Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma

Detalhes bibliográficos
Autor(a) principal: Bhowmick, Shib Sankar
Data de Publicação: 2017
Outros Autores: Rato, Luis, Bhattacharjee, Debotosh
Tipo de documento: Artigo de conferência
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10174/22983
Resumo: MicroRNAs (miRNAs) are a class of 22-nucleotide endogenous noncod- ing RNAs, plays important role in regulating target gene expression via repress- ing translation or promoting messenger RNAs (mRNA) degradation. Numerous re- searchers have found that miRNAs have serious effects on cancer. Therefore, study of mRNAs and miRNAs together through the integrated analysis of mRNA and miRNA expression profiling could help us in getting a deeper insight into the can- cer research. In this regards, High-Throughput Sequencing data of Kidney renal cell carcinoma is used here. The proposed method focuses on identifying mRNA- miRNA pair that has a signature in kidney tumor sample. For this analysis, Ran- dom Forests, Particle Swarm Optimization and Support Vector Machine classifier is used to have best sets of mRNAs-miRNA pairs. Additionally, the significance of selected mRNA-miRNA pairs is tested using gene ontology and pathway analysis tools. Moreover, the selected mRNA-miRNA pairs are searched based on changes in expression values of the used mRNA and miRNA dataset.
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spelling Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinomamRNAmiRNANext Generation SequencingParticle Swarm OptimizationRandom ForestMicroRNAs (miRNAs) are a class of 22-nucleotide endogenous noncod- ing RNAs, plays important role in regulating target gene expression via repress- ing translation or promoting messenger RNAs (mRNA) degradation. Numerous re- searchers have found that miRNAs have serious effects on cancer. Therefore, study of mRNAs and miRNAs together through the integrated analysis of mRNA and miRNA expression profiling could help us in getting a deeper insight into the can- cer research. In this regards, High-Throughput Sequencing data of Kidney renal cell carcinoma is used here. The proposed method focuses on identifying mRNA- miRNA pair that has a signature in kidney tumor sample. For this analysis, Ran- dom Forests, Particle Swarm Optimization and Support Vector Machine classifier is used to have best sets of mRNAs-miRNA pairs. Additionally, the significance of selected mRNA-miRNA pairs is tested using gene ontology and pathway analysis tools. Moreover, the selected mRNA-miRNA pairs are searched based on changes in expression values of the used mRNA and miRNA dataset.Sikkim Manipal Institute of Technology2018-03-14T12:30:56Z2018-03-142017-09-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/conferenceObjecthttp://hdl.handle.net/10174/22983http://hdl.handle.net/10174/22983engBhowmick, Shib Sankar, Rato, L. and Bhattacharjee, D. “Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma”, First International Conference onsimnaonaondlmr@uevora.ptnd498Bhowmick, Shib SankarRato, LuisBhattacharjee, Debotoshinfo:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-01-03T19:14:43Zoai:dspace.uevora.pt:10174/22983Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T01:13:54.038015Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
title Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
spellingShingle Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
Bhowmick, Shib Sankar
mRNA
miRNA
Next Generation Sequencing
Particle Swarm Optimization
Random Forest
title_short Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
title_full Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
title_fullStr Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
title_full_unstemmed Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
title_sort Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
author Bhowmick, Shib Sankar
author_facet Bhowmick, Shib Sankar
Rato, Luis
Bhattacharjee, Debotosh
author_role author
author2 Rato, Luis
Bhattacharjee, Debotosh
author2_role author
author
dc.contributor.author.fl_str_mv Bhowmick, Shib Sankar
Rato, Luis
Bhattacharjee, Debotosh
dc.subject.por.fl_str_mv mRNA
miRNA
Next Generation Sequencing
Particle Swarm Optimization
Random Forest
topic mRNA
miRNA
Next Generation Sequencing
Particle Swarm Optimization
Random Forest
description MicroRNAs (miRNAs) are a class of 22-nucleotide endogenous noncod- ing RNAs, plays important role in regulating target gene expression via repress- ing translation or promoting messenger RNAs (mRNA) degradation. Numerous re- searchers have found that miRNAs have serious effects on cancer. Therefore, study of mRNAs and miRNAs together through the integrated analysis of mRNA and miRNA expression profiling could help us in getting a deeper insight into the can- cer research. In this regards, High-Throughput Sequencing data of Kidney renal cell carcinoma is used here. The proposed method focuses on identifying mRNA- miRNA pair that has a signature in kidney tumor sample. For this analysis, Ran- dom Forests, Particle Swarm Optimization and Support Vector Machine classifier is used to have best sets of mRNAs-miRNA pairs. Additionally, the significance of selected mRNA-miRNA pairs is tested using gene ontology and pathway analysis tools. Moreover, the selected mRNA-miRNA pairs are searched based on changes in expression values of the used mRNA and miRNA dataset.
publishDate 2017
dc.date.none.fl_str_mv 2017-09-01T00:00:00Z
2018-03-14T12:30:56Z
2018-03-14
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/conferenceObject
format conferenceObject
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10174/22983
http://hdl.handle.net/10174/22983
url http://hdl.handle.net/10174/22983
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Bhowmick, Shib Sankar, Rato, L. and Bhattacharjee, D. “Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma”, First International Conference on
sim
nao
nao
nd
lmr@uevora.pt
nd
498
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Sikkim Manipal Institute of Technology
publisher.none.fl_str_mv Sikkim Manipal Institute of Technology
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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