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
Fingerprinting hyperglycemia using predictive modelling approach based on low-cost routine CBC and CRP diagnostics Scientific Reports Tahir A., Asghar K., Shafiq W., Batool H., Khan D., Chughtai O., Chaudhary S.U., 2024
Editorial: From assessment to intervention: role of consumer technology and neurotech in preventive mental health Frontiers in Psychology Malik A.S., Hussain M., Chaudhary S.U., 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 Abid R., Nisar H., Chaudhary S.U., Hamid M., Sahibzada K.I., Firdous S., Mudassar M., Sadaf S., 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 Nasir Z., Sabir A., Salman H.M., Ashraf M.U., Khalid M.F., Khalid M.B., Khalid Z., Tahir A., Arshad F., Ejaz H.G., Ashraf S., Liaqat S.H., Khawar H., Hussain R., Sultan M.U., Afzal I., Hamera S., Nisar N., Sikandar S., Chaudhary S.U., 2023
NMR-Based Metabolomics: A New Paradigm to Unravel Defense-Related Metabolites in Insect-Resistant Cotton Variety through Different Multivariate Data Analysis Approaches Molecules Shami A.A., Akhtar M.T., Mumtaz M.W., Mukhtar H., Tahir A., Shahzad-ul-Hussan S., Chaudhary S.U., Muneer B., Iftikhar H., Neophytou M., 2023
The Solvation of the E. coli CheY Phosphorylation Site Mapped by XFMS International Journal of Molecular Sciences Hamid M., Khalid M.F., Chaudhary S.U., Khan S., 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 Ajmal L., Hamid A., Raza F.A., Chaudhary S.U., Iman K., Ajmal S., Younas H., Khalid R., Iqbal M., Tasadduq R., 2022
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 Tahir A., Martinez P.J., Ahmad F., Fisher-Hoch S.P., McCormick J., Gay J.L., Mirza S., Chaudhary S.U., 2021
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 Tahir A., Martinez P.J., Ahmad F., Fisher-Hoch S.P., Gay J.L., Mirza S., Chaudhary S.U., 2021
Navigating Multi-Scale Cancer Systems Biology Towards Model-Driven Clinical Oncology and Its Applications in Personalized Therapeutics Frontiers in Oncology Gondal M.N., Chaudhary S.U., 2021
Expression of cyanobacterial genes enhanced CO<inf>2</inf> assimilation and biomass production in transgenic Arabidopsis thaliana PeerJ Abbasi A.Z., Bilal M., Khurshid G., Yiotis C., Zeb I., Hussain J., Baig A., Shah M.M., Chaudhary S.U., Osborne B., Ahmad R., 2021
H-NMR-based metabolomics: An integrated approach for the detection of the adulteration in chicken, chevon, beef and donkey meat Molecules Akhtar M.T., Samar M., Shami A.A., Mumtaz M.W., Mukhtar H., Tahir A., Shahzad-Ul-hussan S., Chaudhary S.U., Kaka U., 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 Gondal M.N., Butt R.N., Shah O.S., Sultan M.U., Mustafa G., Nasir Z., Hussain R., Khawar H., Qazi R., Tariq M., Faisal A., Chaudhary S.U., 2021
PERCEPTRON: An open-source GPU-accelerated proteoform identification pipeline for top-down proteomics Nucleic Acids Research Khalid M.F., Iman K., Ghafoor A., Saboor M., Ali A., Muaz U., Basharat A.R., Tahir T., Abubakar M., Akhter M.A., Nabi W., Vanderbauwhede W., Ahmad F., Wajid B., Chaudhary S.U., 2021
Host biomarkers for monitoring therapeutic response in extrapulmonary tuberculosis Cytokine Ambreen A., Khaliq A., Naqvi S.Z.H., Tahir A., Mustafa M., Chaudhary S.U., Mirza S., Mustafa T., 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 Javaid N., Sultana Q., Rasool K., Gandra S., Ahmad F., Chaudhary S.U., Mirza S., 2021
CRISPR-Cas13a mediated targeting of hepatitis C virus internal-ribosomal entry site (IRES) as an effective antiviral strategy Biomedicine and Pharmacotherapy Ashraf M.U., Salman H.M., Khalid M.F., Khan M.H.F., Anwar S., Afzal S., Idrees M., Chaudhary S.U., 2021
A cyanobacterial photorespiratory bypass model to enhance photosynthesis by rerouting photorespiratory pathway in C<inf>3</inf> plants Scientific Reports Khurshid G., Abbassi A.Z., Khalid M.F., Gondal M.N., Naqvi T.A., Shah M.M., Chaudhary S.U., Ahmad R., 2020
SPECTRUM - A MATLAB Toolbox for Proteoform Identification from Top-Down Proteomics Data Scientific reports Basharat A.R., Iman K., Khalid M.F., Anwar Z., Hussain R., Kabir H.G., Tahreem M., Shahid A., Humayun M., Hayat H.A., Mustafa M., Shoaib M.A., Ullah Z., Zarina S., Ahmed S., Uddin E., Hamera S., Ahmad F., Chaudhary S.U., 2019
Evolution of efficacious pangenotypic hepatitis C virus therapies Medicinal Research Reviews Ashraf M.U., Iman K., Khalid M.F., Salman H.M., Shafi T., Rafi M., Javaid N., Hussain R., Ahmad F., Shahzad-Ul-Hussan S., Mirza S., Shafiq M., Afzal S., Hamera S., Anwar S., Qazi R., Idrees M., Qureshi S.A., Chaudhary S.U., 2019
Estimation of hepatitis C prevalence in the Punjab province of Pakistan: A retrospective study on general population PLoS ONE Ahsan A., Khan A.Z., Javed H., Mirza S., Chaudhary S.U., Shahzad-ul-Hussan S., 2019
ATLANTIS - Attractor Landscape Analysis Toolbox for Cell Fate Discovery and Reprogramming Scientific Reports Shah O.S., Chaudhary M.F.A., Awan H.A., Fatima F., Arshad Z., Amina B., Ahmed M., Hameed H., Furqan M., Khalid S., Faisal A., Chaudhary S.U., 2018
Reduced metabolites of nitroaromatics are distributed in the environment via the food chain Journal of Hazardous Materials Nisar N., Cheema K.J., Powell G., Bennett M., Chaudhary S.U., Qadri R., Yang Y., Azam M., Rossiter J.T., 2018
A functional magnetic resonance imaging investigation of visual hallucinations in the human striate cortex Behavioral and Brain Functions Abid H., Ahmad F., Lee S.Y., Park H.W., Im D., Ahmad I., Chaudhary S.U., 2016
Expression of Cucumber mosaic virus suppressor 2b alters FWA methylation and its siRNA accumulation in Arabidopsis thaliana Biology Open Hamera S., Yan Y., Song X., Chaudhary S.U., Murtaza I., Su L., Tariq M., Chen X., Fang R., 2016