Practical implementation of genetic groups in single-step genomic evaluations with Woodbury matrix identity–based genomic relationship inverse

2021 ◽  
Author(s):  
M. Koivula ◽  
I. Strandén ◽  
G.P. Aamand ◽  
E.A. Mäntysaari
Keyword(s):  
Single Step ◽  
Practical Implementation ◽  
Genomic Relationship ◽  
Genetic Groups ◽  
Matrix Identity ◽  
Identity Based

scholarly journals A Provably Secure ID-Based Signcryption Protocol for Secure and Authentic Energy Efficient Communication

2021 ◽  
Author(s):  
Sunil Kumar ◽  
Pratik Gupta ◽  
Dharminder Dharminder
Keyword(s):  
Computational Cost ◽  
Single Step ◽  
Step Method ◽  
Performance Review ◽  
Diffie Hellman ◽  
Cryptographic Primitive ◽  
Energy Efficient Communication ◽  
Efficient Communication ◽  
Identity Based ◽  
Provably Secure

Abstract Singcryption was first proposed by Yuliang Zheng [1] in 1997, based on the construction of a shortened ElGamal-based signature scheme in parallel to authenticated encryption in a symmetric environment. Signcryption is a cryptographic primitive that enables the conventional two-step method of secure and authenticated message transmission or storage (sign-then-encrypt or encrypt-then-sign) to be done in a single step at a much lower computational cost than the traditional two-step approach. This article concentrates on designing a provably secure identity-based signcryption (IBSC) scheme. The user performs pairing-free computation during encryption in the proposed scheme, making it user-side effective. In addition, the IBSC structure is shown to be secure when dealing with modified bilinear Diffie-Hellman inversion (MBDHI) and modified bilinear strong Diffie-Hellman (MBSDH) problems. The proposed framework supports efficient communication, protection against chosen cipher attack, and existential unforgeability against chosen message attack, according to the performance review of IBSC with related schemes.

scholarly journals An Implementation Suite for a Hybrid Public Key Infrastructure

Symmetry ◽  
2021 ◽  
Vol 13 (8) ◽  
pp. 1535
Author(s):  
Jason Chia ◽  
Swee-Huay Heng ◽  
Ji-Jian Chin ◽  
Syh-Yuan Tan ◽  
Wei-Chuen Yau
Keyword(s):  
Public Key Infrastructure ◽  
Public Key ◽  
Practical Implementation ◽  
Public And Private ◽  
Industry Standard ◽  
Cryptographic Keys ◽  
Identity Based ◽  
Identity Based Cryptography ◽  
The Cost ◽  
Enterprise Java Bean

Public key infrastructure (PKI) plays a fundamental role in securing the infrastructure of the Internet through the certification of public keys used in asymmetric encryption. It is an industry standard used by both public and private entities that costs a lot of resources to maintain and secure. On the other hand, identity-based cryptography removes the need for certificates, which in turn lowers the cost. In this work, we present a practical implementation of a hybrid PKI that can issue new identity-based cryptographic keys for authentication purposes while bootstrapping trust with existing certificate authorities. We provide a set of utilities to generate and use such keys within the context of an identity-based environment as well as an external environment (i.e., without root trust to the private key generator). Key revocation is solved through our custom naming design which currently supports a few scenarios (e.g., expire by date, expire by year and valid for year). Our implementation offers a high degree of interoperability by incorporating X.509 standards into identity-based cryptography (IBC) compared to existing works on hybrid PKI–IBC systems. The utilities provided are minimalist and can be integrated with existing tools such as the Enterprise Java Bean Certified Authority (EJBCA).

scholarly journals OSTRFPD: Multifunctional Tool for Genome-Wide Short Tandem Repeat Analysis for DNA, Transcripts, and Amino Acid Sequences with Integrated Primer Designer

2019 ◽  
Vol 15 ◽  
pp. 117693431984313
Author(s):  
Vivek Bhakta Mathema ◽  
Arjen M Dondorp ◽  
Mallika Imwong
Keyword(s):  
Tandem Repeat ◽  
Short Tandem Repeat ◽  
Tandem Repeats ◽  
Gc Content ◽  
Plasmodium Species ◽  
Single Step ◽  
Amino Acid Sequences ◽  
Practical Implementation ◽  
Genome Wide ◽  
Short Tandem

Microsatellite mining is a common outcome of the in silico approach to genomic studies. The resulting short tandemly repeated DNA could be used as molecular markers for studying polymorphism, genotyping and forensics. The omni short tandem repeat finder and primer designer (OSTRFPD) is among the few versatile, platform-independent open-source tools written in Python that enables researchers to identify and analyse genome-wide short tandem repeats in both nucleic acids and protein sequences. OSTRFPD is designed to run either in a user-friendly fully featured graphical interface or in a command line interface mode for advanced users. OSTRFPD can detect both perfect and imperfect repeats of low complexity with customisable scores. Moreover, the software has built-in architecture to simultaneously filter selection of flanking regions in DNA and generate microsatellite-targeted primers implementing the Primer3 platform. The software has built-in motif-sequence generator engines and an additional option to use the dictionary mode for custom motif searches. The software generates search results including general statistics containing motif categorisation, repeat frequencies, densities, coverage, guanine–cytosine (GC) content, and simple text-based imperfect alignment visualisation. Thus, OSTRFPD presents users with a quick single-step solution package to assist development of microsatellite markers and categorise tandemly repeated amino acids in proteome databases. Practical implementation of OSTRFPD was demonstrated using publicly available whole-genome sequences of selected Plasmodium species. OSTRFPD is freely available and open-sourced for improvement and user-specific adaptation.

scholarly journals 335 Genomic predictions with a multi-breed genomic relationship matrix

2019 ◽  
Vol 97 (Supplement_3) ◽  
pp. 49-50
Author(s):  
Yvette Steyn ◽  
Daniela Lourenco ◽  
Ignacy Misztal
Keyword(s):  
Prediction Accuracy ◽  
Negative Impact ◽  
Reference Population ◽  
Single Step ◽  
Genomic Relationship Matrix ◽  
Relationship Matrix ◽  
Genomic Relationship ◽  
Effective Population ◽  
Specific Allele ◽  
Missing Genotypes

Abstract Multi-breed evaluations have the advantage of increasing the size of the reference population for genomic evaluations and are quite simple; however, combining breeds usually have a negative impact on prediction accuracy. The aim of this study was to evaluate the use of a multi-breed genomic relationship matrix (G), where SNP for each breed are non-shared. The multi-breed G is set assuming known genotypes for one breed and missing genotypes for the remaining breeds. This setup may avoid spurious IBS relationships between breeds and considers breed-specific allele frequencies. This scenario was contrasted to multi-breed evaluations where all SNP are shared, i.e., the same SNP, and to single-breed evaluations. Different SNP densities, namely 9k and 45k, and different effective population sizes (Ne) were tested. Five breeds mimicking recent beef cattle populations that diverged from the same historical population were simulated using different selection criteria. It was assumed that QTL effects were the same over all breeds. For the recent population, generations 1 to 9 had approximately half of the animals genotyped, whereas all 1200 animals were genotyped in generation 10. Genotyped animals in generation 10 were set as validation; therefore, each breed had a validation set. Analysis were performed using single-step GBLUP (ssGBLUP). Prediction accuracy was calculated as correlation between true (T) and genomic estimated (GE) BV. Accuracies of GEBV were lower for the larger Ne and low SNP density. All three scenarios using 45K resulted in similar accuracies, suggesting that the marker density is high enough to account for relationships and linkage disequilibrium with QTL. A shared multi-breed evaluation using 9K resulted in a decrease of accuracy of 0.08 for a smaller Ne and 0.11 for a larger Ne. This loss was mostly avoided when markers were treated as non-shared within the same genomic relationship matrix.

scholarly journals Seamless Personnel Authentication using Facial Recognition and Identity-Based Identification on Mobile Devices

2019 ◽  
Vol 8 (3S) ◽  
pp. 41-46
Keyword(s):  
Face Recognition ◽  
Access Control ◽  
Control Systems ◽  
Mobile Devices ◽  
Recognition System ◽  
Single Step ◽  
Biometric Data ◽  
Face Recognition System ◽  
The Face ◽  
Identity Based

Security systems for buildings are no longer an uncommon thing in daily life with increasingly complex access control systems to achieve secured building security system. Achieving a hassle-free yet secure access control systems has been always a challenge for organizations especially for those managing large buildings. In this project, we develop a prototype that utilizes a combination of biometric and cryptography based security schemes to grant access control on personnel going in and out of a building. Our development achieves two-factor authentication in one single step which provides users a seamless experience for authentication. The identity-based identification (IBI) scheme that is based on number-theoretic cryptography is implemented on mobile devices to allow the identification scheme to run in the background. A face recognition system and web server is also developed which can be deployed on any PC at the market. The novelty lies in the combination of the two, with the face recognition making potential intruders difficult to forge biometric data of honest users, and the identity-based scheme preventing the adversary to learn any secrets from the authentication process, while allowing honest users to verify themselves from face to smartphone without any user intervention, thus creating a seamless authentication experience.

scholarly journals Genetic parameters for growth and reproduction in Simmental cattle from pedigree and genomic relationship

2020 ◽  
pp. 1520 ◽  
Author(s):  
Adonai Alejandro Amaya-Martínez ◽  
Rodrigo Martínez S. ◽  
Mario Fernando Cerón-Muñoz
Keyword(s):  
Genetic Parameters ◽  
Additive Genetic Variance ◽  
Single Step ◽  
Genomic Relationship ◽  
Genomic Information ◽  
Best Linear Unbiased Predictor ◽  
Phenotypic Data ◽  
Single Nucleotide ◽  
Best Linear Unbiased ◽  
Simmental Cattle

Objective. To estimate genetic parameters for weight at eight months of age (W8M), age at first calving (AFC) and first calving interval (FCI) using pedigree and genomic relationship. Materials and methods. Phenotypic data on 481, 3063 and 1098 animals for W8M, AFC and FCI were used, respectively. The genomic information came from a population of 718 genotyped animals with a density chip of 30,106 single nucleotide polymorphism markers (SNP). Univariate and bivariate models were used under the conventional (BLUP) and single step genomic best linear unbiased predictor (ssGBLUP) methodologies. Results. The heritabilities for W8M, AFC and FCI ranged from 0.25 to 0.26, from 0.20 to 0.22 and from 0.04 to 0.08, respectively. The AFC and FCI models under ssGBLUP slightly decreased the error and increased the additive genetic variance, respectively. Conclusions. The inclusion of genomic information slightly increases the accuracy of the genetic estimates in this population. However, a larger amount of genotyped animals and with a higher genetic relationship connectivity would allow breeders to increase the potential of the ssGBLUP methodology in Colombian Simmental cattle.

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