Simone P. Niclou
YOU?
Author Swipe
View article: Hub genes in a pan-cancer co-expression network show potential for predicting drug responses
Hub genes in a pan-cancer co-expression network show potential for predicting drug responses Open
Dataset 1. Gene co-expression network data. It contains network nodes, weighted network and list of hubs. Dataset 2. qPCR data from independent validation, including MIQE and additional information.
View article: OS05.2.A DECIPHERING THE LONGITUDINAL TRAJECTORIES OF GLIOBLASTOMA ECOSYSTEMS BY INTEGRATIVE SINGLE-CELL GENOMICS
OS05.2.A DECIPHERING THE LONGITUDINAL TRAJECTORIES OF GLIOBLASTOMA ECOSYSTEMS BY INTEGRATIVE SINGLE-CELL GENOMICS Open
BACKGROUND The mechanisms governing the progression of IDH-wildtype glioblastoma (GBM) following standard-of-care therapy remain incompletely understood. While recurrence is nearly universal, the cellular and molecular trajectories that un…
View article: Integrative multi-omics combined with functional pharmacological profiling in patient-derived organoids identifies personalized therapeutic vulnerabilities of adult high-grade gliomas
Integrative multi-omics combined with functional pharmacological profiling in patient-derived organoids identifies personalized therapeutic vulnerabilities of adult high-grade gliomas Open
Background: Precision medicine has transformed cancer treatment by tailoring therapies to specific molecular aberrations. Integrating high-resolution multi-omics with high-throughput functional profiling in patient-derived organoids offers…
View article: The multilayered transcriptional architecture of glioblastoma ecosystems
The multilayered transcriptional architecture of glioblastoma ecosystems Open
View article: Deciphering the longitudinal trajectories of glioblastoma ecosystems by integrative single-cell genomics
Deciphering the longitudinal trajectories of glioblastoma ecosystems by integrative single-cell genomics Open
View article: Adenoviral delivery of the <i>CIITA</i> transgene induces T‐cell‐mediated killing in glioblastoma organoids
Adenoviral delivery of the <i>CIITA</i> transgene induces T‐cell‐mediated killing in glioblastoma organoids Open
The immunosuppressive nature of the tumor microenvironment poses a significant challenge to effective immunotherapies against glioblastoma (GB). Boosting the immune response is critical for successful therapy. Here, we adopted a cancer gen…
View article: Protocol using ex vivo mouse brain slice culture mimicking in vivo conditions to study tumor growth and cell motility of glioblastoma cells
Protocol using ex vivo mouse brain slice culture mimicking in vivo conditions to study tumor growth and cell motility of glioblastoma cells Open
Herein, we present an ex vivo approach to study glioblastoma (GBM) cell motility in viable mouse brain slice cultures, closely mimicking in vivo features. We detail the preparation and culturing of mouse brain slices followed by tumor cell…
View article: Mapping extrachromosomal DNA amplifications during cancer progression
Mapping extrachromosomal DNA amplifications during cancer progression Open
View article: Glioblastoma-instructed microglia transition to heterogeneous phenotypic states with phagocytic and dendritic cell-like features in patient tumors and patient-derived orthotopic xenografts
Glioblastoma-instructed microglia transition to heterogeneous phenotypic states with phagocytic and dendritic cell-like features in patient tumors and patient-derived orthotopic xenografts Open
View article: Table S1 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S1 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S1: GLASS surgery-level clinical and molecular characteristics (N=354)
View article: Table S5 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S5 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S5: Treatment-related probes and samples (Related to Figure 3) S5A: List of 69 IDHmut pairs with treatment information (ID of Initial and Recurrent samples and group assignment) S5B: List of differentially methylated probes associate…
View article: Table S6 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S6 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S6: Deconvolution cell proportions and probe-signature matrix S6A: Methylcibersort cell proportions S6B: Methylcibersort cell reference mixture
View article: Table S5 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S5 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S5: Treatment-related probes and samples (Related to Figure 3) S5A: List of 69 IDHmut pairs with treatment information (ID of Initial and Recurrent samples and group assignment) S5B: List of differentially methylated probes associate…
View article: Table S3 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S3 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S3A/B/C/D: Clinical summary of GLASS epigenomic samples S3A: Clinical summary of IDHmut patients who switched from GCIMP-high to GCIMP-low S3B: Clinical summary of IDHmut and IDHwt patients with known hypermutator status S3C: Clinica…
View article: Supplementary Appendix from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Supplementary Appendix from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
List of collaborator authors
View article: Data from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Data from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Tumor adaptation or selection is thought to underlie therapy resistance in glioma. To investigate longitudinal epigenetic evolution of gliomas in response to therapeutic pressure, we performed an epigenomic analysis of 132 matched initial …
View article: Supplementary Appendix from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Supplementary Appendix from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
List of collaborator authors
View article: Supplemental Figures Legends from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Supplemental Figures Legends from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Supplemental Figures Legends
View article: Table S4 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S4 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S4: Master regulators - list of samples and features (Related to Figure 2) S4A: List of sample profiled for ChIP-seq S4B: Results of H3K4me3 differential analysis S4C: Results of H3K27Ac differential analysis S4D: Results of gene exp…
View article: Table S6 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S6 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S6: Deconvolution cell proportions and probe-signature matrix S6A: Methylcibersort cell proportions S6B: Methylcibersort cell reference mixture
View article: Table S2 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S2 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S2: List of 132 pairs (ID of Initial and Recurrent samples)
View article: Table S4 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S4 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S4: Master regulators - list of samples and features (Related to Figure 2) S4A: List of sample profiled for ChIP-seq S4B: Results of H3K4me3 differential analysis S4C: Results of H3K27Ac differential analysis S4D: Results of gene exp…
View article: Supp Figures from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Supp Figures from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Supp Figures
View article: Supp Figures from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Supp Figures from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Supp Figures
View article: Table S3 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S3 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S3A/B/C/D: Clinical summary of GLASS epigenomic samples S3A: Clinical summary of IDHmut patients who switched from GCIMP-high to GCIMP-low S3B: Clinical summary of IDHmut and IDHwt patients with known hypermutator status S3C: Clinica…
View article: Table S2 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S2 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S2: List of 132 pairs (ID of Initial and Recurrent samples)
View article: Table S1 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Table S1 from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Table S1: GLASS surgery-level clinical and molecular characteristics (N=354)
View article: Supplemental Figures Legends from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Supplemental Figures Legends from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Supplemental Figures Legends
View article: Data from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen
Data from The Epigenetic Evolution of Glioma Is Determined by the <i>IDH1</i> Mutation Status and Treatment Regimen Open
Tumor adaptation or selection is thought to underlie therapy resistance in glioma. To investigate longitudinal epigenetic evolution of gliomas in response to therapeutic pressure, we performed an epigenomic analysis of 132 matched initial …
View article: PKM2 diverts glycolytic flux in dependence on mitochondrial one-carbon cycle
PKM2 diverts glycolytic flux in dependence on mitochondrial one-carbon cycle Open
Modeling tumor metabolism in vitro remains challenging. Here, we used galactose as an in vitro tool compound to mimic glycolytic limitation. In contrast to the established idea that high glycolytic flux reduces pyruvate kinase isozyme M2 (…