EDF1 accelerates ganglioside GD3 accumulation to boost CD52-mediated CD8+ T cell dysfunction in neuroblastoma by Di Li, Meng Li, Zhenjian Zhuo, Huiqin Guo, Weixin Zhang, Yile Xu, Hai-Yun Wang, Jiabin Liu, Huimin Xia, Huiran Lin, Jue Tang, Jing He, Lei Miao

“…Methods We performed bulk-RNA sequencing and lipidomic analyses of children with mediastinal NB. Bioinformatics analysis and biological validation were applied to uncover the underlying mechanism. …”
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CTSG is a prognostic marker involved in immune infiltration and inhibits tumor progression though the MAPK signaling pathway in non-small cell lung cancer by Qian Dai, Xufeng Yao, Yanke Zhang, Qian Chai, Xueyi Feng, Hongbin Zhu, Lei Zhao

“…Transcriptome sequencing and subsequent bioinformatic analysis were performed to explore the signaling pathways regulated by CTSG. …”
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Molecular anti-tumorigenic mechanism of Radix Polygoni Multiflori-derived exosome-like nanoparticles by Mingqing Yang, Lining Xu, Weiyu Wang

“…RNA sequencing and qPCR experiments were performed, and the results of bioinformatic analyses revealed that RPM-ELNs could globally regulate expression levels of numerous genes associated with cancer and the cell cycle. …”
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Exploratory analysis of molecular traits of the mitochondrial DNA of leafcutting ants to infer taxonomic characters towards an integrative taxonomy by Perpetua Ndubuisi Onyinyechi, Natália Martins Travenzoli, Maykon Passos Cristiano, Danon Clemes Cardoso

“…., 2020, Atta Fabricius, 1804 and Acromyrmex Mayr, 1865 as models to evaluate a mitochondrial genome fragment regularly applied in phylogenetic and evolutionary studies. Bioinformatic analysis revealed shared structural evidence between species that can serve as diagnostic characters, distinguishing them from other species and supporting the classification of the three genera of leafcutting ants. …”
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Characterization and phylogenetic analysis of the chloroplast genome of endangered Impatiens chishuiensis by LAN Wenxiang, MO Qing, HUANG Haiquan, HUANG Meijuan

“…[Methods] Based on the chloroplast genome sequence of I. chishuiensis, an endemic species in China, the assembly, annotation, gene characterization, sequence repetition and phylogenetic analysis of chloroplast genome were performed by bioinformatic softwares. [Results] (1) The chloroplast genome of I. chishuiensis has a typical tetrameric structure with a total GC content of 37% and a length of 152 892 bp. …”
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TMT-based quantitative proteomics reveals the genetic mechanisms of secondary hair follicle development in fine-wool sheep. by Li-Xia Qiu, Qian Yu, Hua-Qian Zhou, Wen-Hua Fan, Jing-Jing Zheng, Yong-Lin Yang, Wen-Zhe Zhang, Xin Cao, Hua Yang

“…We found that the density of secondary hair follicles and the secondary hair follicles/primary hair follicles ratio increased from 85 to 105 gestational days. Bioinformatic analysis identified 238, 35, and 348 differentially expressed proteins in the respective comparison periods. …”
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LAMB1 downregulation suppresses glioma progression by inhibiting aerobic glycolysis through regulation of the NF-κB/HK2 axis by Zhenxiang Zhao, Haiying Liu, Yingzi Liu, Junpeng Wen, Jiangwei Yuan

“…Western blotting was conducted to monitor the expression of HK1, HK2, PDHA, and PKM. Bioinformatic analysis was employed to investigate the downstream mechanism of LAMB1. …”
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Identification of mitochondrial carrier homolog 2 as an important therapeutic target of castration-resistant prostate cancer by Yankui Liu, Anjie Chen, Yufan Wu, Jiang Ni, Rong Wang, Yong Mao, Ning Sun, Yuanyuan Mi

“…Abstract We here investigate the expression of the mitochondrial carrier homolog 2 (MTCH2) and its potential function in castration-resistant prostate cancer (CRPC). Bioinformatic analyses reveal that MTCH2 overexpression is associated with critical clinical parameters of prostate cancer. …”
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Placental Vimentin Expression in Preeclampsia and Gestational Diabetes Mellitus by Fırat Asir, Suleyman Cemil Oglak, Tugcan Korak, Fatih Tas, Mehmet Yilmaz, Fikri Erdemci, Firat Sahin, Hayat Ayaz, Emine Zeynep Yilmaz, Gokhan Bolluk

“…Vimentin expression was generally recorded as negative in placental villi, fibrinoid substances, and connective tissue cells in the GDM group. Bioinformatic analysis showed that the AGE-RAGE signaling pathway and cancer-related pathways were mainly observed in Vimentin-associated pathways, which finally activate inflammatory pathways in both preeclampsia and GDM. …”
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CRIP1 inhibits cutaneous melanoma progression through TFAM-mediated mitochondrial biogenesis by Jianqiang Wu, Lixia Chen, Peijun Wen

“…However, the biological function and underlying mechanisms of CRIP1 in melanoma progression are largely unknown. Bioinformatic prediction of CRIP1 expression in melanoma and its association with clinical parameters and prognosis of patients. …”
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Alternative splicing expands the antiviral IFITM repertoire in Chinese rufous horseshoe bats. by Nelly S C Mak, Jingyan Liu, Dan Zhang, Jordan Taylor, Xiaomeng Li, Kazi Rahman, Feiyu Chen, Siddhartha A K Datta, Kin Kui Lai, Zhengli Shi, Nigel Temperton, Aaron T Irving, Alex A Compton, Richard D Sloan

“…In parallel with human IFITM1-3, bat IFITM isoforms localize to distinct sites of virus entry which influences their antiviral potency. Further bioinformatic analysis of IFITM repertoires in 206 mammals reveals that alternative splicing is a recurring strategy for IFITM diversification, albeit less widely adopted than gene duplication. …”
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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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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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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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Analysis of Vaginal Microbiome in Women with or Without Episodes of Spontaneous Abortion in Eastern Nigeria by Felix Emele Emele, Prisca Onyeulor, Francisca Nwaokorie, Damian Asogwa

“…The samples were analyzed and interpreted by standard metagenomic and bioinformatic techniques. RESULTS: The following phyla were encountered in spontaneous abortion and non-spontaneous abortion, respectively: Firmicutes (69.4%, 94.9%), Actinobacteria (12.7%, 1.1%), Bacteroidetes (9.5%, 2.8%), Proteobacteria (7.9%, 0.3%), Chloroflexi (0.2%, 0.0%), Fusobacteria (0.2%, 0.0%), Tenericutes (0.02%, 1.0%). …”
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The rapid detection of a neonatal unit outbreak of a wild-type Klebsiella variicola using decentralized Oxford Nanopore sequencing by Rhys T. White, Michelle Balm, Megan Burton, Samantha Hutton, Jamaal Jeram, Matthew Kelly, Donia Macartney-Coxson, Tanya Sinha, Henrietta Sushames, David J. Winter, Maxim G. Bloomfield

“…If transmission events are suspected, sequence data are transferred to the reference laboratory, the Institute for Environmental Science and Research (ESR) for high-resolution bioinformatic analysis. Results Within 48 h of notification isolates had been subcultured and sequenced. …”
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The heterogeneity of NOTCH1 to tumor immune infiltration in pan-cancer by XiaoJun Duan, Rihan Wu, Mingyang Zhang, Kexin Li, Lei Yu, Huirong Sun, Xingxia Hao, Changshan Wang

“…In this study, the data originated from the Genotype-Tissue Expression (GTEx) and the Cancer Genome Atlas (TCGA) databases were input into multiple online bioinformatic tools to study the characteristics of NOTCH1 in pan-cancer. …”
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Development of delayed pulmonary toxicities and transcriptional changes in pre-existing interstitial lung disease mice after partial thoracic irradiation by Jiamei Fu, Xinglong Liu, Yuchuan Zhou, Shengnan Zhao, Liang Zeng, Yan Pan, Jianghong Zhang, Kevin M. Prise, Chunlin Shao, Yaping Xu

“…The histological phenotypes manifested exudative predominated DAD phase in the early phase and proliferating DAD pattern in the late phase. Bioinformatic analysis showed signaling pathways relevant to immune cell migration, epithelial cell development, and extracellular structure organization were commonly activated in different models. …”
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Celastrol promotes DNA damage and apoptosis in uterine corpus endometrial carcinoma via promotion of KAT2B-mediated RBPJ acetylation and repression of MCM4 transcription by Lipeng Pei, Yan Zhu, Wenpeng Li, Bin Xu, Jingli Sun

“…We determined tumor growth in xenograft nude mice. Bioinformatic analysis, protein coimmunoprecipitation (Co-IP), luciferase assay, cell experiments were performed to reveal the relationship of Celastrol/KAT2B/RBPJ/MCM4 in UCEC. …”
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