Designing and implementing programmable depletion in sequencing libraries with DASHit

Dynerman, D.; Lyden, A.; Quan, J.; Caldera, S.; McGeever, A.; Dimitrov, B.; King, R.; Cirola, G.; Tan, M.; Sit, R.; van den Berge, M.; Kerstjens, H. A. M.; Faiz, A.; Christenson, S.; Langelier, C.; DeRisi, J.; Crawford, E. D.

doi:10.1101/2020.01.12.891176

bioRxiv · 10.1101/2020.01.12.891176

Designing and implementing programmable depletion in sequencing libraries with DASHit

Dynerman, D.·Lyden, A.·Quan, J.·Caldera, S.·McGeever, A.·Dimitrov, B.·King, R.·Cirola, G.·Tan, M.·Sit, R.·van den Berge, M.·Kerstjens, H. A. M.·Faiz, A.·Christenson, S.·Langelier, C.·DeRisi, J.·Crawford, E. D.

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Abstract

Since Next-Generation Sequencing produces reads uniformly subsampled from an input library, highly abundant sequences may mask interesting low abundance sequences. The DASH (Depleting Abundant Sequences by Hybridization) technique takes advantage of the programmability of CRISPR/Cas9 to deplete unwanted high-abundance sequences. Because desired depletion targets vary by sample type, here we describe DASHit, software that outputs an optimal DASH target set given a sequencing dataset, an updated DASH protocol, and show depletion results with DASHit-designed targets for three different species.

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Dynerman, D., Lyden, A., Quan, J., Caldera, S., McGeever, A., Dimitrov, B., King, R., Cirola, G., Tan, M., Sit, R., van den Berge, M., Kerstjens, H. A. M., Faiz, A., Christenson, S., Langelier, C., DeRisi, J., Crawford, E. D.. 2020-01-13. Designing and implementing programmable depletion in sequencing libraries with DASHit. https://doi.org/10.1101/2020.01.12.891176

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