Browsing ICR Divisions by author "Salto-Tellez, Manuel"
Now showing items 1-20 of 39
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A Machine Learning Platform to Optimize the Translation of Personalized Network Models to the Clinic.
Salvucci, M; Rahman, A; Resler, AJ; Udupi, GM; McNamara, DA; et al. (AMER SOC CLINICAL ONCOLOGY, 2019-04-17)PURPOSE: Dynamic network models predict clinical prognosis and inform therapeutic intervention by elucidating disease-driven aberrations at the systems level. However, the personalization of model predictions requires the ... -
A robust multiplex immunofluorescence and digital pathology workflow for the characterisation of the tumour immune microenvironment.
Viratham Pulsawatdi, A; Craig, SG; Bingham, V; McCombe, K; Humphries, MP; et al. (WILEY, 2020-10-01)Multiplex immunofluorescence is a powerful tool for the simultaneous detection of tissue-based biomarkers, revolutionising traditional immunohistochemistry. The Opal methodology allows up to eight biomarkers to be measured ... -
Colonic epithelial cathelicidin (LL-37) expression intensity is associated with progression of colorectal cancer and presence of CD8+ T cell infiltrate.
Porter, RJ; Murray, GI; Alnabulsi, A; Humphries, MP; James, JA; et al. (WILEY, 2021-05-14)Colorectal cancer (CRC) remains a leading cause of cancer mortality. Here, we define the colonic epithelial expression of cathelicidin (LL-37) in CRC. Cathelicidin exerts pleotropic effects including anti-microbial and ... -
Critical Appraisal of Programmed Death Ligand 1 Reflex Diagnostic Testing: Current Standards and Future Opportunities.
Humphries, MP; McQuaid, S; Craig, SG; Bingham, V; Maxwell, P; et al. (ELSEVIER SCIENCE INC, 2019-01-01)INTRODUCTION: Patient suitability to anti-programmed death ligand 1 (PD-L1) immune checkpoint inhibition is key to the treatment of NSCLC. We present, applied to PD-L1 testing: a comprehensive cross-validation of two ... -
Diagnosis of digestive system tumours.
Washington, MK; Goldberg, RM; Chang, GJ; Limburg, P; Lam, AK; et al. (WILEY, 2021-03-01)The WHO Classification of Tumours provides the international standards for the classification and diagnosis of tumours. It enables direct comparisons to be made between different countries. In the new fifth edition, the ... -
Digital pathology and artificial intelligence will be key to supporting clinical and academic cellular pathology through COVID-19 and future crises: the PathLAKE consortium perspective.
Browning, L; Colling, R; Rakha, E; Rajpoot, N; Rittscher, J; et al. (BMJ PUBLISHING GROUP, 2020-07-03)The measures to control the COVID-19 outbreak will likely remain a feature of our working lives until a suitable vaccine or treatment is found. The pandemic has had a substantial impact on clinical services, including ... -
Encrypted federated learning for secure decentralized collaboration in cancer image analysis.
Truhn, D; Tayebi Arasteh, S; Saldanha, OL; Müller-Franzes, G; Khader, F; et al. (ELSEVIER, 2024-02-01)Artificial intelligence (AI) has a multitude of applications in cancer research and oncology. However, the training of AI systems is impeded by the limited availability of large datasets due to data protection requirements ... -
Evolutionary genetic algorithm identifies IL2RB as a potential predictive biomarker for immune-checkpoint therapy in colorectal cancer.
Alderdice, M; Craig, SG; Humphries, MP; Gilmore, A; Johnston, N; et al. (OXFORD UNIV PRESS, 2021-04-09)Identifying robust predictive biomarkers to stratify colorectal cancer (CRC) patients based on their response to immune-checkpoint therapy is an area of unmet clinical need. Our evolutionary algorithm Atlas Correlation ... -
Exploring the immune microenvironment in small bowel adenocarcinoma using digital image analysis.
Sidi, FA; Bingham, V; McQuaid, S; Craig, SG; Turkington, RC; et al. (PUBLIC LIBRARY SCIENCE, 2023-08-01)BACKGROUND: Small bowel adenocarcinoma (SBA) is a rare malignancy of the small intestine associated with late stage diagnosis and poor survival outcome. High expression of immune cells and immune checkpoint biomarkers ... -
Gastrointestinal tissue-based molecular biomarkers: a practical categorisation based on the 2019 World Health Organization classification of epithelial digestive tumours.
Quezada-Marín, JI; Lam, AK; Ochiai, A; Odze, RD; Washington, KM; et al. (WILEY, 2020-09-01)Molecular biomarkers have come to constitute one of the cornerstones of oncological pathology. The method of classification not only directly affects the manner in which patients are diagnosed and treated, but also guides ... -
Identification of a prognostic signature in colorectal cancer using combinatorial algorithm-driven analysis.
Alnabulsi, A; Wang, T; Pang, W; Ionescu, M; Craig, SG; et al. (WILEY, 2022-05-01)Colorectal carcinoma is one of the most common types of malignancy and a leading cause of cancer-related death. Although clinicopathological parameters provide invaluable prognostic information, the accuracy of prognosis ... -
Identifying mismatch repair-deficient colon cancer: near-perfect concordance between immunohistochemistry and microsatellite instability testing in a large, population-based series.
Loughrey, MB; McGrath, J; Coleman, HG; Bankhead, P; Maxwell, P; et al. (WILEY, 2020-08-13)AIMS: Establishing the mismatch repair (MMR) status of colorectal cancers is important to enable the detection of underlying Lynch syndrome and inform prognosis and therapy. Current testing typically involves either ... -
Immune activation by DNA damage predicts response to chemotherapy and survival in oesophageal adenocarcinoma.
Turkington, RC; Knight, LA; Blayney, JK; Secrier, M; Douglas, R; et al. (BMJ PUBLISHING GROUP, 2019-11-01)OBJECTIVE: Current strategies to guide selection of neoadjuvant therapy in oesophageal adenocarcinoma (OAC) are inadequate. We assessed the ability of a DNA damage immune response (DDIR) assay to predict response following ... -
Immune status is prognostic for poor survival in colorectal cancer patients and is associated with tumour hypoxia.
Craig, SG; Humphries, MP; Alderdice, M; Bingham, V; Richman, SD; et al. (SPRINGERNATURE, 2020-10-13)BACKGROUND: Immunohistochemical quantification of the immune response is prognostic for colorectal cancer (CRC). Here, we evaluate the suitability of alternative immune classifiers on prognosis and assess whether they ... -
Impact of Variable RNA-Sequencing Depth on Gene Expression Signatures and Target Compound Robustness: Case Study Examining Brain Tumor (Glioma) Disease Progression.
Stupnikov, A; O'Reilly, PG; McInerney, CE; Roddy, AC; Dunne, PD; et al. (LIPPINCOTT WILLIAMS & WILKINS, 2018-09-13)PURPOSE: Gene expression profiling can uncover biologic mechanisms underlying disease and is important in drug development. RNA sequencing (RNA-seq) is routinely used to assess gene expression, but costs remain high. Sample ... -
Improving the Diagnostic Accuracy of the PD-L1 Test with Image Analysis and Multiplex Hybridization.
Humphries, MP; Bingham, V; Abdullahi Sidi, F; Craig, SG; McQuaid, S; et al. (MDPI, 2020-04-29)Targeting of the programmed cell death protein (PD-1)/programmed death-ligand 1 (PD-L1) axis with checkpoint inhibitors has changed clinical practice in non-small cell lung cancer (NSCLC). However, clinical assessment ... -
In-depth Clinical and Biological Exploration of DNA Damage Immune Response as a Biomarker for Oxaliplatin Use in Colorectal Cancer.
Malla, SB; Fisher, DJ; Domingo, E; Blake, A; Hassanieh, S; et al. (AMER ASSOC CANCER RESEARCH, 2021-01-01)PURPOSE: The DNA damage immune response (DDIR) assay was developed in breast cancer based on biology associated with deficiencies in homologous recombination and Fanconi anemia pathways. A positive DDIR call identifies ... -
Low-contact and high-interconnectivity pathology (LC&HI Path): post-COVID19-pandemic practice of pathology.
Arends, MJ; Salto-Tellez, M (WILEY, 2020-10-01)The COVID-19 pandemic situation may be viewed as an opportunity to accelerate some of the ongoing transformations in modern pathology. This refers primarily to the digitalisation of the practice of tissue and cellular ... -
Metastasis and Immune Evasion from Extracellular cGAMP Hydrolysis.
Li, J; Duran, MA; Dhanota, N; Chatila, WK; Bettigole, SE; et al. (AMER ASSOC CANCER RESEARCH, 2021-05-01)Cytosolic DNA is characteristic of chromosomally unstable metastatic cancer cells, resulting in constitutive activation of the cGAS-STING innate immune pathway. How tumors co-opt inflammatory signaling while evading immune ... -
Molecular profiling of aromatase inhibitor sensitive and resistant ER+HER2- postmenopausal breast cancers.
Schuster, EF; Lopez-Knowles, E; Alataki, A; Zabaglo, L; Folkerd, E; et al. (NATURE PORTFOLIO, 2023-07-07)Aromatase inhibitors (AIs) reduce recurrences and mortality in postmenopausal patients with oestrogen receptor positive (ER+) breast cancer (BC), but >20% of patients will eventually relapse. Given the limited understanding ...