Sait Can Yucebas^*

Intelligent Automation & Soft Computing, Vol.37, No.1, pp. 49-71, 2023, DOI:10.32604/iasc.2023.036871

Abstract The number of studies in the literature that diagnose cancer with machine learning using genome data is quite limited. These studies focus on the prediction performance, and the extraction of genomic factors that cause disease is often overlooked. However, finding underlying genetic causes is very important in terms of early diagnosis, development of diagnostic kits, preventive medicine, etc. The motivation of our study was to diagnose bladder cancer (BCa) based on genetic data and to reveal underlying genetic factors by using machine-learning models. In addition, conducting hyper-parameter optimization to get the best performance from different models, which is overlooked in… More >

Xihua Liu¹, Min Luo¹, Xiaofei Chen¹, Changjun Ding^2,*

Phyton-International Journal of Experimental Botany, Vol.90, No.6, pp. 1697-1709, 2021, DOI:10.32604/phyton.2021.015295

Abstract Bamboos are one of the most beautiful and useful plants on Earth. The genetic background and population structure of bamboos are well known, which helps accelerate the process of artificial domestication of bamboo. Partial sequences of six genes involved in nitrogen use efficiency in 32 different bamboo species were analyzed for occurrence of single nucleotide polymorphisms (SNPs). The nucleotide diversity θw and total nucleotide polymorphisms π_T of the sequenced DNA regions was 0.05137 and 0.03332, respectively. Both πnonsyn /πsyn and Ka/Ks values were <1. The nucleotide sequences of these six genes were inferred to be relatively conserved, and the haplotype… More >

RUCHI SHAH^1,*, SONALI VERMA¹, AMRITA BHAT¹, GH RASOOL BHAT¹, VARUN SHARMA¹, INDU SHARMA¹, HEMENDER SINGH¹, SANDEEP KAUL², EKTA RAI¹, SWARKAR SHARMA^1,*

BIOCELL, Vol.45, No.3, pp. 665-670, 2021, DOI:10.32604/biocell.2021.09629

Abstract Esophageal cancer is the second most common type of cancer after lung carcinoma in the state of Jammu and Kashmir (J&K). The understanding of genetics in Esophageal cancer development is poor in the state. Genome wide association studies (GWAS) has proved to be unsurpassed tool in identification of new loci associated with different cancers. GWAS in Chinese population has identified SNP rs2294693 present in UNC5CL (UNC-5 Family C-Terminal like) to be associated with non-cardia gastric cancer. We performed a case control association study and genotyped the SNP rs2294693 using Taqman allele discrimination assay in 566 individuals (166 esophageal cancer patients… More >

PING YANG, LIJUAN YUAN, SHUJIA PENG, YANMING DONG, LIN YANG, XI’E HU, GUOQIANG BAO^*

BIOCELL, Vol.45, No.1, pp. 103-108, 2021, DOI:10.32604/biocell.2021.011220

Abstract This study aimed to evaluate the association between the CLEC3A gene polymorphisms (rs2735401/rs2293776/ rs2072665) and the gastric cancer risk in the Northwestern Chinese population. A hospital-based case-control study was conducted on 681 cases and 756 healthy controls. Odds ratio (OR) and 95% confidence intervals (CI) were applied to evaluate the association of the CLEC3A polymorphisms on gastric cancer risk. We found that there was no significant association between the CLEC3A polymorphisms and gastric cancer susceptibility, which was detected in the main analysis or stratification analyses of age, gender, and clinical stages. Our findings verified that the CLEC3A polymorphisms are not… More >

AFRAH ALKHURIJI¹, ATEKAH ABDULLAH MOHAMMED ALRAQIBAH¹, AMAAL AWAD ALHARBI¹, ZENEB BABAY², FATIMAH BASIL AL-MUKAYNIZI³, ARWA ALTHOMALI³, SONYA S. ABDEL-RAZEQ⁴, ARJUMAND S. WARSY⁵

BIOCELL, Vol.44, No.4, pp. 613-621, 2020, DOI:10.32604/biocell.2020.09652

Abstract Methylenetetrahydrofolate reductase (MTHFR) deficiency is the most common genetic cause of hyperhomocysteinemia, which has been implicated in the etiology of recurrent spontaneous abortion (RSA). This study was designed to investigate the association between two single nucleotide polymorphisms (SNP) (rs1801133 [C677T] and rs1801131 [A1298C]) in the MTHFR gene and RSA, in Saudis. These two SNPs were selected as these polymorphisms have a different effect on the activity and stability of the enzyme, and significantly diverse effects have been reported in relation to the association with RSA. Ethical approval was acquired from the IRB at King Saud University (KKUH), Saudi Arabia, and… More >

Fu-I Chou¹, Wen-Hsien Ho^2,3, Chiu-Hung Chen^4,*

Intelligent Automation & Soft Computing, Vol.26, No.3, pp. 501-512, 2020, DOI:10.32604/iasc.2020.013926

Abstract This paper proposes a novel genetic algorithm (GA) that embeds a niche competition strategy (NCS) in the evolutionary flow to solve the combinational optimization problems that involve multiple loci in the search space. Unlike other niche-information based algorithms, the proposed NCSGA does not need prior knowledge to design niche parameters in the niching phase. To verify the solution capability of the new method, benchmark studies on both the travelling salesman problem (TSP) and the airline recovery scheduling problem were first made. Then, the proposed method was used to solve single nucleotide polymorphism (SNP) barcodes generation problems in a genetic association… More >

Sahar ALZAIN¹, Hana AL SHEIKH¹, Arwa AL THOMALI², Fatimah AL-MUKAYNIZI², Noha ALMOBEREK², Sahar A. ALMALKI², Narasimha Reddy PARINE³, Arjumand WARSY²,

BIOCELL, Vol.44, No.1, pp. 55-62, 2020, DOI:10.32604/biocell.2020.07974

Abstract Residual ridge resorption (RRR) is the decrease in the jaw structure that follows tooth extraction. It is a multifactorial disorder, but reports on the associated genetic factors are scarce, particularly amongst the Saudis. This study aimed to investigate the role of single nucleotide polymorphisms (SNPs) in fibroblast growth factor receptor 1 oncogene partner 2 (FGFR1OP2) in RRR development in Saudis. The study included 192 individuals (RRR = 96; controls = 96) attending outpatient clinics at the College of Dentistry, King Saud University. Demographic and clinical data were collected, the digital panoramic dental radiograph was obtained, and mandibular residual ridge height… More >