From bulk, single-cell to spatial RNA sequencing

X Li, CY Wang - International journal of oral science, 2021 - nature.com
RNA sequencing (RNAseq) can reveal gene fusions, splicing variants, mutations/indels in
addition to differential gene expression, thus providing a more complete genetic picture than …

RNA sequencing: new technologies and applications in cancer research

M Hong, S Tao, L Zhang, LT Diao, X Huang… - Journal of hematology & …, 2020 - Springer
Over the past few decades, RNA sequencing has significantly progressed, becoming a
paramount approach for transcriptome profiling. The revolution from bulk RNA sequencing …

MET-dependent solid tumours—molecular diagnosis and targeted therapy

R Guo, J Luo, J Chang, N Rekhtman, M Arcila… - Nature reviews Clinical …, 2020 - nature.com
Attempts to develop MET-targeted therapies have historically focused on MET-expressing
cancers, with limited success. Thus, MET expression in the absence of a genomic marker of …

Computational analysis of cancer genome sequencing data

I Cortés-Ciriano, DC Gulhan, JJK Lee… - Nature Reviews …, 2022 - nature.com
Distilling biologically meaningful information from cancer genome sequencing data requires
comprehensive identification of somatic alterations using rigorous computational methods …

[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 …

[HTML][HTML] Practical considerations in screening for genetic alterations in cholangiocarcinoma

TS Bekaii-Saab, J Bridgewater, N Normanno - Annals of Oncology, 2021 - Elsevier
Cholangiocarcinoma (CCA) encompasses diverse epithelial tumors historically associated
with poor outcomes due to an aggressive disease course, late diagnosis, and limited benefit …

Next generation sequencing for gene fusion analysis in lung cancer: a literature review

R Bruno, G Fontanini - Diagnostics, 2020 - mdpi.com
Gene fusions have a pivotal role in non-small cell lung cancer (NSCLC) precision medicine.
Several techniques can be used, from fluorescence in situ hybridization and …

Detection of gene fusions using targeted next-generation sequencing: a comparative evaluation

C Heydt, CB Wölwer, O Velazquez Camacho… - BMC medical …, 2021 - Springer
Background Gene fusions represent promising targets for cancer therapy in lung cancer.
Reliable detection of multiple gene fusions is therefore essential. Methods Five …

Molecular diagnostic tools for the World Health Organization (WHO) 2021 classification of gliomas, glioneuronal and neuronal tumors; an EANO guideline

F Sahm, S Brandner, L Bertero, D Capper… - Neuro …, 2023 - academic.oup.com
In the 5th edition of the WHO CNS tumor classification (CNS5, 2021), multiple molecular
characteristics became essential diagnostic criteria for many additional CNS tumor types …

Accurate detection of tumor-specific gene fusions reveals strongly immunogenic personal neo-antigens

D Weber, J Ibn-Salem, P Sorn, M Suchan… - Nature …, 2022 - nature.com
Cancer-associated gene fusions are a potential source for highly immunogenic
neoantigens, but the lack of computational tools for accurate, sensitive identification of …