Senior Lecturer in Data Science
Department Computing and Information Systems
Telephone No: +44 (0) 29 2041 6453
I am an interdisciplinary data scientist with a mission to increase the value of biological data. Having PhD in Bioinformatics from Cardiff University, UK and postdoctoral fellowship from Broad Institute of Harvard and MIT, USA, my research focuses on creating novel computational solutions that
• Increase the interpretation of data derivation process through virtualisation and interactive visualisation.
• Enhance reproducibility and trust on data by utilising provenance.
• Address the sociocultural aspects of data sharing and reuse in a multidisciplinary research environment.
I am also interested to understand the underlying heterogeneity and adaptable nature of dynamic living systems. Through data management, integration, visualisation, mining, machine learning and mathematical modelling of multivariate and unstructured spatiotemporal data arising from different biological and biomedical experiments; I reveal patterns that provides insights about disease processes like Cancer and facilitates drug discovery.
Finally I inspire next generation data scientists through my teaching at undergraduate and graduate levels.
- Research Reproducibility through virtualisation and visualisation
- Interactive data visualisation
- Multivariate data integration
- Data modelling and management system
- Data analysis application and algorithm development
- Machine learning and mathematical modelling
- Drug discovery
Full publication list at goo.gl/SwsZO8
KHAN IA, Fraser A, Bray M-A, Smith PJ, White NS, Carpenter AE and Errington RJ (2014) ProtocolNavigator: emulation based software for the design, documentation and reproduction biological experiments.
Heterogeneous Data Integration:
KHAN IA, Lupi M, Campbell L, Chappell SC, Brown MR, Wiltshire M, Smith PJ, Ubezio P, Errington RJ (2011) Interoperability of Time Series Cytometric Data: A Cross Platform Approach for Modeling Tumor Heterogeneity.
Cytometry A, 79(3):214-26 (Featured article in this issue)
Interactive Visual Data Mining:
- Pretorius AJ,
KHAN IA and Errington RJ (2015) Cell lineage visualisation.
Computer Graphics Forum, 34(3): 21-30 (prototype web portal for dynamic phenotypic data visualisation)
- Pretorius AJ,
KHAN IA and Errington RJ (2016) A survey of visualisation for live cell imaging.
Computer Graphics Forum, DOI 10.1111/cgf.12784
Data Model and Management Systems:
KHAN IA, Husemann P, Campbell L, White R, Smith PJ, Errington RJ (2007) ProgeniDB: A novel cell lineage database for generation associated phenotypic behavior in cell-based assays.
Cell Cycle 6:7, 868-74
KHAN IA, Fisher J, Smith PJ, Errington RJ. (2007) A Bioinformatics approach for the interrogation of molecular events in single cells: transforming fluorescent timelapse microscopy images into numbers.
BMC Systems Biology 1(Suppl 1):P31
Machine Learning & Mathematical Modelling:
- Ricardo SM,
KHAN IA, Madden MG (2010) Revealing the Origin and Nature of Drug Resistance of Dynamic Tumour Systems.
Int. J. Know. Disc. in Bioinformatics. 1:4. 26-53 Sydney, Australia.
KHAN IA, Hedley CJ, White NS, Ali R, Chappell MJ, Evans ND, Campbell L, Marquez N, Fisher J, Smith PJ, Errington RJ. (2006) A novel integrative bioinformatics environment for encoding and interrogating timelapse microscopy images. In: Feng, DD ed.
Modelling and Control in Biomedical Systems, Reims, France. Amsterdam, ELSEVIER, pp 273-8
- Errington RJ, Brown MR, Silvestre OF, Njoh KL, Chappell SC,
KHAN IA, Rees P, Wilks SP, Smith PJ, Summers HD. (2010) Single cell nanoparticle tracking to model cell cycle dynamics and compartmental inheritance.
Cell Cycle 5;9(1):121-30
- Brown MR, Summers HD, Rees P, Chappell SC, Silvestre OF,
KHAN IA, Smith PJ, Errington RJ (2010) Long-term time series analysis of quantum dot encoded cells by deconvolution of the auto-fluorescence signal.
Cytometry A 77A: 10. 925–932
- Chappell MJ, Evans ND, Errington RJ,
KHAN IA, Campbell L, Ali R, Godfrey KR, Smith PJ. (2008) A coupled drug kinetics-cell cycle model to analyse the response of human cells to intervention by topotecan.
Comput Methods Programs Biomed. 89(2):169-78
- Perez-Velazquez J, Evans ND, Chappell M, Errington RJ, Smith PJ,
KHAN IA. (2008) A Mathematical Model of Cyclin B1 Dynamics at the Single Cell Level in Osteosarcoma Cells.
17th IFAC World Congress, Seoul, Korea. 17:1
- Santiago-Mozos R, KHAN IA, Michael G. Madden (2010) Is Topotecan Effective at Killing Cancer Cells? IEEE International Conference on Data Mining Workshops, Sydney, Australia, pp.732-739
Data Analysis Application & Algorithm:
- Smith PJ, Marquez M, Wiltshire M, Chappell S, Njoh K, Campbell L,
KHAN IA, Silvestre OR, Errington RJ. (2007) Mitotic Bypass Via An Occult Cell Cycle Phase Following DNA Topoisomerase II Inhibition In p53 Functional Human Tumour Cells.
Cell Cycle 6:16, 2071-81
- Errington RJ, Chappell S.C,
KHAN IA, Marquez N, Wiltshire M, Griesdoorn, VD, Smith, PJ (2013) Time-lapse microscopy approaches to track cell cycle and lineage progression at the single-cell level.
Curr Protoc Cytom 12: 12.4
- Macgroger S &
KHAN IA (2006) GAIA: A Simple Web-Based Application for Interaction Analysis of Case-Control Data.
BMC Medical Genetics 7:347
KHAN IA, Mort M, Buckland PR, Cooper DN, O'Donovan MC, Chuzhanova NA. (2006) In silico dis-crimination of single nucleotide polymorphisms and pathological mutations in human gene promoter regions by means of local DNA sequence context and regularity.
In Silico Biology 6, 0003.
IA Khan, CJ Hedley, NS White, R Ali, MJ Chappell, ND Evans, L Campbell, N Marquez, J Fisher, PJ Smith, RJ Errington (2006) A novel integrative bioinformatics environment for encoding and interrogating timelapse microscopy images. IFAC Proceedings 39(18) 273-278
- Smith PJ,
KHAN IA, Errington RJ. (2009) Cytomics and cellular informatics – revealing the asymmetry properties of biological systems.
Drug Discovery Today. 14(5-6): 271-7
- Smith PJ,
KHAN IA, Errington RJ. (2007) Cytomics And Drug Development.
- Smith PJ, Chin SF, Njoh K,
KHAN IA, Chappell MJ, Errington RJ (2008) Cell cycle checkpoint-guarded routes to catenation-induced chromosomal instability, In: Eukaryotic Cell Cycle, John A. Bryant and Dennis Francis ed., Taylor and Francis, 215-238
European Research Agency
- Marie Curie International Outgoing Fellowship "Enabling the interoperability of cytometric data – a novel bioinformatics approach for revealing systems level understanding of cell cycle dynamics" ( €300 K). This prestigious EU fellowship facilitated me to establish collaboration with Broad Institute of Harvard and MIT, USA and jointly develop the virtual laboratory environment ProtocolNavigator (PMID: 25150250)
Union for International Cancer Control (UICC)
- Yamagiwa-Yoshida Memorial International Cancer Study Grants
Linking molecular and cellular profiles in a bioinformatics framework ($5 K). This travel grant facilitated me to establish collaboration with Beilefield University, Germany and develop a prototype cell lineage database (PMID: 17387278).
Welsh Crucible 2013
- Awarded to 30 most promising
multidisciplinary research leaders of Wales, this Times Higher Education award-wining leadership programme facilitates personal, professional and leadership development.
BBSRC Sparking Impact Awards -
an integrated pipeline for enabling cellular tracking, mining and visualisation of timelapse derived data. Enabled knowledge exchange and commercialisation activities with GE Healthcare, New York/Cardiff. (CoI £6K)
Welsh Crucible Small Grants Scheme -
The Stem Cell Orchestra-transforming biological experimental workflows into music through computational algorithms. A musical concert was performed with Cardiff Gamelan Ensemble of St. David's Hall (CoI £10K).
- Broad Institute of Harvard and MIT, USA
- Cardiff University, UK
- Swansea University, UK
- Warwick University, UK
- National Institute of Standards and Technology, USA
- Helmholtz Institute of Computational Biology, Germany
- Institute for Pharmacological Research, Italy
- International Society for Advancement of Cytometry (ISAC)
- GE Healthcare, Cardiff, UK
- Phase Holographic Imaging, Lund, Sweden
- John Wiley & Sons, Inc., NJ, USA