Min Yan¹, Han Wang¹, Shaohua Liu¹, Ye Xu¹, Zizhuo Nie¹, Yifeng Zhou², Li Li^2,*

Phyton-International Journal of Experimental Botany, Vol.90, No.4, pp. 1293-1300, 2021, DOI:10.32604/phyton.2021.015601

Abstract Rho-related GTPase from plants (ROP) proteins play an essential role in plant stress resistance. In this study, the full-length GlROP6 gene was cloned based on G. littoralis transcriptome sequencing data acquired in response to salt stress. The protein sequence, conserved domains, secondary structure, three-dimensional structure, phylogenetic relationships, and expression pattern of the GlROP6 gene were systematically analysed. Our results showed that the full-length GlROP6 gene had an open reading frame of 606 bp, which encoded 201 amino acid residues with a relative molecular weight of 22.23463 kDa and a theoretical isoelectric point of 9.06. Amino acid sequence analyses indicated that… More >

BENJIANG QIAN¹, XIAOYAN YING², GUANG YANG¹, HUIZHANG LI³, JIANMING TAN^1,*

BIOCELL, Vol.45, No.3, pp. 577-588, 2021, DOI:10.32604/biocell.2021.014972

Abstract This work aimed to discover new therapeutic targets in renal clear cell carcinoma by bioinformatics and detect the effect of candidate gene TRIP13 in renal cell carcinoma (RCC) cell proliferation, migration, and invasion. Differentially expressed mRNAs were screened based on The Cancer Genome Atlas (TCGA)-Kidney Renal Clear Cell Carcinoma (KIRC) databases, and functional enrichments, survival analysis, receiver operating characteristic curve (ROC), and Protein–Protein Interaction (PPI) protein interaction analysis were performed by R software to screen the candidate gene TRIP13. Then, the expression of candidate gene TRIP13 in 92 pairs of cancer and adjacent normal tissues of renal clear cell carcinoma… More >

XIAOYU WANG^1,2,#,*, TAKESHI YAMAMOTO^2,#, MAKOTO KADOWAKI², YIFU YANG¹

BIOCELL, Vol.45, No.2, pp. 395-415, 2021, DOI:10.32604/biocell.2021.012280

Abstract Mast cells are the main effector cells in IgE-associated allergic disorders, and we have reported that mucosal mast cells (MMCs) play a more important role in the development of food allergy (FA). IgE with antigen or calcium ionophore stimulation can lead to the activation of MMCs via a calcium-dependent pathway. The purpose of the present study was to identify gene signatures with IgE/antigen (dinitrophenyl-bovine serum albumin, DNP-BSA) or calcium ionophore (A23187) on the activation of MMCs. Differentially expressed genes between the two types of samples were identified with microarray analysis. Gene ontology functional and pathway enrichment analyses of differentially expressed… More >

MERVIN BURNETT¹, VITO RODOLICO², FAN SHEN¹, ROGER LENG¹, MINGYONG ZHANG³, DAVID D. EISENSTAT^4,5, CONSOLATO SERGI^1,3,6,*

BIOCELL, Vol.45, No.1, pp. 17-26, 2021, DOI:10.32604/biocell.2021.013973

Abstract MicroRNAs (miRNAs) are small single-stranded, non-coding RNA molecules involved in the pathogenesis and progression of cancer, including osteosarcoma. We aimed to clarify the pathways involving miRNAs using new bioinformatics tools. We applied WikiPathways and PathVisio, two open-source platforms, to analyze miRNAs in osteosarcoma using miRTar and ONCO.IO as integration tools. We found 1298 records of osteosarcoma papers associated with the word “miRNA”. In osteosarcoma patients with good response to chemotherapy, miR-92a, miR- 99b, miR-193a-5p, and miR-422a expression is increased, while miR-132 is decreased. All identified miRNAs seem to be centered on the TP53 network. This is the first application of… More >

HANYU SHEN¹, SHIQI REN², WEI WANG², CHENLIN ZHANG³, HAIYAN HAO⁴, QIUYAN SHEN⁵, YINONG DUAN¹, ZIHENG WANG^2,6,*, WENLIANG GE^7,*

BIOCELL, Vol.44, No.4, pp. 583-589, 2020, DOI:10.32604/biocell.2020.011345

Abstract Sepsis, characterized as life-threatening sequential organ failure, is caused by a dysregulated host immune response to a pathogen. Conventional practice for sepsis is to control the inflammation source and administer highgrade antibiotics. However, the mortality rate of sepsis varies from 25–30% and can reach 50% if a septic shock occurs. In our current study, we used bioinformatics technology to detect immune status profiles in sepsis at the genomic level. We downloaded and analyzed gene expression profiles of GSE28750 from the Gene Expression Omnibus (GEO) database to determine differential gene expression and immune status between sepsis and normal samples. Next, we… More >

Jia Yang¹, Haiyuan Liu^1,*, Hao He²

CMES-Computer Modeling in Engineering & Sciences, Vol.125, No.1, pp. 111-123, 2020, DOI:10.32604/cmes.2020.010347

Abstract The prediction of intrinsically disordered proteins is a hot research area in bio-information. Due to the high cost of experimental methods to evaluate disordered regions of protein sequences, it is becoming increasingly important to predict those regions through computational methods. In this paper, we developed a novel scheme by employing sequence complexity to calculate six features for each residue of a protein sequence, which includes the Shannon entropy, the topological entropy, the sample entropy and three amino acid preferences including Remark 465, Deleage/Roux, and Bfactor(2STD). Particularly, we introduced the sample entropy for calculating time series complexity by mapping the amino… More >