Image: Marina Resnyanskaya, Elena Goun, and Aleksey Yevtodiyenko. Cover design: Erin Dewalt.

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Latest Research

  • Article |

    Tagging live single cells and nuclei with lipid- or cholesterol-modified oligonucleotides enables massive scRNA-seq sample multiplexing, identifies doublets and recovers cells with low RNA content.

    • Christopher S. McGinnis
    • , David M. Patterson
    • , Juliane Winkler
    • , Daniel N. Conrad
    • , Marco Y. Hein
    • , Vasudha Srivastava
    • , Jennifer L. Hu
    • , Lyndsay M. Murrow
    • , Jonathan S. Weissman
    • , Zena Werb
    • , Eric D. Chow
    •  & Zev J. Gartner
  • Article |

    The ‘jGCaMP7’ sensors are four genetically encoded calcium indicators with better sensitivity than state-of-the-art GCaMP6 and specifically improved for applications such as neuropil or wide-field imaging. The sensors are validated in vivo in both flies and mice.

    • Hod Dana
    • , Yi Sun
    • , Boaz Mohar
    • , Brad K. Hulse
    • , Aaron M. Kerlin
    • , Jeremy P. Hasseman
    • , Getahun Tsegaye
    • , Arthur Tsang
    • , Allan Wong
    • , Ronak Patel
    • , John J. Macklin
    • , Yang Chen
    • , Arthur Konnerth
    • , Vivek Jayaraman
    • , Loren L. Looger
    • , Eric R. Schreiter
    • , Karel Svoboda
    •  & Douglas S. Kim
  • Article |

    FEAST provides a computationally efficient tool to estimate the contribution of microbial sources to a target microbial community, as demonstrated for a variety of complex environmental samples.

    • Liat Shenhav
    • , Mike Thompson
    • , Tyler A. Joseph
    • , Leah Briscoe
    • , Ori Furman
    • , David Bogumil
    • , Itzhak Mizrahi
    • , Itsik Pe’er
    •  & Eran Halperin
  • Article |

    A deep learning–based tool, Prosit, predicts high-quality peptide tandem mass spectra, improving peptide-identification performance compared with that of traditional proteomics analysis methods.

    • Siegfried Gessulat
    • , Tobias Schmidt
    • , Daniel Paul Zolg
    • , Patroklos Samaras
    • , Karsten Schnatbaum
    • , Johannes Zerweck
    • , Tobias Knaute
    • , Julia Rechenberger
    • , Bernard Delanghe
    • , Andreas Huhmer
    • , Ulf Reimer
    • , Hans-Christian Ehrlich
    • , Stephan Aiche
    • , Bernhard Kuster
    •  & Mathias Wilhelm
  • Brief Communication |

    HiChIRP combines a modified chromosome conformation capture protocol with enrichment of RNA-associated chromosome conformation to visualize genome-wide looping linked to an RNA of interest.

    • Maxwell R. Mumbach
    • , Jeffrey M. Granja
    • , Ryan A. Flynn
    • , Caitlin M. Roake
    • , Ansuman T. Satpathy
    • , Adam J. Rubin
    • , Yanyan Qi
    • , Zhaozhao Jiang
    • , Shadi Shams
    • , Bryan H. Louie
    • , Jimmy K. Guo
    • , David G. Gennert
    • , M. Ryan Corces
    • , Paul A. Khavari
    • , Maninjay K. Atianand
    • , Steven E. Artandi
    • , Katherine A. Fitzgerald
    • , William J. Greenleaf
    •  & Howard Y. Chang

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