Conferences
PUBLICATIONS
PUBLICATIONS
- Invited Conference Talks, Public Lectures and Presentations
- Conference Proceedings
- Poster Presentations
| 44. | S. U. Chaudhary*, “Modelling Multiscale Systems in Life Sciences, “2nd International Symposium on Innovation and Technology Shaping the Future of Neuroscience (ITSFN23), NeuroBio Nexus. |
| 43. | S. U. Chaudhary*, “National roadmap for personalized cancer therapeutics in Pakistan“, International Conference on Trends and Challenges in Health Sciences (ICHS-2023), University of the Punjab, Mar. 2023, Lahore, Pakistan. |
| 42. | S. U. Chaudhary*, “Multi-Scale Modeling and Simulation in Stem Cell Research”, 8th AKU Annual Surgical Conference on “Introduction to Stem Cell and its Applications”, The Agha Khan University, Feb. 2023, Karachi, Pakistan. |
| 41. | M. Hamid, M. F. Khalid, S. Khan, S. U. Chaudhary*, “PERCEPTRON-XFMS – An Open-Source Web Server for Analysis of X-ray Footprinting with Mass Spectrometry (XFMS) Data“, 22nd Advisory Board Meeting, Lahore University of Management Sciences, Jan. 2023, Lahore, Pakistan. |
| 40. | R. N. Butt, S. U. Chaudhary*, “CanSeer – A Computational Method for Clinical Translation of Personalized Cancer Therapeutics”, Workshop on Engineering in Medicine, Sultan Qaboos University, Dec. 2022, The Sultanate of Oman. |
| 39. | S. U. Chaudhary*, R. N. Butt, “Next-Generation Multi-Scale Modeling and Simulation Platform – TISON: Theatre for in silico Systems Oncology”, Workshop on Engineering in Medicine, Sultan Qaboos University, Dec. 2022, The Sultanate of Oman. |
| 38. | S. U. Chaudhary*, R. N. Butt, “TISON – Theatre for in silico Systems Oncology, Integrating Multi-omics Big Data towards Clinical Translation of Personalized Cancer Therapeutics“, MBDABC Scientific Program, University of the Punjab, Dec. 2022, Lahore, Pakistan. |
| 37. | R. N. Butt, S. U. Chaudhary*, “CanSeer – A Computational Method for Clinical Translation of Personalized Cancer Therapeutics, Integrating Multi-omics Big Data towards Clinical Translation of Personalized Cancer Therapeutics“, MBDABC Scientific Program, University of the Punjab, Dec. 2022, Lahore, Pakistan. |
| 36. | “Using MATLAB to Create Ground-breaking Software Pipelines for Applications in Proteomics and Systems Biology“, Mathworks MENA Academic Forum 2022, Mar. 2022. |
| 35. | “Next-Generation Top-down Mass Spectrometry based Proteomics Pipelines“, International Conference on Bioinformatics & Computational Methods in Post Genomic Era, Virtual University, Nov. 2021, Lahore, Pakistan. |
| 34. | “De novo-based Complementary Ion Search (COINS) Algorithm for Enhanced Proteoform Identification and Characterization in Top-Down Proteomics“, FIU-LUMS Workshop Schedule for Machine-learning, and Scalability Challenges 2021, Virtually on Sep. 2021 in Florida, USA and Lahore, Pakistan. |
| 33. | “PERCEPTRON: An Open-source GPU-accelerated Proteoform Identification Pipeline for Top-down Proteomics“, FIU-LUMS Workshop Schedule for Machine-learning, and Scalability Challenges 2021, Virtually on Sep. 2021 in Florida, USA, and Lahore, Pakistan. |
| 32. | “Bioremediation of heavy metals in wastewater using fungi“, Conference on Recent Advances in Applied Biosciences, Lahore Garrison University, Mar. 2021, Lahore, Pakistan. |
| 31. | “Profiling microbial and heavy metal contamination of Hudiara drain and its adjoining areas in Lahore, Pakistan“, Conference on Recent Advances in Applied Biosciences, Lahore Garrison University, Mar. 2021, Lahore, Pakistan. |
| 30. | “A Next-Generation Multi-scale Modeling Theatre for In Silico Oncology“, 14th International Conference on Systems Biology (ICSB 2020), Jan. 2020, Zurich, Switzerland. * Best Presentation Award by the ICSB-2020 Conference Program Committee. |
| 29. | “Pushing the Frontiers of Multiscale Modelling in Cancer Systems Biology”, 22nd IEEE International Multi-Topic Conference 2019 (IEEE INMIC 2019), NUCES-FAST, Nov. 2019, Islamabad, Pakistan. |
| 28. | “Computational Cancer Systems Biology: The New Frontiers”, International Conference of Punjab University on Recent Innovations in Molecular Sciences, The University of Punjab, Nov. 2019, Lahore, Pakistan. |
| 27. | “An excursion into the biomedical informatics research at LUMS”, Department of Computer Sciences, Lahore University of Management Sciences, Oct. 2019, Lahore, Pakistan. |
| 26. | “Perception of Difficulty Using Functional Magnetic Resonance Imaging Data“, Proceedings of 11th International Conference on Computer and Automation Engineering, pp. 37-40, Feb. 2019, Perth, Australia. |
| 25. | “Recent trends in computational proteomics”, International Conference on Advancements in Biotechnology and Biocomputing, International Islamic University, Feb. 2019, Islamabad, Pakistan. |
| 24. | “Investigating the cross-talk between cardiovascular disorders and Diabetes Mellitus”, Shalamar Medical and Dental College, Jan. 2019, Lahore, Pakistan. |
| 23. | “Growing and analyzing tumors in silico”, 15th BURAQ Space Camp, Dec. 2018, Islamabad, Pakistan. |
| 22. | “Developing In silico Cancer Therapeutics“, 8th One-day Symposium on Bioinformatics, University of Central Punjab, 2018, Lahore, Pakistan. |
| 21. | “Surfing the Tides in Cancer Landscapes”, Bioinformatics Workshop, University of Central Punjab, Mar. 2018, Lahore, Pakistan. |
| 20. | “DIAGNIA: An End-to-end Scientific Wellness Backbone for Next-generation National Healthcare Paradigm in Pakistan”, DICE-2017, COMSATS Institute of Information Technology, Lahore, Pakistan. * 2nd prize from amongst 100+ projects in the competition. |
| 19. | “Computers in Biology – Future of Medicine“, 14th BURAQ Space Camp, 2017, Islamabad, Pakistan. |
| 18. | “The Stories of ATLANTIS and SPECTRUM“, Center for Advancement of Systems and Technology, University of Management and Technology, 2017, Lahore, Pakistan. |
| 17. | “SPECTRUM: A MATLAB Toolbox for Identifying Proteins from Top-down Proteomics Data“, Trends and Prospects in Molecular Biosciences, Punjab University, 2017, Lahore, Pakistan. |
| 16. | “Next Generation Protein Identification and Quantitation Pipelines for Top-down Proteomics“, International Conference on Biotechnology, Lahore Garrison University, 2017, Lahore, Pakistan. |
| 15. | “Attractor Landscape Analysis for Application in Boolean Networks towards Personalized Therapeutics“, Conference on Computational Biology and Genomics, Hazara University, 2017, Mansehra, Pakistan. |
| 14. | “Mass Spectrometry based Proteomics and Systems Biology”, Bioinformatics Moot, Forman Christian College University, 2017, Lahore, Pakistan. |
| 13. | “Computational Biology Workshop”, Computational Biology Workshop, Habib University, 2017, Karachi, Pakistan. |
| 12. | “Laying the Foundations of Computational Proteomics in Pakistan”, International Conference on Biotechnology, (ICB): Challenges and opportunities in Pakistan, University of South Asia, 2017, Lahore, Pakistan. |
| 11. | “Towards Providing Full Spectrum Antenatal Health Care in Low and Middle-Income Countries”, 9th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2016), Vol 5 (HEALTHINF), 2016, Rome, Italy. |
| 10. | “Identifying Proteins in High-Resolution Top-down Proteomics”, Latest Trends in Domestic and Wild Animal Genomics and Biotechnology, Virtual University, 2016, Lahore, Pakistan. |
| 9. | “Applications of Multi-agent Systems to Modelling Multiscale Cancer Systems Biology”, NAMAL College, 1st January 2014, NAMAL, Mianwali, Pakistan. |
| 8. | “Modelling the Warburg Effect in the Human Colon Cancer”, LUMS School of Science and Engineering, 23rd October 2013, LUMS, Lahore, Pakistan. |
| 7. | “Computational Cancer Systems Biology – A Brave New World”, Information Technology University, 20th August 2013, ITU – Arfa Karim Science and Technology Park, Lahore, Pakistan. |
| 6. | “Exploring the Frontiers in Cancer Care and Research”, Cancer Care Hospital and Research Center, 24th July 2013, CCH-RC, Lahore, Pakistan. |
| 5. | “The Warburg Effect and the Human Colon Cancer”, COMSATS IRCBM Seminar, 2nd July 2013, COMSATS, Lahore, Pakistan. |
| 4. | “Investigating Multiscale Tumorigenesis in the Warburg Effect by Using an Agents Based Approach”, LUMS SSE Biology Seminar, 18th March 2013, LUMS, Lahore, Pakistan. |
| 3. | “Mitochondria in the Warburg Effect”, 1st OXFORD-KAIST International Workshop on Cancer Modeling, 11th December 2010, KAIST, Daejeon, South Korea. |
| 2. | “Mitochondrial Functioning and the Warburg Effect: A Systems Biology Approach to Understand the Tumor Initiation”, Workshop on Multi-scale Modeling of Cancer, 6th-8th October 2010, University of Oxford, Oxford, United Kingdom. |
| 1. | “Database search method by flipped spectrum in the top-down proteomics of FT-ICR MS. (SLIM)”, Korean Human Proteome Organization, 7th International Proteomics Conference (KHUPO), October 2007, Seoul, South Korea. |
| 4. | F. Ahmad, B. Talib, S. U. Chaudhary*, “Perception of Difficulty Using Functional Magnetic Resonance Imaging Data“, Proceedings of 11th International Conference on Computer and Automation Engineering, pp. 37-40, Feb. 2019, Perth, Australia. |
| 3. | M. Abubakar, A. Bibi, R. Hussain, Z. Bibi, A. Gul, Z. Bashir, S. N. Arshad, M. A. Uppal, S. U. Chaudhary*, “Towards Providing Full Spectrum Antenatal Health Care in Low and Middle Income Countries”, Proceedings of 9th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2016), Vol 5 (HEALTHINF), pp. 478-483, 2016, Rome, Italy. |
| 2. | U. Z. Ijaz, S. U. Chaudhary, M. S. Don, and K. Y. Kim, “Computational Strategies for Protein Quantitation in 2D Electrophoresis Gel Image Processor for MATLAB,” Proceedings of Frontiers in the Convergence of Bioscience and Information Technologies (IEEE CS Press), pp. 129-134, 2007, Jeju, South Korea. |
| 1. | U. Z. Ijaz, S. U. Chaudhary, S. M. Ahn, B. H. Lee, K. Y. Kim, “2D Electrophoresis Gel Image Processor for MATLAB,” Proceedings of 2006 International Conference on Hybrid Information Technology (ICHIT 2006), Nov 9-11, 2006, Jeju, South Korea. |
| 28. | Z. Nasir, S. U. Chaudhary*, “Multi-Scale Modeling and Simulation Towards In Silico Systems Oncology“, 22nd Advisory Board Meeting, Lahore University of Management Sciences, Jan. 2023, Lahore, Pakistan. |
| 27. | M. Hamid, M. F. Khalid, S. Khan, S. U. Chaudhary*, “PERCEPTRON-XFMS – An Open-Source Web Server for Analysis of X-ray Footprinting with Mass Spectrometry (XFMS) Data“, 22nd Advisory Board Meeting, Lahore University of Management Sciences, Jan. 2023, Lahore, Pakistan. |
| 26. | H. Khawar, R. Hussain, M. N. Gondal, A. Faisal, S. U. Chaudhary*, “Investigating the Reversal of Pancreatic Tumorigenesis through Attractor Landscape Analysis and Targeted Therapy“, Recent Innovations in Molecular Sciences, International Conference of Punjab University, Nov. 2019, Lahore, Pakistan. |
| 25. | M. N. Gondal, O. S. Shah, R. Hussain, H. Khawar, A. Faisal, M. Tariq, S. U. Chaudhary*, “Multi-scale Modelling of Colorectal Tumorigenesis in Drosophila melanogaster Midgut“, Recent Innovations in Molecular Sciences, International Conference of Punjab University, Nov. 2019, Lahore, Pakistan. |
| 24. | R. Hussain, H. Khawar, M. N. Gondal, A. Faisal, S. U. Chaudhary*, “Deciphering the Regulatory Control of Pro-survival and Anti-survival Mechanisms of Autophagy and its Oncogenic Manipulation“, Recent Innovations in Molecular Sciences, International Conference of Punjab University, Nov. 2019, Lahore, Pakistan. |
| 23. | S. U. Chaudhary*, “PERCEPTRON – An Open-source GPU Accelerated Proteoform Identification Pipeline for Top-Down Proteomics“, 18th Annual Human Proteome Organization World Congress (HUPO), Sep. 2019, Adelaide, Australia. |
| 22. | M. Abubakar, K. Altaf, M. Shaukat, W. Ahmed, D. Khan, S. U. Chaudhary*, “DIAGNIA: An End-to-end Scientific Wellness Backbone for Next-generation National Healthcare Paradigm din Pakistan”, DICE-2017, COMSATS Institute of Information Technology, Lahore, Pakistan. * 2nd prize from amongst 100+ projects in the competition. |
| 21. | A. R. Basharat, Z. Bibi, R. Hussain, H. G. Kabir, A. Shahid, M. Humayun, H. A. Hayat, M. Mustafa, M. A. Shoaib, Z. Ullah, S. Zarina, S. Ahmed, E. Uddin, S. Hamera, F. Ahmad and S. U. Chaudhary*, “SPECTRUM: A MATLAB Toolbox for Identifying Proteins from Top-down Proteomics Data“, 16th Annual Human Proteome Organization World Congress (HUPO), 2017, Dublin, Ireland. |
| 20. | M. F. Ali, H. A. Awan, H. Hameed, Z. Arshad, M. Abubakar, K. M. Hasan, B. Wajid, A. Faisal, S. U. Chaudhary*, “TISON – Theatre for in silico Oncology: A Next-Generation Multiscale Modelling Platform for Predicting Cancer Growth, Development and Metastasis”, DICE-2016, National University of Science and Technology (NUST), Islamabad, Pakistan. * 2nd prize in “Biological Sciences, Medical Sciences and Vetinerary Sciences” category out of 85+ projects.
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| 19. | Z. Bibi†, A. R. Basharat†, R. Hussain, B. Amina, H. G. Kabir, A. Shahid, M. Humayun, A. Riaz, H. A. Hayat, M. Mustafa, M. A. Shoaib, Z. Ullah, S. Zarina, S. Ahmed, E. Uddin, S. Hamera, F. Ahmad, S. U. Chaudhary*, “LUMSProT: A MATLAB Toolbox for Identifying Proteins from Top-down Proteomics Data“, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. |
| 18. | N. Saeed, M. Salman, T. Shafi, M. U. Ashraf, H. Parveen, S. Hamera, S. S. Hussan, M. Shafiq, S. Raza, R. Qazi, S. A. Qureshi, S. U. Chaudhary*, “HCV IRES Cconserved Sub-domains III-d and III-f mediated Pan-genomic Therapeutics using Modified Oligomers”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. |
| 17. | A. Farhan, B. B. Yunus, S. U. Chaudhary, F. Tariq, M. Umair, S. Mirza*, “Association of Type 2 Diabetes with Hepatitis C Virus infection in Pakistani Population”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. |
| 16. | M. F. Ali, H. A. Awan, H. Hameed, Z. Arshad, M. Abubakar, K. M. Hasan, B. Wajid, A. Faisal, S. U. Chaudhary*, “TISON – Theatre for in silico Oncology: A Next-Generation Multiscale Modelling Platform for Predicting Cancer Growth, Development and Metastasis”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. * Honorable mention in poster presentation competition |
| 15. | T. Shafi, M. U. Ashraf, N. Saeed, M. Salman, H. Parveen, S. Hamera, S. S. Hussan, M. Shafiq, S. Raza, R. Qazi, S. A. Qureshi, S. U. Chaudhary*, “Optimization of HCV NS3 Protease Onhibitors for Pan-genotypic Activity using Rational Drug Design Approaches”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. |
| 14. | O. S. Shah, M. Ahmed, S. Khalid, Amir Faisal, S. U. Chaudhary*, “BALSA: Toolbox for Attractor Landscape Analysis of Biomolecular Networks”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. * Honorable mention in poster presentation competition |
| 13. | M. Abubakar, A. Gul, Z. Bashir, S. N. Arshad, M. A. Uppal, S. U. Chaudhary*, “Diagnia – Improving Lives through Antenatal Care”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. * Best poster prize in poster presentation competition |
| 12. | B. Amina, I. Durrani, A. Riaz, A. Faisal, F. Ahmad, S.-Y. Shin, S. U. Chaudhary*, “A see-saw of fate: Investigating the Dynamics of Cytochrome-c and ATP in Tumorigenesis”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. |
| 11. | N. Javaid, S. U. Chaudhary, M. Umair, Q. Sultana, S. Mirza*, “An Integrative Systems Biology and Epidemiological Study to Predict, Control and Manage Resistance in Invasive Infections”, Biosymposium2016, Lahore University of Management Sciences, Lahore, Pakistan. |
| 10. | Z.Bibi, M.Humanyun, S. U. Chaudhary*, “GPU-based High-Performance PST Extractor for Mass Spectrometry Data”, LUMS SSE PhD Colloquium, 2016, Lahore, Pakistan. * 1st prize in the poster presentation competition |
| 9. | Z.Bibi, M.Humanyun, S. U. Chaudhary*, “GPU-based High-Performance PST Extractor for Mass Spectrometry Data”, 3rd National Computational Science Conference (NCSC), 2015, Islamabad, Pakistan. * 2nd prize in the poster presentation competition |
| 8. | M. Abubakar, A. H. Sahi, F. Azam, M. A. Shoaib, S. Bhatti, S. U. Chaudhary*, “eMumCare: Online Maternity Health Care“, TechnoMoot, 2015, Abbotabad, Pakistan.
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| 7. | R. Hussain, H. G. Kabir, S. U. Chaudhary*, “Towards an Accurate Measurement of Intact Protein Mass in High-Resolution Mass Spectrometry”, 3rd National Computational Science Conference (NCSC), 2015, Islamabad, Pakistan. * 4th prize in poster presentation competition |
| 6. | H. Amin, S. Fatima, M. Ali, S. U. Chaudhary, Z. Habib, “Smart Learning Advanced Tools for Education in Mathematics up to Grade 2“, 11th International Conference on Frontiers in Information Technology (FIT), 2013, Islamabad, Pakistan. * 1st prize in poster presentation competition |
| 5. | S. U. Chaudhary, J. E. K. Sormark, J. K. Won, S. Y. Shin, K. H. Cho, “Multi-Scale Modeling and Game-Theoretic Analysis of Mitochondrial Process Elucidates the Hidden Mechanism of Warburg Effect in Tumorigenesis,” 11th International Conference on Systems Biology (ICSB), 2010, Edinburgh, United Kingdom. |
| 4. | K. H. Kwon, S. U. Chaudhary, S. H. Kim , M. H. Hur , Y. S. Cho , H. S. Kim , and J. S. Yoo, “TDGen : Mass Spectrum Generator for the Top-Down Proteomics Research,” Korean Human Proteome Organization (KHUPO), 8th International Proteomics Conference, 2008, Jeju, South Korea. |
| 3. | U. Z. Ijaz, S. U. Chaudhary, M. S. Don, and K. Y. Kim, “Computational Strategies for Protein Quantitation in 2D Electrophoresis Gel Image Processor for MATLAB,” Frontiers in the Convergence of Bioscience and Information Technologies, pp. 129-134, 2007, Jeju, South Korea. IEEE CS Press. |
| 2. | K. H. Kwon, S. U. Chaudhary, M. H. Hur, S. H. Kim, H. S. Kim, J. S. Yoo, “Database Search Analysis using Flipped Mass Spectrum in Top-down Proteomics,” Human Proteomics Organization 6th Annual World Congress (HUPO), 2007, Seoul, South Korea. |
| 1. | U. Z. Ijaz, S. U. Chaudhary, S. M. Ahn, B. H. Lee, K. Y. Kim, “2D Electrophoresis Gel Image Processor for MATLAB,” The 2006 International Conference on Hybrid Information Technology (ICHIT 2006), Nov 9-11, 2006, Jeju, South Korea. |