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Wellcome Open Research 2021We have developed "Microscope-Cockpit" (Cockpit), a highly adaptable open source user-friendly Python-based Graphical User Interface (GUI) environment for precision...
We have developed "Microscope-Cockpit" (Cockpit), a highly adaptable open source user-friendly Python-based Graphical User Interface (GUI) environment for precision control of both simple and elaborate bespoke microscope systems. The user environment allows next-generation near instantaneous navigation of the entire slide landscape for efficient selection of specimens of interest and automated acquisition without the use of eyepieces. Cockpit uses "Python-Microscope" (Microscope) for high-performance coordinated control of a wide range of hardware devices using open source software. Microscope also controls complex hardware devices such as deformable mirrors for aberration correction and spatial light modulators for structured illumination via abstracted device models. We demonstrate the advantages of the Cockpit platform using several bespoke microscopes, including a simple widefield system and a complex system with adaptive optics and structured illumination. A key strength of Cockpit is its use of Python, which means that any microscope built with Cockpit is ready for future customisation by simply adding new libraries, for example machine learning algorithms to enable automated microscopy decision making while imaging.
PubMed: 37283605
DOI: 10.12688/wellcomeopenres.16610.1 -
Journal of Microscopy and Ultrastructure 2022Smartphones can be used to capture images from the microscope. There are commercial and homemade adapters that can be used to overcome the difficulty of focusing on a...
BACKGROUND AND AIM
Smartphones can be used to capture images from the microscope. There are commercial and homemade adapters that can be used to overcome the difficulty of focusing on a smartphone camera. We conducted this study to test if the usage of a homemade adapter reduces the time and effort of the operator in comparison to the free-hand technique in smartphone photomicrography.
MATERIALS AND METHODS
We made a simple smartphone adapter for digital photomicrography. Thirty-two operators first captured the image on the smartphone with the free-hand technique and then with the adapter thrice from a microscope. The time for focusing was compared statistically by paired -test. A survey was conducted to know operators's opinions on adapter-assisted photomicrography.
RESULT
All the participants were able to capture images from the microscopes. The average time for focusing with adapter was (11.89 ± 4.19 seconds) significantly ( = 0.0001) lower than the free-hand technique (25.56±11.81 seconds). However, the images yielded from both techniques were of equal quality. The majority of the participant found the method to be easy and reduce their effort in focusing and capturing an image.
CONCLUSION
Low-cost homemade smartphone adapter helps in reducing the time required for capturing an image from the microscope. It decreases the effort of the operator in comparison to the free-hand technique. Hence, it may be a good choice for those who need to capture images from the microscopes frequently for either telemedicine or research purpose in resource-limited settings.
PubMed: 35433256
DOI: 10.4103/JMAU.JMAU_45_20 -
Sensors (Basel, Switzerland) Oct 2021Lightfield microscopy has raised growing interest in the last few years. Its ability to get three-dimensional information about the sample in a single shot makes it...
Lightfield microscopy has raised growing interest in the last few years. Its ability to get three-dimensional information about the sample in a single shot makes it suitable for many applications in which time resolution is fundamental. In this paper we present a novel device, which is capable of converting any conventional microscope into a lightfield microscope. Based on the Fourier integral microscope concept, we designed the lightfield microscope eyepiece. This is coupled to the eyepiece port, to let the user exploit all the host microscope's components (objective turret, illumination systems, translation stage, etc.) and get a 3D reconstruction of the sample. After the optical design, a proof-of-concept device was built with off-the-shelf optomechanical components. Here, its optical performances are demonstrated, which show good matching with the theoretical ones. Then, the pictures of different samples taken with the lightfield eyepiece are shown, along with the corresponding reconstructions. We demonstrated the functioning of the lightfield eyepiece and lay the foundation for the development of a commercial device that works with any microscope.
Topics: Lighting; Microscopy
PubMed: 34640939
DOI: 10.3390/s21196619 -
Journal of Biomedical Optics Jan 2021Surgical microscopes provide adjustable magnification, bright illumination, and clear visualization of the surgical field and have been increasingly used in operating... (Review)
Review
SIGNIFICANCE
Surgical microscopes provide adjustable magnification, bright illumination, and clear visualization of the surgical field and have been increasingly used in operating rooms. State-of-the-art surgical microscopes are integrated with various imaging modalities, such as optical coherence tomography (OCT), fluorescence imaging, and augmented reality (AR) for image-guided surgery.
AIM
This comprehensive review is based on the literature of over 500 papers that cover the technology development and applications of surgical microscopy over the past century. The aim of this review is threefold: (i) providing a comprehensive technical overview of surgical microscopes, (ii) providing critical references for microscope selection and system development, and (iii) providing an overview of various medical applications.
APPROACH
More than 500 references were collected and reviewed. A timeline of important milestones during the evolution of surgical microscope is provided in this study. An in-depth technical overview of the optical system, mechanical system, illumination, visualization, and integration with advanced imaging modalities is provided. Various medical applications of surgical microscopes in neurosurgery and spine surgery, ophthalmic surgery, ear-nose-throat (ENT) surgery, endodontics, and plastic and reconstructive surgery are described.
RESULTS
Surgical microscopy has been significantly advanced in the technical aspects of high-end optics, bright and shadow-free illumination, stable and flexible mechanical design, and versatile visualization. New imaging modalities, such as hyperspectral imaging, OCT, fluorescence imaging, photoacoustic microscopy, and laser speckle contrast imaging, are being integrated with surgical microscopes. Advanced visualization and AR are being added to surgical microscopes as new features that are changing clinical practices in the operating room.
CONCLUSIONS
The combination of new imaging technologies and surgical microscopy will enable surgeons to perform challenging procedures and improve surgical outcomes. With advanced visualization and improved ergonomics, the surgical microscope has become a powerful tool in neurosurgery, spinal, ENT, ophthalmic, plastic and reconstructive surgeries.
Topics: Industrial Development; Microscopy; Neurosurgical Procedures; Surgery, Computer-Assisted; Tomography, Optical Coherence
PubMed: 33398948
DOI: 10.1117/1.JBO.26.1.010901 -
Journal of Microbiology & Biology... Apr 2022The rapid switch to remote teaching with the onset of the COVID-19 pandemic forced educators to become resourceful and creative to meet course learning objectives. This...
The rapid switch to remote teaching with the onset of the COVID-19 pandemic forced educators to become resourceful and creative to meet course learning objectives. This was especially challenging for undergraduate microbiology laboratory exercises. The American Society for Microbiology (ASM) Recommended Curriculum Guidelines for Undergraduate Microbiology Education includes providing students with a microscopy experience. To meet these learning objectives in an at-home setting, we utilized two methods which we present as options for remote teaching of microscopy. One method involves students taking home microscopes equipped with oil immersion objective lenses. The other employs the remote operation of a confocal and/or scanning electron microscope through participation in the University of Toledo's SCOPE (Scientists Changing Our Pre-College Education) program. These techniques allowed students to develop competency and confidence in the operation of a microscope. The SCOPE program provided experience with types of microscopes not commonly available to undergraduate students even when in person. In addition to these unique experiences, students can gain microscopy expertise utilizing various virtual microscopy simulations. Together these techniques provide an exciting and robust online microscopy experience for undergraduate microbiology students that can be employed for use in regularly taught online microbiology courses.
PubMed: 35496698
DOI: 10.1128/jmbe.00332-21 -
Biophysical Reports Sep 2021One of the most widely used microscopy techniques in biology and medicine is fluorescence microscopy, offering high specificity in labeling as well as maximal... (Review)
Review
One of the most widely used microscopy techniques in biology and medicine is fluorescence microscopy, offering high specificity in labeling as well as maximal sensitivity. For live-cell imaging, the ideal fluorescence microscope should offer high spatial resolution, fast image acquisition, three-dimensional sectioning, and multicolor detection. However, most existing fluorescence microscopes have to compromise between these different requirements. Here, we present a multiplane, multicolor wide-field microscope that uses a dedicated beam splitter for recording volumetric data in eight focal planes and for three emission colors with frame rates of hundreds of volumes per second. We demonstrate the efficiency and performance of our system by three-dimensional imaging of multiply labeled fixed and living cells. The use of commercially available components makes our proposed microscope straightforward for implementation, thus promising for widely used applications.
PubMed: 36425311
DOI: 10.1016/j.bpr.2021.100001 -
The New Phytologist Aug 2014Pollen grains are microscopic so their identification and quantification has, for decades, depended upon human observers using light microscopes: a labour-intensive... (Review)
Review
Pollen grains are microscopic so their identification and quantification has, for decades, depended upon human observers using light microscopes: a labour-intensive approach. Modern improvements in computing and imaging hardware and software now bring automation of pollen analyses within reach. In this paper, we provide the first review in over 15 yr of progress towards automation of the part of palynology concerned with counting and classifying pollen, bringing together literature published from a wide spectrum of sources. We consider which attempts offer the most potential for an automated palynology system for universal application across all fields of research concerned with pollen classification and counting. We discuss what is required to make the datasets of these automated systems as acceptable as those produced by human palynologists, and present suggestions for how automation will generate novel approaches to counting and classifying pollen that have hitherto been unthinkable.
Topics: Automation; Botany; Pollen; Reference Standards
PubMed: 25180326
DOI: 10.1111/nph.12848 -
Nanoscale Advances Feb 2021Direct visualization and imaging of nanomaterials under ambient conditions is of great significance for their characterization and application. In most cases, the... (Review)
Review
Direct visualization and imaging of nanomaterials under ambient conditions is of great significance for their characterization and application. In most cases, the observation of individual nanomaterials usually requires high-resolution electron microscopes under high vacuum. In comparison, an optical microscope is much more convenient due to its facile operation and open space. However, the resolution of optical microscopes is much lower than that of electron microscope-based tools. Therefore, effective visualization and imaging strategies for nanomaterials are required to realize their direct observation, accurate location and controllable manipulation. In this review, we summarized the progress of optical visualization and imaging strategies for nanomaterials in recent years, including vapor-condensation-assisted optical visualization, nanoparticle-assisted optical visualization, substrate-assisted optical visualization and fluorescence visualization, and the applications of these techniques were also introduced. We believe that this review will inspire further improvement in optical visualization of nanomaterials and drive the application of nanomaterials in a broader domain.
PubMed: 36133288
DOI: 10.1039/d0na00945h -
Indian Journal of Ophthalmology Oct 2020Microscopes play an important role in the diagnosis of microorganisms and pathological lesions in ophthalmology guiding us to the appropriate management. The current...
Microscopes play an important role in the diagnosis of microorganisms and pathological lesions in ophthalmology guiding us to the appropriate management. The current trend of collecting samples and examination is mostly laboratory-based which consume time, labor, and are costly. Smartphones are being used in different fields of ophthalmology with great ubiquity. The good quality photographs obtained by smartphones along with the ease of mobility has made it possible to warrant its use in the microscopic world. This article describes a simple novel technique of preparing an intraocular lens system which can be used in conjunction with a smartphone to detect microorganisms and pathological lesions.
Topics: Eye, Artificial; Humans; Lenses, Intraocular; Microscopy; Photography; Smartphone
PubMed: 32971646
DOI: 10.4103/ijo.IJO_2032_19