Lung cancer remains a significant global health challenge and identifying lung cancer at an early stage is essential for enhancing patient outcomes. The study focuses on developing and optimizing gene expression-based...Lung cancer remains a significant global health challenge and identifying lung cancer at an early stage is essential for enhancing patient outcomes. The study focuses on developing and optimizing gene expression-based models for classifying cancer types using machine learning techniques. By applying Log2 normalization to gene expression data and conducting Wilcoxon rank sum tests, the researchers employed various classifiers and Incremental Feature Selection (IFS) strategies. The study culminated in two optimized models using the XGBoost classifier, comprising 10 and 74 genes respectively. The 10-gene model, due to its simplicity, is proposed for easier clinical implementation, whereas the 74-gene model exhibited superior performance in terms of Specificity, AUC (Area Under the Curve), and Precision. These models were evaluated based on their sensitivity, AUC, and specificity, aiming to achieve high sensitivity and AUC while maintaining reasonable specificity.展开更多
Objectives To investigate the c myc gene expression in nasopharyngeal carcinoma (NPC) at mRNA and protein levels, and to evaluate the relationship between the degree of expression and the clinicopathological data. ...Objectives To investigate the c myc gene expression in nasopharyngeal carcinoma (NPC) at mRNA and protein levels, and to evaluate the relationship between the degree of expression and the clinicopathological data. Methods The expression of c myc specific mRNA and protein was detected using in situ hybridization with digoxigenin labeled probe and immunohistochemistry in 12 cases of normal nasopharyngeal epithelium (NE) and 48 cases of NPC. The intensity of staining for each sample was assessed as negative, weak, moderate and intense. Statistical analyses were performed using the Chi square test and the rank sum test. Results For normal NE, 41.7% (5/12) had weak (4/12) or moderate (1/12) staining for c myc protein and 41.7% (5/12) had weak staining for c myc mRNA. In contrast, 89.6% (43/48) of NPC showed some degree of c myc protein positive and 87.5% (42/48) showed some degree of c myc mRNA positive. In most samples, the expression of c myc protein was consistent with that of c myc mRNA. C myc protein and mRNA expression levels in NPC were significantly higher than those in normal NE, and correlated with early recurrence, but they were not significantly related to patient′s age, sex, EBVCA IgA titre, disease stage, lymph node status and metastasis. Conclusions C myc gene over expression may be involved in the pathogenesis and early recurrence of NPC. Further studies are needed to substantiate the preliminary findings.展开更多
The Aspergillus niger XynB gene and core promoter region of porcine RELMβgene were cloned into pcDNA3.1(-),and an intestine-specific expression vector pcDNA3.1-RELMβ-XynB-Myc-GFP carrying green fluorescence and Myc ...The Aspergillus niger XynB gene and core promoter region of porcine RELMβgene were cloned into pcDNA3.1(-),and an intestine-specific expression vector pcDNA3.1-RELMβ-XynB-Myc-GFP carrying green fluorescence and Myc double tags was constructed.The vector was transfected into human colon cancer cells(HT29)and human liver cancer cells(Bel7402)using liposomes.Fluorescence microscopy revealed that the vector could specifically express green fluorescent protein(GFP)in HT29 cells.RT-PCR and Western Blot were performed on the HT29 cells transfected with the expression vector,and the results showed that the XynB gene was normally transcribed in HT29 cells,and the target protein expression was detected in the cells.展开更多
Diabetic Kidney Disease (DKD) is a common chronic complication of diabetes. Despite advancements in accurately identifying biomarkers for detecting and diagnosing this harmful disease, there remains an urgent need for...Diabetic Kidney Disease (DKD) is a common chronic complication of diabetes. Despite advancements in accurately identifying biomarkers for detecting and diagnosing this harmful disease, there remains an urgent need for new biomarkers to enable early detection of DKD. In this study, we modeled publicly available transcriptome datasets as a graph problem and used GraphSAGE Neural Networks (GNNs) to identify potential biomarkers. The GraphSAGE model effectively learned representations that captured the intricate interactions, dependencies among genes, and disease-specific gene expression patterns necessary to classify samples as DKD and Control. We finally extracted the features of importance;the identified set of genes exhibited an impressive ability to distinguish between healthy and unhealthy samples, even though these genes differ from previous research findings. The unexpected biomarker variations in this study suggest more exploration and validation studies for discovering biomarkers in DKD. In conclusion, our study showcases the effectiveness of modeling transcriptome data as a graph problem, demonstrates the use of GraphSAGE models for biomarker discovery in DKD, and advocates for integrating advanced machine-learning techniques in DKD biomarker research, emphasizing the need for a holistic approach to unravel the intricacies of biological systems.展开更多
We have amplified swine myostatin (MSTN) gene by reverse transcription poly-merase chain reaction (RT-PCR) and cloned it into pGEM-T Easy vector. The cloned swine MSTN gene consists of 1128 nucleotides, which has been...We have amplified swine myostatin (MSTN) gene by reverse transcription poly-merase chain reaction (RT-PCR) and cloned it into pGEM-T Easy vector. The cloned swine MSTN gene consists of 1128 nucleotides, which has been submitted to GenBank (acquired reg-istered code- AY448008). The cloned swine MSTN gene was successfully expressed in E. coli without the first 25 amino acids. Crude extraction of the expressed recombinant MSTN protein was used to immunize mice to investigate the effects on their bodyweights. We show here that the body weights of the immunized mice were higher than that of the controls, even though the difference was not significant. Surprisingly, the progenies of the immunized mice also were heavier than the controls. Especially at day 3, the average body weight of the immunized mice was 10.5% higher than that of the controls , which is significant (p < 0.05).展开更多
In hardware Trojan detection technology, destructive reverse engineering can restore an original integrated circuitwith the highest accuracy. However, this method has a much higher overhead in terms of time, effort, a...In hardware Trojan detection technology, destructive reverse engineering can restore an original integrated circuitwith the highest accuracy. However, this method has a much higher overhead in terms of time, effort, and cost thanbypass detection. This study proposes an algorithm, called mixed-feature gene expression programming, whichapplies non-destructive reverse engineering to the chip with bypass detection data. It aims to recover the originalintegrated circuit hardware, or else reveal the unknown circuit design in the chip.展开更多
文摘Lung cancer remains a significant global health challenge and identifying lung cancer at an early stage is essential for enhancing patient outcomes. The study focuses on developing and optimizing gene expression-based models for classifying cancer types using machine learning techniques. By applying Log2 normalization to gene expression data and conducting Wilcoxon rank sum tests, the researchers employed various classifiers and Incremental Feature Selection (IFS) strategies. The study culminated in two optimized models using the XGBoost classifier, comprising 10 and 74 genes respectively. The 10-gene model, due to its simplicity, is proposed for easier clinical implementation, whereas the 74-gene model exhibited superior performance in terms of Specificity, AUC (Area Under the Curve), and Precision. These models were evaluated based on their sensitivity, AUC, and specificity, aiming to achieve high sensitivity and AUC while maintaining reasonable specificity.
文摘Objectives To investigate the c myc gene expression in nasopharyngeal carcinoma (NPC) at mRNA and protein levels, and to evaluate the relationship between the degree of expression and the clinicopathological data. Methods The expression of c myc specific mRNA and protein was detected using in situ hybridization with digoxigenin labeled probe and immunohistochemistry in 12 cases of normal nasopharyngeal epithelium (NE) and 48 cases of NPC. The intensity of staining for each sample was assessed as negative, weak, moderate and intense. Statistical analyses were performed using the Chi square test and the rank sum test. Results For normal NE, 41.7% (5/12) had weak (4/12) or moderate (1/12) staining for c myc protein and 41.7% (5/12) had weak staining for c myc mRNA. In contrast, 89.6% (43/48) of NPC showed some degree of c myc protein positive and 87.5% (42/48) showed some degree of c myc mRNA positive. In most samples, the expression of c myc protein was consistent with that of c myc mRNA. C myc protein and mRNA expression levels in NPC were significantly higher than those in normal NE, and correlated with early recurrence, but they were not significantly related to patient′s age, sex, EBVCA IgA titre, disease stage, lymph node status and metastasis. Conclusions C myc gene over expression may be involved in the pathogenesis and early recurrence of NPC. Further studies are needed to substantiate the preliminary findings.
基金Northern Jiangsu Science and Technology Special Project(XZ-SZ201921)the Technology Program of Gaoyou City(GY201914)。
文摘The Aspergillus niger XynB gene and core promoter region of porcine RELMβgene were cloned into pcDNA3.1(-),and an intestine-specific expression vector pcDNA3.1-RELMβ-XynB-Myc-GFP carrying green fluorescence and Myc double tags was constructed.The vector was transfected into human colon cancer cells(HT29)and human liver cancer cells(Bel7402)using liposomes.Fluorescence microscopy revealed that the vector could specifically express green fluorescent protein(GFP)in HT29 cells.RT-PCR and Western Blot were performed on the HT29 cells transfected with the expression vector,and the results showed that the XynB gene was normally transcribed in HT29 cells,and the target protein expression was detected in the cells.
文摘Diabetic Kidney Disease (DKD) is a common chronic complication of diabetes. Despite advancements in accurately identifying biomarkers for detecting and diagnosing this harmful disease, there remains an urgent need for new biomarkers to enable early detection of DKD. In this study, we modeled publicly available transcriptome datasets as a graph problem and used GraphSAGE Neural Networks (GNNs) to identify potential biomarkers. The GraphSAGE model effectively learned representations that captured the intricate interactions, dependencies among genes, and disease-specific gene expression patterns necessary to classify samples as DKD and Control. We finally extracted the features of importance;the identified set of genes exhibited an impressive ability to distinguish between healthy and unhealthy samples, even though these genes differ from previous research findings. The unexpected biomarker variations in this study suggest more exploration and validation studies for discovering biomarkers in DKD. In conclusion, our study showcases the effectiveness of modeling transcriptome data as a graph problem, demonstrates the use of GraphSAGE models for biomarker discovery in DKD, and advocates for integrating advanced machine-learning techniques in DKD biomarker research, emphasizing the need for a holistic approach to unravel the intricacies of biological systems.
基金This work was supported by the Fund for Research Groups from Guangdong National Science Foundation(Grant No.04205804).
文摘We have amplified swine myostatin (MSTN) gene by reverse transcription poly-merase chain reaction (RT-PCR) and cloned it into pGEM-T Easy vector. The cloned swine MSTN gene consists of 1128 nucleotides, which has been submitted to GenBank (acquired reg-istered code- AY448008). The cloned swine MSTN gene was successfully expressed in E. coli without the first 25 amino acids. Crude extraction of the expressed recombinant MSTN protein was used to immunize mice to investigate the effects on their bodyweights. We show here that the body weights of the immunized mice were higher than that of the controls, even though the difference was not significant. Surprisingly, the progenies of the immunized mice also were heavier than the controls. Especially at day 3, the average body weight of the immunized mice was 10.5% higher than that of the controls , which is significant (p < 0.05).
基金This work was supported by the National Key Research and Development Program of China(Grant No.2018YFB1502803).
文摘In hardware Trojan detection technology, destructive reverse engineering can restore an original integrated circuitwith the highest accuracy. However, this method has a much higher overhead in terms of time, effort, and cost thanbypass detection. This study proposes an algorithm, called mixed-feature gene expression programming, whichapplies non-destructive reverse engineering to the chip with bypass detection data. It aims to recover the originalintegrated circuit hardware, or else reveal the unknown circuit design in the chip.
