scholarly journals Optimized cryo-EM data-acquisition workflow by sample-thickness determination

2021 ◽  
Vol 77 (5) ◽  
pp. 565-571
Author(s):  
Jan Rheinberger ◽  
Gert Oostergetel ◽  
Guenter P. Resch ◽  
Cristina Paulino
Keyword(s):  
Electron Microscopy ◽  
High Resolution ◽  
Data Collection ◽  
Data Acquisition ◽  
Data Storage ◽  
Collection Efficiency ◽  
Sample Thickness ◽  
Access Time ◽  
Time Data ◽  
Data Set

Sample thickness is a known key parameter in cryo-electron microscopy (cryo-EM) and can affect the amount of high-resolution information retained in the image. Yet, common data-acquisition approaches in single-particle cryo-EM do not take it into account. Here, it is demonstrated how the sample thickness can be determined before data acquisition, allowing the identification of optimal regions and the restriction of automated data collection to images with preserved high-resolution details. This quality-over-quantity approach almost entirely eliminates the time- and storage-consuming collection of suboptimal images, which are discarded after a recorded session or during early image processing due to a lack of high-resolution information. It maximizes the data-collection efficiency and lowers the electron-microscopy time required per data set. This strategy is especially useful if the speed of data collection is restricted by the microscope hardware and software, or if microscope access time, data transfer, data storage and computational power are a bottleneck.

scholarly journals Optimized data acquisition workflow by sample thickness determination

2020 ◽  
Author(s):  
Jan Rheinberger ◽  
Gert Oostergetel ◽  
Guenter P Resch ◽  
Cristina Paulino
Keyword(s):  
Electron Microscopy ◽  
High Resolution ◽  
Data Collection ◽  
Data Acquisition ◽  
Data Storage ◽  
Single Particle ◽  
Collection Efficiency ◽  
Sample Thickness ◽  
Cryo Electron Microscopy ◽  
Key Parameter

AbstractSample thickness is a known key parameter in cryo-electron microscopy (cryo-EM) and can affect the amount of high-resolution information retained in the image. Yet, common data acquisition approaches in single particle cryo-EM do not take it into account. Here, we demonstrate how the sample thickness can be determined before data acquisition, allowing to identify optimal regions and restrict data collection to images with preserved high-resolution details. This quality over quantity approach, almost entirely eliminates the time- and storage-consuming collection of suboptimal images, which are discarded after a recorded session or during early image processing due to lack of high-resolution information. It maximizes data collection efficiency and lowers the electron microscopy time required per dataset. This strategy is especially useful, if the speed of data collection is restricted by the microscope hardware and software, or if data transfer, data storage and computational power are a bottleneck.SynopsisDetermining sample thickness, a key parameter in single particle cryo-electron microscopy, before data acquisition, and targeting only optimal areas, maximizes the data output from a single particle cryo-electron microscopy session. Scripts and optimized workflows for EPU and SerialEM are presented utilizing this concept.

scholarly journals High-resolution cryo-EM using beam-image shift at 200 keV

IUCrJ ◽  
2020 ◽  
Vol 7 (6) ◽  
pp. 1179-1187 ◽  
Author(s):  
Jennifer N. Cash ◽  
Sarah Kearns ◽  
Yilai Li ◽  
Michael A. Cianfrocco
Keyword(s):  
Electron Microscopy ◽  
High Resolution ◽  
Data Collection ◽  
Single Particle ◽  
Particle Motion ◽  
Data Set ◽  
Cryo Electron Microscopy ◽  
Beam Image ◽  
Shift Data ◽  
Resolution Structure

Recent advances in single-particle cryo-electron microscopy (cryo-EM) data collection utilize beam-image shift to improve throughput. Despite implementation on 300 keV cryo-EM instruments, it remains unknown how well beam-image-shift data collection affects data quality on 200 keV instruments and the extent to which aberrations can be computationally corrected. To test this, a cryo-EM data set for aldolase was collected at 200 keV using beam-image shift and analyzed. This analysis shows that the instrument beam tilt and particle motion initially limited the resolution to 4.9 Å. After particle polishing and iterative rounds of aberration correction in RELION, a 2.8 Å resolution structure could be obtained. This analysis demonstrates that software correction of microscope aberrations can provide a significant improvement in resolution at 200 keV.

scholarly journals Development of Arduino-based Data Acquisition System for Environmental Monitoring using Zigbee Communication Protocol

2016 ◽  
Vol 1 (3) ◽  
pp. 109-118
Author(s):  
Busari Sherif A. ◽  
Dunmoye Abibat F. ◽  
Akingbade Kayode F.
Keyword(s):  
Environmental Monitoring ◽  
Data Acquisition ◽  
Data Storage ◽  
Health Management ◽  
Medical Diagnostics ◽  
Indoor Climate ◽  
Data Logging ◽  
Climate Control ◽  
Time Data ◽  
Receiver System

Data Acquisition Systems (DAS) are used for a variety of applications such as environmental monitoring, indoor climate control, health management and medical diagnostics, traffic surveillance and emergency response, disaster management among others. This paper presents the design of a DAS for monitoring environmental temperature, pressure and relative humidity. The system employs Arduino Uno microcontroller for signal processing and Zigbee transceivers operating on the 2.4 GHz license-free Industrial, Scientific and Medical (ISM) band as communication modules at both the transmitter and receiver ends. While the transmitter board houses the sensors, a GPS module and an LCD, the receiver system is interfaced with a PC which runs a developed MATLAB GUI for data display and analysis and it incorporates an SD card for data storage. The battery-powered system is a low cost, low-power consumption system which serves as a mini-weather station with real-time data logging, wireless communication and tracking capabilities.

A High Speed and Compact Data Acquisition and Storage System

2013 ◽  
Vol 753-755 ◽  
pp. 3125-3128
Author(s):  
Kai Bu ◽  
Hui Xu ◽  
Zhao Lin Sun ◽  
Jian Bin Liu
Keyword(s):  
Data Acquisition ◽  
Data Storage ◽  
Software Defined Radio ◽  
High Speed ◽  
Storage System ◽  
Base Stations ◽  
Time Data ◽  
Processing Application ◽  
Wideband Signal ◽  
And Storage

Data acquisition and record system plays an important role in signal processing. For the wideband signal acquisition and processing application, such as 3G/4G Base Stations, Wideband Microwave Backhaul, Military Communications, and RADAR, the need for high speed and smart software-defined radio (SDR) test platform is growing. In this paper, we implement a high compact form factor data acquisition and storage system used for the wideband signal application development. In order to implement high compact, low power and high speed real-time data storage, we use a PCIe-based switch architecture and leverage the Flash array as the storage part. The system supports RF sampling directly and offers a 16TB solid state storage module which could be read and write at the sustained speed of 12.8GB/s.

The Design to Achieve the Data Breakpoint Survivor by Using FPGA

2012 ◽  
Vol 468-471 ◽  
pp. 2599-2602
Author(s):  
Jin Ming Li ◽  
Nan Song ◽  
Qiu Lin Tan
Keyword(s):  
Data Collection ◽  
Data Acquisition ◽  
Data Storage ◽  
Data Acquisition System ◽  
Acquisition System ◽  
Nand Flash ◽  
Use Of Data ◽  
Storage Media ◽  
Repeated Use

Recording data for the increasingly diverse needs, the design is using FPGA to achieve the data breakpoint deposit. Choosing NAND Flash K9KAG08U0M as data storage media , the data according to an external command realize erasing ,storage and read-back operation under the control of the FLASH-based FPGA (A3P125). The design of data breakpoints deposit can achieved interruption of data collection, and by reading the data back before the FLASH chip erase operation to comply the repeated use of data acquisition system.

Intelligent Agents Framework for RFID Hospitals

2010 ◽  
pp. 265-278
Author(s):  
Masoud Mohammadian ◽  
Ric Jentzsch
Keyword(s):  
Data Collection ◽  
Data Acquisition ◽  
Radio Frequency Identification ◽  
Intelligent Agents ◽  
Medical Data ◽  
Time Data ◽  
Raw Data ◽  
Privacy Issue ◽  
Real Time Data ◽  
Frequency Identification

When dealing with human lives, the need to utilize and apply the latest technology to help in saving and maintaining patients’ lives is quite important and requires accurate, near-real-time data acquisition and evaluation. At the same time, the delivery of a patient’s medical data needs to be as fast and as secure as possible. One possible way to achieve this is to use a wireless framework based on radio-frequency identification (RFID). This framework can integrate wireless networks for fast data acquisition and transmission while maintaining the privacy issue. This chapter discusses the development of an agent framework in which RFID can be used for patient data collection. The chapter presents a framework for the knowledge acquisition of patient and doctor profiling in a hospital. The acquisition of profile data is assisted by a profiling agent that is responsible for processing the raw data obtained through RFID and a database of doctors and patients.

The Building of Data Acquisition System Based on Embedded Technology

2012 ◽  
Vol 546-547 ◽  
pp. 481-485
Author(s):  
Ye Hui Liu
Keyword(s):  
Data Acquisition ◽  
Real Time ◽  
Data Storage ◽  
Data Acquisition System ◽  
Acquisition System ◽  
Time Data ◽  
Local Data ◽  
Software Environment ◽  
Data Acquisition Board ◽  
The Common

The common data acquisition system which is proposed in this paper has achieved features of monitoring layer and data collection layer (Complete the construction of ARM9 system board hardware and software environment; implement the design of STM8L acquisition board; design such application modules as host MODBUS, slave MODBUS, parameter setting, real-time data communications, real-time graphical display, local data storage, ADC, digital filtering and so on). Judging from the system test, it can achieve the desired effect, and especially, STM8L ADC data acquisition board has highly precise and consumes low power.

Design and Implementation of a Data Acquisition Platform for Automated Mechanical Transmission (AMT)

2013 ◽  
Author(s):  
Lirong Wang ◽  
Kai Liu
Keyword(s):  
Data Acquisition ◽  
Data Storage ◽  
Engine Speed ◽  
Mechanical Transmission ◽  
Virtual Instrumentation ◽  
Time Data ◽  
Test Vehicle ◽  
Function Block ◽  
Vehicle Velocity ◽  
Test Platform

A kind of data acquisition platform to test vehicle shifting performance is presented based on virtual instrumentation technology. The platform helps to perform test efficiently by synchronously accessing various kinds of data transferred by electronic transducers and CAN bus, for example the signals of clutch travel, throttle angular, engine speed, gearbox input speed, vehicle velocity and acceleration and so on. A friendly GUI (Graphical user interface) is developed to manage experimental layout based on graphical function block in software of LabVIEW. QSM (Queued Stated Machine) to construct producer consumer architecture with functions of multi-channel and real-time data acquisition, data analysis and data storage is adopted. Vehicle experiment to acquisit data during shifting process of AMT (Automated Mechanical Transmission) are carried out, which takes advantages of high integration, great scalability and excellent reliability. The presented test platform is valuable to design and evaluation of electrical control system in vehicle.

scholarly journals High-resolution cryo-EM using beam-image shift at 200 keV

2020 ◽  
Author(s):  
Jennifer N. Cash ◽  
Sarah Kearns ◽  
Yilai Li ◽  
Michael A. Cianfrocco
Keyword(s):  
Electron Microscopy ◽  
High Resolution ◽  
Data Collection ◽  
Data Quality ◽  
Single Particle ◽  
Aberration Correction ◽  
Cryo Electron Microscopy ◽  
Beam Image ◽  
Recent Advances ◽  
Shift Data

ABSTRACTRecent advances in single-particle cryo-electron microscopy (cryo-EM) data collection utilizes beam-image shift to improve throughput. Despite implementation on 300 keV cryo-EM instruments, it remains unknown how well beam-image shift data collection affects data quality on 200 keV instruments and how much aberrations can be computationally corrected. To test this, we collected and analyzed a cryo-EM dataset of aldolase at 200 keV using beam-image shift. This analysis shows that beam tilt on the instrument initially limited the resolution of aldolase to 4.9Å. After iterative rounds of aberration correction and particle polishing in RELION, we were able to obtain a 2.8Å structure. This analysis demonstrates that software correction of microscope aberrations can provide a significant improvement in resolution at 200 keV.

Sign in / Sign up

Export Citation Format

Share Document