DNA copy number imbalances in primary cutaneous lymphomas
G. Gug Q. Huang E. Chiticariu C. Solovan M. Baudis
First published: 19 January 2019 https://doi.org/10.1111/jdv.15442
Conflicts of interest We have no conflict of interest to declare.
Funding sources Swiss National Science Foundation (IZERZ0_142305); UEFISCDI România.
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Abstract
Background
Cutaneous lymphomas (CL) represent a clinically defined group of extranodal non‐Hodgkin lymphomas harbouring heterogeneous and incompletely delineated molecular aberrations. Over the past decades, molecular studies have identified several chromosomal aberrations, but the interpretation of individual genomic studies can be challenging.
Objective
With a comprehensive meta‐analysis, we aim to delineate genomic alterations for different types of CL and propose a more accurate classification in line with their various pathogenicity.
Methods
We searched PubMed and ISI Web of Knowledge for publications from 1996 to 2016 reporting the investigation of CL for genome‐wide copy number alterations, by means of comparative genomic hybridization techniques and whole‐genome sequencing and whole‐exome sequencing. We then extracted and remapped the available copy number variation (CNV) data from these publications with the same pipeline and performed clustering and visualisation to aggregate samples of similar CNV profiles.
Results
For 449 samples from 22 publications, CNV data were accessible for sample based meta‐analysis. Our findings illustrate structural and numerical chromosomal imbalance patterns. Most frequent CNAs were linked to oncogenes or tumour suppressor genes with important roles in the course of the disease.
Conclusion
Summary profiles for genomic imbalances, generated from case‐specific data, identified complex genomic imbalances, which could discriminate between different subtypes of CL and promise a more accurate classification. The collected data presented in this study are publicly available through the ‘Progenetix’ online repository.
G. Gug Q. Huang E. Chiticariu C. Solovan M. Baudis
First published: 19 January 2019 https://doi.org/10.1111/jdv.15442
Conflicts of interest We have no conflict of interest to declare.
Funding sources Swiss National Science Foundation (IZERZ0_142305); UEFISCDI România.
Read the full text
ePDFPDFTOOLS SHARE
Abstract
Background
Cutaneous lymphomas (CL) represent a clinically defined group of extranodal non‐Hodgkin lymphomas harbouring heterogeneous and incompletely delineated molecular aberrations. Over the past decades, molecular studies have identified several chromosomal aberrations, but the interpretation of individual genomic studies can be challenging.
Objective
With a comprehensive meta‐analysis, we aim to delineate genomic alterations for different types of CL and propose a more accurate classification in line with their various pathogenicity.
Methods
We searched PubMed and ISI Web of Knowledge for publications from 1996 to 2016 reporting the investigation of CL for genome‐wide copy number alterations, by means of comparative genomic hybridization techniques and whole‐genome sequencing and whole‐exome sequencing. We then extracted and remapped the available copy number variation (CNV) data from these publications with the same pipeline and performed clustering and visualisation to aggregate samples of similar CNV profiles.
Results
For 449 samples from 22 publications, CNV data were accessible for sample based meta‐analysis. Our findings illustrate structural and numerical chromosomal imbalance patterns. Most frequent CNAs were linked to oncogenes or tumour suppressor genes with important roles in the course of the disease.
Conclusion
Summary profiles for genomic imbalances, generated from case‐specific data, identified complex genomic imbalances, which could discriminate between different subtypes of CL and promise a more accurate classification. The collected data presented in this study are publicly available through the ‘Progenetix’ online repository.
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