Safee Ullah Chaudhary received his B.S. in computer systems engineering from the Ghulam Ishaq Khan Institute of Engineering Sciences and Technology, Topi, Pakistan in 2002. He spent the next four years at Ultimus Inc (HQ NC) serving in the software development group. He was the team leader for the design and development of Ultimus XML Formula Engine. He then proceeded to South Korea for graduate studies and obtained an M.S. and Ph.D. in 2008 and 2013, respectively. His doctoral research at the Department of Bio. & Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), was focused on computational modeling of multiscale cancer systems biology. He took an agent-based (multi-agent) approach to model tumorigenesis and uncovered the role of cell death in the Warburg Effect. This work also led to the development of the Electronic Cancer System (ELECANS), which is a next-generation modeling platform for applications in cancer systems biology. In 2014, he joined the Department of Biology at LUMS where he established the Biomedical Informatics & Engineering Research Laboratory (BIRL) which is now involved in the development of cutting edge techniques and software for applications in computational proteomics, systems biology and mobile health.
For more information on his research group, please visit Biomedical Informatics & Engineering Research Laboratory (BIRL).
| Title | Publication | Author | Year |
|---|---|---|---|
| CanSeer: a translational methodology for developing personalized cancer models and therapeutics | Scientific Reports | 2025 | |
| Correction to: CanSeer: a translational methodology for developing personalized cancer models and therapeutics (Scientific Reports, (2025), 15, 1, (15080), 10.1038/s41598-025-99219-x) | Scientific Reports | 2025 | |
| PERCEPTRON-XFMS: An Open-Source Web Server for Analysis of X-ray Footprinting with Mass Spectrometry Data | Journal of Molecular Biology | 2025 | |
| Fingerprinting hyperglycemia using predictive modelling approach based on low-cost routine CBC and CRP diagnostics | Scientific Reports | 2024 | |
| Pharmacophore-Assisted Covalent Docking Identifies a Potential Covalent Inhibitor for Drug-Resistant Genotype 3 Variants of Hepatitis C Viral NS3/4A Serine Protease | Viruses | 2024 | |
| Editorial: From assessment to intervention: role of consumer technology and neurotech in preventive mental health | Frontiers in Psychology | 2024 | |
| Association of epilepsy and neurological impairments with homozygous recessive missense mutations found in the genes responsible for ganglioside biosynthesis (ST3GAL5) and calcium voltage-gated channels (CACNA1H) - insights through molecular dynamic simulations | Journal of Biomolecular Structure and Dynamics | 2024 | |
| Biomimetic coatings for orthopedic implants | Smart Biomimetic Coatings Design Properties and Biomedical Applications | 2024 | |
| Fingerprinting of heavy metal and microbial contamination uncovers the unprecedented scale of water pollution and its implication on human health around transboundary Hudiara drain in South Asia | Environmental Technology and Innovation | 2023 | |
| NMR-Based Metabolomics: A New Paradigm to Unravel Defense-Related Metabolites in Insect-Resistant Cotton Variety through Different Multivariate Data Analysis Approaches | Molecules | 2023 | |
| The Solvation of the E. coli CheY Phosphorylation Site Mapped by XFMS | International Journal of Molecular Sciences | 2022 | |
| Repellent activity of trans-anethole and tea tree oil against Aedes aegypti and their interaction with OBP1, a protein involved in olfaction | Entomologia Experimentalis Et Applicata | 2022 | |
| An evaluation of lipid profile and pro-inflammatory cytokines as determinants of cardiovascular disease in those with diabetes: a study on a Mexican American cohort | Scientific Reports | 2021 | |
| Author Correction: An evaluation of lipid profile and pro-inflammatory cytokines as determinants of cardiovascular disease in those with diabetes: a study on a Mexican American cohort (Scientific Reports, (2021), 11, 1, (2435), 10.1038/s41598-021-81730-6) | Scientific Reports | 2021 | |
| Navigating Multi-Scale Cancer Systems Biology Towards Model-Driven Clinical Oncology and Its Applications in Personalized Therapeutics | Frontiers in Oncology | 2021 | |
| H-NMR-based metabolomics: An integrated approach for the detection of the adulteration in chicken, chevon, beef and donkey meat | Molecules | 2021 | |
| Expression of cyanobacterial genes enhanced CO2 assimilation and biomass production in transgenic Arabidopsis thaliana | Peerj | 2021 | |
| A Personalized Therapeutics Approach Using an In Silico Drosophila Patient Model Reveals Optimal Chemo- and Targeted Therapy Combinations for Colorectal Cancer | Frontiers in Oncology | 2021 | |
| PERCEPTRON: An open-source GPU-accelerated proteoform identification pipeline for top-down proteomics | Nucleic Acids Research | 2021 | |
| Host biomarkers for monitoring therapeutic response in extrapulmonary tuberculosis | Cytokine | 2021 | |
| Trends in antimicrobial resistance amongst pathogens isolated from blood and cerebrospinal fluid cultures in Pakistan (2011-2015): A retrospective cross-sectional study | Plos One | 2021 | |
| CRISPR-Cas13a mediated targeting of hepatitis C virus internal-ribosomal entry site (IRES) as an effective antiviral strategy | Biomedicine and Pharmacotherapy | 2021 | |
| A cyanobacterial photorespiratory bypass model to enhance photosynthesis by rerouting photorespiratory pathway in C3 plants | Scientific Reports | 2020 | |
| SPECTRUM - A MATLAB Toolbox for Proteoform Identification from Top-Down Proteomics Data | Scientific Reports | 2019 | |
| Evolution of efficacious pangenotypic hepatitis C virus therapies | Medicinal Research Reviews | 2019 |