Integrated bioinformatic analysis of the shared molecular mechanisms between ANCA-associated vasculitis and atherosclerosis by Xun Hu, Inmaculada Xu Lou, Qilan Chen

“…This study aims to explore the mechanisms underlying the concurrent occurrence of ANCA and AS. Methods Microarray data of AAV and AS were examined in a comprehensive gene expression database. …”
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Signature-based small molecule screening identifies cytosine arabinoside as an EWS/FLI modulator in Ewing sarcoma. by Kimberly Stegmaier, Jenny S Wong, Kenneth N Ross, Kwan T Chow, David Peck, Renee D Wright, Stephen L Lessnick, Andrew L Kung, Todd R Golub

“…Given the poor outcomes of many patients with Ewing sarcoma and the well-established ARA-C safety profile, clinical trials testing ARA-C are warranted.…”
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Dermal fibroblast transcriptome indicates contribution of WNT signaling pathways in the pathogenesis of Apert syndrome by Arda Çetinkaya, Ekim Taşkıran, Tutku Soyer, Pelin Özlem Şimşek-Kiper, Gülen Eda Utine, Gökhan Tunçbilek, Koray Boduroğlu, Mehmet Alikaşifoğlu

“…Premature ossification of these structures is called craniosynostosis. Apert syndrome is a well-defined genetic syndrome, which is characterized by craniosynostosis and arises as a result of two missense mutations in Fibroblast Growth Factor Receptor, type 2 gene (FGFR2). …”
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Increased cycling cell numbers and stem cell associated proteins as potential biomarkers for high grade human papillomavirus+ve pre-neoplastic cervical disease. by Maurice Canham, Chara Charsou, June Stewart, Sharon Moncur, Laura Hoodless, Ramya Bhatia, Duanduan Cong, Heather Cubie, Camille Busby-Earle, Alistair Williams, Victoria McLoughlin, John D M Campbell, Kate Cuschieri, Sarah Howie

“…As cancer is increasingly presumed to develop from proliferative, tumour initiating, cancer stem cells (CSCs), and as other oncogenic viruses induce stem cell associated gene expression, we evaluated whether presence of mRNA (detected by qRT-PCR) or proteins (detected by flow cytometry and antibody based proteomic microarray) from stem cell associated genes and/or increased cell proliferation (detected by flow cytometry) could be detected in well-characterised, routinely collected cervical samples from high risk HPV+ve women. …”
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Distinctive profile of IsomiR expression and novel microRNAs in rat heart left ventricle. by Mary K McGahon, Janet M Yarham, Aideen Daly, Jasenka Guduric-Fuchs, Lyndsey J Ferguson, David A Simpson, Anthony Collins

“…The expression of known miRNAs in the heart has been studied at length by microarray and quantitative PCR but it is becoming evident that microRNA isoforms (isomiRs) are potentially physiologically important. …”
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Biomarkers and potential therapeutic targets driving progression of non-alcoholic steatohepatitis to hepatocellular carcinoma predicted through transcriptomic analysis by Hui Fan, Rong Wang, Bin Wen, Jing Xiong

“…Single-cell analysis was then used to explore the genes across different cell types and subgroups as well as cell-type interactions. The clinical utility of predicted core genes was highlighted through decision curve analysis, with emphasis on HCC prognosis. …”
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Comparative analysis of proteome and transcriptome variation in mouse. by Anatole Ghazalpour, Brian Bennett, Vladislav A Petyuk, Luz Orozco, Raffi Hagopian, Imran N Mungrue, Charles R Farber, Janet Sinsheimer, Hyun M Kang, Nicholas Furlotte, Christopher C Park, Ping-Zi Wen, Heather Brewer, Karl Weitz, David G Camp, Calvin Pan, Roumyana Yordanova, Isaac Neuhaus, Charles Tilford, Nathan Siemers, Peter Gargalovic, Eleazar Eskin, Todd Kirchgessner, Desmond J Smith, Richard D Smith, Aldons J Lusis

“…In light of the widespread use of high-throughput technologies in both clinical and basic research, the results presented have practical as well as basic implications.…”
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Impact of Drp1 Loss on Organelle Interaction, Metabolism, and Inflammation in Mouse Liver by Lixiang Wang, Seiji Nomura, Nao Hasuzawa, Sadaki Yokota, Ayako Nagayama, Kenji Ashida, Junjiro Rikitake, Yoshinori Moriyama, Masatoshi Nomura, Ken Yamamoto

“…Our analysis revealed disrupted interactions between mitochondria and LDs, as well as altered interactions among ER, mitochondria, and LDs in <i>Drp1</i>LiKO mice. …”
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Integrated microRNA and mRNA signatures associated with overall survival in epithelial ovarian cancer. by Joanna Lopacinska-Jørgensen, Douglas V N P Oliveira, Guy Wayne Novotny, Claus K Høgdall, Estrid V Høgdall

“…In this study, we analyzed the correlation between global miRNA and mRNA expression patterns derived from microarray profiling of 197 EOC patients to identify the signatures of miRNA-mRNA interactions associated with overall survival (OS). …”
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Immunohistochemical evaluation of colorectal carcinoma: experience of a four-year study by Muchalapuri Sravani, Fatima Fatima, Rasheed Fatima, K. N. Deepthi, Shilpa Karamchedu, Shaikh Nishadbanu, Allam Swetha

“…A retrospective study was performed on 36 paraffin blocks of documented colorectal carcinomas were stained by immunohistochemical technique using a tissue microarray with CK7, CK20 and CDX2 markers. The resulted data were statistically analyzed. …”
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A Thorough Navigation of miRNA's Blueprint in Crafting Cardiovascular Fate by Abubakar Nazir, Olivier Uwishema, Sanobar Shariff, William Xochitun Gopar Franco, Noha El Masri, Nitsuh Dejene Ayele, Isabelle Munyangaju, Fatima Esam Alzain, Magda Wojtara

“…Several cardiovascular diseases are associated with dysregulation of miRNAs, including arrhythmias, hypertension, atherosclerosis, and heart failure. miRNAs can be used as biomarkers to diagnose and predict diseases as well as therapeutic targets. A variety of state‐of‐the‐art technologies have aided researchers in discovering, profiling, and analyzing miRNAs, including microarray analysis, next‐generation sequencing, and others. …”
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Gene co-expression patterns shared between chemobrain and neurodegenerative disease models in rodents by Mohammad-Sajad Zare, Navid Abedpoor, Fatemeh Hajibabaie, Adam K. Walker

“…Chemotherapy-related cognitive impairment (CRCI), is a well-recognized phenomenon in cancer patients who have undergone chemotherapy but the exact molecular mechanisms underpinning CRCI remain elusive. …”
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Omics Multi-Layers Networks Provide Novel Mechanistic and Functional Insights Into Fat Storage and Lipid Metabolism in Poultry by Farzad Ghafouri, Abolfazl Bahrami, Abolfazl Bahrami, Mostafa Sadeghi, Seyed Reza Miraei-Ashtiani, Maryam Bakherad, Herman W. Barkema, Samantha Larose

“…In the analysis of microarray and RNA-Seq data, 1,835 genes were detected by comparing the identified genes with significant expression differences (p.adjust &lt; 0.01, fold change ≥ 2 and ≤ −2). …”
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A stratified transcriptomics analysis of polygenic fat and lean mouse adipose tissues identifies novel candidate obesity genes. by Nicholas M Morton, Yvonne B Nelson, Zoi Michailidou, Emma M Di Rollo, Lynne Ramage, Patrick W F Hadoke, Jonathan R Seckl, Lutz Bunger, Simon Horvat, Christopher J Kenyon, Donald R Dunbar

“…Selected candidate genes Npr3 and Thbs1, as well as Gys2, a non-QTL gene that otherwise passed our enrichment criteria were characterised, revealing novel functional effects consistent with a contribution to obesity.…”
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mRNA-lncRNA gene expression signature in HPV-associated neoplasia and cervical cancer by E. D. Kulaeva, E. S. Muzlaeva, E. V. Mashkina

“…Although human papillomavirus is widespread, there is currently no well-characterized transcriptomic signature to predict whether this tumor will develop in the presence of HPV-associated neoplastic changes in the cervical epithelium. …”
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Screening and bioinformatics analysis of a ceRNA network based on the circular RNAs, miRNAs, and mRNAs in pan‐cancer by Zhanghan Chen, Jie Huang, Yanling Feng, Zehuan Li, Ying Jiang

“…Those findings together will give a new insight into pan‐cancer research and present potential therapy targeting as well as promising biomarkers.…”
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Exploring the association between osteoporosis and kidney stones: a clinical to mechanistic translational study based on big data and bioinformatics by Di Luo, Linguo Xie, Jingdong Zhang, Chunyu Liu

“…Abstract Background Osteoporosis and kidney stones share several common pathophysiological risk factors, and their association is well-established. However, previous studies have primarily focused on environmental mediators, such as diet, and the precise mechanism linking these two conditions remains unclear. …”
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miR-142-5p as a CXCR4-Targeted MicroRNA Attenuates SDF-1-Induced Chondrocyte Apoptosis and Cartilage Degradation via Inactivating MAPK Signaling Pathway by Yaoyv Xiang, Yanlin Li, Lingjian Yang, Yinghong He, Di Jia, Xidan Hu

“…Here, through miRNAs microarray and bioinformatics analyses, we identified miR-142-5p as a CXCR4-targeted and dramatically downregulated miRNA in cartilage from OA patients, as well as in SDF-1-induced OA chondrocytes in vitro. …”
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Impact of B7-H3 expression on metastasis, immune exhaustion and JAK/STAT and PI3K/AKT pathways in clear cell renal cell carcinoma by Maite Emaldi, Esther Rey-Iborra, Ángela Marín, Lorena Mosteiro, David Lecumberri, Tove Øyjord, Noémie Roncier, Gunhild M. Mælandsmo, Javier C. Angulo, Peio Errarte, Gorka Larrinaga, Rafael Pulido, José I. López, Caroline E. Nunes-Xavier

“…Gene expression analysis revealed the association of B7-H3 expression with gene expression scores involved in T cell exhaustion and myeloid immune evasion, as well as with PI3K/AKT and JAK/STAT pathways. Furthermore, knocking down B7-H3 expression in renal cancer cells by siRNA and CRISPR/Cas resulted in lower 2D and 3D cell proliferation and viability as well as increased sensitivity to TKI axitinib. …”
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Versatile physiological functions of the Nudix hydrolase family in berry development and stress response in grapevine by Pei-pei WANG, Zhao-ke WANG, Le GUAN, Muhammad Salman HAIDER, Maazullah NASIM, Yong-bing YUAN, Geng-sen LIU, Xiang-peng LENG

“…To investigate the regulatory roles of VvNUDX genes during growth and development, as well as in response to abiotic and biotic stresses in grapevine, the expression patterns were revealed in publicly available microarray data. …”
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