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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NEIL3 Mediates Lung Cancer Progression and Modulates PI3K/AKT/mTOR Signaling: A Potential Therapeutic Target by Hongbo Huang, Qingwang Hua

“…The public data used in this study were downloaded from The Cancer Genome Atlas (TCGA) database. “Limma” in R was used for the analysis of differentially expressed genes. …”
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Enhancing unsupervised learning in medical image registration through scale-aware context aggregation by Yuchen Liu, Ling Wang, Xiaolin Ning, Yang Gao, Defeng Wang

“…Extensive experiments on 3D medical images across five applications—atlas-to-patient and inter-patient brain magnetic resonance imaging (MRI) registration, inter-modal brain MRI registration, inter-patient liver computed tomography (CT) registration as well as inter-modal abdomen MRI-CT registration—demonstrate that our model significantly outperforms existing methods, highlighting its effectiveness and broader implications for enhancing medical image registration techniques.…”
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The role of MRO as an M2 macrophage-associated gene in non-small cell lung cancer: insights into immune infiltration, prognostic significance, and therapeutic implications by Yue Gu, Miaosen Zheng, Jing Xie

“…Methods NSCLC samples from The Cancer Genome Atlas (TCGA) were analyzed using the CIBERSORT algorithm to quantify immune cell compositions. …”
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Practical insights for enhancing primary care rehabilitation services in low-resource contexts by Maria Y. Charumbira, Karina Berner, Quinette A. Louw

“…Thematic analysis of transcribed and translated data was done in ATLAS.ti version 22.2.4. Results: Five key recommendations emerged: (1) provide rehabilitation services closer to home through facility-based services, outreach, home visits and telerehabilitation; (2) improve patient awareness of rehabilitation through patient education, community engagement and patients actively seeking information; (3) enhance PCPs’ knowledge and basic skills in rehabilitation through training and guideline development; (4) improve communication among PHC stakeholders; and (5) advocate for rehabilitation inclusion in leadership, resource allocation and multi-disciplinary teams. …”
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La violencia escolar desde la infancia hasta la juventud by Laura Oliva-Zárate

“…El análisis cualitativo de los datos se realizó mediante el programa ATLAS.ti.  Los resultados indicaron la existencia de violencia en todos los niveles escolares estudiados.  …”
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A Distribution Adaptive Feedback Training Method to Improve Human Motor Imagery Ability by Yukun Zhang, Chuncheng Zhang, Rui Jiang, Shuang Qiu, Huiguang He

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ATClean: A Novel Method for Detecting Low-luminosity Transients and Application to Pre-explosion Counterparts from SN 2023ixf by S. Rest, A. Rest, C. D. Kilpatrick, J. E. Jencson, S. von Coelln, L. Strolger, S. Smartt, J. P. Anderson, A. Clocchiatti, D. A. Coulter, L. Denneau, S. Gomez, A. Heinze, R. Ridden-Harper, K. W. Smith, B. Stalder, J. L. Tonry, Q. Wang, Y. Zenati

“…In an effort to search for faint sources of emission over arbitrary timescales, we present a novel method for analyzing forced photometry light curves in difference imaging from optical surveys. Our method “ATLAS Clean,” or ATClean, utilizes the reported fluxes, uncertainties, and fits to the point-spread function (PSF) from difference images to quantify the statistical significance of individual measurements. …”
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Lipid Metabolism-Related Gene Signature Predicts Prognosis and Indicates Immune Microenvironment Infiltration in Advanced Gastric Cancer by Lijian He, Qiange Ye, Yanmei Zhu, Wenqi Zhong, Guifang Xu, Lei Wang, Zhangding Wang, Xiaoping Zou

“…We obtained gene expression profiles from The Cancer Genome Atlas (TCGA) database for early and advanced gastric cancer samples and performed differential expression analysis to identify specific lipid metabolism-related genes in AGC. …”
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Developing a novel model for predicting overall survival in late-onset colon adenocarcinoma patients based on LODDS: a study based on the SEER database and external validation by Chen Chen, Heng-Bo Xia, Wei-Wei Yuan, Meng-Ci Zhou, Xue Zhang, A.-Man Xu

“…Results A total of 103,291 and 100 patients with late-onset colon adenocarcinoma (50–80 years old) were screened from the Surveillance, Epidemiology, and End Results (SEER) and The Cancer Genome Atlas (TCGA) databases, respectively. Cox regression analysis revealed independent risk factors for OS and CSS, including age, gender, race, size, LODDS stage, PLN stage, LNR stage, and TNM stage. …”
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Land Rights, Land Ownership, and Land Governance among Rural Communities in River Tana County, Kenya: A Gender Perspective by Wilson Ndenyele, Marie-Emmanuelle, Halimu Suleimani Shauri, Godffrey Nato

“…Transcripts were uploaded on Atlas ti computer software for in-depth analysis, through finding meaning of data, coding, developing patterns, creating themes, and presenting them with respective to the research objectives. …”
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CDC25B Is a Prognostic Biomarker Associated With Immune Infiltration and Drug Sensitivity in Hepatocellular Carcinoma by Zixiang Huang, Liangzhi Xu, Zhengqiang Wu, Xiaofeng Xiong, Linfei Luo, Zhili Wen

“…CDC25B expression data of HCC cancer tissues and paracancerous normal samples were obtained from The Cancer Gene Atlas (TCGA) and Gene Expression Omnibus (GEO) databases, and the relationship between CDC25B expression and the prognosis and degree of tumor differentiation of HCC patients was analyzed. …”
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