title: PHASTpep: Analysis Software for Discovery of Cell-Selective Peptides via Phage Display and Next-Generation Sequencing.
abstract: Next-generation sequencing has enhanced the phage display process, allowing for the quantification of millions of sequences resulting from the biopanning process. In response, many valuable analysis programs focused on specificity and finding targeted motifs or consensus sequences were developed. For targeted drug delivery and molecular imaging, it is also necessary to find peptides that are selective-targeting only the cell type or tissue of interest. We present a new analysis strategy and accompanying software, PHage Analysis for Selective Targeted PEPtides (PHASTpep), which identifies highly specific and selective peptides. Using this process, we discovered and validated, both in vitro and in vivo in mice, two sequences (HTTIPKV and APPIMSV) targeted to pancreatic cancer-associated fibroblasts that escaped identification using previously existing software. Our selectivity analysis makes it possible to discover peptides that target a specific cell type and avoid other cell types, enhancing clinical translatability by circumventing complications with systemic use.
authors.affiliation: Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22908, United States of America.|Cardiovascular Research Center, University of Virginia, Charlottesville, Virginia, 22908, United States of America.
authors.forename: Lindsey T
authors.initials: LT
authors.lastname: Brinton
authors.affiliation: Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22908, United States of America.|Cardiovascular Research Center, University of Virginia, Charlottesville, Virginia, 22908, United States of America.
authors.forename: Dustin K
authors.initials: DK
authors.lastname: Bauknight
authors.affiliation: Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22908, United States of America.|Cardiovascular Research Center, University of Virginia, Charlottesville, Virginia, 22908, United States of America.
authors.forename: Siva Sai Krishna
authors.initials: SS
authors.lastname: Dasa
authors.affiliation: Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22908, United States of America.|Cardiovascular Research Center, University of Virginia, Charlottesville, Virginia, 22908, United States of America.
authors.forename: Kimberly A
authors.initials: KA
authors.lastname: Kelly
mesh_terms: D000595:Amino Acid Sequence; D061505:Cell Surface Display Techniques; D019295:Computational Biology / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing; D019151:Peptide Library; D010455:Peptides / Q000737:chemistry* / Q000235:genetics*; D015203:Reproducibility of Results; D012984:Software
chemical_list: D019151:Peptide Library; D010455:Peptides