Using low-coverage whole genome sequencing technique to analyze the chromosomal copy number alterations in the exfoliative cells of cervical cancer

Journal of Gynecologic Oncology
Tong RenJing He Lang

Abstract

We analyzed the chromosomal-arm-level copy number alterations (CNAs) in the cervical exfoliative cell and tissue samples by using the low-coverage whole genomic sequencing technique. In this study, we retrospectively collected 55 archived exfoliated cervical cell suspension samples and the corresponding formalin-fixed and paraffin-embedded tissue section samples including 27 invasive cervical cancer and 28 control cases. We also collected 19 samples of the cervical exfoliative cells randomly from women to verify the new algorithm model. We analyzed the CNAs in cervical exfoliated cell and tissue samples by using the low-coverage next generation of sequencing. In the model-building study, multiple chromosomal-arm-level CNAs were detected in both cervical exfoliated cell and tissue samples of all cervical cancer cases. By analyzing the consistency of CNAs between exfoliated cells and cervical tissue samples, as well as the heterogeneity in individual patient, we also established a C-score algorithm model according to the chromosomal-arm-level changes of 1q, 2q, 3p, 7q. The C-score model was then validated by the pathological diagnosis of all 74 exfoliated cell samples (including 55 cases in model-building group and 19 cases in ve...Continue Reading

References

May 8, 2004·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Peter MelsheimerMagnus von Knebel Doeberitz
Apr 30, 2005·Cancer Genetics and Cytogenetics·Elva I Cortés-GutiérrezRicardo M Cerda-Flores
Jan 20, 2007·Bioinformatics·E S Venkatraman, Adam B Olshen
Dec 17, 2008·Proceedings of the National Academy of Sciences of the United States of America·Rossa W K ChiuY M Dennis Lo
Jul 23, 2013·PloS One·Sabrina A H M van den TillaartJan Oosting
Sep 24, 2013·European Journal of Cancer : Official Journal for European Organization for Research and Treatment of Cancer (EORTC) [and] European Association for Cancer Research (EACR)·Lorenz K ThomasMiriam Reuschenbach
Mar 15, 2014·International Journal of Molecular Medicine·Tian LiXinhua Zhang
May 23, 2015·The Korean Journal of Internal Medicine·Seon-Hee YimYeun-Jun Chung
Sep 1, 2015·Modern Pathology : an Official Journal of the United States and Canadian Academy of Pathology, Inc·Kylie L GorringeIan G Campbell
Jan 24, 2017·Nature·UNKNOWN Cancer Genome Atlas Research NetworkUNKNOWN Washington University in St Louis

❮ Previous
Next ❯

Citations

Nov 10, 2020·Current Opinion in Pharmacology·Dominik DiefenbachThomas Efferth

❮ Previous
Next ❯

Methods Mentioned

BETA
biopsy
hysterectomy
chemical treatments
Genotyping

Software Mentioned

XiphiasTM

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.