Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score
- Autores
- Tekin, Nilgun; Omidvar, Nader; Morris, Tim Peter; Conget, Paulette; Bruna, Flavia Alejandra; Timar, Botond; Gagyi, Eva; Basak, Ranjan; Naik, Omkar; Auewarakul, Chirayu; Sritana, Narongrit; Levy, Debora; Cerci, Juliano Julio; Bydlowski, Sergio Paulo; Pereira, Juliana; Dimamay, Mark Pierre; Natividad, Filipinas; Chung, June-Key; Belder, Nevin; Kuzu, Isinsu; Paez, Diana; Dondi, Maurizio; Carr, Robert; Ozdag, Hilal; Padua, Rose Ann
- Año de publicación
- 2016
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- As a part of an international study on the molecular analysis of Diffuse Large B-cell Lymphoma (DLBCL), a robust protocol for gene expression analysis from RNA extraction to qRT-PCR using Formalin Fixed Paraffin Embedded tissues was developed. Here a study was conducted to define a strategy to validate the previously reported 6-gene (LMO2, BCL6, FN1, CCND2, SCYA3 and BCL2) model as predictor of prognosis in DLBCL. To avoid variation, all samples were tested in a single centre and single platform. This study comprised 8 countries (Brazil, Chile, Hungary, India, Philippines, S. Korea, Thailand and Turkey). Using the Kaplan-Meier and log rank test on patients (n=162) and two mortality risk groups (with those above and below the mean representing high and low risk groups) confirmed that the 6-gene predictor score correlates significantly with overall survival (OS, p < 0.01) but not with event free survival (EFS, p=0.18). Adding the International Prognostic Index (IPI) shows that the 6-gene predictor score correlates significantly with high IPI scores for OS (p < 0.05), whereas those with low IPI scores show a trend not reaching significance (p=0.08). This study defined an effective and economical qRT-PCR strategy and validated the 6-gene score as a predictor of OS in an international setting.
Fil: Tekin, Nilgun. Ankara University. Biotechology Institute; Turquía
Fil: Omidvar, Nader. Cardiff University; Reino Unido
Fil: Morris, Tim Peter. Clinical Trials Unit at University College. Medical Research Council; Reino Unido
Fil: Conget, Paulette. Universidad del Desarrollo; Chile
Fil: Bruna, Flavia Alejandra. Universidad del Desarrollo; Chile. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Mendoza. Instituto de Medicina y Biología Experimental de Cuyo; Argentina
Fil: Timar, Botond. Semmelweis University. Department of Pathology and Experimental Cancer Research; Hungría
Fil: Gagyi, Eva. Semmelweis University. Department of Pathology and Experimental Cancer Research; Hungría
Fil: Basak, Ranjan. Tata Memorial Hospital. Departments of Medical Oncology & Pathology; India
Fil: Naik, Omkar. Tata Memorial Hospital. Departments of Medical Oncology & Pathology; India
Fil: Auewarakul, Chirayu. Faculty of Medicine Sirira; Tailandia. Chulabhorn Cancer Centre; Tailandia
Fil: Sritana, Narongrit. Faculty of Medicine Sirira; Tailandia. Chulabhorn Cancer Centre; Tailandia
Fil: Levy, Debora. Chulabhorn Cancer Centre; Tailandia. Faculty of Medicine Sirira; Tailandia
Fil: Cerci, Juliano Julio. Department of Nuclear Medicine. Quanta - Diagnóstico e Terapia; Brasil
Fil: Bydlowski, Sergio Paulo. Universidade de Sao Paulo; Brasil
Fil: Pereira, Juliana. Universidade de Sao Paulo; Brasil
Fil: Dimamay, Mark Pierre. St. Lukes Medical. Research and Biotechnology Division; Filipinas
Fil: Natividad, Filipinas. St. Lukes Medical. Research and Biotechnology Division; Filipinas
Fil: Chung, June-Key. Seoul National University Hospital. Department of Nuclear Medicine; Corea del Sur
Fil: Belder, Nevin. Ankara University. Biotechology Institute; Turquía
Fil: Kuzu, Isinsu. Ankara University. Faculty of Medicina; Turquía
Fil: Paez, Diana. International Atomic Energy Agency; Austria
Fil: Dondi, Maurizio. International Atomic Energy Agency; Austria
Fil: Carr, Robert. King’s College. Guy’s & St Thomas’ Hospital; Reino Unido
Fil: Ozdag, Hilal. Ankara University. Faculty of Medicina; Turquía
Fil: Padua, Rose Ann. Institut National de la Sante Et de la Recherche Médica; Francia. Université Paris-Diderot; Francia. Institut Universitaire d'Hématologie; Francia - Materia
-
6-GENE PREDICTOR SCORE
DIFFUSE LARGE B-CELL LYMPHOMA (DLBCL)
FORMALIN FIXED PARAFFIN EMBEDDED TISSUE (FFPE) - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
- Repositorio
.jpg)
- Institución
- Consejo Nacional de Investigaciones Científicas y Técnicas
- OAI Identificador
- oai:ri.conicet.gov.ar:11336/53753
Ver los metadatos del registro completo
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Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor scoreTekin, NilgunOmidvar, NaderMorris, Tim PeterConget, PauletteBruna, Flavia AlejandraTimar, BotondGagyi, EvaBasak, RanjanNaik, OmkarAuewarakul, ChirayuSritana, NarongritLevy, DeboraCerci, Juliano JulioBydlowski, Sergio PauloPereira, JulianaDimamay, Mark PierreNatividad, FilipinasChung, June-KeyBelder, NevinKuzu, IsinsuPaez, DianaDondi, MaurizioCarr, RobertOzdag, HilalPadua, Rose Ann6-GENE PREDICTOR SCOREDIFFUSE LARGE B-CELL LYMPHOMA (DLBCL)FORMALIN FIXED PARAFFIN EMBEDDED TISSUE (FFPE)https://purl.org/becyt/ford/3.1https://purl.org/becyt/ford/3As a part of an international study on the molecular analysis of Diffuse Large B-cell Lymphoma (DLBCL), a robust protocol for gene expression analysis from RNA extraction to qRT-PCR using Formalin Fixed Paraffin Embedded tissues was developed. Here a study was conducted to define a strategy to validate the previously reported 6-gene (LMO2, BCL6, FN1, CCND2, SCYA3 and BCL2) model as predictor of prognosis in DLBCL. To avoid variation, all samples were tested in a single centre and single platform. This study comprised 8 countries (Brazil, Chile, Hungary, India, Philippines, S. Korea, Thailand and Turkey). Using the Kaplan-Meier and log rank test on patients (n=162) and two mortality risk groups (with those above and below the mean representing high and low risk groups) confirmed that the 6-gene predictor score correlates significantly with overall survival (OS, p < 0.01) but not with event free survival (EFS, p=0.18). Adding the International Prognostic Index (IPI) shows that the 6-gene predictor score correlates significantly with high IPI scores for OS (p < 0.05), whereas those with low IPI scores show a trend not reaching significance (p=0.08). This study defined an effective and economical qRT-PCR strategy and validated the 6-gene score as a predictor of OS in an international setting.Fil: Tekin, Nilgun. Ankara University. Biotechology Institute; TurquíaFil: Omidvar, Nader. Cardiff University; Reino UnidoFil: Morris, Tim Peter. Clinical Trials Unit at University College. Medical Research Council; Reino UnidoFil: Conget, Paulette. Universidad del Desarrollo; ChileFil: Bruna, Flavia Alejandra. Universidad del Desarrollo; Chile. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Mendoza. Instituto de Medicina y Biología Experimental de Cuyo; ArgentinaFil: Timar, Botond. Semmelweis University. Department of Pathology and Experimental Cancer Research; HungríaFil: Gagyi, Eva. Semmelweis University. Department of Pathology and Experimental Cancer Research; HungríaFil: Basak, Ranjan. Tata Memorial Hospital. Departments of Medical Oncology & Pathology; IndiaFil: Naik, Omkar. Tata Memorial Hospital. Departments of Medical Oncology & Pathology; IndiaFil: Auewarakul, Chirayu. Faculty of Medicine Sirira; Tailandia. Chulabhorn Cancer Centre; TailandiaFil: Sritana, Narongrit. Faculty of Medicine Sirira; Tailandia. Chulabhorn Cancer Centre; TailandiaFil: Levy, Debora. Chulabhorn Cancer Centre; Tailandia. Faculty of Medicine Sirira; TailandiaFil: Cerci, Juliano Julio. Department of Nuclear Medicine. Quanta - Diagnóstico e Terapia; BrasilFil: Bydlowski, Sergio Paulo. Universidade de Sao Paulo; BrasilFil: Pereira, Juliana. Universidade de Sao Paulo; BrasilFil: Dimamay, Mark Pierre. St. Lukes Medical. Research and Biotechnology Division; FilipinasFil: Natividad, Filipinas. St. Lukes Medical. Research and Biotechnology Division; FilipinasFil: Chung, June-Key. Seoul National University Hospital. Department of Nuclear Medicine; Corea del SurFil: Belder, Nevin. Ankara University. Biotechology Institute; TurquíaFil: Kuzu, Isinsu. Ankara University. Faculty of Medicina; TurquíaFil: Paez, Diana. International Atomic Energy Agency; AustriaFil: Dondi, Maurizio. International Atomic Energy Agency; AustriaFil: Carr, Robert. King’s College. Guy’s & St Thomas’ Hospital; Reino UnidoFil: Ozdag, Hilal. Ankara University. Faculty of Medicina; TurquíaFil: Padua, Rose Ann. Institut National de la Sante Et de la Recherche Médica; Francia. Université Paris-Diderot; Francia. Institut Universitaire d'Hématologie; FranciaImpact Journals LLC2016-11info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/53753Tekin, Nilgun; Omidvar, Nader; Morris, Tim Peter; Conget, Paulette; Bruna, Flavia Alejandra; et al.; Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score; Impact Journals LLC; Oncotarget; 7; 50; 11-2016; 83319-833291949-2553CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.18632/oncotarget.13066info:eu-repo/semantics/altIdentifier/url/http://www.oncotarget.com/index.php?journal=oncotarget&page=article&op=view&path[]=13066&path[]=42701info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:14:58Zoai:ri.conicet.gov.ar:11336/53753instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-29 10:14:58.613CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse |
| dc.title.none.fl_str_mv |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score |
| title |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score |
| spellingShingle |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score Tekin, Nilgun 6-GENE PREDICTOR SCORE DIFFUSE LARGE B-CELL LYMPHOMA (DLBCL) FORMALIN FIXED PARAFFIN EMBEDDED TISSUE (FFPE) |
| title_short |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score |
| title_full |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score |
| title_fullStr |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score |
| title_full_unstemmed |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score |
| title_sort |
Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score |
| dc.creator.none.fl_str_mv |
Tekin, Nilgun Omidvar, Nader Morris, Tim Peter Conget, Paulette Bruna, Flavia Alejandra Timar, Botond Gagyi, Eva Basak, Ranjan Naik, Omkar Auewarakul, Chirayu Sritana, Narongrit Levy, Debora Cerci, Juliano Julio Bydlowski, Sergio Paulo Pereira, Juliana Dimamay, Mark Pierre Natividad, Filipinas Chung, June-Key Belder, Nevin Kuzu, Isinsu Paez, Diana Dondi, Maurizio Carr, Robert Ozdag, Hilal Padua, Rose Ann |
| author |
Tekin, Nilgun |
| author_facet |
Tekin, Nilgun Omidvar, Nader Morris, Tim Peter Conget, Paulette Bruna, Flavia Alejandra Timar, Botond Gagyi, Eva Basak, Ranjan Naik, Omkar Auewarakul, Chirayu Sritana, Narongrit Levy, Debora Cerci, Juliano Julio Bydlowski, Sergio Paulo Pereira, Juliana Dimamay, Mark Pierre Natividad, Filipinas Chung, June-Key Belder, Nevin Kuzu, Isinsu Paez, Diana Dondi, Maurizio Carr, Robert Ozdag, Hilal Padua, Rose Ann |
| author_role |
author |
| author2 |
Omidvar, Nader Morris, Tim Peter Conget, Paulette Bruna, Flavia Alejandra Timar, Botond Gagyi, Eva Basak, Ranjan Naik, Omkar Auewarakul, Chirayu Sritana, Narongrit Levy, Debora Cerci, Juliano Julio Bydlowski, Sergio Paulo Pereira, Juliana Dimamay, Mark Pierre Natividad, Filipinas Chung, June-Key Belder, Nevin Kuzu, Isinsu Paez, Diana Dondi, Maurizio Carr, Robert Ozdag, Hilal Padua, Rose Ann |
| author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author |
| dc.subject.none.fl_str_mv |
6-GENE PREDICTOR SCORE DIFFUSE LARGE B-CELL LYMPHOMA (DLBCL) FORMALIN FIXED PARAFFIN EMBEDDED TISSUE (FFPE) |
| topic |
6-GENE PREDICTOR SCORE DIFFUSE LARGE B-CELL LYMPHOMA (DLBCL) FORMALIN FIXED PARAFFIN EMBEDDED TISSUE (FFPE) |
| purl_subject.fl_str_mv |
https://purl.org/becyt/ford/3.1 https://purl.org/becyt/ford/3 |
| dc.description.none.fl_txt_mv |
As a part of an international study on the molecular analysis of Diffuse Large B-cell Lymphoma (DLBCL), a robust protocol for gene expression analysis from RNA extraction to qRT-PCR using Formalin Fixed Paraffin Embedded tissues was developed. Here a study was conducted to define a strategy to validate the previously reported 6-gene (LMO2, BCL6, FN1, CCND2, SCYA3 and BCL2) model as predictor of prognosis in DLBCL. To avoid variation, all samples were tested in a single centre and single platform. This study comprised 8 countries (Brazil, Chile, Hungary, India, Philippines, S. Korea, Thailand and Turkey). Using the Kaplan-Meier and log rank test on patients (n=162) and two mortality risk groups (with those above and below the mean representing high and low risk groups) confirmed that the 6-gene predictor score correlates significantly with overall survival (OS, p < 0.01) but not with event free survival (EFS, p=0.18). Adding the International Prognostic Index (IPI) shows that the 6-gene predictor score correlates significantly with high IPI scores for OS (p < 0.05), whereas those with low IPI scores show a trend not reaching significance (p=0.08). This study defined an effective and economical qRT-PCR strategy and validated the 6-gene score as a predictor of OS in an international setting. Fil: Tekin, Nilgun. Ankara University. Biotechology Institute; Turquía Fil: Omidvar, Nader. Cardiff University; Reino Unido Fil: Morris, Tim Peter. Clinical Trials Unit at University College. Medical Research Council; Reino Unido Fil: Conget, Paulette. Universidad del Desarrollo; Chile Fil: Bruna, Flavia Alejandra. Universidad del Desarrollo; Chile. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Mendoza. Instituto de Medicina y Biología Experimental de Cuyo; Argentina Fil: Timar, Botond. Semmelweis University. Department of Pathology and Experimental Cancer Research; Hungría Fil: Gagyi, Eva. Semmelweis University. Department of Pathology and Experimental Cancer Research; Hungría Fil: Basak, Ranjan. Tata Memorial Hospital. Departments of Medical Oncology & Pathology; India Fil: Naik, Omkar. Tata Memorial Hospital. Departments of Medical Oncology & Pathology; India Fil: Auewarakul, Chirayu. Faculty of Medicine Sirira; Tailandia. Chulabhorn Cancer Centre; Tailandia Fil: Sritana, Narongrit. Faculty of Medicine Sirira; Tailandia. Chulabhorn Cancer Centre; Tailandia Fil: Levy, Debora. Chulabhorn Cancer Centre; Tailandia. Faculty of Medicine Sirira; Tailandia Fil: Cerci, Juliano Julio. Department of Nuclear Medicine. Quanta - Diagnóstico e Terapia; Brasil Fil: Bydlowski, Sergio Paulo. Universidade de Sao Paulo; Brasil Fil: Pereira, Juliana. Universidade de Sao Paulo; Brasil Fil: Dimamay, Mark Pierre. St. Lukes Medical. Research and Biotechnology Division; Filipinas Fil: Natividad, Filipinas. St. Lukes Medical. Research and Biotechnology Division; Filipinas Fil: Chung, June-Key. Seoul National University Hospital. Department of Nuclear Medicine; Corea del Sur Fil: Belder, Nevin. Ankara University. Biotechology Institute; Turquía Fil: Kuzu, Isinsu. Ankara University. Faculty of Medicina; Turquía Fil: Paez, Diana. International Atomic Energy Agency; Austria Fil: Dondi, Maurizio. International Atomic Energy Agency; Austria Fil: Carr, Robert. King’s College. Guy’s & St Thomas’ Hospital; Reino Unido Fil: Ozdag, Hilal. Ankara University. Faculty of Medicina; Turquía Fil: Padua, Rose Ann. Institut National de la Sante Et de la Recherche Médica; Francia. Université Paris-Diderot; Francia. Institut Universitaire d'Hématologie; Francia |
| description |
As a part of an international study on the molecular analysis of Diffuse Large B-cell Lymphoma (DLBCL), a robust protocol for gene expression analysis from RNA extraction to qRT-PCR using Formalin Fixed Paraffin Embedded tissues was developed. Here a study was conducted to define a strategy to validate the previously reported 6-gene (LMO2, BCL6, FN1, CCND2, SCYA3 and BCL2) model as predictor of prognosis in DLBCL. To avoid variation, all samples were tested in a single centre and single platform. This study comprised 8 countries (Brazil, Chile, Hungary, India, Philippines, S. Korea, Thailand and Turkey). Using the Kaplan-Meier and log rank test on patients (n=162) and two mortality risk groups (with those above and below the mean representing high and low risk groups) confirmed that the 6-gene predictor score correlates significantly with overall survival (OS, p < 0.01) but not with event free survival (EFS, p=0.18). Adding the International Prognostic Index (IPI) shows that the 6-gene predictor score correlates significantly with high IPI scores for OS (p < 0.05), whereas those with low IPI scores show a trend not reaching significance (p=0.08). This study defined an effective and economical qRT-PCR strategy and validated the 6-gene score as a predictor of OS in an international setting. |
| publishDate |
2016 |
| dc.date.none.fl_str_mv |
2016-11 |
| dc.type.none.fl_str_mv |
info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://purl.org/coar/resource_type/c_6501 info:ar-repo/semantics/articulo |
| format |
article |
| status_str |
publishedVersion |
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http://hdl.handle.net/11336/53753 Tekin, Nilgun; Omidvar, Nader; Morris, Tim Peter; Conget, Paulette; Bruna, Flavia Alejandra; et al.; Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score; Impact Journals LLC; Oncotarget; 7; 50; 11-2016; 83319-83329 1949-2553 CONICET Digital CONICET |
| url |
http://hdl.handle.net/11336/53753 |
| identifier_str_mv |
Tekin, Nilgun; Omidvar, Nader; Morris, Tim Peter; Conget, Paulette; Bruna, Flavia Alejandra; et al.; Protocol for qRT-PCR analysis from formalin fixed paraffin embedded tissue sections from diffuse large b-cell lymphoma: Validation of the six-gene predictor score; Impact Journals LLC; Oncotarget; 7; 50; 11-2016; 83319-83329 1949-2553 CONICET Digital CONICET |
| dc.language.none.fl_str_mv |
eng |
| language |
eng |
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info:eu-repo/semantics/altIdentifier/doi/10.18632/oncotarget.13066 info:eu-repo/semantics/altIdentifier/url/http://www.oncotarget.com/index.php?journal=oncotarget&page=article&op=view&path[]=13066&path[]=42701 |
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info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by-nc-sa/2.5/ar/ |
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openAccess |
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https://creativecommons.org/licenses/by-nc-sa/2.5/ar/ |
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application/pdf application/pdf |
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Impact Journals LLC |
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Impact Journals LLC |
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CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas |
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dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar |
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13.070432 |