Header Information

NPRP 5 - 1345 - 1 - 228
NPRP 05
Qatar University
Award Closed
01 Jan 2013
Dr. Uvais Qidwai
3 Year(s)
13 Feb 2017
Resubmission of [NPRP 4 - 942 - 1 - 144]
Novel Prognostic Biomarkers for Colorectal Cancer via Computerized Analysis of Highly Multiplexed Protein Fluorescence Image Data

Project Summary
We will identify and validate novel combinatorial biomarkers that can be employed for the prognosis of colorectal cancer. Our unique approach is based on imaging the co-expression of multiple colon cancer markers and putative cancer stem cell markers simultaneously in tissue sections obtained via colonoscopy or surgery. To achieve this, we will employ the revolutionary new Warwick Toponome Imaging System (TIS) which allows the simultaneous capture of highly multiplexed fluorescence images for multiple proteins. A major challenge facing this technology is the processing and analysis of vast amounts of data to mine for useful molecular patterns, an area in which we have considerable expertise. Our hypothesis, strongly supported by our preliminary data and by the opinion of many cancer experts, is that different types of colon cancer cells may have unique protein signatures, revealed by simultaneous mapping of multiple cancer-relevant proteins. We will test this hypothesis by using TIS to study tissue samples of colon cancer patients, both UK Caucasian and local Qatari patients, particularly those with TNM Stage II. In these two populations, we aim to mine for combinatorial prognostic biomarkers which can be correlated to the retrospective metastatic outcome. The project involves Qatari scientists and clinicians who will have access to our multi-tag TIS imaging system at Warwick, the first of its kind in the UK, and one of the first worldwide.
Cancer is one of the major causes of death around the world and colorectal cancer is one of the most common cancers. Published statistics show that cancer is an important public health problem in Qatar [Bener APJCP’2007], with Qatar having the highest age-standardized incidence rate of cancer (at least 2.5 times higher than that of Saudi Arabia) among the Gulf Cooperation Countries during 1998-2001 [Al-Hamdan EHMJ’2009]. The proposed project will lay the foundations of academic excellence in cancer research in Qatar using a cutting-edge multi-channel fluorescence microscopy technology by tying one of the top-rated universities in Qatar and the Hamad Medical Corporation with the only machine of its kind in the UK. Successful completion of this project will result in identification and validation of combinatorial biomarkers for localized versus metastasis colorectal tumor. If successful, this can rightly be considered as an achievement with potential for commercialization and improved healthcare provision in the Middle East and beyond. Another major outcome of the proposed project will be the training and development of technological and clinical human resources in Qatar in the area of molecular diagnostics and prognostics for cancer by employing cutting-edge technology and delivering top-quality healthcare provision in the long run.
Bioimage informatics; Cancer Biology; Image Processing; Computational Biology; Pattern Recognition
Basic research
1. Natural Sciences
1.2 Computer and Information Sciences
Information Science and Bioinformatics
Yes
No

Institution
Qatar University
Qatar
Submitting Institution
Hamad Medical Corporation
Qatar
Collaborative Institution
University of Warwick
United Kingdom
Collaborative Institution
University Hospitals Coventry and Warwickshire
United Kingdom
Collaborative Institution
Cambridge University Hospitals
United Kingdom
Collaborative Institution

Personnel
Lead PI
Dr. Uvais Qidwai
Qatar University
Co-Lead PI
Dr. Uvais Qidwai
Qatar University
Co-Lead PI
Prof. Nasir Rajpoot
Qatar University
PI
Prof. Nasir Rajpoot
Qatar University
Co-PI
Dr. Imad Mujeeb
Hamad Medical Corporation
Co-PI
Dr. Michael Khan
University of Warwick
Co-PI
Prof. David Epstein
University of Warwick
Co-PI
Dr. Richard Savage
University of Warwick
Co-PI
Dr. Hesham ElDaly
Cambridge University Hospitals
Co-PI
Dr. David Snead
University Hospitals Coventry and Warwickshire
Co-PI
Dr. Zia Aftab
Hamad Medical Corporation

Outputs/Outcomes
Journal Paper
Cell Words: Modelling the Visual Appearance of Cells in Histopathology Images
Korsuk Sirinukunwattana Adnan M. Khan Nasir M. Rajpoot
ISSN:08956111
Online Paper
A Novel Approach To Detection Of Glandular Structures In Colorectal Cancer Histology Images Read More: http://www.qscience.com/doi/abs/10.5339/qfarc.2014.ITPP0687
Korsuk Sirinukunwattana David Snead Nasir Rajpoot
DOI:10.5339/qfarc.2014.ITPP0687
Journal Paper
Cell phenotypinginmulti-tag fluorescentbioimages
Adnan M. Khan, Shan-e-Ahmed Raza, Michael Khan, Nasir M. Rajpoot
ISSN:09252312
Conference Paper
On Generating Cell Exemplars for Detection of Mitotic Cells in Breast Cancer Histopathology Images
N.A. Aloraidi, K. Sirinukunwattana, A.M. Khan, N.M. Rajpoot
DOI:10.1109/EMBC.2014.6944345
Journal Paper
Cell words: Modelling the visual appearance of cells in histopathology images
K. Sirinukunwattana, A.M. Khan, N.M. Rajpoot
ISSN:08956111
Conference Paper
A novel texture descriptor for detection of glandular structures in colon histology images
K. Sirinukunwattana, D.R.J. Snead, N.M. Rajpoot
DOI:10.1117/12.2082010
Conference Paper
A random polygons model of glandular structures in colon histology images
K. Sirinukunwattana, D.R.J. Snead, N.M. Rajpoot
DOI:10.1109/ISBI.2015.7164168
Journal Paper
A Global Covariance Descriptor for Nuclear Atypia Scoring in Breast Cancer Histopathology Images
Adnan Mujahid Khan, Korsuk Sirinukunwattana, and Nasir Rajpoot
ISSN:2168-2194
Journal Paper
A model of the spatial tumour heterogeneity in colorectal adenocarcinoma tissue
Violeta N. Kovacheva1 , David Snead and Nasir M. Rajpoot
ISSN:1471-2105
Journal Paper
A Stochastic Polygons Model for Glandular Structures in Colon Histology Images
Korsuk Sirinukunwattana, David R. J. Snead, and Nasir M. Rajpoot
ISSN:02780062
Journal Paper
Locality Sensitive Deep Learning for Detection and Classification of Nuclei in Routine Colon Cancer Histology Images
Korsuk Sirinukunwattana, Shan E Ahmed Raza, Yee-Wah Tsang, David R. J. Snead, Ian A. Cree, and Nasir M. Rajpoot
ISSN:11961206
Journal Paper
A stochastic polygons model for glandular structures in colon histology images
Korsuk Sirinukunwattana, David R. J. Snead, and Nasir M. Rajpoot
ISSN:23662378
Journal Paper
Robust normalization protocols for multiplexed fluorescence bioimage analysis
Shan E Ahmed Raza, Daniel Langenkämper, Korsuk Sirinukunwattana, David Epstein, Tim W. Nattkemper and Nasir M. Rajpoot
ISSN:17560381
Conference Paper
How divided is a cell? Eigenphase nuclei for classification of mitotic phase in cancer histology images
Ruqayya Awan, Nada Aloraidi, Uvais Qidwai and Nasir Rajpoot
DOI:10.1109/BHI.2016.7455837