Benjamin Goeppert
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View article: DNA methylation patterns facilitate tracing the origin of neuroendocrine neoplasms
DNA methylation patterns facilitate tracing the origin of neuroendocrine neoplasms Open
View article: Accurate MS-Based Diagnostic Amyloid Typing Using Endogenously Normalized Protein Intensities in Formalin-Fixed Paraffin-Embedded Tissue
Accurate MS-Based Diagnostic Amyloid Typing Using Endogenously Normalized Protein Intensities in Formalin-Fixed Paraffin-Embedded Tissue Open
View article: Advancing sarcoma diagnostics with expanded DNA methylation-based classification
Advancing sarcoma diagnostics with expanded DNA methylation-based classification Open
Purpose Sarcomas pose a severe diagnostic challenge. A wide variety of these distinct entities need to be distinguished from each other and from less aggressive types of mesenchymal tumors, to ensure correct clinical management. A machine …
View article: Distinct molecular profile and outcome of oligodendroglioma, <i>IDH</i>-mutant, 1p/19q-codeleted, and <i>TERT</i>p-wildtype: A grade 1 oligodendroglioma of young patients?
Distinct molecular profile and outcome of oligodendroglioma, <i>IDH</i>-mutant, 1p/19q-codeleted, and <i>TERT</i>p-wildtype: A grade 1 oligodendroglioma of young patients? Open
Background Oligodendrogliomas, characterized by isocitrate dehydrogenase (IDH) mutations and 1p/19q codeletion, often exhibit telomerase reverse transcriptase promoter (TERTp) mutations, which have been linked to telomere maintenance (TM) …
View article: An AI-assisted morphoproteomic approach is a supportive tool in esophagitis-related precision medicine
An AI-assisted morphoproteomic approach is a supportive tool in esophagitis-related precision medicine Open
View article: DNA methylation classifier to diagnose pancreatic ductal adenocarcinoma metastases from different anatomical sites
DNA methylation classifier to diagnose pancreatic ductal adenocarcinoma metastases from different anatomical sites Open
View article: Proteomic profiling reveals CEACAM6 function in driving gallbladder cancer aggressiveness through integrin receptor, PRKCD and AKT/ERK signaling
Proteomic profiling reveals CEACAM6 function in driving gallbladder cancer aggressiveness through integrin receptor, PRKCD and AKT/ERK signaling Open
Gallbladder cancer (GBC) presents as an aggressive malignancy with poor patient outcome. Like other epithelial cancers, the mechanisms of GBC cancer progression remain vague and efforts in finding targeted therapies fall below expectations…
View article: Lymphotoxin beta‐activated <scp>LTBR/NIK/RELB</scp> axis drives proliferation in cholangiocarcinoma
Lymphotoxin beta‐activated <span>LTBR/NIK/RELB</span> axis drives proliferation in cholangiocarcinoma Open
Background and Aims Cholangiocarcinoma (CCA) is an aggressive malignancy arising from the intrahepatic (iCCA) or extrahepatic (eCCA) bile ducts with poor prognosis and limited treatment options. Prior evidence highlighted a significant con…
View article: Whole-exome sequencing reveals novel cancer genes and actionable targets in biliary tract cancers in primary sclerosing cholangitis
Whole-exome sequencing reveals novel cancer genes and actionable targets in biliary tract cancers in primary sclerosing cholangitis Open
Background: People with primary sclerosing cholangitis (PSC) have a 20% lifetime risk of biliary tract cancer (BTC). Using whole-exome sequencing, we characterized genomic alterations in tissue samples from BTC with underlying PSC. Methods…
View article: Comparing Survival of Perihilar Cholangiocarcinoma After R1 Resection Versus Palliative Chemotherapy for Unresected Localized Disease
Comparing Survival of Perihilar Cholangiocarcinoma After R1 Resection Versus Palliative Chemotherapy for Unresected Localized Disease Open
View article: Integrative genomic analyses of European intrahepatic cholangiocarcinoma: Novel <i>ROS1</i> fusion gene and PBX1 as prognostic marker
Integrative genomic analyses of European intrahepatic cholangiocarcinoma: Novel <i>ROS1</i> fusion gene and PBX1 as prognostic marker Open
Background Cholangiocarcinoma (CCA) is a fatal cancer of the bile duct with a poor prognosis owing to limited therapeutic options. The incidence of intrahepatic CCA (iCCA) is increasing worldwide, and its molecular basis is emerging. Envir…
View article: Combined analysis of albumin in situ hybridisation and C reactive protein immunohistochemistry for the diagnosis of intrahepatic cholangiocarcinoma: towards a molecular classification paradigm
Combined analysis of albumin in situ hybridisation and C reactive protein immunohistochemistry for the diagnosis of intrahepatic cholangiocarcinoma: towards a molecular classification paradigm Open
Aims Intrahepatic cholangiocarcinoma (iCCA) is a diagnosis of exclusion that can pose a challenge to the pathologist despite thorough clinical workup. Although several immunohistochemical markers have been proposed for iCCA, none of them r…
View article: Differential Immunoexpression of Inhibitory Immune Checkpoint Molecules and Clinicopathological Correlates in Keratoacanthoma, Primary Cutaneous Squamous Cell Carcinoma and Metastases
Differential Immunoexpression of Inhibitory Immune Checkpoint Molecules and Clinicopathological Correlates in Keratoacanthoma, Primary Cutaneous Squamous Cell Carcinoma and Metastases Open
Beyond established anti-programmed cell death protein 1/programmed cell death ligand 1 immunotherapy, T-cell immunoreceptor with immunoglobulin and immunoreceptor tyrosine-based inhibition motif domain (TIGIT) and its ligand CD155 are prom…
View article: N‐cadherin: A diagnostic marker to help discriminate primary liver carcinomas from extrahepatic carcinomas
N‐cadherin: A diagnostic marker to help discriminate primary liver carcinomas from extrahepatic carcinomas Open
Distinguishing primary liver cancer (PLC), namely hepatocellular carcinoma (HCC) and intrahepatic cholangiocarcinoma (iCCA), from liver metastases is of crucial clinical importance. Histopathology remains the gold standard, but differentia…
View article: Chromosome 8p engineering reveals increased metastatic potential targetable by patient-specific synthetic lethality in liver cancer
Chromosome 8p engineering reveals increased metastatic potential targetable by patient-specific synthetic lethality in liver cancer Open
Large-scale chromosomal aberrations are prevalent in human cancer, but their function remains poorly understood. We established chromosome-engineered hepatocellular carcinoma cell lines using CRISPR-Cas9 genome editing. A 33–mega–base pair…
View article: Promising Outcomes of Modified ALPPS for Staged Hepatectomy in Cholangiocarcinoma
Promising Outcomes of Modified ALPPS for Staged Hepatectomy in Cholangiocarcinoma Open
Associating liver partition and portal vein ligation for staged hepatectomy (ALPPS) is a two-stage procedure that can potentially cure patients with large cholangiocarcinoma. The current study evaluates the impact of modifications on the o…
View article: Regulatory T-cell deficiency leads to features of autoimmune liver disease overlap syndrome in scurfy mice
Regulatory T-cell deficiency leads to features of autoimmune liver disease overlap syndrome in scurfy mice Open
Introduction Scurfy mice have a complete deficiency of functional regulatory T cells (Treg) due to a frameshift mutation in the Foxp3 gene. The impaired immune homeostasis results in a lethal lymphoproliferative disorder affecting multiple…
View article: Deep Learning–Enabled Diagnosis of Liver Adenocarcinoma
Deep Learning–Enabled Diagnosis of Liver Adenocarcinoma Open
View article: JNKs protect from cholestatic liver disease progression by modulating Apelin signalling
JNKs protect from cholestatic liver disease progression by modulating Apelin signalling Open
The cell-specific function of Jnk genes during cholestasis has not been explicitly explored. In this study, we showed that combined Jnk1/2, but not Jnk2 deficiency, in hepatocytes exacerbates liver damage and fibrosis …
View article: A critical spotlight on the paradigms of FFPE-DNA sequencing
A critical spotlight on the paradigms of FFPE-DNA sequencing Open
In the late 19th century, formalin fixation with paraffin-embedding (FFPE) of tissues was developed as a fixation and conservation method and is still used to this day in routine clinical and pathological practice. The implementation of st…
View article: DNA methylation-based classifier differentiates intrahepatic pancreato-biliary tumours
DNA methylation-based classifier differentiates intrahepatic pancreato-biliary tumours Open
View article: Loss of the cyclin kinase inhibitor p27kip1 opens atherapeutic window by deregulating pathway choiceafter DNA double strand breaks
Loss of the cyclin kinase inhibitor p27kip1 opens atherapeutic window by deregulating pathway choiceafter DNA double strand breaks Open
Reduced expression of the cyclin kinase inhibitor p27kip1 is found in many human tumors and correlates with inferior prognosis. We tested the importance of p27 loss for the induction of genetic instability in Notch driven cholangiocarcinom…
View article: Data from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer
Data from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer Open
Biliary tract cancer ranks among the most lethal human malignancies, representing an unmet clinical need. Its abysmal prognosis is tied to an increasing incidence and a fundamental lack of mechanistic knowledge regarding the molecular basi…
View article: Supplementary Table 1 from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer
Supplementary Table 1 from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer Open
Common insertion sites of piggyBac transposon mutagenesis screen.
View article: Supplementary Figures and Methods from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer
Supplementary Figures and Methods from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer Open
Supplementary graphical abstract, eight Supplemental Figures, Supplementary Methods
View article: Data from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer
Data from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer Open
Biliary tract cancer ranks among the most lethal human malignancies, representing an unmet clinical need. Its abysmal prognosis is tied to an increasing incidence and a fundamental lack of mechanistic knowledge regarding the molecular basi…
View article: Supplementary Table 1 from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer
Supplementary Table 1 from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer Open
Common insertion sites of piggyBac transposon mutagenesis screen.
View article: Supplementary Figures and Methods from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer
Supplementary Figures and Methods from Genetic Screens Identify a Context-Specific PI3K/p27<sup>Kip1</sup> Node Driving Extrahepatic Biliary Cancer Open
Supplementary graphical abstract, eight Supplemental Figures, Supplementary Methods
View article: Supplementary Data from Heat Shock Protein 90-Sheltered Overexpression of Insulin-Like Growth Factor 1 Receptor Contributes to Malignancy of Thymic Epithelial Tumors
Supplementary Data from Heat Shock Protein 90-Sheltered Overexpression of Insulin-Like Growth Factor 1 Receptor Contributes to Malignancy of Thymic Epithelial Tumors Open
Supplementary Figures S1-S8; Supplementary Methods; Supplementary Tables S1-S3.
View article: Data from Heat Shock Protein 90-Sheltered Overexpression of Insulin-Like Growth Factor 1 Receptor Contributes to Malignancy of Thymic Epithelial Tumors
Data from Heat Shock Protein 90-Sheltered Overexpression of Insulin-Like Growth Factor 1 Receptor Contributes to Malignancy of Thymic Epithelial Tumors Open
Purpose: The underlying molecular mechanisms of thymic epithelial malignancies (TEMs) are poorly understood. Consequently, there is a lack of efficacious targeted therapies and patient prognosis remains dismal, particularly for adva…