The Infona portal uses cookies, i.e. strings of text saved by a browser on the user's device. The portal can access those files and use them to remember the user's data, such as their chosen settings (screen view, interface language, etc.), or their login data. By using the Infona portal the user accepts automatic saving and using this information for portal operation purposes. More information on the subject can be found in the Privacy Policy and Terms of Service. By closing this window the user confirms that they have read the information on cookie usage, and they accept the privacy policy and the way cookies are used by the portal. You can change the cookie settings in your browser.
Enhancers are crucial to the understanding of mechanisms underlying gene transcriptional regulation. Although having been successfully applied in such projects as ENCODE and Roadmap to generate landscape of enhancers in human cell lines, high-throughput biological experimental techniques are still costly and time consuming for even larger scale identification of enhancers across a variety of tissues...
At present, the highly active antiretroviral treatment is recognized as the most effective therapy to treat and control HIV/AIDS. Furthermore, it is still very concerned that why combination drugs is better than the single drugs. In recent decades, there are already some researches about the multiple combinatorial perturbation theory. However, these studies mainly rely heavily on the dynamics of transient...
Recently, feature extraction and dimensionality reduction have become fundamental tools for many data mining tasks, especially for processing high-dimensional data such as genome data. In this paper, a new feature extraction method based on sparse singular value decomposition (SSVD) is developed. SSVD algorithm is applied to extract differentially expressed genes from two different genome datasets...
The protein phosphorylation modifications are important to protein activities and functions. It has been widely recognized that dysfunctional phosphorylation modifications are related to cancer. Specifically, some single amino acid variations could disrupt existing phosphorylation kinase-substrate relationships and create novel kinase-substrate relationships. Besides, numerous network-based methods...
A text-driven 3D pronunciation visualization instruction system is proposed for computer-assisted language learning. Based on a 3D articulatory mesh model including appearance and internal articulators, both finite element method and anatomical model are used to synthesize the articulatory animation of phonemes by fitting the mesh model to the detected articulatory shapes in X-ray images. Visual co-articulation...
The identified genetic short QT syndrome (SQTS) is associated with an increased risk of arrhythmia and sudden death. This study was to investigate the potential effects of propafenone on KCNH2-linked short QT syndrome (SQT1) using a multi-scale biophysically detailed model of the heart developed by ten Tusscher and Panfilov. The ion electrical conductivities were reduced by propafenone in order to...
Tongue fur is an important objective basis for clinical diagnosis and treatment in western medicine and tongue diagnosis for Chinese medicine. Given the high penetration and built-in sensors of smartphones, and the need for continuous monitoring of health conditions, we propose an automatic tongue diagnosis framework on smartphone. However, tongue images taken by smartphone are quite different in...
Disease gene identification is a key step to understand the cellular mechanisms associated with a specific disease. Compared with biological experiments, computational predictions of disease genes are cheaper and more effortless. Many computational methods are used to detect causal genes for diseases on the protein-protein interaction (PPI) networks generated by the high-throughput technology. However,...
Alignment among protein-protein interaction (PPI) networks largely benefits our understanding in biological researches as it contributes greatly to the uncovering of important information, such as evolutionary conserved pathways, protein complexes and functional orthologs. Global alignment of multiple PPI networks aims at clustering functionally conserved proteins throughout different species, where...
Functional gene network analysis, such as gene co-expression network analysis, is useful for detecting disease-associated gene modules. Compared with many gene interaction networks in pathway databases, co-expression networks constructed directly from RNA-seq experiment are context-specific and thus more helpful for detecting differential gene modules under defined conditions. However, existing co-expression...
Identifying functional modules in protein-protein interaction (PPI) networks is fundamental to understand cellular organization, processes, and functions. As an emerging evolutionary computational technology, swarm intelligence approaches are now becoming a new research hotspot in identifying functional modules. This paper proposes a new computational approach based on bacterial biological mechanisms...
Alternative splicing is a mechanism to produce gene expression diversity under the constraint of a limited number of genes, causing spatiotemporal gene expression in many tissues and developmental processes in organisms. This mechanism is well studied in model organisms but not in non-model organisms because the current standard method requires genomic sequences as well as fully annotated information...
This work presents an on-line system developed for medical information extraction. The goal is to provide a web-based service addressed to the medical community for the efficient processing of electronic health records in Spanish and support the clinical decision making process. This tool assists in the identification of medical entities as well as cause-effect reactions in order to help professionals...
Lysine succinylation is one of most important types in protein post-translational modification, which is involved in many cellular processes and serious diseases. However, effective recognition of such sites with traditional experiment methods may seem to be treated as time-consuming and laborious. Those methods can hardly meet the need of efficient identification a great deal of succinylated sites...
Drug discovery is a cost expensive and time consuming process. Approved drugs have favorable or validated pharmacokinetic properties and toxicological profiles. Therefore repurposing approved drugs to new diseases can potentially avoid expensive costs associated with the early-stage testing. In this work, we propose to integrate drug-drug, disease-disease, gene-gene and drug-disease associations to...
A context-sensitive probabilistic Boolean network with perturbation (CS-PBNp) closely models gene regulatory networks under external controls that alter the evolution of the networks in a desirable way over a finite time horizon. In this paper, we consider optimal control for a CS-PBNp, proposing an approach, based on a formal verification technique - probabilistic model checking, for finding optimal...
Detecting copy number variants (CNVs) is an essential part in variant calling process. Here, we describe a novel method ERDS-pe to detect CNVs from whole-exome sequencing (WES) data. ERDS-pe first employs principal component analysis to normalize WES data. Then, ERDS-pe incorporates read depth signal and single-nucleotide variation information together as a hybrid signal into a paired hidden Markov...
With advances in next-generation sequencing technologies, transcriptome sequencing has emerged as a powerful tool for performing transcriptome analysis for various organisms. Obtaining draft transcriptome of an organism is a complex multi-stage pipeline with several steps such as data cleaning, error correction and assembly. Based on the analysis performed in this paper, we conclude that the best...
Protein residue-residue contacts dictate the topology of protein structure and play an important role in structural biology, especially in de novo protein structure prediction. Accurate prediction of residue contacts could improve the performance of de novo protein structure prediction methods. In this study, a novel method based on learning-to-rank (RRCRank) has been presented to predict protein...
Set the date range to filter the displayed results. You can set a starting date, ending date or both. You can enter the dates manually or choose them from the calendar.