Preprints
2024
Buu Minh Tran, Jimmy Larsson, Anastasia Grip, Praneeth Karempudi, Johan Elf (2024)
One-day phenotypic drug susceptibility testing for Mycobacterium tuberculosis variant bovis BCG using single-cell imaging and a deep neural network.
bioRxiv 2024.05.20.594971
M. Henar Marino Miguélez, Mohammad Osaid, Jimmy Larsson, Vinodh Kandavalli, Johan Elf, Wouter van der Wijngaart (2024)
Culture-free Rapid Isolation and Detection of Bacteria from Whole Blood at Clinically Relevant Concentrations
bioRxiv 2024.05.23.595289
2023
Ruben R. G. Soares, Daniela A. García-Soriano, Jimmy Larsson, David Fange, Dvir Schirman, Marco Grillo, Anna Knöppel, Beer Chakra Sen, Fabian Svahn, Spartak Zikrin, Mats Nilsson, Johan Elf (2023)
Pooled optical screening in bacteria using chromosomally expressed barcodes
bioRxiv 2023.11.17.567382
Konrad Gras, David Fange, Johan Elf (2023)
The Escherichia coli chromosome moves to the replisome
bioRxiv 2023.07.12.548795
Erik Hallström, Vinodh Kandavalli, Petter Ranefall, Johan Elf, Carolina Wählby (2023)
Label-free deep learning-based species classification of bacteria imaged by phase-contrast microscopy
bioRxiv 2023.05.14.540740
Praneeth Karempudi, Konrad Gras, Elias Amselem, Spartak Zikrin, Johan Elf (2023)
Three-dimensional localization of fluorescent proteins in living Escherichia coli
bioRxiv 2023.10.20.563292
Praneeth Karempudi, Elias Amselem, Daniel Jones, Zahra Khaji, Maria Tenje, Johan Elf (2023)
Real-time pooled optical screening with single-cell isolation capability
bioRxiv 2023.09.21.558600
Malin Luking, David van der Spoel, Johan Elf, Gareth A. Tribello (2023)
Can molecular dynamics be used to simulate biomolecular recognition?
arXiv:2302.07582
2022
Gerrit Brandis, Jimmy Larsson, Johan Elf (2022)
Antibiotic perseverance increases the risk of resistance development
bioRxiv 2022.09.20.508757
Elias Amselem, Bo Broadwater, Tora Hävermark, Magnus Johansson, Johan Elf (2022)
Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization
bioRxiv 2022.08.25.505330
2021
Vinodh Kandavalli, Praneeth Karempudi, Jimmy Larsson, Johan Elf (2021)
Rapid antibiotic susceptibility testing and species identification for mixed infections
bioRxiv 2021.11.10.468026
Emil Marklund, Guanzhong Mao, Sebastian Deindl, Johan Elf (2021)
Sequence specificity in DNA binding is determined by association rather than dissociation
bioRxiv 2021.04.08.438955
Anna Knöppel, Oscar Broström, Konrad Gras, David Fange, Johan Elf (2021)
The coordination of replication initiation with growth rate in Escherichia coli
bioRxiv 2021.10.11.463968
2020
Arvid H. Gynnå, Jakub Wiktor, Prune Leroy & Johan Elf (2020)
RecA mediated homology search finds segregated sister locus in minutes after a double stranded break
bioRxiv doi.org/10.1101⁄2020.02.13.946996
2018
Emil Marklund, Elias Amselem, Kalle Kipper, Xuan Zheng, Magnus Johansson, Sebastian Deindl, Johan Elf (2018)
Direct observation of rotation-coupled protein diffusion along DNA on the microsecond timescale.
bioRxiv doi.org/10.1101⁄401414
Johan Elf, Irmeli Barkefors (2018)
Single-molecule kinetics in living cells
arXiv:1809.03265
2017
Martin Lindén, Vladimir Ćurić, Alexis Boucharin, David Fange, Johan Elf (2017)
Simulated single molecule microscopy with SMeagol
arXiv:1509.04031
Johan Elf, Irmeli Barkefors, Thomas Laurell (2017)
Nobel Symposium 162 - Microfluidics
arXiv:1712.08369
2016
Francisco Balzarotti, Yvan Eilers, Klaus C. Gwosch, Arvid H. Gynnå, Volker Westphal, Fernando D. Stefani, Johan Elf, Stefan W. Hell (2016)
Nanometer resolution imaging and tracking of fluorescent molecules with minimal photon fluxes
arXiv:1611.03401
Johan Elf (2016)
Hypothesis: Homologous recombination depends on parallel search
arXiv:1608.06924
Martin Lindén, Vladimir Ćurić, Elias Amselem, Johan Elf (2016)
Certain uncertainty: using pointwise error estimates in super-resolution microscopy
arXiv:1607.04675
2015
Mats Wallden, David Fange, Özden Baltekin, Johan Elf (2015)
Fluctuations in growth rates determine the generation time and size distributions of E. coli cells
arXiv:1504.03145
2012
Arash Sanamrad, Fredrik Persson, and Johan Elf (2012)
Isotropic diffusion of the small ribosomal subunit in Escherichia coli.
arXiv:1205.5857
2010
Brian P. English, Arash Sanamrad, Stoyan Tankov, Vasili Hauryliuk, Johan Elf (2010)
Tracking of individual freely diffusing fluorescent protein molecules in the bacterial cytoplasm.
arXiv:1003.2110
2009
Paul Sjoberg, Otto G Berg, Johan Elf (2009)
Taking the reaction-diffusion master equation to the microscopic limit.
arXiv:0905.4629v1
2008
Gene-Wei Li, Otto G. Berg, Johan Elf (2008)
Target Location by DNA-Binding Proteins: Effects of Roadblocks and DNA Looping
arXiv:0809.1063