Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Exp...
- Autores
- Blandino, Alice; Scherer, Dominique; Rounge, Trine B.; Umu, Sinan U.; Boekstegers, Felix; Barahona Ponce, Carol; Marcelain, Katherine; Gárate Calderón, Valentina; Waldenberger, Melanie; Morales, Erik; Rojas, Armando; Munoz, César; Retamales, Javier; de Toro, Gonzalo; Barajas, Olga; Rivera, María Teresa; Cortés, Analía; Loader, Denisse; Saavedra, Javiera; Gutiérrez, Lorena; Ortega, Alejandro; Bertrán, Maria Enriqueta; Gabler, Fernando; Campos, Mónica; Alvarado, Juan; Moisán, Fabrizio; Spencer, Loreto; Nervi, Bruno; Carvajal-Hausdorf, Daniel E.; Losada, Héctor; Almau, Mauricio; Fernández, Plinio; Gallegos, Ivan; Olloquequi, Jordi; Fuentes Guajardo, Macarena; Gonzalez-Jose, Rolando; Bortolini, Maria Cátira; Gallo, Carla; Ruiz-Linares, Andres; Rothhammer, Francisco; Bermejo, Justo Lorenzo
- Año de publicación
- 2022
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- Long noncoding RNAs (lncRNAs) play key roles in cell processes and are good candi-dates for cancer risk prediction. Few studies have investigated the association between individual genotypes and lncRNA expression. Here we integrate three separate datasets with information on lncRNA expression only, both lncRNA expression and genotype, and genotype information only to identify circulating lncRNAs associated with the risk of gallbladder cancer (GBC) using robust linear and logistic regression techniques. In the first dataset, we preselect lncRNAs based on expression changes along the sequence “gallstones → dysplasia → GBC”. In the second dataset, we validate associations between genetic variants and serum expression levels of the preselected lncR-NAs (cis-lncRNA-eQTLs) and build lncRNA expression prediction models. In the third dataset, we predict serum lncRNA expression based on individual genotypes and assess the association between genotype-based expression and GBC risk. AC084082.3 and LINC00662 showed increasing expression levels (p-value = 0.009), while C22orf34 expression decreased in the sequence from gallstones to GBC (p-value = 0.04). We identified and validated two cis-LINC00662-eQTLs (r2 = 0.26) and three cis-C22orf34-eQTLs (r2 = 0.24). Only LINC00662 showed a genotyped-based serum expression associated with GBC risk (OR = 1.25 per log2 expression unit, 95% CI 1.04–1.52, p-value = 0.02). Our results suggest that preselection of lncRNAs based on tissue samples and exploitation of cis-lncRNA-eQTLs may facilitate the identification of circulating noncoding RNAs linked to cancer risk.
Fil: Blandino, Alice. Ruprecht Karls Universitat Heidelberg; Alemania
Fil: Scherer, Dominique. Ruprecht Karls Universitat Heidelberg; Alemania
Fil: Rounge, Trine B.. University of Oslo; Noruega
Fil: Umu, Sinan U.. Cancer Registry Of Norway; Noruega
Fil: Boekstegers, Felix. Ruprecht Karls Universitat Heidelberg; Alemania
Fil: Barahona Ponce, Carol. Ruprecht Karls Universitat Heidelberg; Alemania
Fil: Marcelain, Katherine. Universidad de Chile. Facultad de Medicina; Chile
Fil: Gárate Calderón, Valentina. Ruprecht Karls Universitat Heidelberg; Alemania. Universidad de Chile. Facultad de Medicina; Chile
Fil: Waldenberger, Melanie. Centro Helmholtz Múnich; Alemania
Fil: Morales, Erik. Hospital Regional de Talca; Chile. Universidad Católica de Maule; Chile
Fil: Rojas, Armando. Universidad Católica de Maule; Chile
Fil: Munoz, César. Hospital Regional de Talca; Chile. Universidad Católica de Maule; Chile
Fil: Retamales, Javier. Instituto Nacional del Cáncer; Chile
Fil: de Toro, Gonzalo. Hospital Puerto Montt; Chile. Universidad Austral de Chile; Chile
Fil: Barajas, Olga. Universidad de Chile. Facultad de Medicina; Chile. Hospital Clínico Universidad de Chile; Chile
Fil: Rivera, María Teresa. Hospital del Salvador; Chile
Fil: Cortés, Analía. Hospital del Salvador; Chile
Fil: Loader, Denisse. Hospital Padre Hurtado; Chile
Fil: Saavedra, Javiera. Hospital Padre Hurtado; Chile
Fil: Gutiérrez, Lorena. Hospital San Juan de Dios; Chile
Fil: Ortega, Alejandro. Hospital Regional; Chile
Fil: Bertrán, Maria Enriqueta. Hospital Base Valdivia; Chile
Fil: Gabler, Fernando. Universidad de Santiago de Chile. Hospital Clinico San Borja Arriaran; Chile
Fil: Campos, Mónica. Universidad de Santiago de Chile. Hospital Clinico San Borja Arriaran; Chile
Fil: Alvarado, Juan. Hospital Regional Guillermo Grant Benavente; Chile
Fil: Moisán, Fabrizio. Hospital Regional Guillermo Grant Benavente; Chile
Fil: Spencer, Loreto. Hospital Regional Guillermo Grant Benavente; Chile
Fil: Nervi, Bruno. Pontificia Universidad Católica de Chile; Chile
Fil: Carvajal-Hausdorf, Daniel E.. Universidad del Desarrollo; Chile
Fil: Losada, Héctor. Hospital de Temuco; Chile
Fil: Almau, Mauricio. Hospital de Rancagua; Chile
Fil: Fernández, Plinio. Hospital de Rancagua; Chile
Fil: Gallegos, Ivan. Universidad de Chile. Facultad de Medicina; Chile. Hospital Clínico Universidad de Chile; Chile
Fil: Olloquequi, Jordi. Universidad Autónoma de Chile; Chile. Universidad de Barcelona; España
Fil: Fuentes Guajardo, Macarena. Universidad de Tarapacá; Chile
Fil: Gonzalez-Jose, Rolando. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Centro Nacional Patagónico. Instituto Patagónico de Ciencias Sociales y Humanas; Argentina
Fil: Bortolini, Maria Cátira. Universidade Federal do Rio Grande do Sul; Brasil
Fil: Gallo, Carla. Universidad Peruana Cayetano Heredia; Perú
Fil: Ruiz-Linares, Andres. Colegio Universitario de Londres; Reino Unido
Fil: Rothhammer, Francisco. Universidad de Tarapacá; Chile
Fil: Bermejo, Justo Lorenzo. Ruprecht Karls Universitat Heidelberg; Alemania - Materia
-
EQTLS
GALLBLADDER CANCER
GENETIC ASSOCIATION STUDY
LNCRNAS
MOLECULAR PHENOTYPES - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- https://creativecommons.org/licenses/by/2.5/ar/
- Repositorio
.jpg)
- Institución
- Consejo Nacional de Investigaciones Científicas y Técnicas
- OAI Identificador
- oai:ri.conicet.gov.ar:11336/161584
Ver los metadatos del registro completo
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Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based ExpressionBlandino, AliceScherer, DominiqueRounge, Trine B.Umu, Sinan U.Boekstegers, FelixBarahona Ponce, CarolMarcelain, KatherineGárate Calderón, ValentinaWaldenberger, MelanieMorales, ErikRojas, ArmandoMunoz, CésarRetamales, Javierde Toro, GonzaloBarajas, OlgaRivera, María TeresaCortés, AnalíaLoader, DenisseSaavedra, JavieraGutiérrez, LorenaOrtega, AlejandroBertrán, Maria EnriquetaGabler, FernandoCampos, MónicaAlvarado, JuanMoisán, FabrizioSpencer, LoretoNervi, BrunoCarvajal-Hausdorf, Daniel E.Losada, HéctorAlmau, MauricioFernández, PlinioGallegos, IvanOlloquequi, JordiFuentes Guajardo, MacarenaGonzalez-Jose, RolandoBortolini, Maria CátiraGallo, CarlaRuiz-Linares, AndresRothhammer, FranciscoBermejo, Justo LorenzoEQTLSGALLBLADDER CANCERGENETIC ASSOCIATION STUDYLNCRNASMOLECULAR PHENOTYPEShttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Long noncoding RNAs (lncRNAs) play key roles in cell processes and are good candi-dates for cancer risk prediction. Few studies have investigated the association between individual genotypes and lncRNA expression. Here we integrate three separate datasets with information on lncRNA expression only, both lncRNA expression and genotype, and genotype information only to identify circulating lncRNAs associated with the risk of gallbladder cancer (GBC) using robust linear and logistic regression techniques. In the first dataset, we preselect lncRNAs based on expression changes along the sequence “gallstones → dysplasia → GBC”. In the second dataset, we validate associations between genetic variants and serum expression levels of the preselected lncR-NAs (cis-lncRNA-eQTLs) and build lncRNA expression prediction models. In the third dataset, we predict serum lncRNA expression based on individual genotypes and assess the association between genotype-based expression and GBC risk. AC084082.3 and LINC00662 showed increasing expression levels (p-value = 0.009), while C22orf34 expression decreased in the sequence from gallstones to GBC (p-value = 0.04). We identified and validated two cis-LINC00662-eQTLs (r2 = 0.26) and three cis-C22orf34-eQTLs (r2 = 0.24). Only LINC00662 showed a genotyped-based serum expression associated with GBC risk (OR = 1.25 per log2 expression unit, 95% CI 1.04–1.52, p-value = 0.02). Our results suggest that preselection of lncRNAs based on tissue samples and exploitation of cis-lncRNA-eQTLs may facilitate the identification of circulating noncoding RNAs linked to cancer risk.Fil: Blandino, Alice. Ruprecht Karls Universitat Heidelberg; AlemaniaFil: Scherer, Dominique. Ruprecht Karls Universitat Heidelberg; AlemaniaFil: Rounge, Trine B.. University of Oslo; NoruegaFil: Umu, Sinan U.. Cancer Registry Of Norway; NoruegaFil: Boekstegers, Felix. Ruprecht Karls Universitat Heidelberg; AlemaniaFil: Barahona Ponce, Carol. Ruprecht Karls Universitat Heidelberg; AlemaniaFil: Marcelain, Katherine. Universidad de Chile. Facultad de Medicina; ChileFil: Gárate Calderón, Valentina. Ruprecht Karls Universitat Heidelberg; Alemania. Universidad de Chile. Facultad de Medicina; ChileFil: Waldenberger, Melanie. Centro Helmholtz Múnich; AlemaniaFil: Morales, Erik. Hospital Regional de Talca; Chile. Universidad Católica de Maule; ChileFil: Rojas, Armando. Universidad Católica de Maule; ChileFil: Munoz, César. Hospital Regional de Talca; Chile. Universidad Católica de Maule; ChileFil: Retamales, Javier. Instituto Nacional del Cáncer; ChileFil: de Toro, Gonzalo. Hospital Puerto Montt; Chile. Universidad Austral de Chile; ChileFil: Barajas, Olga. Universidad de Chile. Facultad de Medicina; Chile. Hospital Clínico Universidad de Chile; ChileFil: Rivera, María Teresa. Hospital del Salvador; ChileFil: Cortés, Analía. Hospital del Salvador; ChileFil: Loader, Denisse. Hospital Padre Hurtado; ChileFil: Saavedra, Javiera. Hospital Padre Hurtado; ChileFil: Gutiérrez, Lorena. Hospital San Juan de Dios; ChileFil: Ortega, Alejandro. Hospital Regional; ChileFil: Bertrán, Maria Enriqueta. Hospital Base Valdivia; ChileFil: Gabler, Fernando. Universidad de Santiago de Chile. Hospital Clinico San Borja Arriaran; ChileFil: Campos, Mónica. Universidad de Santiago de Chile. Hospital Clinico San Borja Arriaran; ChileFil: Alvarado, Juan. Hospital Regional Guillermo Grant Benavente; ChileFil: Moisán, Fabrizio. Hospital Regional Guillermo Grant Benavente; ChileFil: Spencer, Loreto. Hospital Regional Guillermo Grant Benavente; ChileFil: Nervi, Bruno. Pontificia Universidad Católica de Chile; ChileFil: Carvajal-Hausdorf, Daniel E.. Universidad del Desarrollo; ChileFil: Losada, Héctor. Hospital de Temuco; ChileFil: Almau, Mauricio. Hospital de Rancagua; ChileFil: Fernández, Plinio. Hospital de Rancagua; ChileFil: Gallegos, Ivan. Universidad de Chile. Facultad de Medicina; Chile. Hospital Clínico Universidad de Chile; ChileFil: Olloquequi, Jordi. Universidad Autónoma de Chile; Chile. Universidad de Barcelona; EspañaFil: Fuentes Guajardo, Macarena. Universidad de Tarapacá; ChileFil: Gonzalez-Jose, Rolando. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Centro Nacional Patagónico. Instituto Patagónico de Ciencias Sociales y Humanas; ArgentinaFil: Bortolini, Maria Cátira. Universidade Federal do Rio Grande do Sul; BrasilFil: Gallo, Carla. Universidad Peruana Cayetano Heredia; PerúFil: Ruiz-Linares, Andres. Colegio Universitario de Londres; Reino UnidoFil: Rothhammer, Francisco. Universidad de Tarapacá; ChileFil: Bermejo, Justo Lorenzo. Ruprecht Karls Universitat Heidelberg; AlemaniaMDPI2022-02info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/161584Blandino, Alice; Scherer, Dominique; Rounge, Trine B.; Umu, Sinan U.; Boekstegers, Felix; et al.; Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression; MDPI; Cancers; 14; 3; 2-2022; 1-152072-6694CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/info:eu-repo/semantics/altIdentifier/doi/10.3390/cancers14030634info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-15T14:20:56Zoai:ri.conicet.gov.ar:11336/161584instacron: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:34982025-10-15 14:20:56.742CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse |
| dc.title.none.fl_str_mv |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression |
| title |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression |
| spellingShingle |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression Blandino, Alice EQTLS GALLBLADDER CANCER GENETIC ASSOCIATION STUDY LNCRNAS MOLECULAR PHENOTYPES |
| title_short |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression |
| title_full |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression |
| title_fullStr |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression |
| title_full_unstemmed |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression |
| title_sort |
Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression |
| dc.creator.none.fl_str_mv |
Blandino, Alice Scherer, Dominique Rounge, Trine B. Umu, Sinan U. Boekstegers, Felix Barahona Ponce, Carol Marcelain, Katherine Gárate Calderón, Valentina Waldenberger, Melanie Morales, Erik Rojas, Armando Munoz, César Retamales, Javier de Toro, Gonzalo Barajas, Olga Rivera, María Teresa Cortés, Analía Loader, Denisse Saavedra, Javiera Gutiérrez, Lorena Ortega, Alejandro Bertrán, Maria Enriqueta Gabler, Fernando Campos, Mónica Alvarado, Juan Moisán, Fabrizio Spencer, Loreto Nervi, Bruno Carvajal-Hausdorf, Daniel E. Losada, Héctor Almau, Mauricio Fernández, Plinio Gallegos, Ivan Olloquequi, Jordi Fuentes Guajardo, Macarena Gonzalez-Jose, Rolando Bortolini, Maria Cátira Gallo, Carla Ruiz-Linares, Andres Rothhammer, Francisco Bermejo, Justo Lorenzo |
| author |
Blandino, Alice |
| author_facet |
Blandino, Alice Scherer, Dominique Rounge, Trine B. Umu, Sinan U. Boekstegers, Felix Barahona Ponce, Carol Marcelain, Katherine Gárate Calderón, Valentina Waldenberger, Melanie Morales, Erik Rojas, Armando Munoz, César Retamales, Javier de Toro, Gonzalo Barajas, Olga Rivera, María Teresa Cortés, Analía Loader, Denisse Saavedra, Javiera Gutiérrez, Lorena Ortega, Alejandro Bertrán, Maria Enriqueta Gabler, Fernando Campos, Mónica Alvarado, Juan Moisán, Fabrizio Spencer, Loreto Nervi, Bruno Carvajal-Hausdorf, Daniel E. Losada, Héctor Almau, Mauricio Fernández, Plinio Gallegos, Ivan Olloquequi, Jordi Fuentes Guajardo, Macarena Gonzalez-Jose, Rolando Bortolini, Maria Cátira Gallo, Carla Ruiz-Linares, Andres Rothhammer, Francisco Bermejo, Justo Lorenzo |
| author_role |
author |
| author2 |
Scherer, Dominique Rounge, Trine B. Umu, Sinan U. Boekstegers, Felix Barahona Ponce, Carol Marcelain, Katherine Gárate Calderón, Valentina Waldenberger, Melanie Morales, Erik Rojas, Armando Munoz, César Retamales, Javier de Toro, Gonzalo Barajas, Olga Rivera, María Teresa Cortés, Analía Loader, Denisse Saavedra, Javiera Gutiérrez, Lorena Ortega, Alejandro Bertrán, Maria Enriqueta Gabler, Fernando Campos, Mónica Alvarado, Juan Moisán, Fabrizio Spencer, Loreto Nervi, Bruno Carvajal-Hausdorf, Daniel E. Losada, Héctor Almau, Mauricio Fernández, Plinio Gallegos, Ivan Olloquequi, Jordi Fuentes Guajardo, Macarena Gonzalez-Jose, Rolando Bortolini, Maria Cátira Gallo, Carla Ruiz-Linares, Andres Rothhammer, Francisco Bermejo, Justo Lorenzo |
| 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 author author author author author author author author author author author author author author author author |
| dc.subject.none.fl_str_mv |
EQTLS GALLBLADDER CANCER GENETIC ASSOCIATION STUDY LNCRNAS MOLECULAR PHENOTYPES |
| topic |
EQTLS GALLBLADDER CANCER GENETIC ASSOCIATION STUDY LNCRNAS MOLECULAR PHENOTYPES |
| purl_subject.fl_str_mv |
https://purl.org/becyt/ford/1.6 https://purl.org/becyt/ford/1 |
| dc.description.none.fl_txt_mv |
Long noncoding RNAs (lncRNAs) play key roles in cell processes and are good candi-dates for cancer risk prediction. Few studies have investigated the association between individual genotypes and lncRNA expression. Here we integrate three separate datasets with information on lncRNA expression only, both lncRNA expression and genotype, and genotype information only to identify circulating lncRNAs associated with the risk of gallbladder cancer (GBC) using robust linear and logistic regression techniques. In the first dataset, we preselect lncRNAs based on expression changes along the sequence “gallstones → dysplasia → GBC”. In the second dataset, we validate associations between genetic variants and serum expression levels of the preselected lncR-NAs (cis-lncRNA-eQTLs) and build lncRNA expression prediction models. In the third dataset, we predict serum lncRNA expression based on individual genotypes and assess the association between genotype-based expression and GBC risk. AC084082.3 and LINC00662 showed increasing expression levels (p-value = 0.009), while C22orf34 expression decreased in the sequence from gallstones to GBC (p-value = 0.04). We identified and validated two cis-LINC00662-eQTLs (r2 = 0.26) and three cis-C22orf34-eQTLs (r2 = 0.24). Only LINC00662 showed a genotyped-based serum expression associated with GBC risk (OR = 1.25 per log2 expression unit, 95% CI 1.04–1.52, p-value = 0.02). Our results suggest that preselection of lncRNAs based on tissue samples and exploitation of cis-lncRNA-eQTLs may facilitate the identification of circulating noncoding RNAs linked to cancer risk. Fil: Blandino, Alice. Ruprecht Karls Universitat Heidelberg; Alemania Fil: Scherer, Dominique. Ruprecht Karls Universitat Heidelberg; Alemania Fil: Rounge, Trine B.. University of Oslo; Noruega Fil: Umu, Sinan U.. Cancer Registry Of Norway; Noruega Fil: Boekstegers, Felix. Ruprecht Karls Universitat Heidelberg; Alemania Fil: Barahona Ponce, Carol. Ruprecht Karls Universitat Heidelberg; Alemania Fil: Marcelain, Katherine. Universidad de Chile. Facultad de Medicina; Chile Fil: Gárate Calderón, Valentina. Ruprecht Karls Universitat Heidelberg; Alemania. Universidad de Chile. Facultad de Medicina; Chile Fil: Waldenberger, Melanie. Centro Helmholtz Múnich; Alemania Fil: Morales, Erik. Hospital Regional de Talca; Chile. Universidad Católica de Maule; Chile Fil: Rojas, Armando. Universidad Católica de Maule; Chile Fil: Munoz, César. Hospital Regional de Talca; Chile. Universidad Católica de Maule; Chile Fil: Retamales, Javier. Instituto Nacional del Cáncer; Chile Fil: de Toro, Gonzalo. Hospital Puerto Montt; Chile. Universidad Austral de Chile; Chile Fil: Barajas, Olga. Universidad de Chile. Facultad de Medicina; Chile. Hospital Clínico Universidad de Chile; Chile Fil: Rivera, María Teresa. Hospital del Salvador; Chile Fil: Cortés, Analía. Hospital del Salvador; Chile Fil: Loader, Denisse. Hospital Padre Hurtado; Chile Fil: Saavedra, Javiera. Hospital Padre Hurtado; Chile Fil: Gutiérrez, Lorena. Hospital San Juan de Dios; Chile Fil: Ortega, Alejandro. Hospital Regional; Chile Fil: Bertrán, Maria Enriqueta. Hospital Base Valdivia; Chile Fil: Gabler, Fernando. Universidad de Santiago de Chile. Hospital Clinico San Borja Arriaran; Chile Fil: Campos, Mónica. Universidad de Santiago de Chile. Hospital Clinico San Borja Arriaran; Chile Fil: Alvarado, Juan. Hospital Regional Guillermo Grant Benavente; Chile Fil: Moisán, Fabrizio. Hospital Regional Guillermo Grant Benavente; Chile Fil: Spencer, Loreto. Hospital Regional Guillermo Grant Benavente; Chile Fil: Nervi, Bruno. Pontificia Universidad Católica de Chile; Chile Fil: Carvajal-Hausdorf, Daniel E.. Universidad del Desarrollo; Chile Fil: Losada, Héctor. Hospital de Temuco; Chile Fil: Almau, Mauricio. Hospital de Rancagua; Chile Fil: Fernández, Plinio. Hospital de Rancagua; Chile Fil: Gallegos, Ivan. Universidad de Chile. Facultad de Medicina; Chile. Hospital Clínico Universidad de Chile; Chile Fil: Olloquequi, Jordi. Universidad Autónoma de Chile; Chile. Universidad de Barcelona; España Fil: Fuentes Guajardo, Macarena. Universidad de Tarapacá; Chile Fil: Gonzalez-Jose, Rolando. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Centro Nacional Patagónico. Instituto Patagónico de Ciencias Sociales y Humanas; Argentina Fil: Bortolini, Maria Cátira. Universidade Federal do Rio Grande do Sul; Brasil Fil: Gallo, Carla. Universidad Peruana Cayetano Heredia; Perú Fil: Ruiz-Linares, Andres. Colegio Universitario de Londres; Reino Unido Fil: Rothhammer, Francisco. Universidad de Tarapacá; Chile Fil: Bermejo, Justo Lorenzo. Ruprecht Karls Universitat Heidelberg; Alemania |
| description |
Long noncoding RNAs (lncRNAs) play key roles in cell processes and are good candi-dates for cancer risk prediction. Few studies have investigated the association between individual genotypes and lncRNA expression. Here we integrate three separate datasets with information on lncRNA expression only, both lncRNA expression and genotype, and genotype information only to identify circulating lncRNAs associated with the risk of gallbladder cancer (GBC) using robust linear and logistic regression techniques. In the first dataset, we preselect lncRNAs based on expression changes along the sequence “gallstones → dysplasia → GBC”. In the second dataset, we validate associations between genetic variants and serum expression levels of the preselected lncR-NAs (cis-lncRNA-eQTLs) and build lncRNA expression prediction models. In the third dataset, we predict serum lncRNA expression based on individual genotypes and assess the association between genotype-based expression and GBC risk. AC084082.3 and LINC00662 showed increasing expression levels (p-value = 0.009), while C22orf34 expression decreased in the sequence from gallstones to GBC (p-value = 0.04). We identified and validated two cis-LINC00662-eQTLs (r2 = 0.26) and three cis-C22orf34-eQTLs (r2 = 0.24). Only LINC00662 showed a genotyped-based serum expression associated with GBC risk (OR = 1.25 per log2 expression unit, 95% CI 1.04–1.52, p-value = 0.02). Our results suggest that preselection of lncRNAs based on tissue samples and exploitation of cis-lncRNA-eQTLs may facilitate the identification of circulating noncoding RNAs linked to cancer risk. |
| publishDate |
2022 |
| dc.date.none.fl_str_mv |
2022-02 |
| 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 |
| dc.identifier.none.fl_str_mv |
http://hdl.handle.net/11336/161584 Blandino, Alice; Scherer, Dominique; Rounge, Trine B.; Umu, Sinan U.; Boekstegers, Felix; et al.; Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression; MDPI; Cancers; 14; 3; 2-2022; 1-15 2072-6694 CONICET Digital CONICET |
| url |
http://hdl.handle.net/11336/161584 |
| identifier_str_mv |
Blandino, Alice; Scherer, Dominique; Rounge, Trine B.; Umu, Sinan U.; Boekstegers, Felix; et al.; Identification of Circulating lncRNAs Associated with Gallbladder Cancer Risk by Tissue-Based Preselection, Cis-eQTL Validation, and Analysis of Association with Genotype-Based Expression; MDPI; Cancers; 14; 3; 2-2022; 1-15 2072-6694 CONICET Digital CONICET |
| dc.language.none.fl_str_mv |
eng |
| language |
eng |
| dc.relation.none.fl_str_mv |
info:eu-repo/semantics/altIdentifier/doi/ info:eu-repo/semantics/altIdentifier/doi/10.3390/cancers14030634 |
| dc.rights.none.fl_str_mv |
info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/2.5/ar/ |
| eu_rights_str_mv |
openAccess |
| rights_invalid_str_mv |
https://creativecommons.org/licenses/by/2.5/ar/ |
| dc.format.none.fl_str_mv |
application/pdf application/pdf |
| dc.publisher.none.fl_str_mv |
MDPI |
| publisher.none.fl_str_mv |
MDPI |
| dc.source.none.fl_str_mv |
reponame:CONICET Digital (CONICET) instname:Consejo Nacional de Investigaciones Científicas y Técnicas |
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CONICET Digital (CONICET) |
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CONICET Digital (CONICET) |
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Consejo Nacional de Investigaciones Científicas y Técnicas |
| repository.name.fl_str_mv |
CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas |
| repository.mail.fl_str_mv |
dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar |
| _version_ |
1846082591704219648 |
| score |
13.22299 |