Nucleic Acids Research
11 July 2022
A transformation clustering algorithm and its application in polyribosomes structural profiling
Wenhong Jiang1, Jonathan Wagner2,3, Wenjing Du1, Juergen Plitzko4, Wolfgang Baumeister2, Florian Beck4 and Qiang Guo1,5
1 State Key Laboratory of Protein and Plant Gene Research, Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, School of Life Sciences, Peking University, Beijing 100871, China,
2 Department of Structural Molecular Biology, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany,
3 Department of Cellular Biochemistry, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany,
4 CryoEM Technology, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany,
5 Changping Laboratory, Beijing, China
10.1093/nar/gkac547
Improvements in cryo-electron tomography sample preparation, electron-microscopy instrumentations, and image processing algorithms have advanced the structural analysis of macromolecules in situ. Beyond such analyses of individual macromolecules, the study of their interactions with functionally related neighbors in crowded cellular habitats, i.e. ‘molecular sociology’, is of fundamental importance in biology. Here we present a NEighboring Molecule TOpology Clustering (NEMO-TOC) algorithm. We optimized this algorithm for the detection and profiling of polyribosomes, which play both constitutive and regulatory roles in gene expression. Our results suggest a model where polysomes are formed by connecting multiple nonstochastic blocks, in which translation is likely synchronized.
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