Complete Datasets#
Dataset name |
Description |
Publication to cite |
Associated repositories |
Total size |
Images size |
Numerical data size |
Cell Painting protocol |
Other aliases |
|---|---|---|---|---|---|---|---|---|
cpg0000-jump-pilot |
300+ compounds and 160+ genes (CRISPR knockout and overexpression) profiled in A549 and U2OS cells, at two timepoints |
(Chandrasekaran et al., 2024) Publication, Preprint, Description of Cell Painting v2.5. |
12.3 TB |
6.1 TB |
6.1 TB |
v2.5 |
||
cpg0001-cellpainting-protocol |
300+ compounds profiled in U2OS cells using several different modifications of the Cell Painting protocol |
(Cimini et al., 2022) Publication, Preprint Description of Cell Painting v3. |
40.3 TB |
18.7 TB |
21.6 TB |
v3 and experiments |
||
cpg0002-jump-scope |
90 compounds (JUMP-MOA plate) profiled in U2OS using different microscopes and settings |
(Tromans-Coia and Jamali et al., 2023) Publication, Preprint |
16.7 TB |
12.5 TB |
4.2 TB |
v2.5 |
||
cpg0003-rosetta |
28,000+ genes and compounds profiled in Cell Painting and L1000 gene expression |
(Haghighi et al., 2022) Publication, Preprint, |
8.5 GB |
0 |
8.5 GB |
|||
cpg0004-lincs |
1,571 compounds across 6 doses in A549 cells |
(Way et al., 2022) Publication, Preprint |
65.7 TB |
61.9 TB |
3.8 TB |
v2 |
idr0125 |
|
cpg0005-gerry-bioactivity |
30 related synthetic compounds across 6 doses in U2OS cells |
(Gerry et al., 2016) Publication |
356 GB |
356 GB |
v1 |
|||
cpg0010-caie-drugresponse |
MCF-7 breast cancer cells treated with 113 small molecules at eight concentrations. |
(Caie et al., 2010) Publication |
239.2 GB |
98.4 GB |
140.8 GB |
other variation |
||
cpg0011-lipocyteprofiler |
Variety of lipocytes in different metabolic states and with genetic and drug perturbations |
(Laber and Strobel et al., 2023) Publication, Preprint Description of Cell Painting lipocyte variant. |
1.2 TB |
1.2 TB |
16 MB |
lipocyte |
||
cpg0012-wawer-bioactivecompoundprofiling |
30,000 compound dataset in U2OS cells. Original images re-profiled in 2023 (original profiles available in workspace/gigascience_profiles) |
(Wawer et al., 2014) Publication Description of Cell Painting v1, (Bray et al., 2017) Publication Description of Cell Painting v2 |
10.7 TB |
3.1 TB |
7.6 TB |
v1 |
||
cpg0015-heterogeneity |
2,200+ compounds and 200+ genes profiles in U2OS cells |
(Rohban et al., 2019) Publication |
204 GB |
0 |
204 GB |
|||
cpg0016-jump |
116,000+ compounds and 15,000+ genes (CRISPR knockout and overexpression) profiled in U2OS cells. Over 8 million images (>126 TB), over 1.5 billion cells of numerical data (>126TB), for over 250 TB data in total. |
(Chandrasekaran et al., 2023) Preprint |
358.4 TB |
v3 |
||||
cpg0017-rohban-pathways |
323 genes overexpressed in U2OS cells. Original images re-profiled in 2023 (original profiles not in gallery) |
(Rohban et al, 2017) Publication, Preprint |
321 GB |
189 GB |
132 GB |
v1 |
||
cpg0018-singh-seedseq |
U2OS cells treated with each of 315 unique shRNA sequences |
(Singh et al. 2013) Publication |
247.1 GB |
247.1 GB |
0 |
|||
cpg0019-moshkov-deepprofiler |
8.3 million single cells from 232 plates, across 488 treatments from 5 public datasets, used for learning representations |
(Moshkov et al., 2024) Publication, Preprint |
522 GB |
482 GB |
40 GB |
dataset dependent |
||
cpg0021-periscope |
30 million cells with 20,000 single-gene knockouts in pooled format. A549 cells and HeLa cells in two growth media |
(Ramezani, Weisbart, Bauman, and Singh et al., 2025) Preprint, Publication, Description of Cell Painting pooled variant. Also has data from (Haghighi et al., 2023) Preprint, Paper. |
56.0 TB |
45.0 TB |
11.0 TB |
pooled |
||
cpg0022-cmqtl |
297 iPSC lines |
(Tegtmeyer et al., 2024) Publication, Preprint |
3.7 TB |
2.8 TB |
945 GB |
v2.5 |
||
cpg0026-lacoste_haghighi-rare-diseases |
Protein localization of 3,448 missense variants in 1,269 genes in HeLa cells |
(Lacoste and Haghighi et al., 2024) Publication, Preprint |
11 TB |
9.4 TB |
1.6 TB |
Protein of interest, Hoechst, ConA, Mitotracker |
||
cpg0028-kelley-resistance |
Bortezomib resistant HCT116 clones |
(Kelley et al., 2023) Publication |
4.1 TB |
1.9 TB |
2.2 TB |
|||
cpg0029-chroma-pilot |
Comparison of alternative Cell Painting dyes |
(Sivagurunathan et al., 2025) Publication |
1.5 TB |
495 GB |
1 TB |
v3 and experiments |
||
cpg0030-gustafsdottir-cellpainting |
U2OS cells treated with each of 1600 known bioactive compounds. Description of Cell Painting v1. |
(Gustafsdottir et al., 2013) Publication |
234 GB |
234 GB |
.3 GB |
v1 |
||
cpg0031-caicedo-cmvip |
ORF over-expression of 596 alleles of 53 genes in A549 cells. Original images re-profiled in 2023 (original profiles available in workspace/profiles_orig) |
(Caicedo et al., 2023) Publication, Preprint |
2.2 TB |
605 GB |
1.6 TB |
v1 |
BBBC043, LUAD |
|
cpg0034-arevalo-su-motive |
A graph dataset comprising Cell Painting features for 11,000 genes and 3,600 compounds, along with their relationships extracted from seven publicly available databases |
(Arevalo and Su et al., 2024) Publication, Preprint |
4.5 GB |
0 GB |
4.5 GB |
v3 |
||
cpg0036-EU-OS-bioactives |
2464 compounds from EU-OPENSCREEN Bioactive compound set, four imaging sites, two cell lines (HepG2 & U2OS) |
(Wolff et al., 2025) Publication Preprint |
3.5 TB |
3.5 TB |
v1 |
Bioactives, EU-OS-Bioactives |
||
cpg0038-tegtmeyer-neuropainting |
Multiple brain cell types |
(Tegtmeyer et al., 2024) Preprint, Description of Neuropainting variant |
2.0 TB |
1.8 TB |
240 GB |
neuropainting |