Ultrafast Focus Detection for Automated Microscopy

2021 ◽  
Author(s):  
Maksim Levental ◽  
Ryan Chard ◽  
Kyle Chard ◽  
Ian Foster ◽  
Gregg A. Wildenberg
Keyword(s):  
Automated Microscopy ◽  
Focus Detection

scholarly journals Automated Microscopy: Macro Language Controlling a Confocal Microscope and its External Illumination: Adaptation for Photosynthetic Organisms

2016 ◽  
Vol 22 (2) ◽  
pp. 258-263 ◽  
Author(s):  
Gábor Steinbach ◽  
Radek Kaňa
Keyword(s):  
Light Sources ◽  
Light Conditions ◽  
Photosynthetic Organisms ◽  
Automated Microscopy ◽  
Photosynthetic Microorganisms ◽  
Arduino Microcontroller ◽  
Microscopy Data ◽  
Kinetics Of ◽  
Photosynthetic Cells

AbstractPhotosynthesis research employs several biophysical methods, including the detection of fluorescence. Even though fluorescence is a key method to detect photosynthetic efficiency, it has not been applied/adapted to single-cell confocal microscopy measurements to examine photosynthetic microorganisms. Experiments with photosynthetic cells may require automation to perform a large number of measurements with different parameters, especially concerning light conditions. However, commercial microscopes support custom protocols (throughTime Controlleroffered by Olympus orExperiment Designeroffered by Zeiss) that are often unable to provide special set-ups and connection to external devices (e.g., for irradiation). Our new system combining an Arduino microcontroller with theCell⊕Findersoftware was developed for controlling Olympus FV1000 and FV1200 confocal microscopes and the attached hardware modules. Our software/hardware solution offers (1) a text file-based macro language to control the imaging functions of the microscope; (2) programmable control of several external hardware devices (light sources, thermal controllers, actuators) during imaging via the Arduino microcontroller; (3) theCell⊕Findersoftware with ergonomic user environment, a fast selection method for the biologically important cells and precise positioning feature that reduces unwanted bleaching of the cells by the scanning laser.Cell⊕Findercan be downloaded fromhttp://www.alga.cz/cellfinder. The system was applied to study changes in fluorescence intensity inSynechocystissp. PCC6803 cells under long-term illumination. Thus, we were able to describe the kinetics of phycobilisome decoupling. Microscopy data showed that phycobilisome decoupling appears slowly after long-term (>1 h) exposure to high light.

Novel technology of automatic macro inspection for 32-nm node and best focus detection

2007 ◽  
Author(s):  
Kazuhiko Fukazawa ◽  
Kazumasa Endo ◽  
Kiminori Yoshino ◽  
Yuichiro Yamazaki
Keyword(s):  
Novel Technology ◽  
Focus Detection

scholarly journals High-Content Analysis to Leverage a Robust Phenotypic Profiling Approach to Vascular Modulation

2013 ◽  
Vol 18 (10) ◽  
pp. 1246-1259 ◽  
Author(s):  
Beverley J. Isherwood ◽  
Rebecca E. Walls ◽  
Mark E. Roberts ◽  
Thomas M. Houslay ◽  
Sandra R. Brave ◽  
...  
Keyword(s):  
Endothelial Cells ◽  
Content Analysis ◽  
Cell Biology ◽  
High Volume ◽  
Phenotypic Screening ◽  
Stromal Fibroblasts ◽  
Physiological Relevance ◽  
Automated Microscopy ◽  
High Content Analysis ◽  
Phenotypic Responses

Phenotypic screening seeks to identify substances that modulate phenotypes in a desired manner with the aim of progressing first-in-class agents. Successful campaigns require physiological relevance, robust screening, and an ability to deconvolute perturbed pathways. High-content analysis (HCA) is increasingly used in cell biology and offers one approach to prosecution of phenotypic screens, but challenges exist in exploitation where data generated are high volume and complex. We combine development of an organotypic model with novel HCA tools to map phenotypic responses to pharmacological perturbations. We describe implementation for angiogenesis, a process that has long been a focus for therapeutic intervention but has lacked robust models that recapitulate more completely mechanisms involved. The study used human primary endothelial cells in co-culture with stromal fibroblasts to model multiple aspects of angiogenic signaling: cell interactions, proliferation, migration, and differentiation. Multiple quantitative descriptors were derived from automated microscopy using custom-designed algorithms. Data were extracted using a bespoke informatics platform that integrates processing, statistics, and feature display into a streamlined workflow for building and interrogating fingerprints. Ninety compounds were characterized, defining mode of action by phenotype. Our approach for assessing phenotypic outcomes in complex assay models is robust and capable of supporting a range of phenotypic screens at scale.

scholarly journals Facial Landmark Annotation and Fuzzy Model to Detect Players’ Focus

2021 ◽  
Author(s):  
Alisson Steffens Henrique ◽  
Esteban Walter Gonzalez Clua ◽  
Rodrigo Lyra ◽  
Anita Maria da Rocha Fernandes ◽  
Rudimar Luis Scaranto Dazzi
Keyword(s):  
Fuzzy Model ◽  
Research Topic ◽  
Important Research ◽  
Facial Landmark ◽  
Important Research Topic ◽  
Focus Detection ◽  
Data Log ◽  
Game Analytics

Game Analytics is an important research topic in digitalentertainment. Data log is usually the key to understand players’behavior in a game. However, alpha and beta builds may need aspecial attention to player focus and immersion. In this paper, wepropose t he us e of player’s focus detection, through theclassification of pictures. Results show that pictures can be usedas a new source of data for Game Analytics, feeding developerswith a better understanding of players enjoyment while in testingphases .

scholarly journals Correlation of Hypoechoic Lesions in Trans-rectal Ultrasound of Prostate with Histopathology in Prostate Cancer

2020 ◽  
Vol 42 (2) ◽  
pp. 76-79
Author(s):  
Dinesh Chataut ◽  
Babin Basnet ◽  
Benu Lohani ◽  
Sundar Suwal ◽  
Sharma Paudel ◽  
...  
Keyword(s):  
Prostate Cancer ◽  
Prostate Biopsy ◽  
Gold Standard ◽  
Detection Rate ◽  
Specific Antigen ◽  
Digital Rectal Examination ◽  
Elderly Male ◽  
Common Cancer ◽  
In Trans ◽  
Focus Detection

Introduction Prostate cancer is one of the most common cancer in elderly male. Suspicion of prostate cancer is based on increased Prostate Specific Antigen (PSA) level and abnormal digital rectal examination (DRE) findings. Transrectal ultrasonography (TRUS) can detect and localize hypoechoic lesions in prostate which are considered as suspicious for malignancy. TRUS can also guide for prostate biopsy, which is the gold standard for diagnosis of prostate cancer. The study was aimed to find out TRUS findings in suspected prostate cancer patients and correlate these findings with histopathological findings. MethodsProspective study was done in 66 males of age >40 years, sent for prostate biopsy in suspicion for prostate cancer (PSA >4 ng/ml, and/or abnormal DRE findings). Prostate was evaluated with TRUS and subsequently underwent TRUS guided six core biopsy of prostate. Total 396 cores of biopsy were taken. Histopathology reports were collected and correlated with the TRUS findings. ResultsTwenty three patients were positive for prostate cancer and 14 of them showed hypoechoic lesions in TRUS. Total 81 suspicious hypoechoic lesions were seen in prostate of all the patients and among them 42 lesions matched with histopathology report for cancer. Cancerous focus detection rate of TRUS was 51.85%. ConclusionTRUS is a supplementary tool in diagnosis of prostate cancer, however when used alone it has less sensitivity for detection of prostate cancer.

scholarly journals An inexpensive, customizable microscopy system for the automated quantification and characterization of multiple adherent cell types

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e4937 ◽  
Author(s):  
Vishwaratn Asthana ◽  
Yuqi Tang ◽  
Adam Ferguson ◽  
Pallavi Bugga ◽  
Anantratn Asthana ◽  
...  
Keyword(s):  
Tumor Cells ◽  
Dynamic Range ◽  
Low Cost ◽  
Cell Types ◽  
Cell Counting ◽  
Adherent Cell ◽  
Essential Components ◽  
Automated Quantification ◽  
Automated Microscopy ◽  
Multiple Cell

Cell quantification assays are essential components of most biological and clinical labs. However, many currently available quantification assays, including flow cytometry and commercial cell counting systems, suffer from unique drawbacks that limit their overall efficacy. In order to address the shortcomings of traditional quantification assays, we have designed a robust, low-cost, automated microscopy-based cytometer that quantifies individual cells in a multiwell plate using tools readily available in most labs. Plating and subsequent quantification of various dilution series using the automated microscopy-based cytometer demonstrates the single-cell sensitivity, near-perfect R2 accuracy, and greater than 5-log dynamic range of our system. Further, the microscopy-based cytometer is capable of obtaining absolute counts of multiple cell types in one well as part of a co-culture setup. To demonstrate this ability, we recreated an experiment that assesses the tumoricidal properties of primed macrophages on co-cultured tumor cells as a proof-of-principle test. The results of the experiment reveal that primed macrophages display enhanced cytotoxicity toward tumor cells while simultaneously losing the ability to proliferate, an example of a dynamic interplay between two cell populations that our microscopy-based cytometer is successfully able to elucidate.

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