Molecular imaging with neural training of identification algorithm (neural network localization identification)

Microscopy Research and Technique
A J Nelson, S T Hess

Abstract

Superresolution localization microscopy strongly relies on robust identification algorithms for accurate reconstruction of the biological systems it is used to measure. The fields of machine learning and computer vision have provided promising solutions for automated object identification, but usually rely on well represented training sets to learn object features. However, using a static training set can result in the learned identification algorithm making mistakes on data that is not well represented by the training set. Here, we present a method for training an artificial neural network without providing a training set in advance. This method uses the data to be analyzed, and the fitting algorithm to train an artificial neural network tailored to that data set. We show that the same artificial neural network can learn to identify at least two types of molecular emissions: the regular point spread functions (PSFs), and the astigmatism PSF. Simulations indicate that this method can be extremely reliable in extracting molecular emission signatures. Additionally, we implemented the artificial neural network calculation to be performed on a graphics processing unit (GPU) for massively parallelized calculation which drastically r...Continue Reading

References

Aug 10, 2006·Nature Methods·Michael J RustXiaowei Zhuang
Aug 12, 2006·Science·Eric BetzigHarald F Hess
Sep 19, 2006·Biophysical Journal·Samuel T HessMichael D Mason
Oct 26, 2007·Proceedings of the National Academy of Sciences of the United States of America·Samuel T HessJoshua Zimmerberg
May 13, 2008·Nature Methods·Manuel F JuetteJoerg Bewersdorf
Jul 8, 2008·Nature Methods·Arnauld SergéDidier Marguet
Feb 13, 2009·Proceedings of the National Academy of Sciences of the United States of America·Sri Rama Prasanna PavaniW E Moerner
Feb 14, 2009·Nature Protocols·Travis J GouldSamuel T Hess
Apr 7, 2010·Nature Methods·Carlas S SmithKeith A Lidke
May 12, 2011·Biomedical Optics Express·Fang HuangKeith A Lidke
Feb 15, 2012·Optics Express·I IzeddinJ B Sibarita
Jan 3, 2014·Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry·Mikael P BacklundW E Moerner
Oct 2, 2015·Molecular Biology of the Cell·Carlas S SmithDavid Grunwald
Jan 1, 2017·IScience Notes·Matthew Valles, Samuel T Hess

❮ Previous
Next ❯

Citations

Aug 2, 2019·Biochemical Society Transactions·Lucas von ChamierRicardo Henriques
May 8, 2019·Journal of Microscopy·Sandra MartínezOscar E Martinez
Mar 10, 2021·Nature Methods·Linjing FangUri Manor
Apr 17, 2021·Nature Communications·Lucas von ChamierRicardo Henriques

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.