Recent papers
T Barry, K Mason, K Roeder, E Katsevich. “Robust differential expression testing for single-cell CRISPR screens at low multiplicity of infection,” Genome Biology, to appear. [BioRxiv preprint] [Replication code]. (Mihaela Serban Memorial Award, American Statistical Association, Pittsburgh chapter)
T Barry, K Roeder, E Katsevich. “Exponential family measurement error models for single-cell CRISPR screens.” Biostatistics, to appear. [arXiv preprint] [Replication code].
T Barry, X Wang, J Morris, K Roeder, E Katsevich. “SCEPTRE improves calibration and sensitivity in single-cell CRISPR screen analysis.” Genome Biology, 2021. [Journal] [Replication code]. (Reviewers’ choice, American Society of Human Genetics conference)
J Morris, C Caragine, Z Daniloski, J Domingo, T Barry, L Lu, K Davis, M Ziosi, D Glinos, S Hao, E Mimitou, P Smibert, K Roeder, E Katsevich, T Lappalainen, N Sanjana. “Discovery of target genes and pathways at GWAS loci by pooled single-cell CRISPR screens.” Science, 2023. [Journal].
Book
T Barry, J Deutsch, E Katsevich. “Hands-on single-cell CRISPR screen analysis,” updated April 2024. [ebook preprint]
Software
- sceptre: statistically rigorous, massively scalable single-cell CRISPR screen analysis
- ondisc: out-of-core and cluster-scale computing on single-cell data
Broader use of these tools
Industry: 10x Genomics (main commercial supplier of single-cell CRISPR screen kits)
Research studies: Morris et al., Science 2023; Tuano et al., Genome Biology 2023