Marnix Jansen
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View article: Epigenetically driven and early immune evasion in colorectal cancer evolution
Epigenetically driven and early immune evasion in colorectal cancer evolution Open
Immune system control is a principal hurdle in cancer evolution. The temporal dynamics of immune evasion remain incompletely characterized, and how immune-mediated selection interrelates with epigenome alteration is unclear. Here we infer …
View article: Research priorities for cancers of the oesophagus and stomach: recommendations from a UK and Ireland patient and healthcare professional partnership exercise
Research priorities for cancers of the oesophagus and stomach: recommendations from a UK and Ireland patient and healthcare professional partnership exercise Open
Background Cancers of the oesophagus and stomach are a major cause of morbidity and mortality. Research is crucial to improving outcomes. However, to maximise value and impact, areas of focus should be prioritised in partnership with patie…
View article: Alterations of the composition and spatial organization of the microenvironment following non-dysplastic Barrett’s esophagus through progression to cancer
Alterations of the composition and spatial organization of the microenvironment following non-dysplastic Barrett’s esophagus through progression to cancer Open
Barrett’s esophagus (BE), a metaplastic condition that is the only known precursor for esophageal adenocarcinoma (EAC), is relatively common, but progression to cancer is infrequent. BE is inflamed but the contribution of the immune system…
View article: Evolutionary and immune microenvironment dynamics during neoadjuvant treatment of esophageal adenocarcinoma
Evolutionary and immune microenvironment dynamics during neoadjuvant treatment of esophageal adenocarcinoma Open
Locally advanced esophageal adenocarcinoma remains difficult to treat and the ecological and evolutionary dynamics responsible for resistance and recurrence are incompletely understood. Here, we performed longitudinal multiomic analysis of…
View article: Low-coverage whole genome sequencing of low-grade dysplasia strongly predicts advanced neoplasia risk in ulcerative colitis
Low-coverage whole genome sequencing of low-grade dysplasia strongly predicts advanced neoplasia risk in ulcerative colitis Open
Background The risk of developing advanced neoplasia (AN; colorectal cancer and/or high-grade dysplasia) in ulcerative colitis (UC) patients with a low-grade dysplasia (LGD) lesion is variable and difficult to predict. This is a major chal…
View article: Reassessment reveals underestimation of infiltration depth in surgical resection specimens with lymph-node positive T1b esophageal adenocarcinoma
Reassessment reveals underestimation of infiltration depth in surgical resection specimens with lymph-node positive T1b esophageal adenocarcinoma Open
Endoscopic resection (ER) has proven effective and safe for T1 esophageal adenocarcinoma (EAC). However, uncertainty remains concerning risk-benefit return of esophagectomy for submucosal lesions (T1b). Surgical series in past decades have…
View article: Low coverage whole genome sequencing of low-grade dysplasia strongly predicts colorectal cancer risk in ulcerative colitis
Low coverage whole genome sequencing of low-grade dysplasia strongly predicts colorectal cancer risk in ulcerative colitis Open
Patients with inflammatory bowel disease (IBD) are at increased risk of colorectal cancer (CRC), and this risk increases dramatically in those who develop low-grade dysplasia (LGD). However, there is currently no accurate way to risk-strat…
View article: The Japanese Esophageal Society classification for prediction of superficial esophageal squamous cell neoplasia invasion depth: Validation in a Western population
The Japanese Esophageal Society classification for prediction of superficial esophageal squamous cell neoplasia invasion depth: Validation in a Western population Open
Background The Japan Esophageal Society proposed the JES microvessel classification to assess eligibility of early esophageal squamous cell neoplasia (ESCN) for endoscopic resection based on intrapapillary capillary loop assessment. We aim…
View article: Deep Learning for Histopathological Assessment of Esophageal Adenocarcinoma Precursor Lesions
Deep Learning for Histopathological Assessment of Esophageal Adenocarcinoma Precursor Lesions Open
Histopathological assessment of esophageal biopsies is a key part in the management of patients with Barrett esophagus (BE) but prone to observer variability and reliable diagnostic methods are needed. Artificial intelligence (AI) is emerg…
View article: Vertical tumor-positive resection margins and the risk of residual neoplasia after endoscopic resection of Barrett’s neoplasia: a nationwide cohort with pathology reassessment
Vertical tumor-positive resection margins and the risk of residual neoplasia after endoscopic resection of Barrett’s neoplasia: a nationwide cohort with pathology reassessment Open
Background This study evaluated the proportion of patients with residual neoplasia after endoscopic resection (ER) for Barrett’s neoplasia with confirmed tumor-positive vertical resection margin (R1v). Methods This retrospective cohort stu…
View article: Epigenome and early selection determine the tumour-immune evolutionary trajectory of colorectal cancer
Epigenome and early selection determine the tumour-immune evolutionary trajectory of colorectal cancer Open
Immune system control is a major hurdle that cancer evolution must circumvent. The relative timing and evolutionary dynamics of subclones that have escaped immune control remain incompletely characterized, and how immune-mediated selection…
View article: AAV6-mediated gene transfer of HCN1-ddd generates slightly faster baseline beating rates as compared to Hcn2 yet with a potential risk for pro-arrhythmia
AAV6-mediated gene transfer of HCN1-ddd generates slightly faster baseline beating rates as compared to Hcn2 yet with a potential risk for pro-arrhythmia Open
Electronic pacing is the current treatment of choice for complete heart block (CHB) that revolutionised last century’s standard of care. Despite its success, some critical issues remain such as providing suboptimal cardiac output and a lac…
View article: Diagnosis and management of Barrett esophagus: European Society of Gastrointestinal Endoscopy (ESGE) Guideline
Diagnosis and management of Barrett esophagus: European Society of Gastrointestinal Endoscopy (ESGE) Guideline Open
Main Recommendations MR1 ESGE recommends the following standards for Barrett esophagus (BE) surveillance: – a minimum of 1-minute inspection time per cm of BE length during a surveillance endoscopy – photodocumentation of landmarks, the BE…
View article: The Tissue Systems Pathology Test Outperforms Pathology Review in Risk Stratifying Patients With Low-Grade Dysplasia
The Tissue Systems Pathology Test Outperforms Pathology Review in Risk Stratifying Patients With Low-Grade Dysplasia Open
The TSP-9 test outperformed the pathologists in risk stratifying patients with BE with LGD. Care guided by the test can provide an effective solution to variable pathology review of LGD, improving health outcomes by upstaging care to thera…
View article: 300. ENDOSCOPIC FOLLOW-UP OF RADICALLY RESECTED SUBMUCOSAL ESOPHAGEAL ADENOCARCINOMA: PRELIMINARY RESULTS OF AN ONGOING PROSPECTIVE, INTERNATIONAL, MULTICENTER COHORT REGISTRY (PREFER TRIAL)
300. ENDOSCOPIC FOLLOW-UP OF RADICALLY RESECTED SUBMUCOSAL ESOPHAGEAL ADENOCARCINOMA: PRELIMINARY RESULTS OF AN ONGOING PROSPECTIVE, INTERNATIONAL, MULTICENTER COHORT REGISTRY (PREFER TRIAL) Open
Introduction Current guidelines advise esophagectomy for submucosal esophageal adenocarcinoma (T1b EAC). Data from retrospective studies suggest that endoscopic follow-up (FU) may be a valid alternative in patients without signs of lymph n…
View article: Supplemental methods and tables from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Supplemental methods and tables from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Contains supplemental methods and supplementary figure legends. Also contains supplemental tables 1, 2 Table S1. Description of features used in the quantitative classifier Table S2. Multivariate survival analysis of the CAIRO and CAIRO2 c…
View article: Figure S3 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Figure S3 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Fig. S3. Overview of web-based classifier
View article: Data from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Data from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Purpose: Recent transcriptomic analyses have identified four distinct molecular subtypes of colorectal cancer with evident clinical relevance. However, the requirement for sufficient quantities of bulk tumor and difficulties in obtaining h…
View article: Figure S5 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Figure S5 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Fig. S5. Comparison of CMS-classification to the serrated adenoma pathway
View article: Supplementary Information from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Supplementary Information from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Contains code to reproduce the image analysis pipeline and the results in the study
View article: Data from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Data from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Purpose: Recent transcriptomic analyses have identified four distinct molecular subtypes of colorectal cancer with evident clinical relevance. However, the requirement for sufficient quantities of bulk tumor and difficulties in obtaining h…
View article: Figure S1 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Figure S1 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Fig. S1. Patient selection and omission
View article: Figure S4 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Figure S4 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Fig. S4. Pathologist scoring of TMAs
View article: Figure S3 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Figure S3 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Fig. S3. Overview of web-based classifier
View article: Supplementary Information from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Supplementary Information from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Contains code to reproduce the image analysis pipeline and the results in the study
View article: Figure S5 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry
Figure S5 from Practical and Robust Identification of Molecular Subtypes in Colorectal Cancer by Immunohistochemistry Open
Fig. S5. Comparison of CMS-classification to the serrated adenoma pathway