Genome-Wide Identification of miRNAs in Oily Persimmon (<i>Diospyros oleifera</i> Cheng) and Their Functional Targets Associated with Proanthocyanidin Metabolism by Meng Zhang, Rong Wu, Xinlong Hu, Zhengrong Luo, Qinglin Zhang, Sichao Yang

“…The size, conservation, diversity, stem-loop hairpin structures, and genome location of miRNA or the precursor sequence were analyzed by bioinformatics tools. The promoter elements of the miRNA genes were predicted on the promoter-2.0 software, which indicated that the abundant <i>cis</i>-acting elements were light responsiveness, promoter, and enhancer regions. …”
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Identification and expression analysis of P-type ATPase IIIA subfamily in Puccinia Striiformis f. sp. tritici by Yingjie Sun, Hong Tao, Hong Han, Yiping Zou, Yingyu Xue, Shiwen Chen, Fei Tao

“…To investigate the potential functions of the PMA gene family in Pst, we conducted a genome-wide bioinformatics analysis and examined the expression profiles of the PMA gene family. …”
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Immunization of cattle with a Rhipicephalus microplus chitinase peptide containing predicted B-cell epitopes reduces tick biological fitness by María Martina Esperanza Perez-Soria, Daniel Gustavo López-Díaz, Rafael Jiménez-Ocampo, Gabriela Aguilar-Tipacamú, Massaro W. Ueti, Juan Mosqueda, Ala Tabor

“…First, the predicted amino acid sequence was determined in 4 isolates and their similarity was analysed by bioinformatics. Four peptides containing predicted B-cell epitopes were designed. …”
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NIPAL1 as a prognostic biomarker associated with pancreatic adenocarcinoma progression and immune infiltration by Youlong Zhu, Zongze Qi, Shaoqi Zu, Fangchao Yang, Yanming Wang, Lei Zhu, Xintong Li, Ruixue Li, Hong Zhu

“…Primitive RNA sequencing (RNA-seq) data of PAAD from The Cancer Genome Atlas (TCGA) was utilized for bioinformatics analysis to characterize the expression levels of NIPAL1 in tumor and normal tissues. …”
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The bioinfomatics analysis of the M1 macrophage-related gene CXCL9 signature in cervical cancer by Wenxin Liao, Tingting Liu, Yang Li, Hua Liang, Juexiao Deng, Fujin Shen

“…Next, we used multiple bioinformatics databases and experiments to overall investigate coexpression gene CXCL9, including western blot assay and immunohistochemistry assay, GeneMANIA, Kaplan-Meier Plotter, Xenashiny, TISCH2, ACLBI, HPA, TISIDB, GSCA and cBioPortal databases.Results There were 77 positive coexpression genes and 5 negative coexpression genes in M1 macrophage. …”
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Draft genome dataset of Streptomyces griseoincarnatus strain R-35 isolated from tidal pool sedimentsMendeley DataNCBI by Danielle Dana Mitchell, Jo-Marie Vreulink, Alaric Prins, Marilize Le Roes-Hill

“…Genome annotations performed using the Rapid Annotation with Subsystem Technology (RAST) and the Bacterial and Viral Bioinformatics Resource Centre (BV-BRC) determined the presence of 7996 coding sequences (CDS), 63 transfer RNAs (tRNAs), and six ribosomal RNAs (rRNAs). …”
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Assessment of patient preferences for assisted reproductive technology in China: a discrete choice experiment by Lingli Zhang, Xin Li, Jiali Chen, Yanyan Liu, Yanjun Sun, Yuwen Bao, Xiaodan Qian, Kexing Fang, Bin Wan, Haixia Ding

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Macrophage P2X7 Receptor Function Is Reduced during Schistosomiasis: Putative Role of TGF-β1 by Suellen D’arc Santos Oliveira, Hayandra Ferreira Nanini, Luiz Eduardo Baggio Savio, Mariana Caldas Waghabi, Claudia Lucia Martins Silva, Robson Coutinho-Silva

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The MicroRNA-106a/20b Strongly Enhances the Antitumour Immune Responses of Dendritic Cells Pulsed with Glioma Stem Cells by Targeting STAT3 by Hui Zhou, Chengmei Sun, Cong Li, Shiting Hua, Feng Li, Ruichun Li, Dongpeng Cai, Yuxi Zou, Yingqian Cai, Xiaodan Jiang

“…Furthermore, the interactional binding sites between the 3′-untranslated region (3′-UTR) of STAT3 mRNA and miR-106a/20b were predicted by bioinformatics and verified by a dual-luciferase assay. …”
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HLA-C Alleles and Cytomegalovirus Retinitis in Brazilian Patients with AIDS by Tânia Gisela Biberg-Salum, Maria de Lourdes Veronese Rodrigues, Ana Paula Morais Fernandes, Neifi Hassan Salum Deghaide, Jayter Silva de Paula, Erick C. Castelli, Celso Teixeira Mendes-Junior, Eduardo Antonio Donadi

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Complete Genome Sequence and Comparative Genome Analysis of Variovorax sp. Strains PAMC28711, PAMC26660, and PAMC28562 and Trehalose Metabolic Pathways in Antarctica Isolates by Prasansah Shrestha, Jayram Karmacharya, So-Ra Han, Jun Hyuck Lee, Hyun Park, Tae-Jin Oh

“…The trehalose metabolic pathway was analyzed via bioinformatics tools, such as the dbCAN2 Meta server, Prokka annotation, Multiple Sequence Alignment, ANI calculator, and PATRIC database, which helped to predict trehalose biosynthesis and degradation genes’ involvement in the complete genome of Variovorax strains. …”
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A High Resolution Melting Analysis (HRM) PCR assay for the detection and identification of Old World Leishmania species. by Yusr Saadi-Ben Aoun, Hejer Souguir, Hamed Chouaieb, Mongia Kraiem, Insaf Bel Hadj Ali, Ahmed S Chakroun, Florian Noguier, Akila Fathallah-Mili, David Piquemal, Ikram Guizani

“…<h4>Methodology</h4>The Strumpellin gene was investigated in Trypanosomatidae family using bioinformatics and phylogenetic approaches to explore its evolutionary conservation and suitability for HRM PCR. …”
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Identification and expression of the target gene slc24a2 of oar-mir-377 and its novel snps effects on wool traits in sheep by Huaqian ZHOU, Hua YANG, Wenhua FAN, Hanyulu YANG, Zongsheng ZHAO, Qian YU, Yonglin YANG, Wenzhe ZHANG

“…Our previous miRNA sequencing showed that oar-miR-377 has special expression in secondary hair follicle development and SLC24A2 may be a new candidate target using bioinformatics analysis. In this study, the regulatory relationship of oarmiR- 377 and its specific target gene SLC24A2 was determined in sheep fibroblasts by dual-luciferase reporter assay, RT-qPCR, and western blot. …”
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miR-21 and cathepsin B in familial Mediterranean fever: novel findings regarding their impact on disease severity by Emrah Yucesan, Mehmet Yildiz, Ramila Hajiyeva

“…The objective of this study was to examine the role of IL-1β levels and miR-21-5p, cathepsin B and pyrin levels, which were identified as potential factors causing IL-1β release through the use of bioinformatics tools, in the pathogenesis of FMF and their relationship with disease severity.Materials and methods 50 paediatric patients with FMF and 40 healthy children were enrolled in this study. …”
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Experimental evaluation of mechanically stabilized earth walls reinforced with glass fiber reinforced polymer bars embedded in marble waste-sand mixtures by Shabir Hussain, Irshad Ahmad, Irfan Jamil, Fasih Ahmed Khan, Mansoor Ullah, Saif ul Islam, Mudassir Iqbal, R. Nawaz

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Naming the untouchable – environmental sequences and niche partitioning as taxonomical evidence in fungi by Faheema Kalsoom Khan, Kerri Kluting, Jeanette Tångrot, Hector Urbina, Tea Ammunet, Shadi Eshghi Sahraei, Martin Rydén, Martin Ryberg, Anna Rosling

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Promising markers of CIMP+ colon tumors identified on the basis of TCGA data analysis by G. S. Krasnov, A. D. Beniaminov, R. A. Tychko, G. A. Puzanov, R. O. Novakovskiy, A. V. Kudryavtseva, A. A. Dmitriev

“…Then, the bisulfite conversion of DNA followed by cloning and sequencing was applied to examine the methylation status of CpG sites that were selected as the result of bioinformatics analysis. We observed a high methylation level (β­value = 0.3–0.9) of the CpG sites in the samples with simultaneous downregulation of all 4 genes and a low methylation level (β­value = 0.0–0.2) in the samples with the unchanged expression level of 4 genes and in histologically normal tissues. …”
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Integrative analysis of 5-methylcytosine associated signature in papillary thyroid cancer by Ying Ding, Xinying Li, Wenlong Wang, Lei Cai

“…This study aims to explore the regulation mechanism of m5C RNA methylation-related long noncoding RNAs (m5C-lncRNAs) in papillary thyroid cancer (PTC). Bioinformatics analysis was used to investigate the role of m5C-lncRNAs in the prognosis and tumor immune microenvironment of PTC. …”
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Comparative analysis of NR and NiR gene families reveals nitrite formation mechanisms in two Toona species by Yi Wei, Jianhua Dai, Yanru Fan, Hengfu Yin, Jun Liu, Xiaojiao Han

“…In this study, we employed a comparative analysis of the NR and NiR gene families in T. sinensis and T. ciliata. By integrating bioinformatics and expression pattern assessments, we aimed to elucidate the underlying factors contributing to the variance in nitrate and nitrite levels between these two species. …”
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LncRNA SNHG17 Contributes to Proliferation, Migration, and Poor Prognosis of Hepatocellular Carcinoma by Yue Luo, Junhao Lin, Jiakang Zhang, Zhenghui Song, Dayong Zheng, Fengsheng Chen, Xuefen Zhuang, Aimin Li, Xinhui Liu

“…However, the expression pattern and biological function of SNHG17 in hepatocellular carcinoma (HCC) remain unclear. Bioinformatics analysis and qRT-PCR were performed to detect the expression pattern of SNHG17 in HCC tissues, adjacent nontumorous tissues, and cell lines. …”
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