Orobas: A computational approach for scoring and analysis of quantitative chemical-genetic interactions from CRISPR-Cas9 screens

Arshia Z. Hassan; Xiang Zhang; Henry N. Ward; Maximilian Billmann; Salem Bajjali; Kevin R. Brown; Urvi Bhojoo; Katherine Chan; Kevin Lin; Michael Costanzo; Brenda Andrews; Charles Boone; Jason Moffat; Chad L. Myers

doi:10.1016/j.xpro.2026.104594

Orobas: A computational approach for scoring and analysis of quantitative chemical-genetic interactions from CRISPR-Cas9 screens

Arshia Z. Hassan
, Xiang Zhang
, Henry N. Ward
, Maximilian Billmann
, Salem Bajjali
, Kevin R. Brown
, Urvi Bhojoo
, Katherine Chan
, Kevin Lin
, Michael Costanzo
, Brenda Andrews
, Charles Boone
, Jason Moffat
, Chad L. Myers

Computer Science and Engineering

Research output: Contribution to journal › Article › peer-review

Abstract

We present Orobas, a computational approach for transforming raw read count data from CRISPR-Cas9 chemical-genetic screens into quantitative interaction scores. We describe steps for computing differential interaction scores with statistical tests that account for multiple CRISPR guides per gene. We then outline approaches for post-processing differential log₂-fold-change scores across multiple screens, incorporating normalization to reduce technical artifacts and correct batch effects.

Original language	English (US)
Article number	104594
Journal	STAR Protocols
Volume	7
Issue number	2
DOIs	https://doi.org/10.1016/j.xpro.2026.104594
State	Published - Jun 19 2026

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Copyright © 2026. Published by Elsevier Inc.

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10.1016/j.xpro.2026.104594

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Hassan, A. Z., Zhang, X., Ward, H. N., Billmann, M., Bajjali, S., Brown, K. R., Bhojoo, U., Chan, K., Lin, K., Costanzo, M., Andrews, B., Boone, C., Moffat, J., & Myers, C. L. (2026). Orobas: A computational approach for scoring and analysis of quantitative chemical-genetic interactions from CRISPR-Cas9 screens. STAR Protocols, 7(2), Article 104594. https://doi.org/10.1016/j.xpro.2026.104594

Hassan, AZ, Zhang, X, Ward, HN, Billmann, M, Bajjali, S, Brown, KR, Bhojoo, U, Chan, K, Lin, K, Costanzo, M, Andrews, B, Boone, C, Moffat, J & Myers, CL 2026, 'Orobas: A computational approach for scoring and analysis of quantitative chemical-genetic interactions from CRISPR-Cas9 screens', STAR Protocols, vol. 7, no. 2, 104594. https://doi.org/10.1016/j.xpro.2026.104594

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abstract = "We present Orobas, a computational approach for transforming raw read count data from CRISPR-Cas9 chemical-genetic screens into quantitative interaction scores. We describe steps for computing differential interaction scores with statistical tests that account for multiple CRISPR guides per gene. We then outline approaches for post-processing differential log2-fold-change scores across multiple screens, incorporating normalization to reduce technical artifacts and correct batch effects.",

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AU - Ward, Henry N.

AU - Billmann, Maximilian

AU - Bajjali, Salem

AU - Brown, Kevin R.

AU - Bhojoo, Urvi

AU - Chan, Katherine

AU - Lin, Kevin

AU - Costanzo, Michael

AU - Andrews, Brenda

AU - Boone, Charles

AU - Moffat, Jason

AU - Myers, Chad L.

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Orobas: A computational approach for scoring and analysis of quantitative chemical-genetic interactions from CRISPR-Cas9 screens

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