MicroRNAs Expression Profile in MN1-Altered Astroblastoma by Francesca Gianno, Evelina Miele, Claudia Sabato, Elisabetta Ferretti, Simone Minasi, Francesca Romana Buttarelli, Debora Salerno, Natalia Pediconi, Giuseppe Rubens Pascucci, Francesca Guerrieri, Andrea Ciolfi, Simone Pizzi, Maura Massimino, Veronica Biassoni, Elisabetta Schiavello, Marco Gessi, Sofia Asioli, Angela Mastronuzzi, Antonio d’Amati, Giuseppina Catanzaro, Elisabetta Viscardi, David Capper, Felice Giangaspero, Manila Antonelli

“…Subsequently, the methylation status of promoters of deregulated miRNAs was investigated through a methylation profiling microarray. Finally, bioinformatics analysis was conducted to explore the biological processes (BPs) and target genes of differentially expressed miRNAs. …”
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Sarcopenic obesity is attenuated by E-syt1 inhibition via improving skeletal muscle mitochondrial function by Chao Song, Wu Zheng, Guoming Liu, Yiyang Xu, Zhibo Deng, Yu Xiu, Rongsheng Zhang, Linhai Yang, Yifei Zhang, Guoyu Yu, Yibin Su, Jun Luo, Bingwei He, Jie Xu, Hanhao Dai

“…In aging and metabolic disease, sarcopenic obesity (SO) correlates with intramuscular adipose tissue (IMAT). Using bioinformatics analysis, we found a potential target protein Extended Synaptotagmin 1 (E-syt1) in SO. …”
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Periostin-mediated NOTCH1 activation between tumor cells and HSCs crosstalk promotes liver metastasis of small cell lung cancer by Linlin Lou, Keren Peng, Shumin Ouyang, Wen Ding, Jianshan Mo, Jiayu Yan, Xiaoxiao Gong, Guopin Liu, Jinjian Lu, Peibin Yue, Kai Zhang, Jian Zhang, Yan-dong Wang, Xiao-lei Zhang

“…Methods SCLC patient tissue array, bioinformatics analysis were performed to demonstrate the role of periostin (POSTN) in SCLC progression, metastasis, and prognosis. …”
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An exploratory study of INPP4B, a biomarker of gemcitabine chemoresistance in pancreatic cancer by REN Jiaqiang, WU Shuai, SU Tong, LI Jie, HAN Liang, WU Zheng

“…Second-generation high-throughput RNA-seq sequencing was conducted on these resistant cells, and bioinformatics analysis was employed to identify four pancreatic cancer genes from the Gene Expression Omnibus (GEO) datasets (GSE106336, GSE110580, GSE35141, and GSE140077). …”
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Targeting NANOS1 in triple-negative breast cancer: synergistic effects of digoxin and PD-1 inhibitors in modulating the tumor immune microenvironment by Tangyi Wang, Yadian Lei, Jingwei Sun, Li Wang, Yuxin Lin, Zhijing Wu, Shoude Zhang, Chengzhu Cao, Chengzhu Cao, Chengzhu Cao, Haiyan Wang, Haiyan Wang, Haiyan Wang

“…In this context, Dig (Digoxin) and AA (Algestone acetophenide) have been identified as potential drug candidates for further exploration of their therapeutic effects and application potential in targeting NANOS1.MethodsRNA sequencing (RNA-seq) was employed to identify potential targets for triple-negative breast cancer (TNBC) from TOE. Bioinformatics tools, including bc-GenExMiner v4.8, the Human Protein Atlas, and the TIMER database, were utilized for target identification. …”
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Virological Aspects of COVID-19 in Patients with Hematological Malignancies: Duration of Viral Shedding and Genetic Analysis by Asma Themlaoui, Massimo Ancora, Kais Ghedira, Yosra Mhalla, Manel Hamdoun, Maroua Bahri, Lamia Aissaoui, Raihane Ben Lakhal, Adriano Di Pasquale, Cesare Camma, Olfa Bahri

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Whole-genome analysis of a ST45-SCCmec IVa (2B)-t116 methicillin-resistant Staphylococcus aureus strain isolated from the sputum of a 5-year-old child with pneumonia by Lin Huang, Rui Guo, Jingxian Lin, Xiaowei Li, Zhicong Li, Limei Zhang, Wenting Li, Rui Xue, Cheng Zhang, Xiaosan Feng, Xiaobin Li, Xiaobin Li

“…The carriage of antibiotic resistance genes, virulence genes, and mobile genetic elements were identified using bioinformatics tools. The comparative genomic analyses of MRSA strain SA2107 with other MRSA strains worldwide were performed.FindingsThe genome size of ST45-SCCmec IVa (2B)-t116 MRSA strain SA2107 was ~2.9 Mb. …”
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Proteomics profiling of inflammatory responses to elexacaftor/tezacaftor/ivacaftor in cystic fibrosis by Hazel Ozuna, Hazel Ozuna, Dinesh Bojja, Santiago Partida-Sanchez, Luanne Hall-Stoodley, Amal Amer, Rodney D. Britt, Rodney D. Britt, Shahid Sheikh, David A. Frank, Weiyuan Wang, Bum-Yong Kang, Bum-Yong Kang, Irina Miralda, Irina Miralda, Samantha L. Durfey, Samantha L. Durfey, Benjamin T. Kopp, Benjamin T. Kopp

“…Protein screening was performed with an inflammation panel (Target 96, Olink®). Bioinformatics analysis was used to determine changes in protein expression.ResultsThere were significantly fewer pulmonary exacerbations after ETI initiation, along with sustained improvement in lung function and reduced bacterial colonization. …”
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Endothelial-secreted Endocan activates PDGFRA and regulates vascularity and spatial phenotype in glioblastoma by Soniya Bastola, Marat S. Pavlyukov, Neel Sharma, Yasmin Ghochani, Mayu A. Nakano, Sree Deepthi Muthukrishnan, Sang Yul Yu, Min Soo Kim, Alireza Sohrabi, Natalia P. Biscola, Daisuke Yamashita, Ksenia S. Anufrieva, Tatyana F. Kovalenko, Grace Jung, Tomas Ganz, Beatrice O’Brien, Riki Kawaguchi, Yue Qin, Stephanie K. Seidlits, Alma L. Burlingame, Juan A. Oses-Prieto, Leif A. Havton, Steven A. Goldman, Anita B. Hjelmeland, Ichiro Nakano, Harley I. Kornblum

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Investigating POU3F4 in cancer: Expression patterns, prognostic implications, and functional roles in tumor immunity by Weiwei Chen, Yaya Ji, Rui Wang, Ruijie Ji, Yujian Lin, Yuhang Wu, Lehan Liu, Tianle Sha, Wen Li, Lei Zhang, Longfei Yang, Xinhua Zhang, Jianxiang Song

“…Based on data from The Cancer Genome Atlas (TCGA), Cancer Cell Line Encyclopedia (CCLE), Genotype-Tissue Expression (GTE), and Gene Set Cancer Analysis (GSCA), we employed various bioinformatics approaches to investigate the potential carcinogenic effects of POU3F4. …”
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Gut mycobiome and neuropsychiatric disorders: insights and therapeutic potential by Ines Hadrich, Mariem Turki, Mariem Turki, Imen Chaari, Imen Chaari, Balkiss Abdelmoula, Rahma Gargouri, Nahed Khemakhem, Dhawia Elatoui, Fatma Abid, Sonda Kammoun, Sonda Kammoun, Mona Rekik, Mona Rekik, Samir Aloulou, Samir Aloulou, Mariem Sehli, Mariem Sehli, Aymen Ben Mrad, Aymen Ben Mrad, Sourour Neji, Fabian M. Feiguin, Jihene Aloulou, Jihene Aloulou, Nouha Bouayed Abdelmoula, Hayet Sellami, Hayet Sellami

“…Key methodologies for studying mycobiota, such as high-throughout sequencing and bioinformatics approaches, were also reviewed to highlight advances in the field.ResultsEmerging research links gut mycobiota dysbiosis to conditions such as schizophrenia, Alzheimer’s disease, autism spectrum disorders, bipolar disorder, and depression. …”
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Biallelic SLC13A1 loss-of-function variants result in impaired sulfate transport and skeletal phenotypes, including short stature, scoliosis, and skeletal dysplasia by Christina G. Tise, Katie Ashton, Lachlan de Hayr, Kun-Di Lee, Omkar L. Patkar, Emma Krzesinski, Jennifer A. Bassetti, Erin M. Carter, Cathleen Raggio, Andreas Zankl, Anas M. Khanshour, Kristhen N. Atala, Jonathan J. Rios, Carol A. Wise, Ying Zhu, Futao Zhang, Tony Roscioli, Michael Buckley, Robert J. Harvey, Paul A. Dawson

“…(Tyr582His) were characterized using bioinformatics, molecular modeling, and [35S]-sulfate uptake assays in Madin-Darby canine kidney cells. …”
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KEAP1 mutations as key crucial prognostic biomarkers for resistance to KRAS-G12C inhibitors by Linyan Tian, Chengming Liu, Sufei Zheng, Huiyang Shi, Fang Wei, Wenxin Jiang, Yucheng Dong, Haiyan Xu, Enzhi Yin, Nan Sun, Jie He, Yan Wang

“…Cellular sensitivity to KRAS-G12C inhibitors—AMG510, MRTX849, and JAB-21822—was evaluated through CCK-8 assays. Comprehensive bioinformatics analyses on stably transfected cell lines were conducted to elucidate pathways mediating resistance. …”
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Standard: Human gastric organoids by Fan Hong, Ronghui Tan, Ting Wang, Nanshan Zhong, Hongling Zhao, Rui-hua Xu, Lin Shen, Yingbin Liu, Xuebiao Yao, Dongxi Xiang, Lijian Hui, Jianping Xiong, Dong Gao, Bing Zhao, Zhifeng Miao, Jie Hao, Yong Li, Shijun Hu, Boqiang Fu, Guoqiang Hua, Lei Wang, Zhao-Lei Zeng, Chong Chen, Jianmin Wu, Changlin Wang, Chunnian Wang, Xianbao Zhan, Chen Song, Chunping Yu, Yingying Yang, Gengming Niu, Yalong Wang, Tongbiao Zhao, Ye-Guang Chen

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Is maternal diabetes during pregnancy associated with neurodevelopmental, cognitive and behavioural outcomes in children? Insights from individual participant data meta-analysis in... by Rachelle A. Pretorius, Demetris Avraam, Mònica Guxens, Jordi Julvez, Jennifer R. Harris, Johanna Thorbjornsrud Nader, Tim Cadman, Ahmed Elhakeem, Katrine Strandberg-Larsen, Hanan El Marroun, Serena Defina, Tiffany C. Yang, Rosie McEachan, John Wright, Jesús Ibarluzea, Loreto Santa-Marina, Juana Mari Delgado, Marisa Rebagliato, Marie-Aline Charles, Chloe Vainqueur, Silvia Maritano, Daniela Zugna, Wen Lun Yuan, Barbara Heude, Rae-Chi Huang

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Biologically targeted discovery-replication scan identifies G×G interaction in relation to risk of Barrett’s esophagus and esophageal adenocarcinoma by Li Yan, Qianchuan He, Shiv P. Verma, Xu Zhang, Ann-Sophie Giel, Carlo Maj, Kathryn Graz, Elnaz Naderi, Jianhong Chen, Mourad Wagdy Ali, Puya Gharahkhani, Xiang Shu, Kenneth Offit, Pari M. Shah, Hans Gerdes, Daniela Molena, Amitabh Srivastava, Stuart MacGregor, Claire Palles, René Thieme, Michael Vieth, Ines Gockel, Thomas L. Vaughan, Johannes Schumacher, Matthew F. Buas

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Derivation of allometric equations and carbon content estimation in mangrove forests of Malaysia by Waseem Razzaq Khan, Michele Giani, Stanislao Bevilacqua, Shoaib Ahmad Anees, Kaleem Mehmood, M. Nazre, Abdul Aziz Bin Abdul Haddy, Abang Norizan Bin Abang Median, Japanie Bin Bujang, Fatin-Norliyana Mohamad-Ismail, Johar Mohamed, Zaiton Samdin, Rambod Abiri, Tuan-Marina Tuan-Ibrahim, Lydia-Suzieana Mohammad, Hamid-Reza Naji, Seemab Akram, Hazandy Abdul-Hamid, Timothy Dube

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The direct and urinary electrolyte-mediated effects of ambient temperature on population blood pressure: A causal mediation analysis by Ayesha Mukhopadhyay, Momenul Haque Mondol, Mahbubur Rahman, Leanne Unicomb, Rizwana Khan, Hoimonty Mazumder, Mohammad Nahian Ferdous, Emily V. Pickering, Konstantinos C. Makris, Alberto J. Caban-Martinez, Faruk Ahmed, Mohammad Shamsudduha, Fawaz Mzayek, Chunrong Jia, Hongmei Zhang, Anwar Musah, Lora E. Fleming, Matthew P. Smeltzer, Howard H. Chang, John L. Jefferies, Csaba P. Kovesdy, Xichen Mou, Abu Mohd Naser

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Systematic evaluation of intratumoral and peripheral BCR repertoires in three cancers by Sofia V Krasik, Ekaterina A Bryushkova, George V Sharonov, Daria S Myalik, Elizaveta V Shurganova, Dmitry V Komarov, Irina A Shagina, Polina S Shpudeiko, Maria A Turchaninova, Maria T Vakhitova, Igor V Samoylenko, Dimitr T Marinov, Lev V Demidov, Vladimir E Zagaynov, Dmitriy M Chudakov, Ekaterina O Serebrovskaya

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Genome-Wide Analysis, Characterization, and Expression Profile of the Basic Leucine Zipper Transcription Factor Family in Pineapple by Yanhui Liu, Mengnan Chai, Man Zhang, Qing He, Zhenxia Su, S. V. G. N. Priyadarshani, Liping Liu, Guanxi Dong, Yuan Qin

“…This study identified 57 basic leucine zipper (bZIP) genes from the pineapple genome, and the analysis of these bZIP genes was focused on the evolution and divergence after multiple duplication events in relation to the pineapple genome fusion. According to bioinformatics analysis of a phylogenetic tree, the bZIP gene family was divided into 11 subgroups in pineapple, Arabidopsis, and rice; gene structure and conserved motif analyses showed that bZIP genes within the same subgroup shared similar intron-exon organizations and motif composition. …”
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