A5000049528- Bioinformatics and Genomic Networks
- Machine Learning in Bioinformatics
- Computational Drug Discovery Methods
- Genomics and Phylogenetic Studies
- RNA and protein synthesis mechanisms
- Congenital heart defects research
- Congenital Heart Disease Studies
- Genetic Associations and Epidemiology
- Biomedical Text Mining and Ontologies
- Algorithms and Data Compression
- Genetic and Kidney Cyst Diseases
- Protein Structure and Dynamics
- Receptor Mechanisms and Signaling
- Gene expression and cancer classification
- Mitochondrial Function and Pathology
- Occupational and environmental lung diseases
- Photoreceptor and optogenetics research
- Renal and related cancers
- Tryptophan and brain disorders
- Genetic factors in colorectal cancer
- Non-Invasive Vital Sign Monitoring
- interferon and immune responses
- Lipid Membrane Structure and Behavior
- Wikis in Education and Collaboration
- Genetics and Neurodevelopmental Disorders
University of Pittsburgh
2016-2025
Carnegie Mellon University Qatar
2024
University of North Texas
2022
KIIT University
2022
New Jersey Institute of Technology
2022
The University of Texas at Arlington
2022
International Institute of Information Technology
2022
Carnegie Mellon University
2002-2017
Intelligent Systems Research (United States)
2016
Istituto delle Scienze Neurologiche di Bologna
2013
The Internet-of-Things (IoT) has taken over the business spectrum, and its applications vary widely from agriculture health care to transportation. A hospital environment can be very stressful, especially for senior citizens children. With ever-increasing world population, conventional patient-doctor appointment lost effectiveness. Hence, smart becomes important. Smart implemented at all levels, starting temperature monitoring babies tracking vital signs in elderly. complexity cost of...
Protein-protein interactions (PPIs) are the basis of biological functions. Knowledge a protein can help understand its molecular function and association with different processes pathways. Several publicly available databases provide comprehensive information about individual proteins, such as their sequence, structure, function. There also exist that built exclusively to PPIs by curating them from published literature. The provided in these web resources is protein-centric, not PPI-centric....
Genome-wide association studies of schizophrenia (GWAS) have revealed the role rare and common genetic variants, but functional effects risk variants remain to be understood. Protein interactome-based can facilitate study molecular mechanisms by which genes relate (SZ) genesis, protein-protein interactions (PPIs) are unknown for many liability genes. We developed a computational model discover PPIs, is found highly accurate according evaluations experimental validations selected PPIs....
Abstract Background Biological processes in cells are carried out by means of protein-protein interactions. Determining whether a pair proteins interacts wet-lab experiments is resource-intensive; only about 38,000 interactions, few hundred thousand expected known today. Active machine learning can guide the selection pairs for future experimental characterization order to accelerate accurate prediction human protein interactome. Results Random forest (RF) has previously been shown be...
Genes play a central role in all biological processes. DNA microarray technology has made it possible to study the expression behavior of thousands genes one go. Often, gene data is used generate features for supervised and unsupervised learning tasks. At same time, advances field deep have available plethora architectures. In this paper, we use architectures pre-trained an manner using denoising autoencoders as preprocessing step popular task. Denoising (DA) can be learn compact...
Patients with schizophrenia and their relatives have reduced prevalence of rheumatoid arthritis. Schizophrenia arthritis genome-wide association studies also indicate negative genetic correlations, suggesting that there may be shared pathogenesis at the DNA level or downstream. A portion inverse could attributed to pleiotropy, i.e., variants a single nucleotide polymorphism confer differential risk for these disorders. To study basis such an interrelationship, we initially compared lists...
Abstract Cilia are dynamic microtubule-based organelles present on the surface of many eukaryotic cell types and can be motile or non-motile primary cilia. defects underlie a growing list human disorders, collectively called ciliopathies, with overlapping phenotypes such as developmental delays cognitive memory deficits. Consistent this, cilia play an important role in brain development, particularly neurogenesis neuronal migration. These findings suggest that deeper systems-level...
Protein–protein interactions (PPIs) perform various functions and regulate processes throughout cells. Knowledge of the full network PPIs is vital to biomedical research, but most are still unknown. As it infeasible discover all them experimentally due technical resource limitations, computational prediction essential accurately assessing performance algorithms required before further application or translation. However, many published methods compose their evaluation datasets incorrectly,...
Hypoplastic left heart syndrome (HLHS) is a severe congenital disease associated with microcephaly and poor neurodevelopmental outcomes. Here we show that the Ohia HLHS mouse model, mutations in Sap130, chromatin modifier, Pcdha9, cell adhesion protein, also exhibits mitotic block increased apoptosis leading to impaired cortical neurogenesis. Transcriptome profiling, DNA methylation, Sap130 ChIPseq analyses all demonstrate dysregulation of genes autism cognitive impairment. This includes...
Abstract A palindrome in DNA is like a language, but when read backwards, it complement of the forward sequence; effectively, two halves sequence each other from its midpoint double strand DNA. Palindromes are distributed throughout human genome and play significant roles gene expression regulation. Palindromic mutations linked to many diseases, such as neuronal disorders, mental retardation, various cancers. In this work, we computed analyzed palindromic sequences studied their conservation...
It has been suggested previously that genome and proteome sequences show characteristics typical of natural-language texts such as "signature-style" word usage indicative authors or topics, the algorithms originally developed for natural language processing may therefore be applied to draw biologically relevant conclusions. Following this approach 'biological modeling', statistical n-gram analysis comparative whole 44 organisms. shown a few particular amino acid n-grams are found in...
Autosomal dominant leukodystrophy (ADLD) is an adult onset demyelinating disorder that caused by duplications of the lamin B1 (LMNB1) gene. However, as only a few cases have been analyzed in detail, mechanisms underlying LMNB1 are unclear. We report detailed molecular analysis largest collection ADLD families studied, to date. identified minimal duplicated region necessary for disease, defined all duplication junctions at nucleotide level and first inverted duplication. demonstrated not...
Abstract Genes play a central role in all biological processes. DNA microarray technology has made it possible to study the expression behavior of thousands genes one go. Often, gene data is used generate features for supervised and unsupervised learning tasks. At same time, advances field deep have available plethora architectures. In this paper, we use architectures pre-trained an manner using denoising autoencoders as preprocessing step popular task. Denoising (DA) can be learn compact...
Prediction of transmembrane (TM) helices by statistical methods suffers from lack sufficient training data. Current best use hundreds or even thousands free parameters in their models which are tuned to fit the little data available for training. Further, they often restricted generally accepted topology "cytoplasmic-transmembrane-extracellular" and cannot adapt membrane proteins that do not conform this topology. Recent crystal structures channel have revealed novel architectures showing...
Network analysis is a common approach for the study of genetic view diseases and biological pathways. Typically, when set genes are identified to be interest in relation disease, say through genome wide association (GWAS) or different gene expression study, these typically analyzed context their protein-protein interaction (PPI) networks. Further carried out compute enrichment known pathways disease-associations network. Having tools such at fingertips biologists without requirement computer...
Psychological stress is a sense of pressure which affects the physiological parameters in person. In this paper novel detection system, iStress proposed monitors levels through body temperature, rate motion and sweat during physical activity. The implementation system uses neural network approach utilizing Mamdani-type fuzzy logic controller with more than 150 instances as model. collected data are sent stored cloud, can help real time monitoring person's level thereby reducing risks to...
What do proteins look like? Proteins are composed of fundamental building blocks chemical molecules called amino acids. When a protein is synthesized by the cells, initially it just string This arranges itself in process folding into complex three-dimensional structure capable exerting function specific protein. We briefly review proteins, their primary and secondary structure.
Abstract We previously presented the protein-protein interaction network of schizophrenia associated genes, and from it, drug-protein interactome which showed drugs that target any proteins in interactome. Here, we studied these further to identify whether them may potentially be repurposable for schizophrenia. In schizophrenia, gene expression has been described as a measurable aspect disease reflecting action risk genes. each using BaseSpace Correlation Engine, shortlisted those had...
Abstract Genome-wide association studies suggest significant overlaps in Parkinson’s disease (PD) and schizophrenia (SZ) risks, but the underlying mechanisms remain elusive. The protein-protein interaction network (‘interactome’) plays a crucial role PD SZ can incorporate their spatiotemporal specificities. Therefore, to study linked biology of SZ, we compiled PD- SZ-associated genes from DisGeNET database, constructed interactomes using BioGRID HPRD. We examined clustering enrichment...