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In this paper we consider the application of machine learning of graphical models and feature selection for developing better drug-design strategies. The work discussed in this paper is based on utilizing partial prior knowledge available through KEGG signalling pathway database in tan dim with our recent developed ensemble feature selection methods for a better regularisation of the lasso estimate...
Malaria is a serious infectious disease that affects 300–500 million people in the world. The proteins involved in heat shock response in the malaria parasite Plasmodium falciparum have long been considered as promising vaccine and drug targets. Our comprehensive network analysis reveals that about 103 heat shock proteins are associated with over 900 other proteins. They may play roles in a wide variety...
Illnesses caused by parasitic protozoan are a research priority. A representative group of these illnesses is the commonly known as Neglected Tropical Diseases (NTD). NTD specially attack low socioeconomic population around the world and new anti-protozoan inhibitors are needed and several drug discovery projects focus on researching new drug targets. Pharmacophylogenomics is a novel bioinformatics...
A.terreus, a filamentous fungus is the major source of hypercholesterolemic drug lovastatin. Although the whole genome sequence of A.terreus is avilable, the incomplete functional information leads to limited knowledge of the cellular process and their biochemical pathways. Identification of protein interactions is essential for understanding cellular role of proteins. Knowledge from protein interaction...
Saccharomyces cerevisiae provides an excellent eukary-otic model for biomedical and medicinal research. In this article, yeast was applied in pharmacological studies to identify new targets and mechanisms of action of drugs, as well as pathways involved in drug resistance. The work here presented is focused on two distinct drugs: the traditional anti-malarial quinine, and the paradigmatic anti-cancer...
One of the major challenges in systems biology today is to devise robust methods of interpreting data concerning the expression levels of the genes in an organism in a way that will shed light on the collective interactions between multiple genes and their products. The ability to better understand and predict the structures and actions of complex biological systems is of significant importance to...
Following the availability of whole genome sequence of Mycobacterium tuberculosis (MTB) in public database, the anticipation of its benefits would definitely falls into the contribution towards development of improved vaccine or drug discovery to fight against the fatal disease, tuberculosis (TB). This research aimed to scan the whole genome sequence of MTB by application of bioinformatics approaches...
Despite intense investment growth and technology development, there is an observed bottleneck in drug discovery and development over the past decade. NIH started the Molecular Libraries Initiative (MLI) in 2004 to enlarge the pool for potential drug targets, especially from the “undruggable” part of human genome, and potential drug candidates from much broader types of drug-like small molecules. In...
Bioinformatics is an interesting combination of biology and computational sciences, which help scientists and researchers to do more biological experiments to improve the life of living being. Gene expression is fundamental biological basics of cell biology. It is also responsible for genetic as well as physical or biochemical characteristics of an organism. The study of gene expression analysis helps...
This paper addresses mutational events that give rise to differing response to drugs focusing on Rac1, a protein that has been recognized as a target for drug design for cardiovascular disease due its regulatory role of angiogenesis. Rac1 has been considered with reference to Single Nucleotide Polymorphism (SNP), which has become of great value for personalized medicine. We have considered four variation...
Experimental methods such as high-throughput screening have widely used for discovery of the new drug targets. We employed an idea that disease-related proteins tend to be work as an important factor for architecture of the disease network in this study. To determine new drug target proteins, we proposed a new methodology that analyzes the human disease network by using informational technology. We...
XRCC4 was well known as the downstream of KU86-DNA complex. They both play an important role in the DNA double-strain breaks (DSBs) repair system subpathway, nonhomologous end joining (NHEJ). In this study, The protocol of docking analysis was applied to find the specific compounds, which had highest affinities to KU86 from our TCM database. The docking results were analyzed to point out potent compounds...
Cardiovascular disease is the second most prevalent cause of morbidity and mortality in women of developed countries. Although it is well established that gender is a risk factor for cardiovascular disease, most gene expression analysis studies favour the identification of disease bio-markers and potential drug targets over combined populations. This study integrates genomic and systems approaches...
Hepatitis B virus (HBV) infected people are at high risk of death from cirrhosis of the liver and liver cancer. To overcome the drug-resistant challenge of current anti-HBV compounds, substances blocking host support proteins in HBV infection are becoming increasingly important. Comprehensive HBV-human interactome map, which describe gene-level interactions of HBV proteins with human proteins, may...
The following topics have been dealt with: middlewares; neurophysiology; biomedical imaging; medical image processing; genetics; genomics; proteins; proteomics; electronic health records; health information systems; cancer; ontology; support systems; data mining; biological organs; stents; drugs; medical diagnosis; health care information management; blood; cellular biophysics; microorganisms; biological...
Objective: By analyzing the effect of natural cerebrolysin (NC) on gene expression profile of rat hippocampus Alzheimer's disease (AD), to explore its molecular genetic pharmacodynamic mechanism of anti-AD. Methods: The experiment included the AD model, sham-operation and NC treated group. The changes of hippocampus gene expression profiles in the above three groups were analyzed by Affymetrix rat...
Myocardin-related transcription factors A (MRTF-A) is a myocardin-related transcription factor that has been found strongly activated CarG box - containing genes through its direct binding to serum response factor (SRF). In the present study, the MRTF-A expression vector was constructed. The MTT assay showed that transfection of MRTF-A could significantly decrease the anti-tumor effect of tamoxifen...
Antibiotics have recently been shown to play a role as signaling molecules besides bacterial killing or growth inhibition. To understand antibiotic regulatory networks in bacteria, we investigated Pseudomonasaeruginosa gene expression profiles in response to subinhibitory concentrations of six antibiotics (ampicilin, kanamycin, chloramphenicol, tetracycline, erythromycin, ciprofloxacin) by using...
Traditionally, most bacterial drug targets are identified using expensive and time-consuming genetic screens, biochemical tests and cellular assays. In recent times, drug-target identification by in silico methods has emerged causing a phenomenal achievement in the field of drug discovery. This paper focuses on describing how microbial drug target identification can be carried out using bioinformatics...
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