Literature DB >> 30202089

Experimental and computational framework for a dynamic protein atlas of human cell division.

Yin Cai1,2, M Julius Hossain1, Jean-Karim Hériché1, Antonio Z Politi1,3, Nike Walther1, Birgit Koch1,4, Malte Wachsmuth1,5, Bianca Nijmeijer1, Moritz Kueblbeck1, Marina Martinic-Kavur6,7, Rene Ladurner6,8, Stephanie Alexander1, Jan-Michael Peters6, Jan Ellenberg9.   

Abstract

Essential biological functions, such as mitosis, require tight coordination of hundreds of proteins in space and time. Localization, the timing of interactions and changes in cellular structure are all crucial to ensure the correct assembly, function and regulation of protein complexes1-4. Imaging of live cells can reveal protein distributions and dynamics but experimental and theoretical challenges have prevented the collection of quantitative data, which are necessary for the formulation of a model of mitosis that comprehensively integrates information and enables the analysis of the dynamic interactions between the molecular parts of the mitotic machinery within changing cellular boundaries. Here we generate a canonical model of the morphological changes during the mitotic progression of human cells on the basis of four-dimensional image data. We use this model to integrate dynamic three-dimensional concentration data of many fluorescently knocked-in mitotic proteins, imaged by fluorescence correlation spectroscopy-calibrated microscopy5. The approach taken here to generate a dynamic protein atlas of human cell division is generic; it can be applied to systematically map and mine dynamic protein localization networks that drive cell division in different cell types, and can be conceptually transferred to other cellular functions.

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Year:  2018        PMID: 30202089      PMCID: PMC6556381          DOI: 10.1038/s41586-018-0518-z

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  33 in total

Review 1.  Dissecting the mechanisms of cell division.

Authors:  Joseph Y Ong; Jorge Z Torres
Journal:  J Biol Chem       Date:  2019-06-07       Impact factor: 5.157

Review 2.  Spatial proteomics: a powerful discovery tool for cell biology.

Authors:  Emma Lundberg; Georg H H Borner
Journal:  Nat Rev Mol Cell Biol       Date:  2019-05       Impact factor: 94.444

3.  CTCF chromatin residence time controls three-dimensional genome organization, gene expression and DNA methylation in pluripotent cells.

Authors:  Widia Soochit; Frank Sleutels; Gregoire Stik; Frank Grosveld; Ralph Stadhouders; Niels Galjart; Marek Bartkuhn; Sreya Basu; Silvia C Hernandez; Sarra Merzouk; Enrique Vidal; Ruben Boers; Joachim Boers; Michael van der Reijden; Bart Geverts; Wiggert A van Cappellen; Mirjam van den Hout; Zeliha Ozgur; Wilfred F J van IJcken; Joost Gribnau; Rainer Renkawitz; Thomas Graf; Adriaan Houtsmuller
Journal:  Nat Cell Biol       Date:  2021-07-29       Impact factor: 28.824

Review 4.  Membrane and organelle dynamics during cell division.

Authors:  Jeremy G Carlton; Hannah Jones; Ulrike S Eggert
Journal:  Nat Rev Mol Cell Biol       Date:  2020-02-07       Impact factor: 94.444

5.  Chemogenetic Control of Nanobodies.

Authors:  Helen Farrants; Miroslaw Tarnawski; Thorsten G Müller; Shotaro Otsuka; Julien Hiblot; Birgit Koch; Moritz Kueblbeck; Hans-Georg Kräusslich; Jan Ellenberg; Kai Johnsson
Journal:  Nat Methods       Date:  2020-02-17       Impact factor: 28.547

6.  Quantifying the roles of space and stochasticity in computer simulations for cell biology and cellular biochemistry.

Authors:  M E Johnson; A Chen; J R Faeder; P Henning; I I Moraru; M Meier-Schellersheim; R F Murphy; T Prüstel; J A Theriot; A M Uhrmacher
Journal:  Mol Biol Cell       Date:  2020-11-25       Impact factor: 4.138

7.  Estimating Cellular Abundances of Halo-tagged Proteins in Live Mammalian Cells by Flow Cytometry.

Authors:  Claudia Cattoglio; Xavier Darzacq; Robert Tjian; Anders S Hansen
Journal:  Bio Protoc       Date:  2020-02-20

8.  Regression plane concept for analysing continuous cellular processes with machine learning.

Authors:  Abel Szkalisity; Filippo Piccinini; Attila Beleon; Tamas Balassa; Istvan Gergely Varga; Ede Migh; Csaba Molnar; Lassi Paavolainen; Sanna Timonen; Indranil Banerjee; Elina Ikonen; Yohei Yamauchi; Istvan Ando; Jaakko Peltonen; Vilja Pietiäinen; Viktor Honti; Peter Horvath
Journal:  Nat Commun       Date:  2021-05-05       Impact factor: 14.919

9.  miRNATissueAtlas2: an update to the human miRNA tissue atlas.

Authors:  Andreas Keller; Laura Gröger; Thomas Tschernig; Jeffrey Solomon; Omar Laham; Nicholas Schaum; Viktoria Wagner; Fabian Kern; Georges Pierre Schmartz; Yongping Li; Adam Borcherding; Carola Meier; Tony Wyss-Coray; Eckart Meese; Tobias Fehlmann; Nicole Ludwig
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

Review 10.  Data science in cell imaging.

Authors:  Meghan K Driscoll; Assaf Zaritsky
Journal:  J Cell Sci       Date:  2021-04-01       Impact factor: 5.285

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