Alejandro Sanchez-Flores is the Head of Sequencing and Bioinformatics Unit at Universidad Nacional Autónoma de México in Mexico City. He talked to Tools of Science about his work, the platforms he uses and choices to be made for different sequencing projects.
Alejandro talks about providing experimental design for his clients.
Alejandro’s Tools of Science
Most of Alejandro’s projects run on the MiSeq or the NextSeq. He uses the MiSeq for amplicons and targeted resequencing, taking advantage of the paired end reads of 300 bp. For transcriptomes, exomes or small genomes, he relies on the NextSeq. When he needs more yield for larger projects, he outsources the project to be done on a HiSeq in Korea.
Alejandro explains how he chooses to run the MiSeq vs the Next Seq or outsource to a HiSeq. He describes the trade-offs as a love triangle: Cost, Time, Quality. The MiSeq and NextSeq deliver results within about 2 days. Projects sent to Korea take about a month and a half.