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Piscis: a novel loss estimator of the F1 score enables accurate spot detection in fluorescence microscopy images via deep learning.

Autor: Niu Z; Department of Chemistry, School of Arts and Sciences, University of Pennsylvania, Philadelphia, PA, USA.; Department of Physics and Astronomy, School of Arts and Sciences, University of Pennsylvania, Philadelphia, PA, USA., O'Farrell A; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Li J; Genetics and Epigenetics, Cell and Molecular Biology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Reffsin S; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Jain N; Genetics and Epigenetics, Cell and Molecular Biology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Dardani I; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Goyal Y; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA.; Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA.; Center for Synthetic Biology, Northwestern University, Chicago, IL, USA.; Robert H. Lurie Comprehensive Cancer Center, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA., Raj A; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA.; Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Jan 31. Date of Electronic Publication: 2024 Jan 31.

Retrospective identification of intrinsic factors that mark pluripotency potential in rare somatic cells.

Autor: Jain N; Genetics and Epigenetics Program, Cell and Molecular Biology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Goyal Y; Department of Cell and Developmental Biology, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA.; Center for Synthetic Biology, Northwestern University, Chicago, IL, USA.; Robert H. Lurie Comprehensive Cancer Center, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA.; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Dunagin MC; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Cote CJ; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Mellis IA; Genomics and Computational Biology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Emert B; Genomics and Computational Biology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Jiang CL; Genetics and Epigenetics Program, Cell and Molecular Biology Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Dardani IP; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Reffsin S; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA., Raj A; Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA, USA.; Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2023 Feb 10. Date of Electronic Publication: 2023 Feb 10.

Subcellular Detection of SARS-CoV-2 RNA in Human Tissue Reveals Distinct Localization in Alveolar Type 2 Pneumocytes and Alveolar Macrophages.

Autor: Acheampong KK; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Schaff DL; Department of Bioengineering, School of Engineering and Applied Science, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Emert BL; Genomics and Computational Biology Graduate Group, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Lake J; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Reffsin S; Department of Bioengineering, School of Engineering and Applied Science, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Shea EK; Department of Cancer Biology, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Comar CE; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.; Department of Microbiology, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.; Penn Center for Research on Coronaviruses and Other Emerging Pathogens, Philadelphia, Pennsylvania, USA.; Clinical Microbiology Laboratory, Hospital of the University of Pennsylvania, Philadelphia, Pennsylvania, USA.; Infectious Disease Diagnostics Laboratory, The Children's Hospital of Philadelphia, Philadelphia, Pennsylvania, USA., Litzky LA; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Khurram NA; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.; Department of Pathology, Northwestern Universitygrid.16753.36, Feinberg School of Medicine, Chicago, Illinois, USA., Linn RL; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.; Division of Anatomic Pathology, The Children's Hospital of Philadelphia, Philadelphia, Pennsylvania, USA., Feldman M; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Weiss SR; Department of Microbiology, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.; Penn Center for Research on Coronaviruses and Other Emerging Pathogens, Philadelphia, Pennsylvania, USA., Montone KT; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Cherry S; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.; Penn Center for Research on Coronaviruses and Other Emerging Pathogens, Philadelphia, Pennsylvania, USA.; Department of Biochemistry and Biophysics, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA., Shaffer SM; Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.; Department of Bioengineering, School of Engineering and Applied Science, University of Pennsylvaniagrid.25879.31, Philadelphia, Pennsylvania, USA.

Publikováno v: MBio [mBio] 2021 Feb 22; Vol. 13 (1), pp. e0375121. Date of Electronic Publication: 2022 Feb 08.