The brain comprises a complex system of neurons interconnected by an intricate network of anatomical links. While recent studies demonstrated the correlation between anatomical connectivity patterns and gene expression of neurons, using transcriptomi...
Background: Histopathological images are often used to diagnose breast cancer and have shown high accuracy in classifying cancer subtypes. Prediction of gene expression from whole-slide images and spatial transcriptomics data is important for cancer...
Omics research is changing the way medicine develops new strategies for diagnosis, prevention, and treatment. With the surge of advanced machine learning models tailored for omicss analysis, recent research has shown improved results and pushed the p...
The cost of next-generation sequencing technologies is rapidly declining, making RNA-seq-based gene expression profiling (GEP) an affordable technique for predicting receptor expression status and intrinsic subtypes in breast cancer patients. Based o...
Uveal melanoma is the most common primary intraocular malignancy in adults, with nearly half of all patients eventually developing metastases, which are invariably fatal. Manual assessment of the level of expression of the tumor suppressor BRCA1-asso...
Understanding the regulatory mechanisms of gene expression is a crucial objective in genomics. Although the DNA sequence near the transcription start site (TSS) offers valuable insights, recent methods suggest that analyzing only the surrounding DNA...
The co-expression extrapolation (COXEN) method has been successfully used in multiple studies to select genes for predicting the response of tumor cells to a specific drug treatment. Here, we enhance the COXEN method to select genes that are predicti...
In construction projects, estimation of the settlement of fine-grained soils is of critical importance, and yet is a challenging task. The coefficient of consolidation for the compression index (Cc) is a key parameter in modeling the settlement of fi...
3 December 2024
The development of multi-omics has increased the likelihood of further improving genomic prediction (GP) of complex traits. Gene expression data can directly reflect the genotype effect, and thus, they are widely used for GP. Generally, the gene expr...
Under fatigue loading, the interfacial fatigue life of fiber-reinforced polymer(FRP)–concrete is an important index for the analysis of the fatigue performance of reinforced concrete beams strengthened with FRP materials and the evaluation of t...
Background: Cancer cell lines are frequently used in research as in-vitro tumor models. Genomic data and large-scale drug screening have accelerated the right drug selection for cancer patients. Accuracy in drug response prediction is crucial for suc...
In today’s digital age, innovative artificial intelligence (AI) methodologies, notably machine learning (ML) approaches, are increasingly favored for their superior accuracy in anticipating the characteristics of cementitious composites compare...
The significance of spillways is to allow the flood to be safely discharged from downstream. There is a strong correlation between the poor design of spillways and the failures of dams. In order to address this concern, the present study investigates...
To support the national goals of carbon peaking and carbon neutrality, this study proposes a household carbon emission prediction model based on Gene Expression Programming (GEP) for low-carbon retrofitting of aging residential areas in arid-cold reg...
Previous studies have established the utility of facial expressions as an objective assessment approach for determining the hedonics (overall pleasure) of food and beverages. This study endeavors to validate the conclusions drawn from preceding resea...
Background/Objectives: The evolution of gene expression responses is a critical component of population adaptation to variable environments. Predicting how DNA sequence influences expression is challenging because the genotype-to-phenotype map is not...
Background/Objectives: Understanding the relationship between DNA sequences and gene expression levels is of significant biological importance. Recent advancements have demonstrated the ability of deep learning to predict gene expression levels direc...
Gene expression can be used to subtype breast cancer with improved prediction of risk of recurrence and treatment responsiveness over that obtained using routine immunohistochemistry (IHC). However, in the clinic, molecular profiling is primarily use...
This study addresses the challenges in plant pest and disease prediction within the context of smart agriculture, highlighting the need for efficient data processing techniques. In response to the limitations of existing models, which are characteriz...
Pancreatic adenocarcinoma (PAC) is one of the most aggressive malignancies. Intratumoural molecular heterogeneity impedes improvement of the overall survival rate. Current pathological staging system is not sufficient to accurately predict prognostic...
Underground spaces have become increasingly important in recent decades in metropolises. In this regard, the demand for the use of underground spaces and, consequently, the excavation of these spaces has increased significantly. Excavation of an unde...
Background: Neoadjuvant chemoradiotherapy (nCRT) followed by surgery is widely used for patients with locally advanced rectal cancer. However, response to nCRT varies substantially among patients, highlighting the need for predictive biomarkers that...
Immune checkpoint inhibitors (ICIs) have revolutionized the treatment of lung cancer. However, their clinical benefit is limited to a minority of patients. To unravel immune-related factors that are predictive of sensitivity or resistance to immunoth...
Leishmania spp. commonly infects phagocytic cells of the immune system, particularly macrophages, employing various immune evasion strategies that enable their survival by altering the intracellular environment. In mammals, these parasites establish...
Background: Immunotherapy has been successful in treating advanced melanoma, but a large proportion of patients do not respond to the treatment with immune checkpoint inhibitors (ICIs). Preclinical and small cohort studies suggest gastrointestinal mi...
Genomic profiles of cancer patients such as gene expression have become a major source to predict responses to drugs in the era of personalized medicine. As large-scale drug screening data with cancer cell lines are available, a number of computation...
Immunotherapy is a promising new therapeutic approach for neuroblastoma (NBM): an anti-GD2 vaccine combined with orally administered soluble beta-glucan is undergoing a phase II clinical trial and nivolumab and ipilimumab are being tested in recurren...
The genus Aspergillus comprises a diverse group of fungi that can cause a range of health issues, including systemic infections and allergic reactions. In this regard, A. fumigatus has been recognized as the most prevalent allergen-producing species....
Distant metastasis is the leading cause of breast cancer-related mortality, yet its prediction from primary tumor profiles remains challenging. Cytoskeletal remodeling and cell motility are central to metastatic dissemination, suggesting mechanobiolo...
Colorectal cancer (CRC) survival has environmental and inherited components. The expression of specific genes can be inferred based on individual genotypes—so called expression quantitative trait loci. In this study, we used the PrediXcan metho...
Animal models are used for preclinical toxicity studies, and the need for in vitro alternative methods has been strongly raised. Our study aims to elucidate the potential mechanism of change in EGR1 expression under situations of toxic injury and to...
Early intervention can delay the progress of Alzheimer’s Disease (AD), but currently, there are no effective prediction tools. The goal of this study is to generate a reliable artificial intelligence (AI) model capable of detecting the high ris...
Background: The accurate prediction of gene expression is essential in breast cancer research. However, spatial transcriptomics technologies are usually too expensive. Recent studies have used whole-slide images combined with spatial transcriptomics...
UDP-glucose pyrophosphorylase (UGPase) is essential for carbohydrate metabolism, catalyzing UDP-glucose synthesis, a precursor for sucrose and cellulose biosynthesis. While UGP genes have been widely studied in plants, their functions in Dendrocalamu...
: Although early recognition of sepsis is essential for timely treatment and can improve sepsis outcomes, no marker has demonstrated sufficient discriminatory power to diagnose sepsis. This study aimed to compare gene expression profiles between pati...
The detection of early coronary atherosclerosis (ECA) is still a challenge and the mechanism of endothelial dysfunction remains unclear. In the present study, we aimed to identify differentially expressed genes (DEGs) and the regulatory network of mi...
Background: Barrett’s esophagus (BE) is a pre-neoplastic condition associated with an increased risk of esophageal adenocarcinoma (EAC). The accurate diagnosis of BE and grading of dysplasia can help to optimize the management of patients with...
Many methods have been developed to detect and predict the fracture properties of fractured rocks. The standard data sources for fracture evaluations are image logs and core samples. However, many wells do not have these data, especially for old well...
Objective: To develop and validate a genetic diagnostic model for colorectal cancer (CRC). Methods: First, differential expression genes (DEGs) between colorectal cancer and normal groups were screened using the TCGA database. Subsequently, a two-sam...
Background: The transcription factor SOX9 plays a critical role in various diseases, including hepatocellular carcinoma (HCC), and has been implicated in resistance to sorafenib treatment. Accurate assessment of SOX9 expression is important for guidi...
Acute cardiac rejection remains a significant challenge in the post-transplant period, necessitating meticulous monitoring and timely intervention to prevent graft failure. Thus, the goal of the present study was to identify novel biomarkers involved...
In the nervous system, synapses are special and pervasive structures between axonal and dendritic terminals, which facilitate electrical and chemical communications among neurons. Extensive studies have been conducted in mice and rats to explore the...
Cancers of the colon and rectum, which rank among the most frequent human tumors, are currently treated by surgical resection in locally restricted tumor stages. However, disease recurrence and formation of local and distant metastasis frequently occ...
RNA degradation can significantly affect the results of gene expression profiling, with subsequent analysis failing to faithfully represent the initial gene expression level. It is urgent to have an artificial intelligence approach to better utilize...
Methods for time series prediction and classification of gene regulatory networks (GRNs) from gene expression data have been treated separately so far. The recent emergence of attention-based recurrent neural network (RNN) models boosted the interpre...
In recent years, the rapid development of underground engineering projects has driven a significant increase in the variety and quantity of excavation equipment. The wear of excavation tools significantly increases construction costs and reduces cons...
The presence of stromal cells in tumors is altering the significance of molecular profiling when using standard methods of gene expression quantification. We developed a novel normalization method to rank target gene expression in tumor samples by co...
Colour plays an important role among the quality traits of durum wheat, attracting consumer attention for the pasta market. The traits involved in colour expression are affected by genotype, environment, and processing. In the present study, based on...
Background/Objectives: PARP inhibitors (PARPis) currently play frontline roles in the management of prostate, pancreatic, ovarian and breast cancers, but their roles in colorectal cancer (CRC) management have yet to be clarified. Importantly, the spe...
Breast cancer, which is the most common malignancy in women, does not form a uniform nosological unit but represents a group of malignant diseases with specific clinical, histopathological, and molecular characteristics. The increasing knowledge of t...
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