Jupyter notebook-based tools for building structured datasets from the Sequence Read Archive. - Matthew N. Bernstein; Ariella L. Gladstein; Khun Zaw Latt; Emily Clough; Ben Busby; Allissa Dillman (F1000Research, 2020)

CHARTS: a web application for characterizing and comparing tumor subpopulations in publicly available single-cell RNA-seq data sets. - Matthew N. Bernstein; Zijian Ni; Michael Collins; Mark E. Burkard; Christina Kendziorski; Ron M. Stewart (BMC Bioinform., 2021)