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All Outputs (17)

Digital pathology for reporting histopathology samples, including cancer screening samples – definitive evidence from a multisite study (2024)
Journal Article
Azam, A. S., Tsang, Y., Thirlwall, J., Kimani, P. K., Sah, S., Gopalakrishnan, K., …Snead, D. R. J. (2024). Digital pathology for reporting histopathology samples, including cancer screening samples – definitive evidence from a multisite study. Histopathology, 84(5), 847-862. https://doi.org/10.1111/his.15129

Aims: To conduct a definitive multicentre comparison of digital pathology (DP) with light microscopy (LM) for reporting histopathology slides including breast and bowel cancer screening samples. Methods: A total of 2024 cases (608 breast, 607 GI, 6... Read More about Digital pathology for reporting histopathology samples, including cancer screening samples – definitive evidence from a multisite study.

Associations between AI-Assisted Tumor Amphiregulin and Epiregulin IHC and Outcomes from Anti-EGFR Therapy in the Routine Management of Metastatic Colorectal Cancer (2023)
Journal Article
Williams, C. J. M., Elliott, F., Sapanara, N., Aghaei, F., Zhang, L., Muranyi, A., …Quirke, P. (2023). Associations between AI-Assisted Tumor Amphiregulin and Epiregulin IHC and Outcomes from Anti-EGFR Therapy in the Routine Management of Metastatic Colorectal Cancer. Clinical Cancer Research, 29(20), 4153-4165. https://doi.org/10.1158/1078-0432.CCR-23-0859

Purpose: High tumor production of the EGFR ligands, amphiregulin (AREG) and epiregulin (EREG), predicted benefit from anti-EGFR therapy for metastatic colorectal cancer (mCRC) in a retrospective analysis of clinical trial data. Here, AREG/EREG IHC wa... Read More about Associations between AI-Assisted Tumor Amphiregulin and Epiregulin IHC and Outcomes from Anti-EGFR Therapy in the Routine Management of Metastatic Colorectal Cancer.

Genome Profiling of SARS-CoV-2 in Indonesia, ASEAN and the Neighbouring East Asian Countries: Features, Challenges and Achievements (2022)
Journal Article
Cahyani, I., Putro, E. W., Ridwanuloh, A. M., Wibowo, S., Hariyatun, H., Syahputra, G., …Susanti, S. (2022). Genome Profiling of SARS-CoV-2 in Indonesia, ASEAN and the Neighbouring East Asian Countries: Features, Challenges and Achievements. Viruses, 14(4), Article 778. https://doi.org/10.3390/v14040778

Whole-genome sequencing (WGS) has played a significant role in understanding the epidemiology and biology of SARS-CoV-2 virus. Here, we investigate the use of SARS-CoV-2 WGS in Southeast and East Asian countries as a genomic surveillance during the C... Read More about Genome Profiling of SARS-CoV-2 in Indonesia, ASEAN and the Neighbouring East Asian Countries: Features, Challenges and Achievements.

Ran GTPase is an independent prognostic marker in malignant melanoma which promotes tumour cell migration and invasion (2020)
Journal Article
Elsheikh, S., Kouzoukakis, I., Fielden, C., Li, W., Lashin, S. E., Khair, N., …Ilyas, M. (2022). Ran GTPase is an independent prognostic marker in malignant melanoma which promotes tumour cell migration and invasion. Journal of Clinical Pathology, 75(1), 24-29. https://doi.org/10.1136/jclinpath-2020-206871

Aims Ran GTPase is involved in nucleocytoplasmic shuttling of proteins and is overexpressed in several cancers. The expression of Ran in malignant melanoma (MM) and its functional activity have not been described and were investigated in this study.... Read More about Ran GTPase is an independent prognostic marker in malignant melanoma which promotes tumour cell migration and invasion.

Immuno-Interface Score to Predict Outcome in Colorectal Cancer Independent of Microsatellite Instability Status (2020)
Journal Article
Nestarenkaite, A., Fadhil, W., Rasmusson, A., Susanti, S., Hadjimichael, E., Laurinaviciene, A., …Laurinavicius, A. (2020). Immuno-Interface Score to Predict Outcome in Colorectal Cancer Independent of Microsatellite Instability Status. Cancers, 12(10), Article 2902. https://doi.org/10.3390/cancers12102902

Tumor-associated immune cells have been shown to predict patient outcome in colorectal (CRC) and other cancers. Spatial digital image analysis-based cell quantification increases the informative power delivered by tumor microenvironment features and... Read More about Immuno-Interface Score to Predict Outcome in Colorectal Cancer Independent of Microsatellite Instability Status.

Tensin4 (TNS4) is upregulated by Wnt signalling in adenomas in multiple intestinal neoplasia (Min) mice (2020)
Journal Article
Raposo, T. P., Alfahed, A., Nateri, A. S., & Ilyas, M. (2020). Tensin4 (TNS4) is upregulated by Wnt signalling in adenomas in multiple intestinal neoplasia (Min) mice. International Journal of Experimental Pathology, 101(3-4), 80-86. https://doi.org/10.1111/iep.12352

ApcMin/+ mice are regarded as a standard animal model of colorectal cancer (CRC). Tensin4 (TNS4 or Cten) is a putative oncogene conferring features of stemness and promoting motility. Our objective was to assess TNS4 expression in intestinal adenomas... Read More about Tensin4 (TNS4) is upregulated by Wnt signalling in adenomas in multiple intestinal neoplasia (Min) mice.

Investigating TNS4 in the Colorectal Tumor Microenvironment Using 3D Spheroid Models of Invasion (2020)
Journal Article
Raposo, T. P., Susanti, S., & Ilyas, M. (2020). Investigating TNS4 in the Colorectal Tumor Microenvironment Using 3D Spheroid Models of Invasion. Advanced Biosystems, 4(6), Article 2000031. https://doi.org/10.1002/adbi.202000031

TNS4 (Tensin 4 or Cten) is a putative oncogene in colorectal cancer (CRC) with a role in regulating cell adhesion, motility, invasion, and epithelial to mesenchymal transition (EMT). The objective is to study the role of TNS4 in CRC using more realis... Read More about Investigating TNS4 in the Colorectal Tumor Microenvironment Using 3D Spheroid Models of Invasion.

Dual Adaptive Pyramid Network for Cross-Stain Histopathology Image Segmentation (2019)
Book Chapter
Hou, X., Liu, J., Xu, B., Liu, B., Chen, X., Garibaldi, J., …Qiu, G. (2019). Dual Adaptive Pyramid Network for Cross-Stain Histopathology Image Segmentation. In Medical Image Computing and Computer Assisted Intervention – MICCAI 2019: 22nd International Conference, Shenzhen, China, October 13–17, 2019, Proceedings, Part II (101-109). Springer Verlag. https://doi.org/10.1007/978-3-030-32245-8_12

Supervised semantic segmentation normally assumes the test data being in a similar data domain as the training data. However, in practice, the domain mismatch between the training and unseen data could lead to a significant performance drop. Obtainin... Read More about Dual Adaptive Pyramid Network for Cross-Stain Histopathology Image Segmentation.

FLYWCH1, a novel suppressor of nuclear b-catenin, regulates migration and morphology in colorectal cancer (2018)
Journal Article
Muhammad, B. A., Almozyan, S., Babaei-Jadidi, R., Onyido, E. K., Saadeddin, A., Kashfi, S. H., …Nateri, A. S. (2018). FLYWCH1, a novel suppressor of nuclear b-catenin, regulates migration and morphology in colorectal cancer. Molecular Cancer Research, 16(12), 1977-1990. https://doi.org/10.1158/1541-7786.MCR-18-0262

© 2018 American Association for Cancer Research. Wnt/b-catenin signaling plays a critical role during development of both normal and malignant colorectal cancer tissues. Phosphorylation of b-catenin protein alters its trafficking and function. Such c... Read More about FLYWCH1, a novel suppressor of nuclear b-catenin, regulates migration and morphology in colorectal cancer.

MDM2 expression in the progression of Barrett’s oesophagus (2018)
Journal Article
Robinson, L., Ilyas, M., Ragunath, K., Card, T. R., Abradu-Berchie, B., & Kaye, P. (2018). MDM2 expression in the progression of Barrett’s oesophagus. Histopathology, 72(7), 1230-1233. https://doi.org/10.1111/his.13480

Barrett's oesophagus (BO) is the main precursor for oesophageal adenocarcinoma (OAC), and dysplasia arising within it is the standard marker used to predict risk of malignant progression. However, dysplasia diagnosis is subject to a significant amoun... Read More about MDM2 expression in the progression of Barrett’s oesophagus.

Cten promotes epithelial-mesenchymal transition through post-transcriptional stabilization of Snail (2017)
Journal Article
Thorpe, H., Asiri, A., Akhlaq, M., & Ilyas, M. (in press). Cten promotes epithelial-mesenchymal transition through post-transcriptional stabilization of Snail. Molecular Carcinogenesis, 56(12), https://doi.org/10.1002/mc.22704

Cten promotes cell migration however the knowledge of underlying signalling pathways is sparse. We have shown that Cten downregulates E-cadherin, a feature of epithelial to mesenchymal transition (EMT). This prompted us to investigate whether Cten fu... Read More about Cten promotes epithelial-mesenchymal transition through post-transcriptional stabilization of Snail.

HER2 challenge contest: a detailed assessment of automated HER2 scoring algorithms in whole slide images of breast cancer tissues (2017)
Journal Article
Qaiser, T., Mukherjee, A., Reddy Pb, C., Munugoti, S. D., Tallam, V., Pitkäaho, T., …Rajpoot, N. (2018). HER2 challenge contest: a detailed assessment of automated HER2 scoring algorithms in whole slide images of breast cancer tissues. Histopathology, 72(2), 227-238. https://doi.org/10.1111/his.13333

Aims Evaluating expression of the Human epidermal growth factor receptor 2 (Her2) by visual examination of immunohistochemistry (IHC) on invasive breast cancer (BCa) is a key part of the diagnostic assessment of BCa due to its recognised importanc... Read More about HER2 challenge contest: a detailed assessment of automated HER2 scoring algorithms in whole slide images of breast cancer tissues.

Statistical colour models: an automated digital image analysis method for quantification of histological biomarkers (2016)
Journal Article
Shu, J., Dolman, G., Duan, J., Qiu, G., & Ilyas, M. (in press). Statistical colour models: an automated digital image analysis method for quantification of histological biomarkers. BioMedical Engineering OnLine, 15(1), https://doi.org/10.1186/s12938-016-0161-6

Background: Colour is the most important feature used in quantitative immunohisto- chemistry (IHC) image analysis; IHC is used to provide information relating to aetiology and to con rm malignancy. Methods: Statistical modelling is a technique widel... Read More about Statistical colour models: an automated digital image analysis method for quantification of histological biomarkers.

A novel polar space random field model for the detection of glandular structures (2014)
Journal Article
Fu, H., Qiu, G., Shu, J., & Ilyas, M. (2014). A novel polar space random field model for the detection of glandular structures. IEEE Transactions on Medical Imaging, 33(3), 764-776. https://doi.org/10.1109/TMI.2013.2296572

In this paper, we propose a novel method to detect glandular structures in microscopic images of human tissue. We first convert the image from Cartesian space to polar space and then introduce a novel random field model to locate the possible boundar... Read More about A novel polar space random field model for the detection of glandular structures.

The presence of tumour-associated lymphocytes confers a good prognosis in pancreatic ductal adenocarcinoma: an immunohistochemical study of tissue microarrays (2013)
Journal Article
Tewari, N., Zaitoun, A. M., Arora, A., Madhusudan, S., Ilyas, M., & Lobo, D. N. (2013). The presence of tumour-associated lymphocytes confers a good prognosis in pancreatic ductal adenocarcinoma: an immunohistochemical study of tissue microarrays. BMC Cancer, 13, Article 436. https://doi.org/10.1186/1471-2407-13-436

Background Tumour-associated lymphocytes (TALs) have been linked with good prognosis in several solid tumours. This study aimed to evaluate the prognostic significance of CD3, CD8 and CD20 positive lymphocytes in pancreatic ductal adenocarcinoma.... Read More about The presence of tumour-associated lymphocytes confers a good prognosis in pancreatic ductal adenocarcinoma: an immunohistochemical study of tissue microarrays.