A5055826525- Software Testing and Debugging Techniques
- Software Engineering Research
- Bioinformatics and Genomic Networks
- Advanced Clustering Algorithms Research
- Software Reliability and Analysis Research
- Face and Expression Recognition
- Complex Network Analysis Techniques
- Gene expression and cancer classification
- Computational Drug Discovery Methods
- Real-Time Systems Scheduling
- Inflammasome and immune disorders
- Gene Regulatory Network Analysis
- Diet and metabolism studies
- Machine Learning in Bioinformatics
- Ferroptosis and cancer prognosis
- Cancer Genomics and Diagnostics
- vaccines and immunoinformatics approaches
- Nutrition, Genetics, and Disease
- Cancer-related molecular mechanisms research
- Dietary Effects on Health
- Distributed systems and fault tolerance
- Protein Structure and Dynamics
- Remote-Sensing Image Classification
- Parallel Computing and Optimization Techniques
- Cancer Immunotherapy and Biomarkers
Technology Innovation Institute
2023-2025
Biotechnology Research Center
2024-2025
St. Jude Children's Research Hospital
2022-2025
Hamad bin Khalifa University
2016-2024
Qatar Foundation
2018-2023
Qatar Airways (Qatar)
2017-2020
Qatar Cardiovascular Research Center
2016-2020
KU Leuven
2013-2016
Indian Institute of Technology Hyderabad
2010-2016
Indian Institute of Technology Kharagpur
2004-2015
Abstract Motivation Protein solubility plays a vital role in pharmaceutical research and production yield. For given protein, the extent of its can represent quality function, is ultimately defined by sequence. Thus, it imperative to develop novel, highly accurate silico sequence-based protein predictors. In this work we propose, DeepSol, novel Deep Learning-based predictor. The backbone our framework convolutional neural network that exploits k-mer structure additional sequence structural...
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the virus responsible for disease 2019 (COVID-19), continues to cause substantial morbidity and mortality in ongoing global pandemic. Understanding fundamental mechanisms that govern innate immune inflammatory responses during SARS-CoV-2 infection is critical developing effective therapeutic strategies. Whereas interferon (IFN)–based therapies are generally expected be beneficial viral infection, clinical trials COVID-19 have...
Cytosolic innate immune sensors are critical for host defense and form complexes, such as inflammasomes PANoptosomes, that induce inflammatory cell death. The sensor NLRP12 is associated with infectious diseases, but its activating triggers roles in death inflammation remain unclear. Here, we discovered drives inflammasome PANoptosome activation, death, response to heme plus PAMPs or TNF. TLR2/4-mediated signaling through IRF1 induced Nlrp12 expression, which led formation maturation of...
Abstract In tumor-bearing mice, cyclic fasting or fasting-mimicking diets (FMD) enhance the activity of antineoplastic treatments by modulating systemic metabolism and boosting antitumor immunity. Here we conducted a clinical trial to investigate safety biological effects cyclic, five-day FMD in combination with standard therapies. 101 patients, was safe, feasible, resulted consistent decrease blood glucose growth factor concentration, thus recapitulating metabolic changes that mediate...
The lack of multi-omics cancer datasets with extensive follow-up information hinders the identification accurate biomarkers clinical outcome. In this cohort study, we performed comprehensive genomic analyses on fresh-frozen samples from 348 patients affected by primary colon cancer, encompassing RNA, whole-exome, deep T cell receptor and 16S bacterial rRNA gene sequencing tumor matched healthy tissue, complemented whole-genome for further microbiome characterization. A type 1 helper cell,...
NLRs constitute a large, highly conserved family of cytosolic pattern recognition receptors that are central to health and disease, making them key therapeutic targets. NLRC5 is an enigmatic NLR with mutations associated inflammatory infectious diseases, but little known about its function as innate immune sensor cell death regulator. Therefore, we screened for NLRC5's role in response infections, PAMPs, DAMPs, cytokines. We identified acts drive death, PANoptosis, specific ligands,...
Innate immunity provides the first line of defense through multiple mechanisms, including pyrogen production and cell death. While elevated body temperature during infection is beneficial to clear pathogens, heat stress (HS) can lead inflammation pathology. Links between pathogen exposure, HS, cytokine release, have been observed, but fundamental innate immune mechanisms driving pathology exposure HS remain unclear. Here, we use genetic approaches elucidate pathways in or LPS models. Our...
Abstract Motivation Protein solubility can be a decisive factor in both research and production efficiency, silico sequence-based predictors that accurately estimate outcomes are highly sought. Results In this study, we present novel approach termed PRotein SolubIlity Predictor (PaRSnIP), which uses gradient boosting machine algorithm as well an approximation of sequence structural features the protein interest. Based on independent test set, PaRSnIP outperformed other state-of-the-art...
Accurately measuring sleep and its quality with polysomnography (PSG) is an expensive task. Actigraphy, alternative, has been proven cheap relatively accurate. However, the largest experiments conducted to date, have had only hundreds of participants. In this work, we processed data recently published Multi-Ethnic Study Atherosclerosis (MESA) Sleep study both PSG actigraphy synchronized. We propose adoption publicly available large dataset, which at least one order magnitude larger than any...
Background An immune active cancer phenotype typified by a T helper 1 (Th-1) response has been associated with increased responsiveness to immunotherapy and favorable prognosis in some but not all types. The reason of this differential prognostic connotation remains unknown. Methods To explore the contextual value phenotypes, we applied multimodal pan-cancer analysis among 31 different histologies (9282 patients), encompassing oncogenic transcriptomic analysis, mutational neoantigen load...
The innate immune system serves as the first line of host defense. Transforming growth factor-β-activated kinase 1 (TAK1) is a key regulator immunity, cell survival, and cellular homeostasis. Because its importance in several pathogens have evolved to carry TAK1 inhibitors. In response, hosts sense inhibition induce robust lytic death, PANoptosis, mediated by RIPK1-PANoptosome. PANoptosis unique inflammatory death pathway initiated an sensor driven caspases RIPKs. While can be beneficial...
Least squares support vector machines (LSSVMs) have been widely applied for classification and regression with comparable performance SVMs. The LSSVM model lacks sparsity is unable to handle large-scale data due computational memory constraints. A primal fixed-size (PFS-LSSVM) introduce using Nyström approximation a set of prototype vectors (PVs). PFS-LSSVM solves an overdetermined system linear equations in the primal. However, this solution not sparsest. We investigate sparsity-error...
This paper shows the feasibility of utilizing Kernel Spectral Clustering (KSC) method for purpose community detection in big data networks. KSC employs a primal-dual framework to construct model. It results powerful property effectively inferring affiliation out-of-sample extensions. The original large kernel matrix cannot fitinto memory. Therefore, we select smaller subgraph that preserves overall structure makes use extension membership unseen nodes. We provide novel memory- and...
Data-driven approaches for materials design and selection have accelerated discovery along with the upsurge of machine learning applications. We report here a prediction-to-lab-scale synthesis cubic phase triple-cation lead halide perovskites guided by perovskite stability predictor. The starting double-cation resulting from incorporation 15% dimethylammonium (DMA) in methylammonium triiodide suffers significant deviation structure. By analyzing X-ray diffraction scanning electron...
Abstract Resistance to programmed cell death (PCD) is a hallmark of cancer. While some PCD components are prognostic in cancer, the roles many molecules can be masked by redundancies and crosstalks between pathways, impeding development targeted therapeutics. Recent studies characterizing these have identified PANoptosis, unique innate immune-mediated inflammatory pathway that integrates from other pathways. Here, we designed systematic computational framework determine pancancer clinical...
Transforming growth factor-β-activated kinase 1 (TAK1) is a central regulator of innate immunity, cell death, inflammation, and cellular homeostasis. Therefore, many pathogens carry TAK1 inhibitors (TAK1i). As host strategy to counteract this, inhibition or deletion induces spontaneous inflammatory PANoptosis, through the RIPK1-PANoptosome complex, containing NLRP3 inflammasome caspase-8/FADD/RIPK3 as integral components; however, PANoptosis also promotes pathological inflammation....
Predictive biomarkers of immune checkpoint inhibitor (ICI) efficacy are currently lacking for non-small cell lung cancer (NSCLC). Here, we describe the results from Anti-PD-1 Response Prediction DREAM Challenge, a crowdsourced initiative that enabled assessment predictive models by using data two randomized controlled clinical trials (RCTs) ICIs in first-line metastatic NSCLC.
UML is widely accepted and used by industry for modelling design of software systems. A novel method to automatically generate test cases based on state models presented. In the present approach, control data flow logic available in diagram are exploited. The machine graph traversed conditional predicates every transition selected. Then these transformed function minimisation technique applied cases. generation scheme fully automatic generated satisfy path coverage criteria. can be class as...
Recent years have witnessed a growing effort in engineering and tuning the properties of hybrid halide perovskites as light absorbers. These led to successful enhancement their stability, feature that is often counterbalanced by reduction power-conversion efficiency. In order provide systematic analysis structure-property relationships this class compounds we performed density functional theory calculations exploring fully inorganic ABC3 chalcogenide (I-V-VI3), (I-II-VII3) perovskites....
ObjectiveTo develop a machine-based algorithm from clinical and demographic data, physical activity glucose variability to predict hyperglycaemic hypoglycaemic excursions in patients with type 2 diabetes on multiple lowering therapies who fast during Ramadan.Patients methodsThirteen (10 males three females) 3 or more anti-diabetic medications were studied Fitbit-2 pedometer device Freestyle Libre (Abbott Diagnostics) weeks before Ramadan. Several machine learning techniques trained blood...
Monkeypox virus (MPXV) was confirmed in May 2022 and designated a global health emergency by WHO July 2022. MPX virions are big, enclosed, brick-shaped, contain linear, double-stranded DNA genome as well enzymes. MPXV particles bind to the host cell membrane via variety of viral-host protein interactions. As result, wrapped structure is potential therapeutic target. DeepRepurpose, an artificial intelligence-based compound-viral proteins interaction framework, used transfer learning setting...