Genome-wide DNA profiling of HIV-related B-cell lymphomas

Andrea Rinaldi; Daniela Capello; Emanuele Zucca; Gianluca Gaidano; Francesco Bertoni

doi:10.1007/978-1-62703-281-0_14

Genome-wide DNA profiling of HIV-related B-cell lymphomas

Andrea Rinaldi
, Daniela Capello
, Emanuele Zucca
, Gianluca Gaidano
, Francesco Bertoni

Department of Translational Medicine

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

Abstract

Non-Hodgkin lymphomas represent a frequent complication of human immunodeficiency virus (HIV) infection, occurring at higher frequency than in immunocompetent individuals, and causing morbidity and mortality. Here, we present the method we have followed to analyze the genomic lesions in HIV-related and in other immunodeficiency-related lymphomas, as well in diffuse large B-cell lymphoma (DLBCL) samples derived from immunocompetent hosts. The technology we have used is represented by the GeneChip Human Mapping 250K NspI arrays (Affymetrix, Santa Clara, CA, USA), arrays based on 25mer oligonucleotides initially designed for large-scale genotyping, that is, the detection of thousands of single-nucleotide polymorphisms (SNPs), then shown to be applicable for the detection of cancer alterations. The protocol is shown in all its steps with suggestions and tips. Applications of the technology and obtained results are also briefly summarized.

Original language	English
Title of host publication	Array Comparative Genomic Hybridization
Subtitle of host publication	Protocols and Applications
Publisher	Humana Press Inc.
Pages	213-226
Number of pages	14
ISBN (Print)	9781627032803
DOIs	https://doi.org/10.1007/978-1-62703-281-0_14
Publication status	Published - 2013

Publication series

Name	Methods in Molecular Biology
Volume	973
ISSN (Print)	1064-3745

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

Keywords

Affymetrix
BL
CGH
DLBCL
HIV
Lymphoma
Microarray
PEL
SNP

Access to Document

10.1007/978-1-62703-281-0_14

Cite this

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abstract = "Non-Hodgkin lymphomas represent a frequent complication of human immunodeficiency virus (HIV) infection, occurring at higher frequency than in immunocompetent individuals, and causing morbidity and mortality. Here, we present the method we have followed to analyze the genomic lesions in HIV-related and in other immunodeficiency-related lymphomas, as well in diffuse large B-cell lymphoma (DLBCL) samples derived from immunocompetent hosts. The technology we have used is represented by the GeneChip Human Mapping 250K NspI arrays (Affymetrix, Santa Clara, CA, USA), arrays based on 25mer oligonucleotides initially designed for large-scale genotyping, that is, the detection of thousands of single-nucleotide polymorphisms (SNPs), then shown to be applicable for the detection of cancer alterations. The protocol is shown in all its steps with suggestions and tips. Applications of the technology and obtained results are also briefly summarized.",

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T1 - Genome-wide DNA profiling of HIV-related B-cell lymphomas

AU - Rinaldi, Andrea

AU - Capello, Daniela

AU - Zucca, Emanuele

AU - Gaidano, Gianluca

AU - Bertoni, Francesco

PY - 2013

Y1 - 2013

N2 - Non-Hodgkin lymphomas represent a frequent complication of human immunodeficiency virus (HIV) infection, occurring at higher frequency than in immunocompetent individuals, and causing morbidity and mortality. Here, we present the method we have followed to analyze the genomic lesions in HIV-related and in other immunodeficiency-related lymphomas, as well in diffuse large B-cell lymphoma (DLBCL) samples derived from immunocompetent hosts. The technology we have used is represented by the GeneChip Human Mapping 250K NspI arrays (Affymetrix, Santa Clara, CA, USA), arrays based on 25mer oligonucleotides initially designed for large-scale genotyping, that is, the detection of thousands of single-nucleotide polymorphisms (SNPs), then shown to be applicable for the detection of cancer alterations. The protocol is shown in all its steps with suggestions and tips. Applications of the technology and obtained results are also briefly summarized.

AB - Non-Hodgkin lymphomas represent a frequent complication of human immunodeficiency virus (HIV) infection, occurring at higher frequency than in immunocompetent individuals, and causing morbidity and mortality. Here, we present the method we have followed to analyze the genomic lesions in HIV-related and in other immunodeficiency-related lymphomas, as well in diffuse large B-cell lymphoma (DLBCL) samples derived from immunocompetent hosts. The technology we have used is represented by the GeneChip Human Mapping 250K NspI arrays (Affymetrix, Santa Clara, CA, USA), arrays based on 25mer oligonucleotides initially designed for large-scale genotyping, that is, the detection of thousands of single-nucleotide polymorphisms (SNPs), then shown to be applicable for the detection of cancer alterations. The protocol is shown in all its steps with suggestions and tips. Applications of the technology and obtained results are also briefly summarized.

KW - Affymetrix

KW - BL

KW - CGH

KW - DLBCL

KW - HIV

KW - Lymphoma

KW - Microarray

KW - PEL

KW - SNP

UR - https://www.scopus.com/pages/publications/84880772710

U2 - 10.1007/978-1-62703-281-0_14

DO - 10.1007/978-1-62703-281-0_14

M3 - Chapter

SN - 9781627032803

T3 - Methods in Molecular Biology

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EP - 226

BT - Array Comparative Genomic Hybridization

PB - Humana Press Inc.

ER -

Genome-wide DNA profiling of HIV-related B-cell lymphomas

Abstract

Publication series

UN SDGs

Keywords

Access to Document

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