Identifying Genetic Lesions in Ocular Adnexal Extranodal Marginal Zone Lymphomas of the MALT Subtype by Whole Genome, Whole Exome and Targeted Sequencing
Abstract
:1. Introduction
2. Results
2.1. Whole Exome, Whole Genome, and Targeted Sequencing of OAML
2.2. Detection of Numerous Recurrently Mutated Genes in OAML
2.3. Analysis of WGS Data for CNVs, Chromosomal Translocations, and Viral Sequences
2.4. Analysis for Bacterial Sequences in the OAML Tissues
3. Discussion
4. Materials and Methods
4.1. Patients and Samples
4.2. Tumor and Non-Tumor Cell Enrichment
4.3. DNA Isolation
4.4. Whole Genome Sequencing
4.5. Gene Copy Number Analysis
4.6. Search for Viral Sequences
4.7. Translocations Analysis
4.8. Whole Exome Sequencing
4.9. Determination of the Coding Sequence of Bacterial 16S Ribosomal RNA
4.10. Targeted Re-Sequencing
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Characteristics | No. of Patients (n = 84) | Percentage of Patients |
---|---|---|
Age at diagnosis (years) | ||
Median | 66 | |
Range | 24–92 | |
Sex | ||
Male | 40/79 | 51 |
Female | 39/79 | 49 |
Ann-Arbor stage ot diagnosis | ||
IEA | 48/66 | 73 |
II–IV | 18/66 | 27 |
Localisation at diagnosis | ||
Orbita | 29/72 | 40 |
Conjunctiva | 18/72 | 25 |
Lid | 18/72 | 25 |
Lacrimal gland | 7/72 | 10 |
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Johansson, P.; Klein-Hitpass, L.; Budeus, B.; Kuhn, M.; Lauber, C.; Seifert, M.; Roeder, I.; Pförtner, R.; Stuschke, M.; Dührsen, U.; et al. Identifying Genetic Lesions in Ocular Adnexal Extranodal Marginal Zone Lymphomas of the MALT Subtype by Whole Genome, Whole Exome and Targeted Sequencing. Cancers 2020, 12, 986. https://doi.org/10.3390/cancers12040986
Johansson P, Klein-Hitpass L, Budeus B, Kuhn M, Lauber C, Seifert M, Roeder I, Pförtner R, Stuschke M, Dührsen U, et al. Identifying Genetic Lesions in Ocular Adnexal Extranodal Marginal Zone Lymphomas of the MALT Subtype by Whole Genome, Whole Exome and Targeted Sequencing. Cancers. 2020; 12(4):986. https://doi.org/10.3390/cancers12040986
Chicago/Turabian StyleJohansson, Patricia, Ludger Klein-Hitpass, Bettina Budeus, Matthias Kuhn, Chris Lauber, Michael Seifert, Ingo Roeder, Roman Pförtner, Martin Stuschke, Ulrich Dührsen, and et al. 2020. "Identifying Genetic Lesions in Ocular Adnexal Extranodal Marginal Zone Lymphomas of the MALT Subtype by Whole Genome, Whole Exome and Targeted Sequencing" Cancers 12, no. 4: 986. https://doi.org/10.3390/cancers12040986