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 Full index,Download Link,Publication index,Dataset index,Title,doi_url,First Author,Organisms,Modality,Zenodo ID,File Extension,Method,Tissues,Perturbation,Disease,Cell Type,Tissue Type,Cancer,multiple_time_points,multiple_concentrations,combined_perturbations,Date_of_Submission,Year,Total Number of Cells,Total Number of Perturbations,Median Number of Genes Expressed per Cell,Median Number of UMI Counts per Cell,Highest Number of Perturbations in one Cell,Median Number of Cells per Perturbation,Smallest Number of Cells per Perturbation,Highest Number of Cells per Perturbation
-AdamsonWeissman2016_GSM2406675_10X001,Download,AdamsonWeissman2016,GSM2406675_10X001,A multiplexed single-cell CRISPR screening platform enables systematic dissection of the unfolded protein response,https://doi.org/10.1016/j.cell.2016.11.048,Britt Adamson,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,K562,CRISPRi,Chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,n,01.10.2019,2019,5768.0,8.0,2580.0,9969.0,2.0,555.0,6.0,1769.0
-AdamsonWeissman2016_GSM2406677_10X005,Download,AdamsonWeissman2016,GSM2406677_10X005,A multiplexed single-cell CRISPR screening platform enables systematic dissection of the unfolded protein response,https://doi.org/10.1016/j.cell.2016.11.048,Britt Adamson,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,K562,CRISPRi,Chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,y,01.10.2019,2019,15006.0,19.0,4304.0,25082.0,4.0,13.0,1.0,1715.0
-AdamsonWeissman2016_GSM2406681_10X010,Download,AdamsonWeissman2016,GSM2406681_10X010,A multiplexed single-cell CRISPR screening platform enables systematic dissection of the unfolded protein response,https://doi.org/10.1016/j.cell.2016.11.048,Britt Adamson,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,K562,CRISPRi,Chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,y,01.10.2019,2019,65337.0,113.0,3690.0,15355.0,2.0,554.0,1.0,6010.0
-AissaBenevolenskaya2021,Download,AissaBenevolenskaya2021,,Single-cell transcriptional changes associated with drug tolerance and response to combination therapies in cancer,https://doi.org/10.1038/s41467-021-21884-z,Alexandre Aissa,Homo sapiens; Mus musculus,RNA,7041849,h5ad,Drop-Seq,"cell lines, patient tissue, mouse xenografts",drugs,Lung adenocarcinoma,Lung adenocarcinoma,cell_line,y,no,n,y,01.11.2020,2020,119071.0,3.0,49.0,75.0,1.0,29874.0,29340.0,29983.0
-ChangYe2021,Download,ChangYe2021,,Identifying transcriptional programs underlying cancer drug response with TraCe-seq,https://doi.org/10.1038/s41587-021-01005-3,Matthew Chang,Homo sapiens,RNA,7041849,h5ad,clonal tagging (TraCe-seq),"lung and breast cancer cell lines PC9, MCF-10A, MDA-MB-231, NCI-H358, and NCI-H1373",drugs,lung adenocarcinoma,Lung adenocarcinoma,cell_line,y,n,n,n,01.08.2021,2021,42277.0,3.0,5278.0,18961.0,1.0,7657.0,5920.0,21043.0
-CuiHacohen2023,Download,CuiHacohen2023,,Dictionary of immune responses to cytokines at single-cell resolution,https://doi.org/10.1038/s41586-023-06816-9,Ang Cui,Mus musculus,RNA,7041849,h5ad,Custom,draining lymph nodes,cytokines,healthy,mixed,primary,n,n,n,n,,2023,539717.0,87.0,119.0,144.0,1.0,681.5,202.0,349669.0
-DatlingerBock2017,Download,DatlingerBock2017,,Pooled CRISPR screening with single-cell transcriptome readout,https://doi.org/10.1038/nmeth.4177,Paul Datlinger,Homo sapiens; Mus musculus,RNA,7041849,h5ad,CROP-seq,Jurkat cells (immune cancer),"CRISPR-cas9, TCR stim",acute T cell leukemia,T cells,cell_line,y,n,n,y,01.12.2016,2016,5905.0,96.0,2713.0,6711.0,4.0,49.0,3.0,1320.0
-DatlingerBock2021,Download,DatlingerBock2021,,Ultra-high-throughput single-cell RNA sequencing and perturbation screening with combinatorial fluidic indexing,https://doi.org/10.1038/s41592-021-01153-z,Paul Datlinger,Homo sapiens,RNA,7041849,h5ad,scifi-RNA-seq (derived from CROP-seq),Jurkat,"CRISPR-cas9, TCR stim",acute T cell leukemia,T cells,cell_line,y,n,n,y,01.12.2019,2019,39194.0,40.0,179.0,460.0,2.0,809.0,213.0,4497.0
-DixitRegev2016,Download,DixitRegev2016,,Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens,https://doi.org/10.1016/j.cell.2016.11.038,Atray Dixit,Homo sapiens; Mus musculus,RNA,7041849,h5ad,Perturb-seq,K562,CRISPR-cas9,myelogenous leukemia,lymphoblasts,,y,partially (TF knockout screen 7 and 13 dpi),n,y,01.11.2016,2016,51898.0,1728.0,3080.0,13974.0,4.0,1.0,1.0,4224.0
-FrangiehIzar2021_RNA,Download,FrangiehIzar2021,RNA,Multimodal pooled Perturb-CITE-seq screens in patient models define mechanisms of cancer immune evasion,https://doi.org/10.1038/s41588-021-00779-1,Chris Frangieh,Homo sapiens,RNA + protein (RNA),7041849,h5ad,Perturb-CITE-seq,co-culture of melanoma and TILs,CRISPR-cas9,melanoma,melanocytes,primary,n,n,n,n,01.08.2020,2020,218331.0,248.0,3314.0,10988.0,1.0,659.0,12.0,57605.0
-FrangiehIzar2021_protein,Download,FrangiehIzar2021,protein,Multimodal pooled Perturb-CITE-seq screens in patient models define mechanisms of cancer immune evasion,https://doi.org/10.1038/s41588-021-00779-1,Chris Frangieh,Homo sapiens,RNA + protein (protein),7041849,h5ad,Perturb-CITE-seq,co-culture of melanoma and TILs,CRISPR-cas9,melanoma,melanocytes,primary,n,n,n,n,01.08.2020,2020,,,,,,,,
-GasperiniShendure2019_atscale,Download,GasperiniShendure2019,atscale,A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens,https://doi.org/10.1016/j.cell.2018.11.029,Molly Gasperini,Homo sapiens,RNA,7041849,h5ad,CROP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.06.2018,2018,207324.0,203495.0,3406.0,17128.0,298.0,1.0,1.0,1527.0
-GasperiniShendure2019_highMOI,Download,GasperiniShendure2019,highMOI,A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens,https://doi.org/10.1016/j.cell.2018.11.029,Molly Gasperini,Homo sapiens,RNA,7041849,h5ad,CROP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.06.2018,2018,47650.0,39087.0,3795.0,19035.5,67.0,1.0,1.0,299.0
-GasperiniShendure2019_lowMOI,Download,GasperiniShendure2019,lowMOI,A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens,https://doi.org/10.1016/j.cell.2018.11.029,Molly Gasperini,Homo sapiens,RNA,7041849,h5ad,CROP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.06.2018,2018,41284.0,16531.0,3871.5,21643.0,33.0,1.0,1.0,4473.0
-GehringPachter2019,Download,GehringPachter2019,,Highly multiplexed single-cell RNA-seq by DNA oligonucleotide tagging of cellular proteins,https://doi.org/10.1038/s41587-019-0372-z,Jase Gehring,Mus musculus,RNA,7041849,h5ad,96-plex scRNA-seq oligo barcodes,mouse neural stem cells (human only for species mixing experiment),drugs,healthy,neural stem cells,primary,n,n,y,y,01.01.2020,2020,20382.0,0.0,1445.0,2405.93310546875,4.0,20382.0,20382.0,20382.0
-JoungZhang2023_atlas,Download,JoungZhang2023,atlas,A transcription factor atlas of directed differentiation,https://doi.org/10.1016/j.cell.2022.11.026,Julia Joung,Homo sapiens,RNA,7041849,h5ad,scRNA-seq,hESCs,overexpression,,,stem,n,,,,,2023,1145823.0,3368.0,2283.0,3358.0,1.0,55.0,1.0,78274.0
-JoungZhang2023_combinatorial,Download,JoungZhang2023,combinatorial,A transcription factor atlas of directed differentiation,https://doi.org/10.1016/j.cell.2022.11.026,Julia Joung,Homo sapiens,RNA,7041849,h5ad,scRNA-seq,hESCs,overexpression,,,stem,n,,,,,2023,167947.0,56.0,1559.0,2074.0,3.0,413.0,5.0,29194.0
-LaraAstiasoHuntly2023_exvivo,Download,LaraAstiasoHuntly2023,exvivo,In vivo screening characterizes chromatin factor functions during normal and malignant hematopoiesis,https://doi.org/10.1038/s41588-023-01471-2,David Lara-Astiaso,Mus musculus,RNA,7041849,h5ad,single-cell in vivo CRISPR screen,bone marrow transplant,CRISPR-cas9,healthy,bone marrow,primary,n,y,n,n,,2023,146793.0,42.0,3262.0,12161.0,1.0,1387.5,66.0,71927.0
-LaraAstiasoHuntly2023_invivo,Download,LaraAstiasoHuntly2023,invivo,In vivo screening characterizes chromatin factor functions during normal and malignant hematopoiesis,https://doi.org/10.1038/s41588-023-01471-2,David Lara-Astiaso,Mus musculus,RNA,7041849,h5ad,single-cell in vivo CRISPR screen,bone marrow transplant,CRISPR-cas9,healthy,bone marrow,primary,n,y,n,n,,2023,135836.0,40.0,2050.0,6010.0,1.0,527.5,12.0,79771.0
-LaraAstiasoHuntly2023_leukemia,Download,LaraAstiasoHuntly2023,leukemia,In vivo screening characterizes chromatin factor functions during normal and malignant hematopoiesis,https://doi.org/10.1038/s41588-023-01471-2,David Lara-Astiaso,Mus musculus,RNA,7041849,h5ad,single-cell in vivo CRISPR screen,bone marrow transplant,CRISPR-cas9,leukemia,bone marrow,primary,y,n,n,n,,2023,182949.0,58.0,1635.0,4350.0,1.0,546.0,2.0,135613.0
-LiangWang2023,Download,LiangWang2023,,In-organoid single-cell CRISPR screening reveals determinants of hepatocyte differentiation and maturation,https://doi.org/10.1186/s13059-023-03084-8,Junbo Liang,Mus musculus,RNA,7041849,h5ad,CROP-seq,liver organoids,"CRISPR-cas9, growth conditions",healthy,hepatocytes,organoid,n,n,n,y,,2023,41383.0,77.0,3771.0,16928.0,1.0,455.5,30.0,2459.0
+AdamsonWeissman2016_GSM2406675_10X001,Download,AdamsonWeissman2016,GSM2406675_10X001,A multiplexed single-cell CRISPR screening platform enables systematic dissection of the unfolded protein response,https://doi.org/10.1016/j.cell.2016.11.048,Britt Adamson,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,K562,CRISPRi,Chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,n,01.10.2019,2019,5768.0,8.0,2580.0,9969.0,2.0,555.0,6.0,1769.0
+AdamsonWeissman2016_GSM2406677_10X005,Download,AdamsonWeissman2016,GSM2406677_10X005,A multiplexed single-cell CRISPR screening platform enables systematic dissection of the unfolded protein response,https://doi.org/10.1016/j.cell.2016.11.048,Britt Adamson,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,K562,CRISPRi,Chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,y,01.10.2019,2019,15006.0,19.0,4304.0,25082.0,4.0,13.0,1.0,1715.0
+AdamsonWeissman2016_GSM2406681_10X010,Download,AdamsonWeissman2016,GSM2406681_10X010,A multiplexed single-cell CRISPR screening platform enables systematic dissection of the unfolded protein response,https://doi.org/10.1016/j.cell.2016.11.048,Britt Adamson,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,K562,CRISPRi,Chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,y,01.10.2019,2019,65337.0,113.0,3690.0,15355.0,2.0,554.0,1.0,6010.0
+AissaBenevolenskaya2021,Download,AissaBenevolenskaya2021,,Single-cell transcriptional changes associated with drug tolerance and response to combination therapies in cancer,https://doi.org/10.1038/s41467-021-21884-z,Alexandre Aissa,Homo sapiens; Mus musculus,RNA,10044268,h5ad,Drop-Seq,"cell lines, patient tissue, mouse xenografts",drugs,Lung adenocarcinoma,Lung adenocarcinoma,cell_line,y,no,n,y,01.11.2020,2020,119071.0,3.0,49.0,75.0,1.0,29874.0,29340.0,29983.0
+ChangYe2021,Download,ChangYe2021,,Identifying transcriptional programs underlying cancer drug response with TraCe-seq,https://doi.org/10.1038/s41587-021-01005-3,Matthew Chang,Homo sapiens,RNA,10044268,h5ad,clonal tagging (TraCe-seq),"lung and breast cancer cell lines PC9, MCF-10A, MDA-MB-231, NCI-H358, and NCI-H1373",drugs,lung adenocarcinoma,Lung adenocarcinoma,cell_line,y,n,n,n,01.08.2021,2021,42277.0,3.0,5278.0,18961.0,1.0,7657.0,5920.0,21043.0
+CuiHacohen2023,Download,CuiHacohen2023,,Dictionary of immune responses to cytokines at single-cell resolution,https://doi.org/10.1038/s41586-023-06816-9,Ang Cui,Mus musculus,RNA,10044268,h5ad,Custom,draining lymph nodes,cytokines,healthy,mixed,primary,n,n,n,n,,2023,539717.0,87.0,119.0,144.0,1.0,681.5,202.0,349669.0
+DatlingerBock2017,Download,DatlingerBock2017,,Pooled CRISPR screening with single-cell transcriptome readout,https://doi.org/10.1038/nmeth.4177,Paul Datlinger,Homo sapiens; Mus musculus,RNA,10044268,h5ad,CROP-seq,Jurkat cells (immune cancer),"CRISPR-cas9, TCR stim",acute T cell leukemia,T cells,cell_line,y,n,n,y,01.12.2016,2016,5905.0,96.0,2713.0,6711.0,4.0,49.0,3.0,1320.0
+DatlingerBock2021,Download,DatlingerBock2021,,Ultra-high-throughput single-cell RNA sequencing and perturbation screening with combinatorial fluidic indexing,https://doi.org/10.1038/s41592-021-01153-z,Paul Datlinger,Homo sapiens,RNA,10044268,h5ad,scifi-RNA-seq (derived from CROP-seq),Jurkat,"CRISPR-cas9, TCR stim",acute T cell leukemia,T cells,cell_line,y,n,n,y,01.12.2019,2019,39194.0,40.0,179.0,460.0,2.0,809.0,213.0,4497.0
+DixitRegev2016,Download,DixitRegev2016,,Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens,https://doi.org/10.1016/j.cell.2016.11.038,Atray Dixit,Homo sapiens; Mus musculus,RNA,10044268,h5ad,Perturb-seq,K562,CRISPR-cas9,myelogenous leukemia,lymphoblasts,,y,partially (TF knockout screen 7 and 13 dpi),n,y,01.11.2016,2016,51898.0,1728.0,3080.0,13974.0,4.0,1.0,1.0,4224.0
+FrangiehIzar2021_RNA,Download,FrangiehIzar2021,RNA,Multimodal pooled Perturb-CITE-seq screens in patient models define mechanisms of cancer immune evasion,https://doi.org/10.1038/s41588-021-00779-1,Chris Frangieh,Homo sapiens,RNA + protein (RNA),10044268,h5ad,Perturb-CITE-seq,co-culture of melanoma and TILs,CRISPR-cas9,melanoma,melanocytes,primary,n,n,n,n,01.08.2020,2020,218331.0,248.0,3314.0,10988.0,1.0,659.0,12.0,57605.0
+FrangiehIzar2021_protein,Download,FrangiehIzar2021,protein,Multimodal pooled Perturb-CITE-seq screens in patient models define mechanisms of cancer immune evasion,https://doi.org/10.1038/s41588-021-00779-1,Chris Frangieh,Homo sapiens,RNA + protein (protein),10044268,h5ad,Perturb-CITE-seq,co-culture of melanoma and TILs,CRISPR-cas9,melanoma,melanocytes,primary,n,n,n,n,01.08.2020,2020,,,,,,,,
+GasperiniShendure2019_atscale,Download,GasperiniShendure2019,atscale,A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens,https://doi.org/10.1016/j.cell.2018.11.029,Molly Gasperini,Homo sapiens,RNA,10044268,h5ad,CROP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.06.2018,2018,207324.0,203495.0,3406.0,17128.0,298.0,1.0,1.0,1527.0
+GasperiniShendure2019_highMOI,Download,GasperiniShendure2019,highMOI,A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens,https://doi.org/10.1016/j.cell.2018.11.029,Molly Gasperini,Homo sapiens,RNA,10044268,h5ad,CROP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.06.2018,2018,47650.0,39087.0,3795.0,19035.5,67.0,1.0,1.0,299.0
+GasperiniShendure2019_lowMOI,Download,GasperiniShendure2019,lowMOI,A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens,https://doi.org/10.1016/j.cell.2018.11.029,Molly Gasperini,Homo sapiens,RNA,10044268,h5ad,CROP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.06.2018,2018,41284.0,16531.0,3871.5,21643.0,33.0,1.0,1.0,4473.0
+GehringPachter2019,Download,GehringPachter2019,,Highly multiplexed single-cell RNA-seq by DNA oligonucleotide tagging of cellular proteins,https://doi.org/10.1038/s41587-019-0372-z,Jase Gehring,Mus musculus,RNA,10044268,h5ad,96-plex scRNA-seq oligo barcodes,mouse neural stem cells (human only for species mixing experiment),drugs,healthy,neural stem cells,primary,n,n,y,y,01.01.2020,2020,20382.0,0.0,1445.0,2405.93310546875,4.0,20382.0,20382.0,20382.0
+JoungZhang2023_atlas,Download,JoungZhang2023,atlas,A transcription factor atlas of directed differentiation,https://doi.org/10.1016/j.cell.2022.11.026,Julia Joung,Homo sapiens,RNA,10044268,h5ad,scRNA-seq,hESCs,overexpression,,,stem,n,,,,,2023,1145823.0,3368.0,2283.0,3358.0,1.0,55.0,1.0,78274.0
+JoungZhang2023_combinatorial,Download,JoungZhang2023,combinatorial,A transcription factor atlas of directed differentiation,https://doi.org/10.1016/j.cell.2022.11.026,Julia Joung,Homo sapiens,RNA,10044268,h5ad,scRNA-seq,hESCs,overexpression,,,stem,n,,,,,2023,167947.0,56.0,1559.0,2074.0,3.0,413.0,5.0,29194.0
+LaraAstiasoHuntly2023_exvivo,Download,LaraAstiasoHuntly2023,exvivo,In vivo screening characterizes chromatin factor functions during normal and malignant hematopoiesis,https://doi.org/10.1038/s41588-023-01471-2,David Lara-Astiaso,Mus musculus,RNA,10044268,h5ad,single-cell in vivo CRISPR screen,bone marrow transplant,CRISPR-cas9,healthy,bone marrow,primary,n,y,n,n,,2023,146793.0,42.0,3262.0,12161.0,1.0,1387.5,66.0,71927.0
+LaraAstiasoHuntly2023_invivo,Download,LaraAstiasoHuntly2023,invivo,In vivo screening characterizes chromatin factor functions during normal and malignant hematopoiesis,https://doi.org/10.1038/s41588-023-01471-2,David Lara-Astiaso,Mus musculus,RNA,10044268,h5ad,single-cell in vivo CRISPR screen,bone marrow transplant,CRISPR-cas9,healthy,bone marrow,primary,n,y,n,n,,2023,135836.0,40.0,2050.0,6010.0,1.0,527.5,12.0,79771.0
+LaraAstiasoHuntly2023_leukemia,Download,LaraAstiasoHuntly2023,leukemia,In vivo screening characterizes chromatin factor functions during normal and malignant hematopoiesis,https://doi.org/10.1038/s41588-023-01471-2,David Lara-Astiaso,Mus musculus,RNA,10044268,h5ad,single-cell in vivo CRISPR screen,bone marrow transplant,CRISPR-cas9,leukemia,bone marrow,primary,y,n,n,n,,2023,182949.0,58.0,1635.0,4350.0,1.0,546.0,2.0,135613.0
+LiangWang2023,Download,LiangWang2023,,In-organoid single-cell CRISPR screening reveals determinants of hepatocyte differentiation and maturation,https://doi.org/10.1186/s13059-023-03084-8,Junbo Liang,Mus musculus,RNA,10044268,h5ad,CROP-seq,liver organoids,"CRISPR-cas9, growth conditions",healthy,hepatocytes,organoid,n,n,n,y,,2023,41383.0,77.0,3771.0,16928.0,1.0,455.5,30.0,2459.0
 Liscovitch-BrauerSanjana2021_K562_1,Download,Liscovitch-BrauerSanjana2021,K562_1,Profiling the genetic determinants of chromatin accessibility with scalable single-cell CRISPR screens,https://doi.org/10.1038/s41587-021-00902-x,"Liscovitch-Brauer, N.",Homo sapiens,ATAC,7058382,zip,CRISPR–sciATAC,Myeloid Leukemia,CRISPR-cas9,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,n,01.04.2021,2021,,,,,,,,
 Liscovitch-BrauerSanjana2021_K562_2,Download,Liscovitch-BrauerSanjana2021,K562_2,Profiling the genetic determinants of chromatin accessibility with scalable single-cell CRISPR screens,https://doi.org/10.1038/s41587-021-00902-x,"Liscovitch-Brauer, N.",Homo sapiens,ATAC,7058382,zip,CRISPR–sciATAC,Myeloid Leukemia,CRISPR-cas9,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,n,01.04.2021,2021,,,,,,,,
-LotfollahiTheis2023,Download,LotfollahiTheis2023,,Predicting cellular responses to complex perturbations in high-throughput screens,https://doi.org/10.15252/msb.202211517,Mohammad Lotfollahi,Homo sapiens,RNA,7041849,h5ad,sciplex,A549,drugs,lung adenocarcinoma,lung epithelial cells,cell_line,y,n,n,y,,2023,63430.0,31.0,1712.0,2582.0,2.0,1965.0,477.0,3302.0
-McFarlandTsherniak2020,Download,McFarlandTsherniak2020,,Multiplexed single-cell transcriptional response profiling to define cancer vulnerabilities and therapeutic mechanism of action,https://doi.org/10.1038/s41467-020-17440-w,James McFarland,Homo sapiens,RNA,7041849,h5ad,MIX-seq (pooled scRNA-seq),200 different cell lines,"drugs, CRISPR-cas9",,,cell_line,y,partially,n,n,01.12.2019,2019,182875.0,17.0,3780.0,17976.0,1.0,6674.0,2093.0,41300.0
-MimitouSmibert2021,Download,MimitouSmibert2021,,"Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells",https://doi.org/10.1038/s41587-021-00927-2,Eleni P. Mimitou,Homo sapiens,ATAC + protein,7041849,h5ad,ASAP-seq,Purified CD4 T cells,CRISPR-cas9,healthy,T cells,primary,n,n,n,n,01.05.2019,2019,,,,,,,,
-NormanWeissman2019_filtered,Download,NormanWeissman2019,filtered,Exploring genetic interaction manifolds constructed from rich single-cell phenotypes,https://doi.org/10.1126/science.aax4438,Thomas Norman,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,K562,CRISPRa,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.03.2019,2019,111445.0,236.0,3233.0,13855.0,2.0,354.0,54.0,11855.0
-PapalexiSatija2021_eccite_RNA,Download,PapalexiSatija2021,eccite_RNA,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (RNA),7041849,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,20729.0,98.0,3292.0,11815.0,1.0,173.0,1.0,2386.0
-PapalexiSatija2021_eccite_arrayed_RNA,Download,PapalexiSatija2021,eccite_arrayed_RNA,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (RNA),7041849,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,8984.0,10.0,2530.0,7110.5,1.0,723.0,4.0,2009.0
-PapalexiSatija2021_eccite_arrayed_protein,Download,PapalexiSatija2021,eccite_arrayed_protein,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (protein),7041849,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,,,,,,,,
-PapalexiSatija2021_eccite_protein,Download,PapalexiSatija2021,eccite_protein,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (protein),7041849,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,,,,,,,,
+LotfollahiTheis2023,Download,LotfollahiTheis2023,,Predicting cellular responses to complex perturbations in high-throughput screens,https://doi.org/10.15252/msb.202211517,Mohammad Lotfollahi,Homo sapiens,RNA,10044268,h5ad,sciplex,A549,drugs,lung adenocarcinoma,lung epithelial cells,cell_line,y,n,n,y,,2023,63430.0,31.0,1712.0,2582.0,2.0,1965.0,477.0,3302.0
+McFarlandTsherniak2020,Download,McFarlandTsherniak2020,,Multiplexed single-cell transcriptional response profiling to define cancer vulnerabilities and therapeutic mechanism of action,https://doi.org/10.1038/s41467-020-17440-w,James McFarland,Homo sapiens,RNA,10044268,h5ad,MIX-seq (pooled scRNA-seq),200 different cell lines,"drugs, CRISPR-cas9",,,cell_line,y,partially,n,n,01.12.2019,2019,182875.0,17.0,3780.0,17976.0,1.0,6674.0,2093.0,41300.0
+MimitouSmibert2021,Download,MimitouSmibert2021,,"Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells",https://doi.org/10.1038/s41587-021-00927-2,Eleni P. Mimitou,Homo sapiens,ATAC + protein,10044268,h5ad,ASAP-seq,Purified CD4 T cells,CRISPR-cas9,healthy,T cells,primary,n,n,n,n,01.05.2019,2019,,,,,,,,
+NormanWeissman2019_filtered,Download,NormanWeissman2019,filtered,Exploring genetic interaction manifolds constructed from rich single-cell phenotypes,https://doi.org/10.1126/science.aax4438,Thomas Norman,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,K562,CRISPRa,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.03.2019,2019,111445.0,236.0,3233.0,13855.0,2.0,354.0,54.0,11855.0
+PapalexiSatija2021_eccite_RNA,Download,PapalexiSatija2021,eccite_RNA,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (RNA),10044268,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,20729.0,98.0,3292.0,11815.0,1.0,173.0,1.0,2386.0
+PapalexiSatija2021_eccite_arrayed_RNA,Download,PapalexiSatija2021,eccite_arrayed_RNA,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (RNA),10044268,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,8984.0,10.0,2530.0,7110.5,1.0,723.0,4.0,2009.0
+PapalexiSatija2021_eccite_arrayed_protein,Download,PapalexiSatija2021,eccite_arrayed_protein,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (protein),10044268,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,,,,,,,,
+PapalexiSatija2021_eccite_protein,Download,PapalexiSatija2021,eccite_protein,Characterizing the molecular regulation of inhibitory immune checkpoints with multimodal single-cell screens,https://doi.org/10.1038/s41588-021-00778-2,"Papalexi, E.",Homo sapiens THP-1,RNA + protein (protein),10044268,h5ad,ECCITE-seq,THP-1 (monocytic leukemia ),CRISPR-cas9,acute monocytic leukemia,monocytes,cell_line,y,n,n,n,01.03.2021,2021,,,,,,,,
 PierceGreenleaf2021_GM12878,Download,PierceGreenleaf2021,GM12878,High-throughput single-cell chromatin accessibility CRISPR screens enable unbiased identification of regulatory networks in cancer,https://doi.org/10.1038/s41467-021-23213-w,Sarah Pierce,Homo sapiens,ATAC,7058382,zip,Spear-ATAC,GM12878 (lymphoblastoid cells),CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,n,01.11.2020,2020,,,,,,,,
 PierceGreenleaf2021_K562,Download,PierceGreenleaf2021,K562,High-throughput single-cell chromatin accessibility CRISPR screens enable unbiased identification of regulatory networks in cancer,https://doi.org/10.1038/s41467-021-23213-w,Sarah Pierce,Homo sapiens,ATAC,7058382,zip,Spear-ATAC,K562 (leukemia),CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,n,01.11.2020,2020,,,,,,,,
 PierceGreenleaf2021_MCF7,Download,PierceGreenleaf2021,MCF7,High-throughput single-cell chromatin accessibility CRISPR screens enable unbiased identification of regulatory networks in cancer,https://doi.org/10.1038/s41467-021-23213-w,Sarah Pierce,Homo sapiens,ATAC,7058382,zip,Spear-ATAC,MCF7 (breast cancer),CRISPRi,breast adenocarcinoma,mammary epithelial cells,cell_line,y,n,n,n,01.11.2020,2020,,,,,,,,
-QinTape2023_scRNAseq,Download,QinTape2023,scRNAseq,A Single-cell Perturbation Landscape of Colonic Stem Cell Polarisation,https://doi.org/10.1101/2023.02.15.528008,Xiao Qin,Mus musculus,RNA + protein (RNA),7041849,h5ad,CPA-Perturb-seq,colonic organoids,"drugs, genotype and co-cultures",,colonic epithelial cells,organoid,y,,,,,2023,68574.0,3.0,3563.5,13280.5,2.0,15450.0,8602.0,16315.0
-ReplogleWeissman2022_K562_essential,Download,ReplogleWeissman2022,K562_essential,Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq,https://doi.org/10.1016/j.cell.2022.05.013,Joseph Replogle,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,K562,CRISPRi,chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,n,01.10.2022,2022,310385.0,2057.0,3618.0,13207.0,1.0,121.0,5.0,10691.0
-ReplogleWeissman2022_K562_gwps,Download,ReplogleWeissman2022,K562_gwps,Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq,https://doi.org/10.1016/j.cell.2022.05.013,Joseph Replogle,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,K562,CRISPRi,chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,n,01.10.2022,2022,1989578.0,9866.0,3215.0,11304.0,1.0,178.0,2.0,75328.0
-ReplogleWeissman2022_rpe1,Download,ReplogleWeissman2022,rpe1,Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq,https://doi.org/10.1016/j.cell.2022.05.013,Joseph Replogle,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,,CRISPRi,chronic myeloid leukemia,epithelial,cell_line,n,n,n,n,01.10.2022,2022,247914.0,2393.0,3441.0,11940.0,1.0,72.0,2.0,11485.0
-SantinhaPlatt2023,Download,SantinhaPlatt2023,,Transcriptional linkage analysis with in vivo AAV-Perturb-seq,https://doi.org/10.1038/s41586-023-06570-y,Antonio J. Santinha,Mus musculus,RNA,7041849,h5ad,adeno-associated virus (AAV)-mediated direct in vivo single-cell CRISPR screening,brain tissue,CRISPR-cas9,healthy,neurons,primary,y,,,,,2023,100134.0,30.0,4307.0,14025.0,1.0,1581.0,148.0,54736.0
-SchiebingerLander2019_GSE106340,Download,SchiebingerLander2019,GSE106340,Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming,https://doi.org/10.1016/j.cell.2019.01.006,Geoffrey Schiebinger,Mus musculus,RNA,7041849,h5ad,plain scRNA-seq,iPSCs,cytokines,healthy,mESCs,stem,n,y,n,n,01.02.2019,2019,68339.0,1.0,2358.0,7170.0,1.0,26496.0,12006.0,29837.0
-SchiebingerLander2019_GSE115943,Download,SchiebingerLander2019,GSE115943,Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming,https://doi.org/10.1016/j.cell.2019.01.006,Geoffrey Schiebinger,Mus musculus,RNA,7041849,h5ad,plain scRNA-seq,iPSCs,cytokines,healthy,mESCs,stem,n,y,n,n,01.02.2019,2019,259155.0,2.0,2550.0,10271.0,1.0,78970.0,77967.0,102218.0
-SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_11_screen,Download,SchraivogelSteinmetz2020,TAP_SCREEN__chromosome_11_screen,Targeted Perturb-seq enables genome-scale genetic screens in single cells,https://doi.org/10.1038/s41592-020-0837-5,Daniel Schraivogel,Homo sapiens; Mus musculus,RNA,7041849,h5ad,TAP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.08.2019,2019,120310.0,3104.0,60.0,1557.0,3.0,28.0,1.0,15711.0
-SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_8_screen,Download,SchraivogelSteinmetz2020,TAP_SCREEN__chromosome_8_screen,Targeted Perturb-seq enables genome-scale genetic screens in single cells,https://doi.org/10.1038/s41592-020-0837-5,Daniel Schraivogel,Homo sapiens; Mus musculus,RNA,7041849,h5ad,TAP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.08.2019,2019,112260.0,4114.0,61.0,1218.0,3.0,19.0,1.0,20619.0
-ShifrutMarson2018,Download,ShifrutMarson2018,,Genome-wide CRISPR Screens in Primary Human T Cells Reveal Key Regulators of Immune Function,https://doi.org/10.1016/j.cell.2018.10.024,Eric Shifrut,Homo sapiens,RNA,7041849,h5ad,CROP-seq,Primary Human T Cells,"CRISPR-cas9, TCR stim",healthy,T cells,primary,n,n,n,y,01.09.2018,2018,52236.0,40.0,1894.0,5382.0,1.0,299.0,17.0,39813.0
-SrivatsanTrapnell2020_sciplex2,Download,SrivatsanTrapnell2020,sciplex2,Massively multiplex chemical transcriptomics at single-cell resolution,https://doi.org/10.1126/science.aax6234,Sanjay Srivatsan,Homo sapiens; Mus musculus,RNA,7041849,h5ad,sci-Plex (nuclear hashing),A549,drugs,lung adenocarcinoma,alveolar basal epithelial cells,cell_line,y,n,y,n,01.01.2020,2020,24262.0,4.0,2280.0,4207.0,1.0,5530.0,529.0,8064.0
-SrivatsanTrapnell2020_sciplex3,Download,SrivatsanTrapnell2020,sciplex3,Massively multiplex chemical transcriptomics at single-cell resolution,https://doi.org/10.1126/science.aax6234,Sanjay Srivatsan,Homo sapiens; Mus musculus,RNA,7041849,h5ad,sci-Plex (nuclear hashing),"A549 (lung adenocarcinoma), K562 (chronic myelogenous leukemia), and MCF7 (mammary adenocarcinoma)",drugs,multiple,multiple,cell_line,y,n,y,n,01.01.2020,2020,799317.0,188.0,953.0,1502.0,1.0,3807.5,1007.0,36522.0
-SrivatsanTrapnell2020_sciplex4,Download,SrivatsanTrapnell2020,sciplex4,Massively multiplex chemical transcriptomics at single-cell resolution,https://doi.org/10.1126/science.aax6234,Sanjay Srivatsan,Homo sapiens; Mus musculus,RNA,7041849,h5ad,sci-Plex (nuclear hashing),A549 (lung adenocarcinoma) and MCF7 (mammary adenocarcinoma),drugs,lung adenocarcinoma,alveolar basal epithelial cells,cell_line,y,n,y,n,01.01.2020,2020,98437.0,7.0,925.0,1538.0,2.0,9885.0,40.0,20015.0
-SunshineHein2023,Download,SunshineHein2023,,Systematic functional interrogation of SARS-CoV-2 host factors using Perturb-seq,https://doi.org/10.1038/s41467-023-41788-4,Sara Sunshine,Homo sapiens,RNA,7041849,h5ad,Perturb-seq with CRISPRi,Calu-3,CRISPRi,lung adenocarcinoma and SARS-CoV-2,lung epithelial cells,cell_line,y,n,n,y,,2023,90380.0,24194.0,4182.5,17626.0,156.0,1.0,1.0,16391.0
-TianKampmann2019_day7neuron,Download,TianKampmann2019,day7neuron,CRISPR Interference-Based Platform for Multimodal Genetic Screens in Human iPSC-Derived Neurons,https://doi.org/10.1016/j.neuron.2019.07.014,Ruilin Tian,Homo sapiens,RNA,7041849,h5ad,CROP-seq,iPSC derived neurons,CRISPRi,healthy,iPSC-induced neuron,primary,n,y,n,y,01.10.2019,2019,182790.0,41357.0,86.5,100.0,26.0,1.0,1.0,21895.0
-TianKampmann2019_iPSC,Download,TianKampmann2019,iPSC,CRISPR Interference-Based Platform for Multimodal Genetic Screens in Human iPSC-Derived Neurons,https://doi.org/10.1016/j.neuron.2019.07.014,Ruilin Tian,Homo sapiens,RNA,7041849,h5ad,CROP-seq,iPSC derived neurons,CRISPRi,healthy,iPSC,stem,n,y,n,y,01.10.2019,2019,275708.0,39161.0,83.0,92.0,26.0,1.0,1.0,39004.0
-TianKampmann2021_CRISPRa,Download,TianKampmann2021,CRISPRa,Genome-wide CRISPRi/a screens in human neurons link lysosomal failure to ferroptosis,https://doi.org/10.1038/s41593-021-00862-0,Ruilin Tian,Homo sapiens,RNA,7041849,h5ad,CROP-seq,human iPSC-derived neurons,CRISPRa,healthy,iPSC-induced neuron,primary,n,n,n,n,01.07.2020,2020,21193.0,100.0,3613.0,10263.0,1.0,196.0,37.0,592.0
-TianKampmann2021_CRISPRi,Download,TianKampmann2021,CRISPRi,Genome-wide CRISPRi/a screens in human neurons link lysosomal failure to ferroptosis,https://doi.org/10.1038/s41593-021-00862-0,Ruilin Tian,Homo sapiens,RNA,7041849,h5ad,CROP-seq,human iPSC-derived neurons,CRISPRi,healthy,iPSC-induced neuron,primary,n,n,n,n,01.07.2020,2020,32300.0,184.0,4521.0,13609.0,1.0,166.0,45.0,437.0
-WeinrebKlein2020,Download,WeinrebKlein2020,,Lineage tracing on transcriptional landscapes links state to fate during differentiation,https://doi.org/10.1126/science.aaw3381,Caleb Weinreb,Mus musculus,RNA,7041849,h5ad,clonal tagging (LARRY),hematopoiesis / mouse bone marrow,cytokines,healthy,mixed hematopoeitic,stem,n,y,n,n,01.11.2020,2020,65075.0,4.0,1333.0,3229.886474609375,1.0,9815.0,6113.0,26306.0
-WesselsSatija2023,Download,WesselsSatija2023,,Efficient combinatorial targeting of RNA transcripts in single cells with Cas13 RNA Perturb-seq ,https://doi.org/10.1038/s41592-022-01705-x,Hans-Hermann Wessels,Homo sapiens; Mus musculus,RNA,7041849,h5ad,CaRPool-seq,"AML cell lines (HEK293FT, NIH/3T3, or THP1 cells)",CRISPR-cas13,AML,myeloid cells,cell_line,y,n,n,y,,2023,30707.0,186.0,2751.0,8782.0,2.0,140.0,15.0,773.0
-XieHon2017,Download,XieHon2017,,Multiplexed engineering and analysis of endogenous enhancer activity in single cells,https://doi.org/10.1016/j.molcel.2017.03.007,Shiqi Xie,Homo sapiens; Mus musculus,RNA,7041849,h5ad,Mosaic-seq,K562,CRISPR-cas9,chronic myeloid leukemia,lymphoblasts,cell_line,n,n,n,partially (CRISPR),01.03.2016,2016,13283.0,3384.0,3186.0,46619.0,15.0,1.0,1.0,7063.0
-XuCao2023,Download,XuCao2023,,Dissecting key regulators of transcriptome kinetics through scalable single-cell RNA profiling of pooled CRISPR screen,https://doi.org/10.1038/s41587-023-01948-9,Zihan Xu,Homo sapiens,RNA,7041849,h5ad,PerturbSci-Kinetics,HEK293,CRISPRi,healthy,embryonic kidney cells,cell_line,n,,,,,2023,98315.0,203.0,1210.0,2155.0,1.0,401.0,3.0,2758.0
-YaoCleary2023,Download,YaoCleary2023,,Scalable genetic screening for regulatory circuits using compressed Perturb-seq,https://doi.org/10.1101/2023.01.23.525200,Douglas Yao,Homo sapiens,RNA,7041849,h5ad,Perturb-seq,THP-1 (monocytic leukemia ),"CRISPR-cas9, CRISPRi",,monocytes,cell_line,y,,,,,2023,210131.0,38788.0,2832.0,9293.0,34.0,1.0,1.0,16243.0
-ZhaoSims2021,Download,ZhaoSims2021,,Deconvolution of Cell Type-Specific Drug Responses in Human Tumor Tissue with Single-Cell RNA-seq,https://doi.org/10.1186/s13073-021-00894-y,Wenting Zhao,Homo sapiens,RNA,7041849,h5ad,scRNA-seq,"glioblastoma, patient tissue",drugs,glioblastoma,mixed,primary,y,n,n,n,01.04.2020,2020,165748.0,6.0,1172.0,2051.0,1.0,7085.0,2683.0,88313.0
+QinTape2023_scRNAseq,Download,QinTape2023,scRNAseq,A Single-cell Perturbation Landscape of Colonic Stem Cell Polarisation,https://doi.org/10.1101/2023.02.15.528008,Xiao Qin,Mus musculus,RNA + protein (RNA),10044268,h5ad,CPA-Perturb-seq,colonic organoids,"drugs, genotype and co-cultures",,colonic epithelial cells,organoid,y,,,,,2023,68574.0,3.0,3563.5,13280.5,2.0,15450.0,8602.0,16315.0
+ReplogleWeissman2022_K562_essential,Download,ReplogleWeissman2022,K562_essential,Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq,https://doi.org/10.1016/j.cell.2022.05.013,Joseph Replogle,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,K562,CRISPRi,chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,n,01.10.2022,2022,310385.0,2057.0,3618.0,13207.0,1.0,121.0,5.0,10691.0
+ReplogleWeissman2022_K562_gwps,Download,ReplogleWeissman2022,K562_gwps,Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq,https://doi.org/10.1016/j.cell.2022.05.013,Joseph Replogle,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,K562,CRISPRi,chronic myeloid leukemia,lymphoblasts,cell_line,y,n,n,n,01.10.2022,2022,1989578.0,9866.0,3215.0,11304.0,1.0,178.0,2.0,75328.0
+ReplogleWeissman2022_rpe1,Download,ReplogleWeissman2022,rpe1,Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq,https://doi.org/10.1016/j.cell.2022.05.013,Joseph Replogle,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,,CRISPRi,chronic myeloid leukemia,epithelial,cell_line,n,n,n,n,01.10.2022,2022,247914.0,2393.0,3441.0,11940.0,1.0,72.0,2.0,11485.0
+SantinhaPlatt2023,Download,SantinhaPlatt2023,,Transcriptional linkage analysis with in vivo AAV-Perturb-seq,https://doi.org/10.1038/s41586-023-06570-y,Antonio J. Santinha,Mus musculus,RNA,10044268,h5ad,adeno-associated virus (AAV)-mediated direct in vivo single-cell CRISPR screening,brain tissue,CRISPR-cas9,healthy,neurons,primary,y,,,,,2023,100134.0,30.0,4307.0,14025.0,1.0,1581.0,148.0,54736.0
+SchiebingerLander2019_GSE106340,Download,SchiebingerLander2019,GSE106340,Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming,https://doi.org/10.1016/j.cell.2019.01.006,Geoffrey Schiebinger,Mus musculus,RNA,10044268,h5ad,plain scRNA-seq,iPSCs,cytokines,healthy,mESCs,stem,n,y,n,n,01.02.2019,2019,68339.0,1.0,2358.0,7170.0,1.0,26496.0,12006.0,29837.0
+SchiebingerLander2019_GSE115943,Download,SchiebingerLander2019,GSE115943,Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming,https://doi.org/10.1016/j.cell.2019.01.006,Geoffrey Schiebinger,Mus musculus,RNA,10044268,h5ad,plain scRNA-seq,iPSCs,cytokines,healthy,mESCs,stem,n,y,n,n,01.02.2019,2019,259155.0,2.0,2550.0,10271.0,1.0,78970.0,77967.0,102218.0
+SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_11_screen,Download,SchraivogelSteinmetz2020,TAP_SCREEN__chromosome_11_screen,Targeted Perturb-seq enables genome-scale genetic screens in single cells,https://doi.org/10.1038/s41592-020-0837-5,Daniel Schraivogel,Homo sapiens; Mus musculus,RNA,10044268,h5ad,TAP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.08.2019,2019,120310.0,3104.0,60.0,1557.0,3.0,28.0,1.0,15711.0
+SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_8_screen,Download,SchraivogelSteinmetz2020,TAP_SCREEN__chromosome_8_screen,Targeted Perturb-seq enables genome-scale genetic screens in single cells,https://doi.org/10.1038/s41592-020-0837-5,Daniel Schraivogel,Homo sapiens; Mus musculus,RNA,10044268,h5ad,TAP-seq,K562,CRISPRi,chronic myelogenous leukemia,lymphoblasts,cell_line,y,n,n,y,01.08.2019,2019,112260.0,4114.0,61.0,1218.0,3.0,19.0,1.0,20619.0
+ShifrutMarson2018,Download,ShifrutMarson2018,,Genome-wide CRISPR Screens in Primary Human T Cells Reveal Key Regulators of Immune Function,https://doi.org/10.1016/j.cell.2018.10.024,Eric Shifrut,Homo sapiens,RNA,10044268,h5ad,CROP-seq,Primary Human T Cells,"CRISPR-cas9, TCR stim",healthy,T cells,primary,n,n,n,y,01.09.2018,2018,52236.0,40.0,1894.0,5382.0,1.0,299.0,17.0,39813.0
+SrivatsanTrapnell2020_sciplex2,Download,SrivatsanTrapnell2020,sciplex2,Massively multiplex chemical transcriptomics at single-cell resolution,https://doi.org/10.1126/science.aax6234,Sanjay Srivatsan,Homo sapiens; Mus musculus,RNA,10044268,h5ad,sci-Plex (nuclear hashing),A549,drugs,lung adenocarcinoma,alveolar basal epithelial cells,cell_line,y,n,y,n,01.01.2020,2020,24262.0,4.0,2280.0,4207.0,1.0,5530.0,529.0,8064.0
+SrivatsanTrapnell2020_sciplex3,Download,SrivatsanTrapnell2020,sciplex3,Massively multiplex chemical transcriptomics at single-cell resolution,https://doi.org/10.1126/science.aax6234,Sanjay Srivatsan,Homo sapiens; Mus musculus,RNA,10044268,h5ad,sci-Plex (nuclear hashing),"A549 (lung adenocarcinoma), K562 (chronic myelogenous leukemia), and MCF7 (mammary adenocarcinoma)",drugs,multiple,multiple,cell_line,y,n,y,n,01.01.2020,2020,799317.0,188.0,953.0,1502.0,1.0,3807.5,1007.0,36522.0
+SrivatsanTrapnell2020_sciplex4,Download,SrivatsanTrapnell2020,sciplex4,Massively multiplex chemical transcriptomics at single-cell resolution,https://doi.org/10.1126/science.aax6234,Sanjay Srivatsan,Homo sapiens; Mus musculus,RNA,10044268,h5ad,sci-Plex (nuclear hashing),A549 (lung adenocarcinoma) and MCF7 (mammary adenocarcinoma),drugs,lung adenocarcinoma,alveolar basal epithelial cells,cell_line,y,n,y,n,01.01.2020,2020,98437.0,7.0,925.0,1538.0,2.0,9885.0,40.0,20015.0
+SunshineHein2023,Download,SunshineHein2023,,Systematic functional interrogation of SARS-CoV-2 host factors using Perturb-seq,https://doi.org/10.1038/s41467-023-41788-4,Sara Sunshine,Homo sapiens,RNA,10044268,h5ad,Perturb-seq with CRISPRi,Calu-3,CRISPRi,lung adenocarcinoma and SARS-CoV-2,lung epithelial cells,cell_line,y,n,n,y,,2023,90380.0,24194.0,4182.5,17626.0,156.0,1.0,1.0,16391.0
+TianKampmann2019_day7neuron,Download,TianKampmann2019,day7neuron,CRISPR Interference-Based Platform for Multimodal Genetic Screens in Human iPSC-Derived Neurons,https://doi.org/10.1016/j.neuron.2019.07.014,Ruilin Tian,Homo sapiens,RNA,10044268,h5ad,CROP-seq,iPSC derived neurons,CRISPRi,healthy,iPSC-induced neuron,primary,n,y,n,y,01.10.2019,2019,182790.0,41357.0,86.5,100.0,26.0,1.0,1.0,21895.0
+TianKampmann2019_iPSC,Download,TianKampmann2019,iPSC,CRISPR Interference-Based Platform for Multimodal Genetic Screens in Human iPSC-Derived Neurons,https://doi.org/10.1016/j.neuron.2019.07.014,Ruilin Tian,Homo sapiens,RNA,10044268,h5ad,CROP-seq,iPSC derived neurons,CRISPRi,healthy,iPSC,stem,n,y,n,y,01.10.2019,2019,275708.0,39161.0,83.0,92.0,26.0,1.0,1.0,39004.0
+TianKampmann2021_CRISPRa,Download,TianKampmann2021,CRISPRa,Genome-wide CRISPRi/a screens in human neurons link lysosomal failure to ferroptosis,https://doi.org/10.1038/s41593-021-00862-0,Ruilin Tian,Homo sapiens,RNA,10044268,h5ad,CROP-seq,human iPSC-derived neurons,CRISPRa,healthy,iPSC-induced neuron,primary,n,n,n,n,01.07.2020,2020,21193.0,100.0,3613.0,10263.0,1.0,196.0,37.0,592.0
+TianKampmann2021_CRISPRi,Download,TianKampmann2021,CRISPRi,Genome-wide CRISPRi/a screens in human neurons link lysosomal failure to ferroptosis,https://doi.org/10.1038/s41593-021-00862-0,Ruilin Tian,Homo sapiens,RNA,10044268,h5ad,CROP-seq,human iPSC-derived neurons,CRISPRi,healthy,iPSC-induced neuron,primary,n,n,n,n,01.07.2020,2020,32300.0,184.0,4521.0,13609.0,1.0,166.0,45.0,437.0
+WeinrebKlein2020,Download,WeinrebKlein2020,,Lineage tracing on transcriptional landscapes links state to fate during differentiation,https://doi.org/10.1126/science.aaw3381,Caleb Weinreb,Mus musculus,RNA,10044268,h5ad,clonal tagging (LARRY),hematopoiesis / mouse bone marrow,cytokines,healthy,mixed hematopoeitic,stem,n,y,n,n,01.11.2020,2020,65075.0,4.0,1333.0,3229.886474609375,1.0,9815.0,6113.0,26306.0
+WesselsSatija2023,Download,WesselsSatija2023,,Efficient combinatorial targeting of RNA transcripts in single cells with Cas13 RNA Perturb-seq ,https://doi.org/10.1038/s41592-022-01705-x,Hans-Hermann Wessels,Homo sapiens; Mus musculus,RNA,10044268,h5ad,CaRPool-seq,"AML cell lines (HEK293FT, NIH/3T3, or THP1 cells)",CRISPR-cas13,AML,myeloid cells,cell_line,y,n,n,y,,2023,30707.0,186.0,2751.0,8782.0,2.0,140.0,15.0,773.0
+XieHon2017,Download,XieHon2017,,Multiplexed engineering and analysis of endogenous enhancer activity in single cells,https://doi.org/10.1016/j.molcel.2017.03.007,Shiqi Xie,Homo sapiens; Mus musculus,RNA,10044268,h5ad,Mosaic-seq,K562,CRISPR-cas9,chronic myeloid leukemia,lymphoblasts,cell_line,n,n,n,partially (CRISPR),01.03.2016,2016,13283.0,3384.0,3186.0,46619.0,15.0,1.0,1.0,7063.0
+XuCao2023,Download,XuCao2023,,Dissecting key regulators of transcriptome kinetics through scalable single-cell RNA profiling of pooled CRISPR screen,https://doi.org/10.1038/s41587-023-01948-9,Zihan Xu,Homo sapiens,RNA,10044268,h5ad,PerturbSci-Kinetics,HEK293,CRISPRi,healthy,embryonic kidney cells,cell_line,n,,,,,2023,98315.0,203.0,1210.0,2155.0,1.0,401.0,3.0,2758.0
+YaoCleary2023,Download,YaoCleary2023,,Scalable genetic screening for regulatory circuits using compressed Perturb-seq,https://doi.org/10.1101/2023.01.23.525200,Douglas Yao,Homo sapiens,RNA,10044268,h5ad,Perturb-seq,THP-1 (monocytic leukemia ),"CRISPR-cas9, CRISPRi",,monocytes,cell_line,y,,,,,2023,210131.0,38788.0,2832.0,9293.0,34.0,1.0,1.0,16243.0
+ZhaoSims2021,Download,ZhaoSims2021,,Deconvolution of Cell Type-Specific Drug Responses in Human Tumor Tissue with Single-Cell RNA-seq,https://doi.org/10.1186/s13073-021-00894-y,Wenting Zhao,Homo sapiens,RNA,10044268,h5ad,scRNA-seq,"glioblastoma, patient tissue",drugs,glioblastoma,mixed,primary,y,n,n,n,01.04.2020,2020,165748.0,6.0,1172.0,2051.0,1.0,7085.0,2683.0,88313.0
diff --git a/website/index.html b/website/index.html
index 07e93e3..0626190 100644
--- a/website/index.html
+++ b/website/index.html
@@ -29,13 +29,13 @@ <h1>Single Cell Perturbation Datasets</h1>
             <h2>Read more and cite scPerturb</h2>
             <p>scPerturb: harmonized single-cell perturbation data
 Stefan Peidli, Tessa Durakis Green, Ciyue Shen, Torsten Gross, Joseph Min, Samuele Garda, Bo Yuan, Linus J. Schumacher, Jake P. Taylor-King, Debora S. Marks, Augustin Luna, Nils Blüthgen, Chris Sander
-bioRxiv 2022.08.20.504663; doi: <a href="https://doi.org/10.1101/2022.08.20.504663" target="_blank">10.1101/2022.08.20.504663</a></p>
+Nature Methods 2024; doi: <a href="https://doi.org/10.1038/s41592-023-02144-y" target="_blank">10.1038/s41592-023-02144-y</a></p>
             <h2>Data Explorer</h2>
-            <p>Explore dataset properties <a href="datavzrd/scPerturb_vzrd_v1/dataset_info/index_1.html" target="_blank">here</a> (e.g., links to publications, perturbation type, perturbation counts, etc.)</p>
+            <p>Explore dataset properties <a href="datavzrd/scPerturb_vzrd_v2/dataset_info/index_1.html" target="_blank">here</a> (e.g., links to publications, perturbation type, perturbation counts, etc.)</p>
             <h2>Data</h2>
             <ul>
-                <li>RNA-seq datasets: <a href="https://zenodo.org/record/7041849" target="_blank">zenodo.org/record/7041849</a></li>
-                <li>ATAC-seq: <a href="https://zenodo.org/record/7058382" target="_blank">zenodo.org/record/7058382</a></li>
+                <li>RNA-seq datasets: <a href="https://zenodo.org/doi/10.5281/zenodo.7041848" target="_blank">zenodo.org/doi/10.5281/zenodo.7041848</a></li>
+                <li>ATAC-seq: <a href="https://zenodo.org/doi/10.5281/zenodo.7058381" target="_blank">zenodo.org/doi/10.5281/zenodo.7058381</a></li>
                 <li>Dataset information: <a href="https://www.biorxiv.org/content/biorxiv/early/2022/08/22/2022.08.20.504663/DC1/embed/media-1.xlsx?download=true" target="_blank">bioRxiv Supplementary Table 1</a></li>
             </ul>
             <h2>Source Code</h2>