André Fedier
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View article: Histopathology-based protein multiplex generation using deep learning
Histopathology-based protein multiplex generation using deep learning Open
View article: Publisher Correction: Feasibility of multiomics tumor profiling for guiding treatment of melanoma
Publisher Correction: Feasibility of multiomics tumor profiling for guiding treatment of melanoma Open
View article: Single-cell landscape of innate and acquired drug resistance in acute myeloid leukemia
Single-cell landscape of innate and acquired drug resistance in acute myeloid leukemia Open
View article: Protocol for quantifying drug sensitivity in 3D patient-derived ovarian cancer models
Protocol for quantifying drug sensitivity in 3D patient-derived ovarian cancer models Open
View article: Probabilistic pathway-based multimodal factor analysis
Probabilistic pathway-based multimodal factor analysis Open
Motivation Multimodal profiling strategies promise to produce more informative insights into biomedical cohorts via the integration of the information each modality contributes. To perform this integration, however, the development of nove…
View article: SMAC mimetics overcome apoptotic resistance in ovarian cancer through MSLN-TNF alpha axis
SMAC mimetics overcome apoptotic resistance in ovarian cancer through MSLN-TNF alpha axis Open
Resistance to chemotherapy and PARPi inhibitors remains a critical challenge in the treatment of epithelial ovarian cancer, mainly due to disabled apoptotic responses in tumor cells. Given mesothelin’s pivotal role in ovarian cancer and it…
View article: Detection of isoforms and genomic alterations by high-throughput full-length single-cell RNA sequencing in ovarian cancer
Detection of isoforms and genomic alterations by high-throughput full-length single-cell RNA sequencing in ovarian cancer Open
Understanding the complex background of cancer requires genotype-phenotype information in single-cell resolution. Here, we perform long-read single-cell RNA sequencing (scRNA-seq) on clinical samples from three ovarian cancer patients pres…
View article: Supplementary information from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids
Supplementary information from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids Open
This file contains: Supplementary material & methods Supplementary Figure S1 Globoside GSL synthesizing glycosyltransferases show elevated gene expression in epithelial tissue samples. Supplementary Figure S2 EMT marker gene expression in …
View article: Supplementary information from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids
Supplementary information from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids Open
This file contains: Supplementary material & methods Supplementary Figure S1 Globoside GSL synthesizing glycosyltransferases show elevated gene expression in epithelial tissue samples. Supplementary Figure S2 EMT marker gene expression in …
View article: Data from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids
Data from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids Open
The reversible transitions of cancer cells between epithelial and mesenchymal states comprise cellular and molecular processes essential for local tumor growth and respective dissemination. We report here that globoside glycosphingolipid (…
View article: Data from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids
Data from Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids Open
The reversible transitions of cancer cells between epithelial and mesenchymal states comprise cellular and molecular processes essential for local tumor growth and respective dissemination. We report here that globoside glycosphingolipid (…
View article: MyCTC chip: microfluidic-based drug screen with patient-derived tumour cells from liquid biopsies
MyCTC chip: microfluidic-based drug screen with patient-derived tumour cells from liquid biopsies Open
View article: Overlapping gene dependencies for PARP inhibitors and carboplatin response identified by functional CRISPR-Cas9 screening in ovarian cancer
Overlapping gene dependencies for PARP inhibitors and carboplatin response identified by functional CRISPR-Cas9 screening in ovarian cancer Open
View article: 2022-RA-1457-ESGO Gynecological cancer detection using fourier-transformed infra-red spectroscopy in urine samples: potential and accuracy of machine learning processing
2022-RA-1457-ESGO Gynecological cancer detection using fourier-transformed infra-red spectroscopy in urine samples: potential and accuracy of machine learning processing Open
View article: 2022-RA-1446-ESGO Comprehensive assessment of gene mutations revealed overlapping dependencies for PARPi and chemotherapy response in ovarian cancer
2022-RA-1446-ESGO Comprehensive assessment of gene mutations revealed overlapping dependencies for PARPi and chemotherapy response in ovarian cancer Open
View article: Glycosphingolipids are mediators of cancer plasticity through independent signaling pathways
Glycosphingolipids are mediators of cancer plasticity through independent signaling pathways Open
The molecular repertoire promoting cancer cell plasticity is not fully elucidated. Here, we propose that glycosphingolipids (GSLs), specifically the globo and ganglio series, correlate and promote the transition between epithelial and mese…
View article: Exposure to escalating olaparib does not induce acquired resistance to PARPi and to other chemotherapeutic compounds in ovarian cancer cell lines
Exposure to escalating olaparib does not induce acquired resistance to PARPi and to other chemotherapeutic compounds in ovarian cancer cell lines Open
Poly (ADP‑ribose) polymerase (PARP)‑inhibitors (PARPi) such as olaparib and niraparib are currently used as a treatment option for BRCA‑deficient tumors and also show efficacy in platinum‑sensitive tumors. However, resistance to PAR…
View article: scROSHI: robust supervised hierarchical identification of single cells
scROSHI: robust supervised hierarchical identification of single cells Open
Identifying cell types based on expression profiles is a pillar of single cell analysis. Existing machine-learning methods identify predictive features from annotated training data, which are often not available in early-stage studies. Thi…
View article: EPV197/#394 BCARE- functionally assessing treatment response in ovarian cancer patients
EPV197/#394 BCARE- functionally assessing treatment response in ovarian cancer patients Open
Objectives Treatment regimens in oncology frequently become personalized and multimodal. Therefore, reliable biomarkers to predict drug responses are needed. Here, we establish a functional assay reflecting response to DNA damage-based tre…
View article: Establishing standardized immune phenotyping of metastatic melanoma by digital pathology
Establishing standardized immune phenotyping of metastatic melanoma by digital pathology Open
View article: The Tumor Profiler Study: integrated, multi-omic, functional tumor profiling for clinical decision support
The Tumor Profiler Study: integrated, multi-omic, functional tumor profiling for clinical decision support Open
View article: Collagen-rich omentum is a premetastatic niche for integrin α2-mediated peritoneal metastasis
Collagen-rich omentum is a premetastatic niche for integrin α2-mediated peritoneal metastasis Open
The extracellular matrix (ECM) plays critical roles in tumor progression and metastasis. However, the contribution of ECM proteins to early metastatic onset in the peritoneal cavity remains unexplored. Here, we suggest a new route of metas…
View article: SCIM: universal single-cell matching with unpaired feature sets
SCIM: universal single-cell matching with unpaired feature sets Open
Motivation Recent technological advances have led to an increase in the production and availability of single-cell data. The ability to integrate a set of multi-technology measurements would allow the identification of biologically or clin…
View article: Author response: Collagen-rich omentum is a premetastatic niche for integrin α2-mediated peritoneal metastasis
Author response: Collagen-rich omentum is a premetastatic niche for integrin α2-mediated peritoneal metastasis Open
Article Figures and data Abstract Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract The extracellular matrix (ECM) plays criti…
View article: Outcome in serous ovarian cancer is not associated with LATS expression
Outcome in serous ovarian cancer is not associated with LATS expression Open
View article: ABO blood groups as a prognostic factor for recurrence in ovarian and vulvar cancer
ABO blood groups as a prognostic factor for recurrence in ovarian and vulvar cancer Open
The relationship between ABO blood groups (BG) and risk of incidence in cancers including gynecological cancers has been widely studied, showing increased incidence risk for BG A patients. As available data are inconsistent we investigated…
View article: Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids
Transition of Mesenchymal and Epithelial Cancer Cells Depends on α1-4 Galactosyltransferase-Mediated Glycosphingolipids Open
The reversible transitions of cancer cells between epithelial and mesenchymal states comprise cellular and molecular processes essential for local tumor growth and respective dissemination. We report here that globoside glycosphingolipid (…
View article: Diaphragmatic smears are not of additional benefit in the detection of peritoneal spread in gynecological cancers
Diaphragmatic smears are not of additional benefit in the detection of peritoneal spread in gynecological cancers Open
Peritoneal biopsies (PB) and peritoneal washing (PW) are routine measures in abdominal staging of gynecological malignancies and are used particularly for the assessment of occult microscopic tumor spread to the peritoneal surface includin…
View article: MELK expression in ovarian cancer correlates with poor outcome and its inhibition by OTSSP167 abrogates proliferation and viability of ovarian cancer cells
MELK expression in ovarian cancer correlates with poor outcome and its inhibition by OTSSP167 abrogates proliferation and viability of ovarian cancer cells Open
MELK inhibition by OTSSP167 may thus present a strategy to treat patients with aggressive, progressive, and recurrent ovarian cancer.
View article: Blood Plasma-Derived Anti-Glycan Antibodies to Sialylated and Sulfated Glycans Identify Ovarian Cancer Patients
Blood Plasma-Derived Anti-Glycan Antibodies to Sialylated and Sulfated Glycans Identify Ovarian Cancer Patients Open
Altered levels of naturally occurring anti-glycan antibodies (AGA) circulating in human blood plasma are found in different pathologies including cancer. Here the levels of AGA directed against 22 negatively charged (sialylated and sulfate…