Mapping the Human Genetic Interaction Network with CRISPRi
A resource for displaying data from 3 publications using a dual-sgRNA platform to measure genetic interactions:
Mapping the Genetic Interaction Network of PARP inhibitor Response
Danny Simpson*, Jia Ling*, Yangwode Jing, Britt Adamson
Environmental challenge rewires functional connections among human genes
Benjamin W. Herken, Garrett T. Wong, Thomas M. Norman, Luke A. Gilbert
Mapping the genetic landscape of human cells
Max A. Horlbeck, Albert Xu, Min Wang, ..., Jonathan S. Weissman, and Luke A. Gilbert
ThThis phenotype doesn't exist for this dataset.
ThThis phenotype doesn't exist for this dataset.
Nearby Interactions
γGI Heatmap
Gene list must be unified across datasets to display plot.
τGI Heatmap
Gene list must be unified across datasets to display plot.
This phenotype doesn't exist for this dataset.
νGI Heatmap
Gene list must be unified across datasets to display plot.
This phenotype doesn't exist for this dataset.
Nearby Interactions
FAQ
What do gamma (γ), tau (τ), rho (ρ), and nu (ν) mean?
These indicate the different measurements made in the two arm screens. Gamma refers to growth-based measurements made in the reference (control) arm, tau to those made in the treated arm, and rho phenotypes describe drug sensitization by normalizing the treated arm to the reference arm. Finally, nu GI scores are the difference between tau and gamma GI scores.
What are lists?
Up to 5 gene lists can be saved each session for heatmap visualization. Genes can be saved to lists by using the 'Define Gene Subsets' tabs, and lists can be overwritten if needed. Gene lists can be edited and downloaded for future use using the 'View and Edit Saved Lists' tab.
Why are the heatmaps so slow to load?
When large numbers of genes are selected for visualization, the combined work of clustering and plotting takes a little longer to perform; don't worry, your plot should appear within a few seconds!
Why are the data from the Horlbeck et al. screens different from the previously published results?
These screens were re-analyzed using the same processing pipeline as the Simpson and Ling et al. screens so that all needed information for generating plots in this application were available.
Were all datasets analyzed using the same pipeline?
No; screens from the Herken et al. manuscript were analyzed separately using a highly similar but distinct pipeline.
Where can I find more information?
Please refer to our manuscripts.
These indicate the different measurements made in the two arm screens. Gamma refers to growth-based measurements made in the reference (control) arm, tau to those made in the treated arm, and rho phenotypes describe drug sensitization by normalizing the treated arm to the reference arm. Finally, nu GI scores are the difference between tau and gamma GI scores.
What are lists?
Up to 5 gene lists can be saved each session for heatmap visualization. Genes can be saved to lists by using the 'Define Gene Subsets' tabs, and lists can be overwritten if needed. Gene lists can be edited and downloaded for future use using the 'View and Edit Saved Lists' tab.
Why are the heatmaps so slow to load?
When large numbers of genes are selected for visualization, the combined work of clustering and plotting takes a little longer to perform; don't worry, your plot should appear within a few seconds!
Why are the data from the Horlbeck et al. screens different from the previously published results?
These screens were re-analyzed using the same processing pipeline as the Simpson and Ling et al. screens so that all needed information for generating plots in this application were available.
Were all datasets analyzed using the same pipeline?
No; screens from the Herken et al. manuscript were analyzed separately using a highly similar but distinct pipeline.
Where can I find more information?
Please refer to our manuscripts.