اشترك بالحزمة الذهبية واحصل على وصول غير محدود شمرا أكاديميا
تسجيل مستخدم جديدVerdict Accuracy of Quick Reduct Algorithm using Clustering and Classification Techniques for Gene Expression Data
122
0
0.0
(
0
)
اسأل ChatGPT حول البحث
ﻻ يوجد ملخص باللغة العربية
In most gene expression data, the number of training samples is very small compared to the large number of genes involved in the experiments. However, among the large amount of genes, only a small fraction is effective for performing a certain task. Furthermore, a small subset of genes is desirable in developing gene expression based diagnostic tools for delivering reliable and understandable results. With the gene selection results, the cost of biological experiment and decision can be greatly reduced by analyzing only the marker genes. An important application of gene expression data in functional genomics is to classify samples according to their gene expression profiles. Feature selection (FS) is a process which attempts to select more informative features. It is one of the important steps in knowledge discovery. Conventional supervised FS methods evaluate various feature subsets using an evaluation function or metric to select only those features which are related to the decision classes of the data under consideration. This paper studies a feature selection method based on rough set theory. Further K-Means, Fuzzy C-Means (FCM) algorithm have implemented for the reduced feature set without considering class labels. Then the obtained results are compared with the original class labels. Back Propagation Network (BPN) has also been used for classification. Then the performance of K-Means, FCM, and BPN are analyzed through the confusion matrix. It is found that the BPN is performing well comparatively.
قيم البحث
اقرأ أيضاً
textit{Drosophila melanogaster} has been established as a model organism for investigating the fundamental principles of developmental gene interactions. The gene expression patterns of textit{Drosophila melanogaster} can be documented as digital ima
ges, which are annotated with anatomical ontology terms to facilitate pattern discovery and comparison. The automated annotation of gene expression pattern images has received increasing attention due to the recent expansion of the image database. The effectiveness of gene expression pattern annotation relies on the quality of feature representation. Previous studies have demonstrated that sparse coding is effective for extracting features from gene expression images. However, solving sparse coding remains a computationally challenging problem, especially when dealing with large-scale data sets and learning large size dictionaries. In this paper, we propose a novel algorithm to solve the sparse coding problem, called Stochastic Coordinate Coding (SCC). The proposed algorithm alternatively updates the sparse codes via just a few steps of coordinate descent and updates the dictionary via second order stochastic gradient descent. The computational cost is further reduced by focusing on the non-zero components of the sparse codes and the corresponding columns of the dictionary only in the updating procedure. Thus, the proposed algorithm significantly improves the efficiency and the scalability, making sparse coding applicable for large-scale data sets and large dictionary sizes. Our experiments on Drosophila gene expression data sets demonstrate the efficiency and the effectiveness of the proposed algorithm.
Cyber-physical system applications such as autonomous vehicles, wearable devices, and avionic systems generate a large volume of time-series data. Designers often look for tools to help classify and categorize the data. Traditional machine learning t
echniques for time-series data offer several solutions to solve these problems; however, the artifacts trained by these algorithms often lack interpretability. On the other hand, temporal logics, such as Signal Temporal Logic (STL) have been successfully used in the formal methods community as specifications of time-series behaviors. In this work, we propose a new technique to automatically learn temporal logic formulae that are able to cluster and classify real-valued time-series data. Previous work on learning STL formulas from data either assumes a formula-template to be given by the user, or assumes some special fragment of STL that enables exploring the formula structure in a systematic fashion. In our technique, we relax these assumptions, and provide a way to systematically explore the space of all STL formulas. As the space of all STL formulas is very large, and contains many semantically equivalent formulas, we suggest a technique to heuristically prune the space of formulas considered. Finally, we illustrate our technique on various case studies from the automotive, transportation and healthcare domain.
Linear discrimination, from the point of view of numerical linear algebra, can be treated as solving an ill-posed system of linear equations. In order to generate a solution that is robust in the presence of noise, these problems require regularizati
on. Here, we examine the ill-posedness involved in the linear discrimination of cancer gene expression data with respect to outcome and tumor subclasses. We show that a filter factor representation, based upon Singular Value Decomposition, yields insight into the numerical ill-posedness of the hyperplane-based separation when applied to gene expression data. We also show that this representation yields useful diagnostic tools for guiding the selection of classifier parameters, thus leading to improved performance.
Stratifying cancer patients based on their gene expression levels allows improving diagnosis, survival analysis and treatment planning. However, such data is extremely highly dimensional as it contains expression values for over 20000 genes per patie
nt, and the number of samples in the datasets is low. To deal with such settings, we propose to incorporate prior biological knowledge about genes from ontologies into the machine learning system for the task of patient classification given their gene expression data. We use ontology embeddings that capture the semantic similarities between the genes to direct a Graph Convolutional Network, and therefore sparsify the network connections. We show this approach provides an advantage for predicting clinical targets from high-dimensional low-sample data.
Compact semiconductor device models are essential for efficiently designing and analyzing large circuits. However, traditional compact model development requires a large amount of manual effort and can span many years. Moreover, inclusion of new phys
ics (eg, radiation effects) into an existing compact model is not trivial and may require redevelopment from scratch. Machine Learning (ML) techniques have the potential to automate and significantly speed up the development of compact models. In addition, ML provides a range of modeling options that can be used to develop hierarchies of compact models tailored to specific circuit design stages. In this paper, we explore three such options: (1) table-based interpolation, (2)Generalized Moving Least-Squares, and (3) feed-forward Deep Neural Networks, to develop compact models for a p-n junction diode. We evaluate the performance of these data-driven compact models by (1) comparing their voltage-current characteristics against laboratory data, and (2) building a bridge rectifier circuit using these devices, predicting the circuits behavior using SPICE-like circuit simulations, and then comparing these predictions against laboratory measurements of the same circuit.
الأسئلة المقترحة
سجل دخول لتتمكن من نشر تعليقات
التعليقات
جاري جلب التعليقات
سجل دخول لتتمكن من متابعة معايير البحث التي قمت باختيارها
