout cells to uncover vulnerabilities in tumor suppressor-deficient cancer cells. The data was originally published by Feng et al., Sci. Adv. 8, eabm6638 (2022) and is available on Figshare.
Curated by: Feng et al., Sci. Adv. 8… See the full description on the dataset page: https://huggingface.co/datasets/dwb2023/crispr-raw-read-counts.crispr_delivery
Crispr Delivery Dataset
This dataset is part of the Deep Principle Bench collection.
Files
crispr_delivery.csv: Main dataset file
Usage
import pandas as pd
from datasets import load_dataset
# Load the dataset
dataset = load_dataset("yhqu/crispr_delivery")
# Or load directly as pandas DataFrame
df = pd.read_csv("hf://datasets/yhqu/crispr_delivery/crispr_delivery.csv")
Citation
Please cite this work if you use this dataset in your research.
crispr-qbf-master
Dataset Card for Dataset Name
crispr-qbf-master: Master_QBF_293A_Xu_Feng_Tm_Sup_scr_042320
Dataset Details
Dataset Description
This dataset contains the results of genome-wide CRISPR screens using isogenic knockout cells to uncover vulnerabilities in tumor suppressor-deficient cancer cells. The data was originally published by Feng et al., Sci. Adv. 8, eabm6638 (2022) and is available on Figshare.
Curated by: Feng et al., Sci. Adv. 8, eabm6638 (2022)
Funded… See the full description on the dataset page: https://huggingface.co/datasets/dwb2023/crispr-qbf-master.crispr-binary-calls
Dataset Card for Dataset Name
crispr-binary-calls: Table_S2_binary_calls
Dataset Details
Dataset Description
This dataset contains the results of genome-wide CRISPR screens using isogenic knockout cells to uncover vulnerabilities in tumor suppressor-deficient cancer cells. The data was originally published by Feng et al., Sci. Adv. 8, eabm6638 (2022) and is available on Figshare.
Curated by: Feng et al., Sci. Adv. 8, eabm6638 (2022)
Funded by: Not explicitly… See the full description on the dataset page: https://huggingface.co/datasets/dwb2023/crispr-binary-calls.crispr-cas-atlas-generator
CRISPR-Cas Atlas – GENERator-ready Dataset
This dataset is a derived, preprocessed version of the CRISPR-Cas Atlas, formatted for causal language model fine-tuning with GENERator.
Source
Original dataset:CRISPR-Cas Atlas v1.0
Ruffolo et al., Design of highly functional genome editors by modeling the universe of CRISPR-Cas sequences, bioRxiv (2024)https://www.biorxiv.org/content/10.1101/2024.04.22.590591v1
Processing
Each CRISPR-Cas operon was converted into a… See the full description on the dataset page: https://huggingface.co/datasets/metaXu264/crispr-cas-atlas-generator.crispr_cas9_arabidopsiscrisp-reason-coldK562_ABC_CRISPRi_filteredK562_ABC_CRISPRi_filtered_splitcrispr-extracted-sequencescrispr-cas-atlas-cluster-generatorcrispr-pertubation-model