A Novel 8-Gene Prognostic Signature for Survival Prediction of Uveal Melanoma by Zhongjun Tang, Kebo Cai

“…In the validation phase, the signature was validated in The Cancer Genome Atlas database. Results. Forty-one genes were identified as hub genes of metastasis by WGCNA. …”
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Advancing nuclear transfer cloning in zebrafish (Danio rerio) into a translational pathway using interdisciplinary tools. by Sarah Bodenstein, William Poulos, Fermin Jimenez, Michael Stout, Yue Liu, Zoltan M Varga, Jose Cibelli, Terrence R Tiersch

“…The ZIRC and its community would benefit from incorporating somatic cell nuclear transfer (SCNT) cloning which would allow the preservation of diploid genomes. The goal of this study was to advance a zebrafish SCNT cloning protocol into a reproducible community-level pathway by use of process mapping and simulation modeling approaches to address training requirements, process constraints, and quality management gaps. …”
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Liquid Chromatography-Mass Spectrometry-Based Untargeted Metabolomics Analysis of Differential Metabolites in Three Types of Boza Made from Different Raw Materials by WANG Qi, GAO Yan, XUE Juanjuan, ZENG Jun, HUO Xiangdong, ZHAO Zhongkai

“…According to Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathway enrichment analysis, these differential metabolites mainly participated in the biosynthesis of various secondary metabolites in plants, the biosynthesis of phenylpropanoids, the biosynthesis and degradation of flavonoids, and other metabolic pathways. …”
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Characterization of tumor evolution by functional clonality and phylogenetics in hepatocellular carcinoma by Zeynep Kacar, Eric Slud, Doron Levy, Julián Candia, Anuradha Budhu, Marshonna Forgues, Xiaolin Wu, Arati Raziuddin, Bao Tran, Jyoti Shetty, Yotsawat Pomyen, Jittiporn Chaisaingmongkol, Siritida Rabibhadana, Benjarath Pupacdi, Vajarabhongsa Bhudhisawasdi, Nirush Lertprasertsuke, Chirayu Auewarakul, Suleeporn Sangrajrang, Chulabhorn Mahidol, Mathuros Ruchirawat, Xin Wei Wang

“…Furthermore, we observe significant B cell enrichment in linear trees compared to non-linear trees suggesting the need for further research to uncover potential variations in immune cell types within genomically determined phylogeny types. These results hint at the possibility that tumor cells and their microenvironment may collectively influence the tumor evolution process.…”
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The association between type 2 diabetes and asthma incidence: a longitudinal analysis considering genetic susceptibility by Fei Chen, Ying Yang, Liping Yu, Lulu Song, Cong Zhang, Yifan He, Lili Wu, Wanlu Ma, Bo Zhang

“…A polygenic risk score (PRS) for asthma was derived from genome-wide association studies summary. Cox regression models were used to assess the association between T2D and asthma, incorporating the asthma PRS. …”
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<i>Thermithiobacillus plumbiphilus</i> AAFK—Arsenic-Resistant Bacteria Isolated from Arsenopyrite Material by Artem Shaikin, Anton Zvonarev, Mikhail Vainshtein, Tatiana Abashina

“…The first description of complete genome for the species <i>T. plumbiphilus</i> was also carried out and discovered genes providing the As resistance. …”
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Association between Genetic Instability and Helicobacter pylori Infection in Gastric Epithelial Dysplasia by Jin Su Kim, Woo Chul Chung, Kang-Moon Lee, Chang Nyol Paik, Kyeong Soo Lee, Hye Ji Kim, Young Wook Kim, Ji Han Jung, Seung June Noh, Yun Kyung Lee

“…In gastric carcinogenesis, changes of DNA methylation appear to be an early molecular event, and the genome-wide methylation state is closely correlated with the level of long interspersed nucleotide element-1 (LINE-1) methylation. …”
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Nonylphenol promotes epithelial-mesenchymal transition in colorectal cancer cells by upregulating miR-151a-3p by Biao Wang, Nianjie Zhang, Lin Dai, Yuanwei Zhang, Shuo Yin, Xuefeng Yang

“…Analysis of The Cancer Genome Atlas (TCGA) data revealed increased expression levels of miR-151a-3p in CRC tissues. …”
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In silico analysis of mitochondrial DNA genes: implication for conservation of Tor putitora (Hamilton, 1822) by Kushal Thakur, Deepika Sharma, Ankita Sharma, Amit Kumar Sharma, Danish Mahajan, Bhavna Brar, Hishani Kumari, Sandeep Kumar, Madhu Bala, Sunil Kumar, Rakesh Kumar

“…Bioinformatic analysis was carried out using 106 COI and 183 Cyt b gene sequences as well as 2 reference genome sequences. Analysis of COI and Cyt b gene reveals 18 and 85 haplotypes respectively. …”
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Molecular Characterization of Wild and Cultivated Strawberry (Fragaria × ananassa) through DNA Barcode Markers by Awais Qarni, Khushi Muhammad, Abdul Wahab, Amir Ali, Chandni Khizar, Izhar Ullah, Abeer Kazmi, Tahira Sultana, Asma Hameed, Muhammad Younas, Mehdi Rahimi

“…Initially, the efficacy of eight DNA barcode markers was analyzed based on the amplification and sequencing of the genome of selected Fragaria species. The resultant sequences were analyzed using BLAST, MEGA 7.0, and Bio Edit software. …”
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The Genetic Diversity, Population Structure, and Historical Dynamics of Wild <i>Pyrus</i> Species on the Yunnan–Kweichow Plateau by Xiang Yang, Xingguang Dong, Kunming Li, Ying Zhang, Chenxi Xu, Hongliang Huo, Luming Tian, Jiayu Xu, Chao Liu, Dan Qi, Yufen Cao

“…These analyses entailed the collection of 80 accessions, whole-genome resequencing, and the detection of variants including SNPs, InDels, SVs, and CNVs. …”
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Microscopic and molecular detection of Cytauxzoon spp. in cats in Mosul city, Iraq by Sura S. Aghwan, Enas S. Hussein, Salam A Esmaeel

“…The results indicate that some of the tested samples contain DNA from the Cytauxzoon genus, based on the presence of bands at the expected 1600 bp size. The local genome sequence of Cytauxzoon felis Sesa LC775709.1 is highly similar to sequences found in geographically diverse regions such as Switzerland, Italy, France, and the USA. …”
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Unveiling the Mechanism of Deprotonation and Proton Transfer of DNA Polymerase Catalysis via Single‐Molecule Conductance by Lihua Zhao, Yang Xu, Zhiheng Yang, Wenzhe Liu, Shichao Zhong, Jingwei Bai, Xuefeng Guo

“…This work provides useful insights into a fundamental chemical reaction that impacts genome synthesis efficiency and Pol fidelity, which the discovery of Pol‐targeting drugs and design of artificial Pols for DNA synthetic applications are expected to accelerated.…”
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Bioinformatics approach reveals the critical role of inflammation-related genes in age-related hearing loss by Xi Gu, Chenyu Chen, Yuqing Chen, Chaojun Zeng, Yanchun Lin, Ruosi Guo, Shujin Xu, Chang Lin

“…The IRDEGs were mainly enriched in MAPK, PI3K-Akt, Hippo and JAK-STAT pathways by analysis of Gene Ontology and Kyoto Encyclopedia of Genes and Genomes. We then identified 10 key IRDEGs including Alox5ap, Chil1, Clec7a, Dysf, Fcgr3, etc. using Least absolute shrinkage and selection operator regression analysis and converted them into human genes. …”
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Functional investigation suggests CNTNAP5 involvement in glaucomatous neurodegeneration obtained from a GWAS in primary angle closure glaucoma. by Sudipta Chakraborty, Jyotishman Sarma, Shantanu Saha Roy, Sukanya Mitra, Sayani Bagchi, Sankhadip Das, Sreemoyee Saha, Surajit Mahapatra, Samsiddhi Bhattacharjee, Mahua Maulik, Moulinath Acharya

“…In a prior haplotype-based Genome Wide Association Study (GWAS), we identified a novel CNTNAP5 genic region, significantly associated with PACG. …”
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Visible and rapid detection of feline chaphamaparvovirus using multienzyme isothermal rapid amplification and lateral flow dipstick assay by Jun Ji, Xinhao Mu, Shunshun Pan, Xin Xu, Shiyuan Zhang, Honghui Huang, Ying Li, Yingzuo Bi, Lunguang Yao

“…The primers and probes for the multienzyme isothermal rapid amplification and lateral flow dipstick (MIRA-LFD) assay were designed to target the conserved regions of the FeChPV genome and determine the optimal reaction temperature and time. …”
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Squamate reptiles may have compensated for the lack of γδTCR with a duplication of the TRB locus by Jordan M. Sampson, Kimberly A. Morrissey, Kieran J. Mikolajova, Kourtney M. Zimmerly, Neil J. Gemmell, Michael G. Gardner, Terry Bertozzi, Terry Bertozzi, Robert D. Miller

“…TRE is absent from the genomes of the tuatara and all Archosaurs examined and appears squamate specific.…”
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Identification of Aberrantly Expressed miRNAs in Gastric Cancer by Dan Liu, Xiaowei Hu, Hongfeng Zhou, Guangyue Shi, Jin Wu

“…The noncoding components of the genome, including miRNA, can contribute to pathogenesis of gastric cancer. …”
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The causal association of cheese intake with type 2 diabetes mellitus: results from a two-sample Mendelian randomization study by Tao Zhong, Yu-qing Huang, Guiming Wang

“…Material and methods Summary cheese intake statistics were obtained from UK Biobank and publicly available genome-wide association studies (GWAS) for type 2 diabetes from IEU OpenGWAS, FinnGen Biobank, EBI GWAS, and Biobank Japan. …”
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Aberrant heterochromatin silences immune response genes in chronic lymphocytic leukemia by Olivia M. Depies, Qianqian Guo, Yuan Gao, Sutapa Sinha, Zhenqing Ye, Weiguo Han, Kari G. Rabe, Mingma S. Hoel, Heather C. Darby, Chuanhe Yu, Esteban Braggio, Sameer A. Parikh, Susan L. Slager, Neil E. Kay, Zhiquan Wang

“…Here, we characterized the genome-wide histone modification landscapes of CLL using patient-derived samples across the disease course. …”
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