scholarly journals A High-Performance Database Management System for Managing and Analyzing Large-Scale SNP Data in Plant Genotyping and Breeding Applications

Agriculture ◽  
2021 ◽  
Vol 11 (11) ◽  
pp. 1027
Author(s):  
Yikun Zhao ◽  
Bin Jiang ◽  
Yongxue Huo ◽  
Hongmei Yi ◽  
Hongli Tian ◽  
...  
Keyword(s):  
Quality Control ◽  
Genetic Analysis ◽  
Management System ◽  
Database Management ◽  
Large Scale ◽  
Snp Array ◽  
Heterogeneous Data ◽  
Database Management System ◽  
Dna Fingerprint ◽  
Fingerprint Database

A DNA fingerprint database is an efficient, stable, and automated tool for plant molecular research that can provide comprehensive technical support for multiple fields of study, such as pan-genome analysis and crop breeding. However, constructing a DNA fingerprint database for plants requires significant resources for data output, storage, analysis, and quality control. Large amounts of heterogeneous data must be processed efficiently and accurately. Thus, we developed plant SNP database management system (PSNPdms) using an open-source web server and free software that is compatible with single nucleotide polymorphism (SNP), insertion–deletion (InDel) markers, Kompetitive Allele Specific PCR (KASP), SNP array platforms, and 23 species. It fully integrates with the KASP platform and allows for graphical presentation and modification of KASP data. The system has a simple, efficient, and versatile laboratory personnel management structure that adapts to complex and changing experimental needs with a simple workflow process. PSNPdms internally provides effective support for data quality control through multiple dimensions, such as the standardized experimental design, standard reference samples, fingerprint statistical selection algorithm, and raw data correlation queries. In addition, we developed a fingerprint-merging algorithm to solve the problem of merging fingerprints of mixed samples and single samples in plant detection, providing unique standard fingerprints of each plant species for construction of a standard DNA fingerprint database. Different laboratories can use the system to generate fingerprint packages for data interaction and sharing. In addition, we integrated genetic analysis into the system to enable drawing and downloading of dendrograms. PSNPdms has been widely used by 23 institutions and has proven to be a stable and effective system for sharing data and performing genetic analysis. Interested researchers are required to adapt and further develop the system.

scholarly journals PIDS: A User-Friendly Plant DNA Fingerprint Database Management System

Genes ◽  
2020 ◽  
Vol 11 (4) ◽  
pp. 373
Author(s):  
Bin Jiang ◽  
Yikun Zhao ◽  
Hongmei Yi ◽  
Yongxue Huo ◽  
Haotian Wu ◽  
...  
Keyword(s):  
Quality Control ◽  
Management System ◽  
Database Management ◽  
Heterogeneous Data ◽  
Database Management System ◽  
Dna Fingerprint ◽  
Information Support ◽  
Management Functions ◽  
Fingerprint Database ◽  
Fingerprint Data

The high variability and somatic stability of DNA fingerprints can be used to identify individuals, which is of great value in plant breeding. DNA fingerprint databases are essential and important tools for plant molecular research because they provide powerful technical and information support for crop breeding, variety quality control, variety right protection, and molecular marker-assisted breeding. Building a DNA fingerprint database involves the production of large amounts of heterogeneous data for which storage, analysis, and retrieval are time and resource consuming. To process the large amounts of data generated by laboratories and conduct quality control, a database management system is urgently needed to track samples and analyze data. We developed the plant international DNA-fingerprinting system (PIDS) using an open source web server and free software that has automatic collection, storage, and efficient management functions based on merging and comparison algorithms to handle massive microsatellite DNA fingerprint data. PIDS also can perform genetic analyses. This system can match a corresponding capillary electrophoresis image on each primer locus as fingerprint data to upload to the server. PIDS provides free customization and extension of back-end functions to meet the requirements of different laboratories. This system can be a significant tool for plant breeders and can be applied in forensic science for human fingerprint identification, as well as in virus and microorganism research.

Data Modeling for Big Data

2015 ◽  
Vol 6 (1) ◽  
pp. 1-11 ◽  
Author(s):  
M Misbachul Huda ◽  
Dian Rahma Latifa Hayun ◽  
Zhin Martun
Keyword(s):  
Big Data ◽  
Data Management ◽  
Relational Database ◽  
Management System ◽  
Database Management ◽  
Large Scale ◽  
Database Management System ◽  
Large Scale Data ◽  
Relational Database Management ◽  
Scale Data

Today the rapid growth of the internet and the massive usage of the data have led to the increasing CPU requirement, velocity for recalling data, a schema for more complex data structure management, the reliability and the integrity of the available data. This kind of data is called as Large-scale Data or Big Data. Big Data demands high volume, high velocity, high veracity and high variety. Big Data has to deal with two key issues, the growing size of the datasets and the increasing of data complexity. To overcome these issues, today researches are devoted to kind of database management system that can be optimally used for big data management. There are two kinds of database management system, relational database management system and nonrelational system that can be optimally used for big data management. There are two kinds of database management, Relational Database Management and Non-relational Database Management. This paper will give reviews about these two database management system, including description, vantage, structure and the application of each DBMS. Index Terms - Big Data, DBMS, Large-scale Data, Non-relational Database, Relational Database.

Cardiological Database Management System as a Mediator to Clinical Decision Support

1996 ◽  
Vol 35 (01) ◽  
pp. 52-58 ◽  
Author(s):  
A. Mavromatis ◽  
N. Maglaveras ◽  
A. Tsikotis ◽  
G. Pangalos ◽  
V. Ambrosiadou ◽  
...  
Keyword(s):  
Management System ◽  
Database Management ◽  
Medical Information ◽  
Object Oriented ◽  
Medical Personnel ◽  
Database Management System ◽  
Ease Of Use ◽  
Medical Database ◽  
Analysis And Design ◽  
Object Oriented Design

AbstractAn object-oriented medical database management system is presented for a typical cardiologic center, facilitating epidemiological trials. Object-oriented analysis and design were used for the system design, offering advantages for the integrity and extendibility of medical information systems. The system was developed using object-oriented design and programming methodology, the C++ language and the Borland Paradox Relational Data Base Management System on an MS-Windows NT environment. Particular attention was paid to system compatibility, portability, the ease of use, and the suitable design of the patient record so as to support the decisions of medical personnel in cardiovascular centers. The system was designed to accept complex, heterogeneous, distributed data in various formats and from different kinds of examinations such as Holter, Doppler and electrocardiography.

88. Development of a Statewide Safety Survey Using a Database Management System

1999 ◽  
Author(s):  
V.G. Ivensky ◽  
A. Olesen ◽  
T. May ◽  
L. Sroka ◽  
A. Pellegrino
Keyword(s):  
Management System ◽  
Database Management ◽  
Database Management System

The Image Database Management System of Teaching File Using Personal Computer

1995 ◽  
Vol 32 (4) ◽  
pp. 677
Author(s):  
M J Shin ◽  
G W Kim ◽  
T J Chun ◽  
W H Ahn ◽  
S K Balk ◽  
...  
Keyword(s):  
Personal Computer ◽  
Management System ◽  
Database Management ◽  
Image Database ◽  
Database Management System ◽  
Teaching File
Sign in / Sign up

Export Citation Format

Share Document