Improving synergistic drug combination prediction with signature-based gene expression features in oncology by Mozhgan Mozaffarilegha, Sajjad Gharaghani

“…We compared their performance with that of conventional drug signatures and chemical structure-based descriptors.Results:Our results demonstrate that models incorporating DRS features consistently outperform traditional approaches across all evaluated algorithms. …”
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Accuracy and interpretability of smartwatch electrocardiogram for early detection of atrial fibrillation: A systematic review and meta‐analysis by Dr. Muhammad Iqhrammullah, Prof. Asnawi Abdullah, Dr. Hermansyah, Fahmi Ichwansyah, Prof. Dr. Ir. Hafnidar A. Rani, Meulu Alina, Artha M. T. Simanjuntak, Derren D. C. H. Rampengan, dr. Seba Talat Al‐Gunaid, dr. Naufal Gusti, dr. Arditya Damarkusuma, Edza Aria Wikurendra

“…Methods Data derived from indexed literature in the Scopus, Scilit, PubMed, Google Scholar, Web of Science, IEEE, and Cochrane Library databases (as of June 1, 2024) were systematically screened and extracted. The quantitative synthesis was performed using a two‐level mixed‐effects logistic regression model, as well as a proportional analysis with Freeman‐Tukey double transformation on a restricted maximum‐likelihood model. …”
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Nitrogen content estimation of apple trees based on simulated satellite remote sensing data by Meixuan Li, Xicun Zhu, Xicun Zhu, Xinyang Yu, Cheng Li, Dongyun Xu, Ling Wang, Dong Lv, Yuyang Ma

“…Support Vector Machine (SVM) and Backpropagation Neural Network (BPNN) algorithms were used to construct and screen the optimal models for apple tree nitrogen content estimation.ResultsResults showed that visible light, red edge, near-infrared, and yellow edge bands were sensitive bands for estimating apple tree nitrogen content. …”
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Cathepsin G promotes arteriovenous fistula maturation by positively regulating the MMP2/MMP9 pathway by Lemei Hu, Changqing Zheng, Ying Kong, Zhiqing Luo, Fengzhang Huang, Zhigang Zhu, Quhuan Li, Ming Liang

“…We screened 84 differentially expressed genes (DEGs) and performed the functional enrichment analysis. …”
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WGCNA-ML-MR integration: uncovering immune-related genes in prostate cancer by Jing Lv, Jing Lv, Yuhua Zhou, Yuhua Zhou, Shengkai Jin, Shengkai Jin, Chaowei Fu, Chaowei Fu, Yang Shen, Yang Shen, Bo Liu, Bo Liu, Menglu Li, Yuwei Zhang, Yuwei Zhang, Ninghan Feng, Ninghan Feng, Ninghan Feng

“…Furthermore, a machine learning algorithm was used to screen for core genes and construct a diagnostic model, which was then validated in an external validation dataset. …”
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The systemic oxidative stress index predicts clinical outcomes of esophageal squamous cell carcinoma receiving neoadjuvant immunochemotherapy by Jifeng Feng, Jifeng Feng, Liang Wang, Xun Yang, Qixun Chen, Qixun Chen

“…Then, a new staging that included TNM and SOSI based on RPA algorithms was produced. In terms of prognostication, the RPA model performed significantly better than TNM classification.ConclusionSOSI is a simple and useful score based on available SOS-related indices. …”
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Machine learning identification of key genes in cardioembolic stroke and atherosclerosis: their association with pan-cancer and immune cells by Tianxiang Zhang, Chunhui Yuan, Mo Chen, Jinjiang Liu, Wei Shao, Ning Cheng

“…Two machine learning algorithms, Least Absolute Shrinkage and Selection Operator (LASSO) regression and Support Vector Machine Recursive Feature Elimination (SVM-RFE), were used to screen for overlapping FRDEGs in CS and AS. …”
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Elucidating the dynamic tumor microenvironment through deep transcriptomic analysis and therapeutic implication of MRE11 expression patterns in hepatocellular carcinoma by Ruiqiu Chen, Chaohui Xiao, Zizheng Wang, Guineng Zeng, Shaoming Song, Gong Zhang, Lin Zhu, Penghui Yang, Rong Liu

“…Publicly available single-cell RNA sequencing (scRNA-seq) data and spatial transcriptomics were utilized to explore MRE11’s dynamic mechanisms in the tumor microenvironment (TME) of both primary and post-immunotherapy cases. We also screened for differentially expressed genes and constructed a robust HCC prognosis model using 101 machine-learning algorithms. …”
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Unraveling shared diagnostic genes and cellular microenvironmental changes in endometriosis and recurrent implantation failure through multi-omics analysis by Dongxu Qin, Yongquan Zheng, Libo Wang, Zhenyi Lin, Yao Yao, Weidong Fei, Caihong Zheng

“…Differential expression analysis and weighted gene co-expression network analysis (WGCNA) were employed to identify key genes. Machine learning algorithms, including Random Forest (RF) and XGBoost, were utilized to screen for shared diagnostic genes, which were subsequently validated through receiver operating characteristic (ROC) analysis and clinical prediction models. …”
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Exploring pesticide risk in autism via integrative machine learning and network toxicology by Ling Qi, Jingran Yang, Qiao Niu, Jianan Li

“…Each combination of 1–23 targets was used to construct predictive models using eight different machine learning algorithms. …”
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Machine learning-derived prognostic signature integrating programmed cell death and mitochondrial function in renal clear cell carcinoma: identification of PIF1 as a novel target by Guangyang Cheng, Zhaokai Zhou, Shiqi Li, Fu Peng, Shuai Yang, Chuanchuan Ren

“…Finally, a novel RCC prognostic marker PIF1 was identified in model genes. The knockdown of PIF1 in vitro inhibited the progression of renal carcinoma cells. …”
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Identification and validation of the diagnostic biomarker MFAP5 for CAVD with type 2 diabetes by bioinformatics analysis by Qiang Shen, Lin Fan, Chen Jiang, Dingyi Yao, Xingyu Qian, Fuqiang Tong, Zhengfeng Fan, Zongtao Liu, Nianguo Dong, Chao Zhang, Jiawei Shi

“…Machine learning (ML) algorithms were employed to screen potential biomarkers. …”
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Signatures of Six Autophagy‐Related Genes as Diagnostic Markers of Thyroid‐Associated Ophthalmopathy and Their Correlation With Immune Infiltration by Qintao Ma, Yuanping Hai, Jie Shen

“…The combined six‐gene model also showed good diagnostic efficacy (AUC = 0.948). …”
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Identifying and Validating an Acidosis-Related Signature Associated with Prognosis and Tumor Immune Infiltration Characteristics in Pancreatic Carcinoma by Pingfei Tang, Weiming Qu, Dajun Wu, Shihua Chen, Minji Liu, Weishun Chen, Qiongjia Ai, Haijuan Tang, Hongbing Zhou

“…Univariate Cox regression and the Kaplan–Meier method were applied to screen for prognostic genes. The least absolute shrinkage and selection operator (LASSO) Cox regression was used to establish the optimal model. …”
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Novel insights into the molecular mechanisms of sepsis-associated acute kidney injury: an integrative study of GBP2, PSMB8, PSMB9 genes and immune microenvironment characteristics by Haiting Ye, Xiang Zhang, Pengyan Li, Mei Wang, Ruolan Liu, Dingping Yang

“…Immune cell infiltration was analyzed using the CIBERSORT algorithm, and potential associations between the hub genes and clinicopathological features were explored based on the Nephroseq database. …”
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Cell death-related signature genes: risk-predictive biomarkers and potential therapeutic targets in severe sepsis by Yanan Li, Yuqiu Tan, Zengwen Ma, Zengwen Ma, Weiwei Qian, Weiwei Qian

“…Further combining cell death-related gene screening and four machine learning algorithms (including LASSO-logistic, Gradient Boosting Machine, Random Forest and xGBoost), nine SeALAR-characterized cell death genes (SeDGs) were screened and a risk prediction model based on SeDGs was constructed that demonstrated good prediction performance. …”
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Opening closed doors: using machine learning to explore factors associated with marital sexual violence in a cross-sectional study from India by Anita Raj, Abhishek Singh, Nandita Bhan, Lotus McDougal, Nabamallika Dehingia, Julian McAuley

“…Analyses included iterative thematic analysis (L-1 regularised regression followed by iterative qualitative thematic coding of L-2 regularised regression results) and neural network modelling.Outcome measure Participants reported their experiences of sexual violence perpetrated by their current (or most recent) husband in the previous 12 months. …”
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Improving the accuracy of remotely sensed TSS and turbidity using quality enhanced water reflectance by a statistical resampling technique by Kunwar Abhishek Singh, Dongryeol Ryu, Meenakshi Arora, Manoj Kumar Tiwari, Bhabagrahi Sahoo

“…The statistical resampling approach based on GMM was applied to Sentinel-2 (S2) imagery to produce input to Machine Learning (ML) algorithms to retrieve the TSS and turbidity for target river sections. …”
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Characterization and stratification of risk factors of stroke in people living with HIV: A theory-informed systematic review by Martins Nweke, Nombeko Mshunqane

“…Predictive and preventative models should target factors with a high causality index and low investigative costs. …”
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Characterization of the salivary microbiome in healthy individuals under fatigue status by Xianhui Peng, Na Han, Yanan Gong, Lihua He, Yanli Xu, Di Xiao, Tingting Zhang, Yujun Qiang, Xiuwen Li, Wen Zhang, Jianzhong Zhang

“…Bioinformatics analyses encompassed assessment of alpha and beta diversity, identification of differential taxa using Linear discriminant analysis Effect Size (LEfSe) with multi-method cross-validation, construction of microbial co-occurrence networks, and screening of fatigue-associated biomarker genera via the Boruta-SHAP algorithm. …”
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