Contact

  • Academic
    ateecup@stanford.edu
    University - Student Department: Mathematics Position: Undergraduate
    University - Student Department: Music Position: Undergraduate
    University - Student Department: Computer Science Position: Graduate

Additional Info

  • Mail Code: 9015

All Publications

  • EasyDIVER + : An Advanced Tool for Analyzing High Throughput Sequencing Data from In Vitro Evolution of Nucleic Acids or Amino Acids. Journal of molecular evolution Blanco, C., Tee, A., Sharma, P., Newton, M. S., Lee, K. H., Erickson, S. E., Seelig, B., Chen, I. A. 2025

    Abstract

    In vitro evolution is a powerful technique for identifying functional nucleic acids and peptides, but the analysis of the resulting high-throughput sequencing data poses significant challenges, particularly in peptide selections. Existing bioinformatics tools often lack the specificity needed for this task, leaving researchers to navigate complex datasets with inadequate resources. To address these challenges, we present EasyDIVER + , an enhanced pipeline building on the foundation of the original EasyDIVER tool, which was designed for pre-processing sequencing data. EasyDIVER + not only processes raw, paired-end, demultiplexed Illumina read files but also introduces advanced analytical capabilities, including the calculation of enrichment values for each unique sequence across consecutive selection rounds. Furthermore, EasyDIVER + offers a highly flexible and customizable visualization platform, enabling detailed graphical representations of sequence metrics. These new features mark a significant advance in bioinformatics for peptide and protein data, providing researchers with intuitive tools for comprehensive data analysis and interpretation.

    View details for DOI 10.1007/s00239-025-10244-w

    View details for PubMedID 40186644

    View details for PubMedCentralID 4354339