[HTML][HTML] Applications of single-cell and bulk RNA sequencing in onco-immunology
M Kuksin, D Morel, M Aglave, FX Danlos… - European journal of …, 2021 - Elsevier
The rising interest for precise characterization of the tumour immune contexture has recently
brought forward the high potential of RNA sequencing (RNA-seq) in identifying molecular …
brought forward the high potential of RNA sequencing (RNA-seq) in identifying molecular …
Patient-derived organoids and orthotopic xenografts of primary and recurrent gliomas represent relevant patient avatars for precision oncology
Patient-based cancer models are essential tools for studying tumor biology and for the
assessment of drug responses in a translational context. We report the establishment a large …
assessment of drug responses in a translational context. We report the establishment a large …
[HTML][HTML] Integrative approaches for analysis of mRNA and microRNA high-throughput data
PV Nazarov, S Kreis - Computational and Structural Biotechnology Journal, 2021 - Elsevier
Advanced sequencing technologies such as RNASeq provide the means for production of
massive amounts of data, including transcriptome-wide expression levels of coding RNAs …
massive amounts of data, including transcriptome-wide expression levels of coding RNAs …
Extracellular Vesicle Secretion by Leukemia Cells In Vivo Promotes CLL Progression by Hampering Antitumor T-cell Responses
Small extracellular vesicle (sEV, or exosome) communication among cells in the tumor
microenvironment has been modeled mainly in cell culture, whereas their relevance in …
microenvironment has been modeled mainly in cell culture, whereas their relevance in …
Early-life influenza A (H1N1) infection independently programs brain connectivity, HPA AXIS and tissue-specific gene expression profiles
MP Merz, SV Seal, N Grova, S Mériaux, P Guebels… - Scientific Reports, 2024 - nature.com
Early-life adversity covers a range of physical, social and environmental stressors. Acute
viral infections in early life are a major source of such adversity and have been associated …
viral infections in early life are a major source of such adversity and have been associated …
iModulonMiner and PyModulon: software for unsupervised mining of gene expression compendia
Public gene expression databases are a rapidly expanding resource of organism responses
to diverse perturbations, presenting both an opportunity and a challenge for bioinformatics …
to diverse perturbations, presenting both an opportunity and a challenge for bioinformatics …
Multi-omics data integration and modeling unravels new mechanisms for pancreatic cancer and improves prognostic prediction
NA Fraunhoffer, AM Abuelafia, M Bigonnet… - NPJ precision …, 2022 - nature.com
Pancreatic ductal adenocarcinoma (PDAC), has recently been found to be a heterogeneous
disease, although the extension of its diversity remains to be fully understood. Here, we …
disease, although the extension of its diversity remains to be fully understood. Here, we …
Mining all publicly available expression data to compute dynamic microbial transcriptional regulatory networks
We are firmly in the era of biological big data. Millions of omics datasets are publicly
accessible and can be employed to support scientific research or build a holistic view of an …
accessible and can be employed to support scientific research or build a holistic view of an …
Reference-free deconvolution, visualization and interpretation of complex DNA methylation data using DecompPipeline, MeDeCom and FactorViz
DNA methylation profiling offers unique insights into human development and diseases.
Often the analysis of complex tissues and cell mixtures is the only feasible option to study …
Often the analysis of complex tissues and cell mixtures is the only feasible option to study …
Metabolic traits in cutaneous melanoma
M Neagu - Frontiers in oncology, 2020 - frontiersin.org
Tumor microenvironment is a network of complex cellular and molecular systems where
cells will gain specific phenotypes and specific functions that would drive tumorigenesis. In …
cells will gain specific phenotypes and specific functions that would drive tumorigenesis. In …