Pulmonary Nuclear protein in Testis (NUT) carcinoma: clinical, molecular characteristics, and treatment strategies by Jingjing Qu, Zhen Chen, Yanping Zhu, JinYan Huang, Qian Shen

“…Diagnostic confirmation was achieved through NUT protein positivity via IHC and FISH rearrangements in all five patients. RNA sequencing identified BRD3-NUTM1 fusions in 60% (3/5) patients. …”
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A molecular basis for spine color morphs in the sea urchin Lytechinus variegatus by Maria Wise, Madison Silvia, Gerardo Reyes, Rushane Dunn, Thomas M. Onorato, Cosmo Pieplow, Aidan Furze, El Hebert, Nathalie Oulhen, Dan Ritschoff, David R. McClay, Gary Wessel

“…The abundance of mRNAs encoding flavin mono-oxygenase variancts and polyketide synthase was predictive of the color of the adult and antibodies identified their histological location in the spine cells. By RNA in situ hybridization, candidate genes important for spine biomineralization and pigmentation were mapped onto the spine epithelia, and MicroCT scans of spines from different color morphs concluded that color morphs are entirely due to pigmentation and not to structural variations of the endoskeleton. …”
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De-biasing microbiome sequencing data: bacterial morphology-based correction of extraction bias and correlates of chimera formation by Luise Rauer, Amedeo De Tomassi, Christian L. Müller, Claudia Hülpüsch, Claudia Traidl-Hoffmann, Matthias Reiger, Avidan U. Neumann

“…Extracted DNA was sequenced (V1–V3 16S rRNA gene) together with corresponding DNA mocks. …”
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Escherichia coli in septic arthritis: prevalence and antibiotics susceptibility patterns by Masroora Ali Khan, Muhammad Kamran Taj, Zahid Khan, Imran Taj, Muhammad Naeem, Saima Azam

“…The polymerase chain reaction (PCR) based identification of E. coli showed clear bands of 204bp of the 16S rRNA gene. Sequence analysis using the Basic Local Alignment Search Tool found high similarity with pathogenic E. coli from Egypt and China. …”
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Non-invasive imaging with ICOS-targeting monoclonal antibody for preclinical diagnosis of rheumatoid arthritis in a humanized mouse model by Shao Duan, Chao Li, Feng Yan, Yifei Xia, Shuaiming Shao, Weiyu Chen, Zunyu Xiao, Gongping Xu

“…Findings ICOS was confirmed as an indicator of RA pathogenesis via RNA-seq, flow cytometry and immunofluorescence data. …”
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Aberrant SNHG expression predicts poor prognosis in esophageal cancer using meta-analysis and bioinformatics analysis by Ke Shi, Li-De Huang, Dan Li, Wei-Min Luo, Hua-Song Liu, Dong-Xiao Ding, Qiang Guo, Yue-Feng Liu

“…Abstract Background Small nucleolar RNA host gene (SNHG) family were reported involved in various biological processes and may be used as a promising prognostic marker in esophageal cancer (EC). …”
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Genome wide identification of Dof transcription factors in Carmine radish reveals RsDof33 role in cadmium stress and anthocyanin biosynthesis by Caiming Gou, Jia Li, Bo Chen, Guoting Cheng, Zhangfei Zheng, Hua Peng, Ahmed H. El-Sappah

“…Cd stress-induced RsDof expression patterns were studied using an RNA-seq atlas and qRT-PCR. The majority of RsDofs were tissue-specific and Cd-sensitive. …”
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Elevated POSTN expression predicts poor prognosis and is associated with radioresistance in cervical cancer patients treated with radical radiotherapy by Cui-qin Huang, Wen-tao Xiao, Xiang-rong Yao, Zhi-min Li, Jun-yan He

“…We analyzed data from 92 CC patients in The Cancer Genome Atlas (TCGA) and 153 patients from our institution, assessing POSTN expression levels through mRNA analysis and immunohistochemistry (IHC). Our findings revealed that high POSTN expression was significantly associated with advanced tumor stages, poorer radiotherapy outcomes, and worse overall survival (OS). …”
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Mixture of Bacillus Amyloliquefaciens and Bacillus Pumilus Modulates Community Structures of Rice Rhizosphere Soil to Suppress Rice Seedling Blight by Jiang Nan, Qiu Jiehua, Tian Dagang, Shi Huanbin, Liu Zhiquan, Wen Hui, Xie Shuwei, Chen Huizhe, Wu Meng, Kou Yanjun

“…Analysis of 16S and internal transcribed spacer rRNA gene sequencing data revealed that the mixture of the T40 and T208 strains exhibited the lowest average clustering coefficients, which were negatively correlated with the biomass of F. oxysporum-inoculated rice seedlings. …”
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Advancements in the Treatment of Mucopolysaccharidoses: From Established Therapies to Gene Therapy by Joanna Wanat, Wojciech Homa, Aleksandra Warunek, Gabriela Gronowicz, Izabela Dzikowska, Agata Siejka, Daria Stefaniak, Weronika Zielińska, Michał Chról

“…Among the promising new treatments are: blood-brain barrier (BBB)-penetrable enzyme replacement therapy (ERT), substrate reduction therapy, nonsense suppression therapy, and mRNA engineering. However, the most advanced treatments, that are currently under investigation are in-vivo and ex-vivo gene therapy. …”
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Inhibition of TFF3 synergizes with c-MET inhibitors to decrease the CSC-like phenotype and metastatic burden in ER+HER2+ mammary carcinoma by Chuyu He, Xuejuan Wang, Yi-Shiou Chiou, Basappa Basappa, Tao Zhu, Vijay Pandey, Peter E. Lobie

“…Targeting TFF3 with an interfering RNA plasmid or a small-molecule inhibitor (AMPC) inhibited these oncogenic characteristics, highlighting the therapeutic potential of targeting TFF3 in ER+HER2+ MC. …”
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Integrative analysis of 5-methylcytosine associated signature in papillary thyroid cancer by Ying Ding, Xinying Li, Wenlong Wang, Lei Cai

“…This study aims to explore the regulation mechanism of m5C RNA methylation-related long noncoding RNAs (m5C-lncRNAs) in papillary thyroid cancer (PTC). …”
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Analysis of toxicity and mechanisms of busulfan in non-obstructive azoospermia: A genomic and toxicological approach integrating molecular docking, single-cell sequencing, and expe... by Yanggang Hong, Qichao Yuan, Yi Wang, Deqi Wang, Xiaoju Guan, Congde Chen

“…By integrating molecular docking, single-cell RNA sequencing, and in vivo experimentation, the study identified POLE and LRAT as critical proteins. …”
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Higher gut Bacteroidetes and Actinobacteria population in early pregnancy is associated with lower risk of gestational diabetes in the second trimester by Seyedeh Neda Mousavi, Navid Momeni, Hossein Chiti, Howra Mahmoodnasab, Mohammad Ahmadi, Siamak Heidarzadeh

“…The dominant phylum population was determined based on 16SrRNA gene expression. Results Mothers with lower Bacteroidetes and Actinobacteria population in the first trimester were more susceptible to GDM in the screening time (p < 0.001 and p < 0.001). …”
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Mechanistic elucidation of human pancreatic acinar development using single-cell transcriptome analysis on a human iPSC differentiation model by Atsushi Mima, Azuma Kimura, Ryo Ito, Yu Hatano, Hiraku Tsujimoto, Shin-Ichi Mae, Junko Yamane, Wataru Fujibuchi, Norimitsu Uza, Taro Toyoda, Hiroshi Seno, Kenji Osafune

“…In this study, we aimed to elucidate the developmental mechanisms of pancreatic exocrine acinar lineages to establish a directed differentiation method for pancreatic acinar cells from hiPSCs. hiPSC-derived pancreatic endoderm cells were spontaneously differentiated into both pancreatic exocrine and endocrine tissues by implantation into the renal subcapsular space of NOD/SCID mice. Single-cell RNA-seq analysis of the retrieved grafts confirmed the differentiation of pancreatic acinar lineage cells and identified REG4 as a candidate marker for pancreatic acinar progenitor cells. …”
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Wet Feeding Promotes Growth without Affecting Hypothalamic Peptide Gene Expression in Growing Broiler Chicks by Tomoya Matsunami, Yuhui Zhang, Yuji Taniguchi, Sei-ichi Hinomoto, Takaoki Saneyasu, Hiroshi Kamisoyama, Kazuhisa Honda

“…No significant changes were observed in mRNA levels of the genes encoding appetite-regulatory peptides (neuropeptide Y and α melanocyte-stimulating hormone), osmoregulatory peptides (vasotocin and mesotocin), or stress-related peptides (corticotrophin-releasing factor) in the chicken hypothalamus. …”
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Trichinella spiralis excretory/secretory proteins mediated larval invasion via inducing gut epithelial apoptosis and barrier disruption. by Qi Qi Lu, Wen Wen Zheng, Zhao Yu Zhang, Pei Kun Cong, Xin Guo, Yao Zhang, Xin Zhuo Zhang, Shao Rong Long, Ruo Dan Liu, Zhong Quan Wang, Jing Cui

“…The results of trans-epithelial electrical resistance (TEER) and FITC-dextran showed that IIL ESP decreased the TEER, increased FITC-dextran flux in Caco-2 monolayer. qPCR, Western blot and immunofluorescence test (IFT) showed that IIL ESP decreased the mRNA and protein expression of TJs (ZO-1, E-cad, Occludin and Claudin-1). …”
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Immune gene features and prognosis in colorectal cancer: insights from ssGSEA typing by Anwen Huang, Jinxiu Wu, Jiakuan Wang, Chengwen Jiao, Yunfei Yang, Huaiwen Xiao, Li Yao

“…Methods We obtained and merged RNA-Seq data along with clinical details for colorectal cancer (CRC) from The Cancer Genome Atlas (TCGA) repository, and then performed immunocluster typing on all CRC specimens. …”
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GPX3 as a Novel and Potential Therapeutic Target in the Shared Molecular Mechanisms of Traumatic Brain Injury and Parkinson&rsquo;s Disease by Wang Y, Fang J, Yuan Q, Yu J, Hu J

“…Further analyses, including GO and KEGG pathway enrichment, protein-protein interaction (PPI) network construction, hub gene identification, as well as miRNA and transcription factor prediction and drug candidate screening, were conducted. …”
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The impact of glucocorticoid receptor transactivation on context-dependent cell migration dynamics by Szonja Polett Pósa, Éva Saskői, Lili Bársony, Lőrinc Pongor, Fanni Fekete, János Papp, Anikó Bozsik, Attila Patócs, Henriett Butz

“…Cell proliferation increased in TN and decreased in ER + cells upon GR activation, reversed by GR antagonist. RNA sequencing revealed dex’s impact on cell adhesion and extracellular matrix signalling in TN cells and on DNA replication in ER + cells. …”
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