Identification of KRT16 and ANXA10 as cell cycle regulation genes for lung adenocarcinoma based on self-transcriptome sequencing of surgical samples and TCGA public data mining by Wen-jian Liu, Jia-pan Shen, Ren-quan Zhang, Xiao-yun Fan

“…Methods Differentially expressed genes (DEGs) were identified by self-transcriptome sequencing of tumor tissues and paracancerous tissues resected during surgery and combined with The Cancer Genome Atlas (TCGA) data to screen for the genes associated with LUAD prognosis. …”
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Dietetics students' opinion on food and their future profession by Priscila Koritar, Maria Clara de Moraes Prata Gaspar, Cristina Larrea-Killinger, Marle dos Santos Alvarenga

“…The responses were analyzed with the support of AtlasTi software and codified into analytical categories based on content analysis.  …”
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Dealing with hydrologic data scarcity: the case of the Tindouf basin by Gonçalvès, Julio, Nutz, Alexis, Séraphin, Pierre, Chekireb, Amine, Kabiri, Lahcen, Deschamps, Pierre

“…Exploratory sketches of the piezometric contours for the main aquifers of the TAS identified (i) recharge areas on the Anti-Atlas relief and the Hamada plateau, (ii) and discharge areas mainly located in the southeastern region where countless salt pans associated with groundwater evaporation were observed. …”
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Design Optimization of a 3-PUU Parallel Machine for Friction Stir Welding Robots by Eka Marliana, Latifah Nurahmi, Arif Wahjudi, I. Made Londen Batan, Guowu Wei

“…Initially, a design space atlas was created, mapping both LCI and <inline-formula> <tex-math notation="LaTeX">$d_{1}$ </tex-math></inline-formula> were identified. …”
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Exosome-Associated Gene Signature for Predicting the Prognosis of Ovarian Cancer Patients by Zihan Zhu, Rui Geng, Yixin Zhang, Jinhui Liu, Jianling Bai

“…First, 117 ERGs in The Cancer Genome Atlas (TCGA) dataset were recognized. Afterwards, the risk signature consisting of four ERGs with prognostic significance was built by univariate Cox, least absolute shrinkage and selection operator (LASSO), and multivariate Cox regression analysis. …”
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Comprehensive analysis pinpoints CCNA2 as a prognostic and immunological biomarker in non-small cell lung cancer by Liming Zhang, Shaoqiang Wang, Lina Wang

“…Clinicopathological correlations were assessed via the Human Protein Atlas (HPA) and UALCAN databases. qRT-PCR and immunohistochemistry (IHC) were performed to validate CCNA2 mRNA and protein levels. …”
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Argumentos políticos a examen: el uso de falacias en el discurso parlamentario español by Javier Jaspe Nieto

“…Para ello, se ha examinado el discurso de dos líderes parlamentarios durante un debate de investidura. El software ATLAS.ti ha permitido codificar y clasificar las intervenciones según su validez argumentativa. …”
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DGAT1 Expression Promotes Ovarian Cancer Progression and Is Associated with Poor Prognosis by Leilei Xia, Ye Wang, Shengyun Cai, Mingjuan Xu

“…We analyzed the correlation between DGAT1 and ovarian cancer staging, grading, vascular invasion, and prognosis by collating the information of ovarian cancer specimens from The Cancer Genome Atlas (TCGA) database. Furthermore, the effects of DGAT1 expression on proliferation, migration, invasion, and tumor growth were studied using ovarian cancer cell lines. …”
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RNA modification writer-based immunological profile and genomic landscape of tumor microenvironment in lung adenocarcinoma by Qiang Xu, Lingyu Kong, Zhezhu Han, Xiuying Jin, Mingyan Ding, Zhengri Piao, Songnan Zhang

“…Methods We assessed the expression properties and genetic alterations of 26 RNA modification writers, including adenosine-to-inosine RNA editing, alternative polyadenylation, m1A, and m6A in 502 lung adenocarcinoma (LUAD) samples from the Cancer Genome Atlas (TCGA) datasets. Then, we used differentially expressed gene (DEGs) to develop a signature for predicting patient outcomes, which was dubbed the “writer score” for RNA-modified writers. …”
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Tripartite organization of brain state dynamics underlying spoken narrative comprehension by Lanfang Liu, Jiahao Jiang, Hehui Li, Guosheng Ding

“…These results are reproducible with different brain network atlas and generalizable to two datasets consisting of young and older adults. …”
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An innovative biosensing approach for Aflatoxin B1 detection via electrical impedance measurement by Recep Üstünsoy, Tahsin Ertaş, Hülya Eraslan Gültekin, Ali Fuat Ergenç, Bircan Dinç, Muhammet Bektaş

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Spatial transcriptome reveals histology-correlated immune signature learnt by deep learning attention mechanism on H&E-stained images for ovarian cancer prognosis by Chun Wai Ng, Kwong-Kwok Wong, Barrett C. Lawson, Sammy Ferri-Borgogno, Samuel C. Mok

“…Methods In this study, 773 WSIs of H&E-stained tumor sections from 335 patients with treatment naïve high-grade serous ovarian cancer who were included in The Cancer Genome Atlas (TCGA) Pan-Cancer study were used to train, and validate, and to test a ResNet101 CNN model modified with attention mechanism. …”
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Evaluating Trends in Interior Design Strategies and Their Impact on the Emotional Experience of Older Adults by Lintong Li, Suhua Wang, Noranita Mansor, Athira Azmi, Jialing Xiang

“…By establishing rigorous selection criteria, 39 high-quality studies were identified from the Scopus, Web of Science, and Mendeley databases. Using ATLAS.ti 9 for thematic analysis, five core themes were distilled: aesthetics, use and function, emotional reflection, design strategies, and emotional experience. …”
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The Prognostic Significance of TRs in Hepatocellular Carcinoma: Insights from TCGA and GEO Databases by Hao Zhou, Weijie Wang, Ruopeng Liang, Rongtao Zhu, Jiahui Cao, Chenguang Sun, Yuling Sun

“…Methods: This study utilized Kaplan-Meier analysis of TR expression profiles from The Cancer Genome Atlas (TCGA). Expression levels of TRs in HCC and immune single cells were assessed using datasets from the Gene Expression Omnibus (GEO) and TCGA, analyzed with R software. …”
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Development of a 3-MicroRNA Signature and Nomogram for Predicting the Survival of Patients with Uveal Melanoma Based on TCGA and GEO Databases by Jun Zuo, Hongquan Ye, Jing Tang, Jianqun Lu, Qi Wan

“…Methods. miRNA and mRNA sequencing data for 80 UM patients were obtained from The Cancer Genome Atlas (TCGA) database. The patients were further randomly assigned to a training set (n = 40, used to identify key miRNAs) and a testing set (n = 40, used to internally verify the signature). …”
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Microbial signatures in head and neck squamous cell carcinoma: an in silico study by Loganathan KAVITHA, Manogaran KUZHALMOZHI, Jayaseelan VIJAYASHREE PRIYADHARSINI, Arunachalam ARUN KUMAR, Krishna Mohan Rao UMADEVI, Kannan RANGANATHAN

“…Methodology The microbe-host transcriptomic, proteomic, and epigenetic analyses of HNSCC and GI carcinomas were performed using The Cancer Microbiome Atlas (TCMA) database. The differential expression of the host’s mRNA transcripts and proteins associated with tumor microbiome were analyzed using The University of Alabama at Birmingham Cancer data analysis (UALCAN) and Clinical Proteomic Tumor Analysis Consortium (CPTAC) websites. …”
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Machine learning-random forest model was used to construct gene signature associated with cuproptosis to predict the prognosis of gastric cancer by Xiaolong Liu, Pengxian Tao, He Su, Yulan Li

“…Transcriptome and clinical data of patients with GC were collected from The Cancer Genome Atlas and Gene Expression Omnibus datasets. Single sample gene set enrichment analysis (GSEA) and the randomized forest method were used to establish the prognostic model. …”
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Addressing fabrication challenges in perovskite-silicon tandem solar cells with advanced simulation techniques by Raman Kumar, Prakash Kanjariya, A. Abu-Jrai, Nagaraj Patil, Mohd Shukri Ab Yajid, Jatinder Kaur, Rahul Singh, P. Vijaya Kumar, Sanjeev Kumar Shah, Mohammad Iqbal Khairandish

“…Thus, in this work, we are using advanced simulation techniques, including Silvaco ATLAS’s Victory Process and Device Simulator to imitate the actual manufacturing processes. …”
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Exploring the utility of snRNA-seq in profiling human bladder tissue: A comprehensive comparison with scRNA-seq by Briana Santo, Emily E. Fink, Alexandra E. Krylova, Yi-Chia Lin, Mohamed Eltemamy, Alvin Wee, Oliver Wessely, Byron H. Lee, Angela H. Ting

“…The GUDMAP consortium aims to construct a molecular atlas of the lower urinary tract (LUT); thus, we set out to determine the strengths and limitations of each approach in characterizing LUT cell types. …”
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Cross-border data sharing through the lens of research ethics committee members in sub-Saharan Africa. by Nezerith Cengiz, Siti M Kabanda, Keymanthri Moodley

“…We transcribed verbatim and thematically analysed the data with Atlas.ti V22.<h4>Results</h4>Three dominant themes were identified: (i) experiences in reviewing data sharing protocols, (ii) perceptions of data transfer tools and (iii) ethical, legal and social challenges of data sharing. …”
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