James A. Stapleton
Michigan State University
18 Papers
100 Citations
James A. Stapleton is an academic researcher from Michigan State University. The author has contributed to research in topics: Hydrogenase & Messenger RNA. The author has an hindex of 13, co-authored 18 publications. Previous affiliations of James A. Stapleton include Stanford University & Rutgers University.
Chat about Author
Papers
The khmer software package: enabling efficient nucleotide sequence analysis.
Michael R. Crusoe,Hussien F. Alameldin,Sherine Awad,Elmar Boucher,Adam Caldwell,Reed A. Cartwright,Amanda Charbonneau,Bede Constantinides,Greg Edvenson,Scott Fay,Jacob Fenton,Thomas Fenzl,Jordan A. Fish,Leonor Garcia-Gutierrez,Phillip Garland,Jonathan Gluck,Ivan Gonzalez,Sarah Guermond,Jiarong Guo,Aditi Gupta,Joshua R. Herr,Adina Howe,Alex Hyer,Andreas Härpfer,Luiz Irber,Rhys Kidd,David Lin,Justin Lippi,Tamer A. Mansour,Pamela McA'Nulty,Eric McDonald,Jessica E. Mizzi,Kevin D Murray,Joshua R. Nahum,Kaben G. Nanlohy,Alexander J. Nederbragt,Humberto Ortiz-Zuazaga,Jeramia Ory,Jason Pell,Charles Pepe-Ranney,Zachary N. Russ,Erich M. Schwarz,Camille Scott,Josiah Seaman,Scott Sievert,Jared T. Simpson,Connor T. Skennerton,James S. Spencer,Ramakrishnan Srinivasan,Daniel S. Standage,James A. Stapleton,Susan R. Steinman,Joe Stein,Benjamin R Taylor,Will Trimble,Heather L. Wiencko,Michael Wright,Brian Wyss,Qingpeng Zhang,en zyme,C. Titus Brown +60 more
TL;DR: Khmer as discussed by the authors is a free software library for working efficiently with fixed length DNA words, or k-mers, which provides implementations of a probabilistic k-mer counting data structure, a compressible De Bruijn graph representation, De Bruhen graph partitioning, and digital normalization.
Plasmid-based one-pot saturation mutagenesis
Emily E. Wrenbeck,Justin R. Klesmith,James A. Stapleton,Adebola Adeniran,Keith E. J. Tyo,Timothy A. Whitehead +5 more
TL;DR: Nicking Mutagenesis is presented, a robust, single-day, one-pot saturation mutagenesis method performed on routinely prepped plasmid dsDNA that can be used to produce comprehensive or single- or multi-site saturation mutageneesis libraries.
Cell-free synthesis and maturation of [FeFe] hydrogenases.
TL;DR: The first expression of functional [FeFe] hydrogenases in an Escherichia coli‐based cell‐free transcription/translation system is shown, enabling rapid production of active protein and providing control over the maturation conditions.
132
Feedback control of protein expression in mammalian cells by tunable synthetic translational inhibition.
James A. Stapleton,Kei Endo,Yoshihiko Fujita,Karin Hayashi,Masahiro Takinoue,Hirohide Saito,Tan Inoue +6 more
TL;DR: It is demonstrated that the L7Ae protein can simultaneously and tunably regulate the expression of multiple proteins of interest by binding RNA control motifs built into each mRNA, allowing control over the coordinated expression of protein networks.
108
Development of an In Vitro Compartmentalization Screen for High-Throughput Directed Evolution of [FeFe] Hydrogenases
TL;DR: An extremely high-throughput IVC screen for oxygen-tolerant [FeFe] hydrogenases, the most complex enzymes to be produced by cell-free protein synthesis, and the most challenging targets to which IVC has yet been applied is described.