35 results for “SNP”

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Research ArticleOpen accessEvery word in the titlePerformance Improvement of SNP Search Using Multithread ProgrammingGeraldo Francisco Donegá Zafalon, Álvaro Magri Nogueira da Cruz, Anderson Rici Amorim et al.Pattern recognition is an important field in Bioinformatics and a well-known task is the search for Single Nucleotide Polymorphism (SNP). It is possible to search for a known SNP position and analyze it using patterns of DNA bases, called masks. Nonetheless, this process becomes computationally expensive as the amount of available genomic data increases. Thus, in this study, we have … …Journal of Computer Science, Vol. 14, Issue 11 · 7 Nov 2018 · 7,734 accessesView PDF Cite

Research ArticleOpen accessEvery word in the titleForensic Evidence for Cytochrome b Gene SNPs in Obese and Non Obese Saudi ArabiansSayed Amin Mohamed Amer, Bandar Raddat Allah AlHothali, Monira Hmoud Alotaibi, Salah Mohamed TubaigyOral swabs from obese and non obese Saudi Arabians from both sexes with an average age of 35 years old were collected and their DNAs were extracted. PCR for 1000 bp of the mitochondrial cytochrome b (cytb) gene was conducted and the amplified products were sequenced in order to determine the possible forensic or obesity-related SNPs. Alignment of the obtained … …American Journal of Biochemistry and Biotechnology, Vol. 14, Issue 1 · 9 Mar 2018 · 9,380 accessesView PDF Cite

Research ArticleOpen accessEvery word in the titleRandom Forest-Based Genome Analysis for Disease Association and SNP Marker IdentificationXiangdong LiuAt present, genomic data analysis has the problems of insufficient model interpretation and limited computational efficiency in disease association research. As a powerful machine learning algorithm, Random Forest has demonstrated excellent ability in processing complex and multi-dimensional data sets and has gradually become a popular tool in the field of bioinformatics. The purpose of this paper is to explore how … …American Journal of Biochemistry and Biotechnology, Vol. 21, Issue 2 · 25 Jul 2025 · 5,533 accessesView PDF Cite

Research ArticleOpen accessEvery word in the titleMinimum Free Energy Based Evaluation of mRNAs Secondary Structures Constructed by 18 Clinically Significant Exonic Single Nucleotide Polymorphisms (SNPs) and Haplotypes of 5 Missense SNPs of RB1 GeneSarder Nasir Uddin, Apurba Majumder, Khandker Khaldun Islam et al.Clinically significant 18 Single Nucleotide Polymorphisms (SNPs) from exon regions of Retinoblastoma gene (RB1) were analyzed to find out the structural variations in mRNAs. Online bioinformatic tools i.e., Vienna RNA, RNAfold were used for secondary structure analysis of mRNAs. Predicted minimum Free Energy Change (MFE) was calculated for mRNAs structures. It has been observed that the average of predicted MFE … …American Journal of Biochemistry and Biotechnology, Vol. 11, Issue 4 · 21 Oct 2015 · 8,556 accessesView PDF Cite

Research ArticleOpen accessIn the keywordsGenome-Wide Association Study of Single Nucleotide Polymorphisms with Milk Traits in Red Gorbatov CattleMarina Ivanovna Selionova, Grigorii Sergeyevich Shekhovtsev, Ivan Petrovich Prokhorov et al.In order to preserve the gene pool of the Red Gorbatov breed, it is necessary to use a set of genomic analysis tools that allows more efficient planning in obtaining individuals who meet the economic requirements of dairy farming. The aim of the work was to identify candidate genes associated with milk production traits in Red Gorbatov cattle using a … …American Journal of Animal and Veterinary Sciences, Vol. 19, Issue 4 · 12 Oct 2024 · 4,736 accessesView PDF Cite

Research ArticleOpen accessIn the keywordsAn Effective and Viable DNA Extraction Protocol for FFPE Tissues and its Effect on Downstream Molecular ApplicationSai Sushmitha Kontham, Charles Emmanuel Jebaraj Walter, Manjula Raju et al.Archival Formalin-Fixed Paraffin-Embedded (FFPE) tissues are a readily available source of DNA for retrospective studies including genetic predisposition. FFPE tissues present significant challenges for extraction of pure genomic DNA in adequate amounts due to the harsh fixation conditions and long-term storage associated with samples. The aim of the study is to propose a simple, in-expensive, viable protocol for the extraction … …American Journal of Biochemistry and Biotechnology, Vol. 16, Issue 1 · 24 Mar 2020 · 7,374 accessesView PDF Cite

Research ArticleOpen accessIn the keywordsThe Relevance of Bioinformatic Tools in the Study of Polymorphisms of the B4GALNT2 Gene and its Association with CancerEddaikra Atika, Haddouche Hayet, Touil-Boukoffa ChafiaThe human gene B4GALNT2 encodes an enzyme (β1,4-N-acetylgalactosaminyltransferase II) that controls the expression of the blood group Sda carbohydrate’s antigen. This gene is located in position 17q21,32 and consists of 11 exons. The characterization and understanding of genetic variation is a real challenge in human genetics, both for healthy individuals and diseased ones. The in silico study of the B4GALNT2 … …Current Research in Bioinformatics, Vol. 8, Issue 1 · 27 Feb 2020 · 6,767 accessesView PDF Cite

Research ArticleOpen accessIn the keywordsTen Bioinformatics Tools for Single Nucleotide Polymorphisms DetectionMahin Ghorbani, Hamed KarimiSingle Nucleotide Polymorphisms (SNPs) as unique genetic variations are widely used as biomarkers for drug designing and development for individualized therapy. SNP genotyping techniques such as SBE with MS detection, SBE with fluorescence intensity detection, The FP-TDI, Pyrosequencing and The TaqMan 5’ nuclease assay are low-speed, time consuming and very expensive. To overcome such disadvantages, bioinformatics tools are emerged as … …Current Research in Bioinformatics, Vol. 3, Issue 2 · 10 Apr 2015 · 17,728 accessesView PDF Cite

Research ArticleOpen accessIn the keywordsNitric Oxide Donors with Therapeutic Strategic in Experimental Schistossomiasis MansoniWander Rogério Pavanelli, Jean Jerley Nogueira da Silva, Carolina Panis et al.Schistosomiasis, an immune disease, remains a major public health problem in endemic area. To determine the influence of Nitric Oxide (NO) on this disease, we tested two compounds (Trans-[Ru(bpy)2(NO)SO3](PF6)-PF6 and Na2[Fe(CN)5(NO)]-SNP, which releases NO when activated by biological reducing agents, in BALB/c mice infected subcutaneously by Schistosoma BH strains. The parasitic activity of NO-donors was evaluated in this model by … …American Journal of Immunology, Vol. 10, Issue 4 · 24 Feb 2015 · 7,851 accessesView PDF Cite

Research ArticleOpen accessIn the keywordsPHYLOGENETIC ANALYSIS OF THE SWINE LEUKOCYTE ANTIGEN-6 GENE GENERATED FROM SPLEENTISSUE OF KOREAN NATIVE PIGJaeyoung Kim, Hyojun Park, Yoonchung Choi, Hoyoung ChungThis study was aimed to search genetic variants, to investigate phylogenetic relationships between pig breeds and to provide basic genetic information of Korean Native Pigs (KNP) using the variations of the Swine Leukocyte Antigen-6 (SLA-6) gene. Cloning of the Swine Leukocyte Antigen (SLA)-6 gene in the MHC non-classical region was performed with spleen tissues of Korean Native Pigs (KNP). Sequencing … …American Journal of Animal and Veterinary Sciences, Vol. 9, Issue 1 · 22 Feb 2014 · 7,234 accessesView PDF Cite