NetPathMiner: R/Bioconductor package for network path mining through gene expression
نویسندگان
چکیده
منابع مشابه
NetPathMiner: R/Bioconductor package for network path mining through gene expression
UNLABELLED NetPathMiner is a general framework for mining, from genome-scale networks, paths that are related to specific experimental conditions. NetPathMiner interfaces with various input formats including KGML, SBML and BioPAX files and allows for manipulation of networks in three different forms: metabolic, reaction and gene representations. NetPathMiner ranks the obtained paths and applies...
متن کاملMining metabolic pathways through gene expression
MOTIVATION An observed metabolic response is the result of the coordinated activation and interaction between multiple genetic pathways. However, the complex structure of metabolism has meant that a compete understanding of which pathways are required to produce an observed metabolic response is not fully understood. In this article, we propose an approach that can identify the genetic pathways...
متن کاملStudy of Gene Expression Signatures for the Diagnosis of Pediatric Acute Lymphoblastic Leukemia (ALL) Through Gene Expression Array Analyses
Background: Acute lymphoblastic leukemia (ALL) as the most common malignancy in children is associated with high mortality and significant relapse. Currently, the non-invasive diagnosis of pediatric ALL is a main challenge in the early detection of patients. In the present study, a systems biology approach was used through network-based analysis to identify the key candidate genes related to AL...
متن کاملCAGEr: an R package for CAGE (Cap Analysis of Gene Expression) data analysis and promoterome mining
4 CAGEr workflow 6 4.1 Specifying input files . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6 4.2 Creating CAGEset object . . . . . . . . . . . . . . . . . . . . . . . . . . . 6 4.3 Reading in the data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8 4.4 Correlation between samples . . . . . . . . . . . . . . . . . . . . . . . . . 9 4.5 Normalization . . . . . . . . . ....
متن کاملMining Gene Expression Data
Micro-array data has enabled us to obtain an overview of the cell by measuring the expression levels of thousands of genes simultaneously. It has also opened the possibility for predicting possible cancerous cells accurately. Since these data sets are very large, we need to utilize machine learning techniques to analyse them efficiently. However, micro-array data also poses challenging problems...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Bioinformatics
سال: 2014
ISSN: 1460-2059,1367-4803
DOI: 10.1093/bioinformatics/btu501