Next-generation sequencing of the DNA isolated from the tumor tissue and organoids was carried out with the Oncomine Comprehensive Assay V3 (Thermo Fisher Scientific, United States) based on the Ion Torrent S5 System (Thermo Fisher Scientific, United States). Snap-frozen tumor tissue and organoids were used for isolation of DNA. The alignment was carried out on the basis of the GRCh37 genomic assembly. Single nucleotide variants (SNV) and small insertions and deletions (indel) as well as larger genome rearrangements were identified by Atlas Oncology Diagnostics (Ivanov et al., 2019 (link)).
Poloznikov A., Nikulin S., Bolotina L., Kachmazov A., Raigorodskaya M., Kudryavtseva A., Bakhtogarimov I., Rodin S., Gaisina I., Topchiy M., Asachenko A., Novosad V., Tonevitsky A, & Alekseev B. (2021). 9-ING-41, a Small Molecule Inhibitor of GSK-3β, Potentiates the Effects of Chemotherapy on Colorectal Cancer Cells. Frontiers in Pharmacology, 12, 777114.
Corresponding Organization : National Research University Higher School of Economics
Other organizations :
Far Eastern Federal University, BioClinicum (Russia), Engelhardt Institute of Molecular Biology, Uppsala University, University of Illinois Urbana-Champaign, University of Illinois Chicago, A.V. Topchiev Institute of Petrochemical Synthesis, Russian Academy of Sciences, Institute of Bioorganic Chemistry
Next-generation sequencing of the DNA isolated from the tumor tissue and organoids
dependent variables
Single nucleotide variants (SNV) and small insertions and deletions (indel) as well as larger genome rearrangements
control variables
Snap-frozen tumor tissue and organoids were used for isolation of DNA
The alignment was carried out on the basis of the GRCh37 genomic assembly
controls
No positive or negative controls were explicitly mentioned in the provided information.
Annotations
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