Identification of new candidate genes for the hereditary predisposition to uveal melanoma: IGCMU trial by Mélanie Godiveau, Mélanie Godiveau, Mélanie Godiveau, Angeline Ginzac, Angeline Ginzac, Angeline Ginzac, Yannick Bidet, Yannick Bidet, Flora Ponelle-Chachuat, Flora Ponelle-Chachuat, Maud Privat, Maud Privat, Xavier Durando, Xavier Durando, Xavier Durando, Xavier Durando, Mathias Cavaillé, Mathias Cavaillé, Mathis Lepage, Mathis Lepage

“…The primary objective is to identify novel candidate genes associated with hereditary cancer predisposition among UM patients. A several-step-bioinformatic analysis will be conducted to identify the genes of interest. …”
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Propofol Ameliorates Microglia Activation by Targeting MicroRNA-221/222-IRF2 Axis by Xi Xiao, Yuanyuan Hou, Wei Yu, Sihua Qi

“…The biological roles and mechanisms of propofol in microglia activation were determined in BV2 cells and primary microglia. Bioinformatic analysis and luciferase reporter assay were used to confirm the regulatory role of miR-221/222 in Irf2 expression. …”
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Molecular Identification and Antimicrobial Potential of Streptomyces Species from Nepalese Soil by Karan Khadayat, Dawa Dindu Sherpa, Krishna Prakash Malla, Sunil Shrestha, Nabin Rana, Bishnu P. Marasini, Santosh Khanal, Binod Rayamajhee, Bibek Raj Bhattarai, Niranjan Parajuli

“…Streptomyces species were isolated on ISP4 media, and characterization was performed according to morphological similarity and 16S rRNA sequence similarity using bioinformatic tools. Ethyl acetate extracts of Streptomyces species were prepared, and the antimicrobial activity was carried out using agar well diffusion technique. …”
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The Major Prognostic Features of Nuclear Receptor NR5A2 in Infiltrating Ductal Breast Carcinomas by Li-Yun Chang, Li-Yu D. Liu, Don A. Roth, Wen-Hung Kuo, Hsiao-Lin Hwa, King-Jen Chang, Fon-Jou Hsieh

“…A supervised network analysis approach was used to build the NR5A-mediated transcriptional regulatory network. Other bioinformatic tools and statistical methods were utilized to confirm and extend results from the network analysis methodology. …”
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Mesenchymal Stem Cells May Alleviate the Intervertebral Disc Degeneration by Reducing the Oxidative Stress in Nucleus Pulposus Cells by Yongzhao Zhao, Qian Xiang, Yunzhong Cheng, Jialiang Lin, Shuai Jiang, Weishi Li

“…Methods. A series of bioinformatic methods were used to calculate the oxidative stress score and autophagy score, identify the OSRDEGs, conduct the function enrichment analysis and protein-protein interaction (PPI) analysis, build the relevant competing endogenous RNA (ceRNA) regulatory networks, and explore the potential association between oxidative stress and autophagy in degenerative NPCs cocultured with MSCs. …”
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Cebpb Regulates Skeletal Stem Cell Osteogenic Differentiation and Fracture Healing via the WNT/β-Catenin Pathway by Jiansong Wang, Chensong Yang, Fanyu Kong, Zhi Zhang, Shengchao Ji, Guixin Sun

“…The research on the mechanisms of skeletal stem cell (SSC) differentiation and fracture healing may help develop new treatment strategies and improve the prognosis of patients at high risk of nonunion. Bioinformatic analysis of scRNA-seq data of mouse SSCs and mouse osteoprogenitors was applied to discover major transcription factors for the regulation of SSC differentiation. …”
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Identification and functional analysis of hub genes involved in deoxynivalenol-induced enterotoxicity in porcine (Sus scrofa) by Jinhua He, Geng Zhao, Mingxia Chen, Ximing Ren, Peizhi Zhu, Zhizhong Liu, Jiayi Zhou, Hanwei Chen, Chuqiao Xiao, Xiang-Guang Li

“…Transcriptomic datasets from porcine jejunal explants exposed to DON were extensively analyzed using bioinformatic techniques in this study. A total of 265 differentially expressed genes (DEGs) were identified, with 238 being up-regulated and 27 being down-regulated, indicating that exposure to DON tends to increase gene expression. …”
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Habitat radiomics based on CT images to predict survival and immune status in hepatocellular carcinoma, a multi-cohort validation study by Kun Chen, Chunxiao Sui, Ziyang Wang, Zifan Liu, Lisha Qi, Xiaofeng Li

“…Ultimately, an immune status profiling was conducted based on bioinformatic analyses and multiplex immunohistochemistry (mIHC) assays to reveal the potential mechanisms. …”
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The functional insight into the genetics of cardiovascular disease: results from the post-GWAS study by L. O. Bryzgalov, E. E. Korbolina, I. S. Damarov, T. I. Merkulova

“…We have reported the bioinformatic approach allowing effective identification of functional non-coding variants by integrated analysis of genome-wide data. …”
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The Invasion and Metastasis of Colon Adenocarcinoma (COAD) Induced by SALL4 by Wenjuan Zhang, Yan Hu, Wenbing Zhang, Ke Yi, Xiaohui Xu, Zhihua Chen

“…The SALL4 expression in adjacent normal mucosa tissues and carcinoma tissues of patients with COAD was detected through bioinformatic analysis based on TCGA database and immunohistochemistry. …”
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Parent-of-origin effects on nuclear chromatin organization and behavior in a Drosophila model for Williams–Beuren Syndrome by A. V. Medvedeva, E. V. Tokmatcheva, A. N. Kaminskaya, S. A. Vasileva, E. A. Nikitina, A. V. Zhuravlev, G. A. Zakharov, O. G. Zatsepina, E. V. Savvateeva-Popova

“…As is shown in this study, the polytene X chromosome bands in reciprocal hybrids between agnts3 and the wild type strain Berlin are heterogeneous in modes of FEC regulation depending either on maternal or paternal gene origin. Bioinformatic analysis reveals that FEC between X:11AB and the other X chromosome bands correlates with the occurrence of short (~30 bp) identical DNA fragments partly homologous to Drosophila 372-bp satellite DNA repeat. …”
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eDNA Metabarcoding, a Promising Tool for Monitoring Aquatic Biodiversity in the Estuaries of Reunion Island (South‐West Indian Ocean) by Lou‐Anne Jannel, François Guilhaumon, Pierre Valade, Pascale Chabanet, Guillaume Borie, Henri Grondin, Philippe Jourand

“…To this end, fish were captured by EF, and we then isolated DNA from the water samples to perform bioinformatic analyses derived from eDNA, using the 12S marker. …”
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Molecular Assessment of Domain I of Apical Membrane Antigen I Gene in Plasmodium falciparum: Implications in Plasmodium Invasion, Taxonomy, Vaccine Development, and Drug Discovery by Che Roland Achungu, Damian Nota Anong, Robert Adamu Shey, Cevie Jesenta Tabe

“…The DNA sequence generated was converted into the matching amino acid sequence using bioinformatic techniques. These amino acid sequences were utilized to search for antigenic epitopes, therapeutic targets, and conserved short peptides in Domain I of PfAMA1. …”
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<i>Ex Vivo</i> Regional Gene Therapy Compared to Recombinant BMP-2 for the Treatment of Critical-Size Bone Defects: An In Vivo Single-Cell RNA-Sequencing Study by Arijita Sarkar, Matthew C. Gallo, Jennifer A. Bell, Cory K. Mayfield, Jacob R. Ball, Mina Ayad, Elizabeth Lechtholz-Zey, Stephanie W. Chang, Osamu Sugiyama, Denis Evseenko, Jay R. Lieberman

“…Here, for the first time, we performed single-cell RNA sequencing (10x Genomics) of hematoma tissue in six rats with critical-sized femoral defects that were treated with either regional gene therapy or rhBMP-2. Our unbiased bioinformatic analysis of 2393 filtered cells in each group revealed treatment-specific differences in their cellular composition, transcriptional profiles, and cellular communication patterns. …”
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CircSPG21 ameliorates oxidative stress-induced senescence in nucleus pulposus-derived mesenchymal stem cells and mitigates intervertebral disc degeneration through the miR-217/SIRT... by Yongbo Zhang, Sheng Yang, Xuan You, Zhengguang Li, Liuyang chen, Rui Dai, Hua Sun, Liang Zhang

“…The purpose of this study was to investigate the competitive endogenous RNA mechanism involved in the senescence of NPMSCs induced by tert-butyl hydroperoxide (TBHP). Methods Bioinformatic analysis identified differentially expressed circRNAs. …”
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Rational Primer and Probe Construction in PCR-Based Assays for the Efficient Diagnosis of Drifting Variants of SARS-CoV-2 by Divya RSJB Rana, Nischal Pokhrel, Santosh Dulal

“…In this study, we have utilized in silico-based bioinformatic tools where the alignment for genes, the positions and types of SNPs/mutations of VOCs, and the relative number of SNPs per nucleotide in different genomic regions were investigated. …”
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Identification of an Inflammatory Response-Related Gene Signature to Predict Survival and Immune Status in Glioma Patients by Zhaoyue Yan, Yushuai Gao, Jinliang Yu, Zhiyuan Shen, Xingyao Bu

“…The differences in clinical correlations, immune infiltrate types, immunotherapeutic response predictions, and pathway enrichment among subgroups were investigated via bioinformatic algorithms. Results. In total, 37 DE-IRRGs were determined, of which 31 were found to be associated with survival. …”
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Development of a 3-MicroRNA Signature and Nomogram for Predicting the Survival of Patients with Uveal Melanoma Based on TCGA and GEO Databases by Jun Zuo, Hongquan Ye, Jing Tang, Jianqun Lu, Qi Wan

“…The aim of this study was to apply bioinformatic analysis to develop a robust miRNA signature and construct a nomogram model in uveal melanoma (UM) to improve prognosis prediction. …”
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Unique North American isolates of severe metastatic hypervirulent Klebsiella pneumoniae strain infections with hepatic abscesses seen in young patients within Texas. by Junaid M Alam, Eric N Riha, Haris Ahmed, Hong M Thai, Kevin Garnepudi, Ramesh B Kesavan, Gnananandh Jayaraman, Anna Sangster, Dylan Curry, Heidi A Butz, Lori Smith, Maureen Vowles, Kelly F Oakeson, Erin L Young, Siva T Sarva

“…Perform whole genome sequencing and bioinformatic analysis to evaluate potential outbreak of specific hvKp bacteria isolates.…”
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Sox9-Increased miR-322-5p Facilitates BMP2-Induced Chondrogenic Differentiation by Targeting Smad7 in Mesenchymal Stem Cells by Yongsheng Zeng, Chengcheng Du, Pengcheng Xiao, Yiting Lei, Piao Zhao, Zhenglin Zhu, Shengqiang Gao, Bowen Chen, Shengwen Cheng, Wei Huang, Chen Zhao

“…We found that miR-322-5p meets the requirement through next-generation sequencing (NGS) and bioinformatic analysis. The targeting relationship between miR-322-5p and Smad7 was confirmed by dual-luciferase reporter assays, qPCR, and western blotting (WB). …”
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