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Wangsanuwat C, Heom KA, Liu E, O’Malley MA, Dey SS. 2020. Efficient and cost-effective bacterial mRNA sequencing from low input samples through ribosomal RNA depletion. BMC genomics. 21:1–12.

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Wangsanuwat C, Aldeguer JF, Rivron NC, Dey SS. 2019. A probabilistic framework for cellular lineage reconstruction using single-cell 5-hydroxymethylcytosine sequencing. bioRxiv. :739300.

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Rooijers K, Markodimitraki CM, Rang FJ, de Vries SS, Chialastri A, de Luca KL, Mooijman D, Dey SS, Kind J. 2019. scDam&T-seq combines DNA adenine methyltransferase-based labeling of protein-DNA contact sites with transcriptome sequencing to analyze regulatory programs in single cells. Nature biotechnology. 37:766.

Rooijers K, Markodimitraki CM, Rang FJ, de Vries SS, Chialastri A, de Luca KL, Mooijman D, Dey SS, Kind J. 2019. Simultaneous quantification of protein–DNA contacts and transcriptomes in single cells. Nature biotechnology. :1.

Markodimitraki CM, Rang FJ, Rooijers K, de Vries SS, Chialastri A, de Luca KL, Lochs SJA, Mooijman D, Dey SS, Kind J. 2020. Simultaneous quantification of protein–DNA interactions and transcriptomes in single cells with scDam&T-seq. Nature Protocols. :1–32.

Sen M, Mooijman D, Boisset J-C, Chialastri A, Popovic M, Heindryckx B, Lopes SMChuva de, Dey SS, van Oudenaarden A. 2019. Strand-specific single-cell methylomics reveals distinct modes of DNA demethylation dynamics during early mammalian development. bioRxiv. :804526.

Acknowledgements

Please acknowledge the CSC in publications and presentations if you are using our facilities computing resources in your research.

Use was made of computational facilities purchased with funds from the National Science Foundation (CNS-1725797) and administered by the Center for Scientific Computing (CSC). The CSC is supported by the California NanoSystems Institute and the Materials Research Science and Engineering Center (MRSEC; NSF DMR 1720256) at UC Santa Barbara.