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Comparative analysis of gene expression platforms for cell-of-origin classification of diffuse large B-cell lymphoma shows high concordance

Comparative analysis of gene expression platforms for cell-of-origin classification of diffuse large B-cell lymphoma shows high concordance
Comparative analysis of gene expression platforms for cell-of-origin classification of diffuse large B-cell lymphoma shows high concordance

Cell-of-origin subclassification of diffuse large B cell lymphoma (DLBCL) into activated B cell-like (ABC), germinal centre B cell-like (GCB) and unclassified (UNC) or type III by gene expression profiling is recommended in the latest update of the World Health Organization's classification of lymphoid neoplasms. There is, however, no accepted gold standard method or dataset for this classification. Here, we compare classification results using gene expression data for 68 formalin-fixed paraffin-embedded DLBCL samples measured on four different gene expression platforms (Illumina wG-DASLTM arrays, Affymetrix PrimeView arrays, Illumina TrueSeq RNA sequencing and the HTG EdgeSeq DLBCL Cell of Origin Assay EU using an established platform agnostic classification algorithm (DAC) and the classifier native to the HTG platform, which is CE marked for in vitro diagnostic use (CE-IVD). Classification methods and platforms show a high level of concordance, with agreement in at least 80% of cases and rising to much higher levels for classifications of high confidence. Our results demonstrate that cell-of-origin classification by gene expression profiling on different platforms is robust, and that the use of the confidence value alongside the classification result is important in clinical applications.

cell of origin, diffuse large B cell lymphoma, gene expression, genetic subtyping, lymphomas
0007-1048
599-604
Ahmed, Sophia
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Glover, Paul
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Taylor, Jan
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Sha, Chulin
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Care, Matthew A
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Tooze, Reuben
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Davies, Andrew
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Westhead, David R
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Johnson, Peter W M
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Burton, Catherine
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Barrans, Sharon L
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Ahmed, Sophia
b0d76dda-e382-43fa-b132-a6854fc95877
Glover, Paul
4ebbdd70-a9f2-4046-8707-6ed2ab517094
Taylor, Jan
29e41ee8-b121-409c-a4ac-8603ec6e4e8d
Sha, Chulin
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Care, Matthew A
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Tooze, Reuben
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Davies, Andrew
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Westhead, David R
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Johnson, Peter W M
3f6068ce-171e-4c2c-aca9-dc9b6a37413f
Burton, Catherine
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Barrans, Sharon L
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Ahmed, Sophia, Glover, Paul, Taylor, Jan, Sha, Chulin, Care, Matthew A, Tooze, Reuben, Davies, Andrew, Westhead, David R, Johnson, Peter W M, Burton, Catherine and Barrans, Sharon L (2021) Comparative analysis of gene expression platforms for cell-of-origin classification of diffuse large B-cell lymphoma shows high concordance. British Journal of Haematology, 192 (3), 599-604. (doi:10.1111/bjh.17246).

Record type: Article

Abstract

Cell-of-origin subclassification of diffuse large B cell lymphoma (DLBCL) into activated B cell-like (ABC), germinal centre B cell-like (GCB) and unclassified (UNC) or type III by gene expression profiling is recommended in the latest update of the World Health Organization's classification of lymphoid neoplasms. There is, however, no accepted gold standard method or dataset for this classification. Here, we compare classification results using gene expression data for 68 formalin-fixed paraffin-embedded DLBCL samples measured on four different gene expression platforms (Illumina wG-DASLTM arrays, Affymetrix PrimeView arrays, Illumina TrueSeq RNA sequencing and the HTG EdgeSeq DLBCL Cell of Origin Assay EU using an established platform agnostic classification algorithm (DAC) and the classifier native to the HTG platform, which is CE marked for in vitro diagnostic use (CE-IVD). Classification methods and platforms show a high level of concordance, with agreement in at least 80% of cases and rising to much higher levels for classifications of high confidence. Our results demonstrate that cell-of-origin classification by gene expression profiling on different platforms is robust, and that the use of the confidence value alongside the classification result is important in clinical applications.

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Accepted/In Press date: 1 November 2020
e-pub ahead of print date: 29 November 2020
Published date: February 2021
Additional Information: © 2020 British Society for Haematology and John Wiley & Sons Ltd. Accepted Manuscript now attached
Keywords: cell of origin, diffuse large B cell lymphoma, gene expression, genetic subtyping, lymphomas

Identifiers

Local EPrints ID: 447779
URI: http://eprints.soton.ac.uk/id/eprint/447779
ISSN: 0007-1048
PURE UUID: 3295dee2-4a4b-4d15-952f-7bea3121a7f4
ORCID for Andrew Davies: ORCID iD orcid.org/0000-0002-7517-6938
ORCID for Peter W M Johnson: ORCID iD orcid.org/0000-0003-2306-4974

Catalogue record

Date deposited: 19 Mar 2021 17:37
Last modified: 17 Mar 2024 06:17

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Contributors

Author: Sophia Ahmed
Author: Paul Glover
Author: Jan Taylor
Author: Chulin Sha
Author: Matthew A Care
Author: Reuben Tooze
Author: Andrew Davies ORCID iD
Author: David R Westhead
Author: Catherine Burton
Author: Sharon L Barrans

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