MicroRNA and Target Protein Patterns Reveal Physiopathological Features of Glioma Subtypes
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{"title"=>"MicroRNA and target protein patterns reveal physiopathological features of glioma subtypes", "type"=>"journal", "authors"=>[{"first_name"=>"Elodie", "last_name"=>"Lages", "scopus_author_id"=>"37161796200"}, {"first_name"=>"Audrey", "last_name"=>"Guttin", "scopus_author_id"=>"37161584800"}, {"first_name"=>"Michèle El", "last_name"=>"Atifi", "scopus_author_id"=>"6503849200"}, {"first_name"=>"Claire", "last_name"=>"Ramus", "scopus_author_id"=>"12139489800"}, {"first_name"=>"Hélène", "last_name"=>"Ipas", "scopus_author_id"=>"41461221800"}, {"first_name"=>"Isabelle", "last_name"=>"Dupré", "scopus_author_id"=>"6701816895"}, {"first_name"=>"Delphine", "last_name"=>"Rolland", "scopus_author_id"=>"23989387500"}, {"first_name"=>"Caroline", "last_name"=>"Salon", "scopus_author_id"=>"12804692800"}, {"first_name"=>"Catherine", "last_name"=>"Godfraind", "scopus_author_id"=>"56877631600"}, {"first_name"=>"Florence", "last_name"=>"deFraipont", "scopus_author_id"=>"38861445100"}, {"first_name"=>"Mehdi", "last_name"=>"Dhobb", "scopus_author_id"=>"36774314800"}, {"first_name"=>"Laurent", "last_name"=>"Pelletier", "scopus_author_id"=>"7102140753"}, {"first_name"=>"Didier", "last_name"=>"Wion", "scopus_author_id"=>"7004219873"}, {"first_name"=>"Emmanuel", "last_name"=>"Gay", "scopus_author_id"=>"55802001100"}, {"first_name"=>"François", "last_name"=>"Berger", "scopus_author_id"=>"56597498400"}, {"first_name"=>"Jean Paul", "last_name"=>"Issartel", "scopus_author_id"=>"7004260310"}], "year"=>2011, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"79957819926", "doi"=>"10.1371/journal.pone.0020600", "pui"=>"361862713", "issn"=>"19326203", "pmid"=>"21655185", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "scopus"=>"2-s2.0-79957819926"}, "id"=>"870ac941-76d7-399d-a1d6-771221af0cd1", "abstract"=>"Gliomas such as oligodendrogliomas (ODG) and glioblastomas (GBM) are brain tumours with different clinical outcomes. Histology-based classification of these tumour types is often difficult. Therefore the first aim of this study was to gain microRNA data that can be used as reliable signatures of oligodendrogliomas and glioblastomas. We investigated the levels of 282 microRNAs using membrane-array hybridisation and real-time PCR in ODG, GBM and control brain tissues. In comparison to these control tissues, 26 deregulated microRNAs were identified in tumours and the tissue levels of seven microRNAs (miR-21, miR-128, miR-132, miR-134, miR-155, miR-210 and miR-409-5p) appropriately discriminated oligodendrogliomas from glioblastomas. Genomic, epigenomic and host gene expression studies were conducted to investigate the mechanisms involved in these deregulations. Another aim of this study was to better understand glioma physiopathology looking for targets of deregulated microRNAs. We discovered that some targets of these microRNAs such as STAT3, PTBP1 or SIRT1 are differentially expressed in gliomas consistent with deregulation of microRNA expression. Moreover, MDH1, the target of several deregulated microRNAs, is repressed in glioblastomas, making an intramitochondrial-NAD reduction mediated by the mitochondrial aspartate-malate shuttle unlikely. Understanding the connections between microRNAs and bioenergetic pathways in gliomas may lead to identification of novel therapeutic targets.", "link"=>"http://www.mendeley.com/research/microrna-target-protein-patterns-reveal-physiopathological-features-glioma-subtypes", "reader_count"=>48, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>2, "Researcher"=>15, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>14, "Other"=>2, "Student > Master"=>5, "Student > Bachelor"=>5, "Professor"=>2}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>2, "Researcher"=>15, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>14, "Other"=>2, "Student > Master"=>5, "Student > Bachelor"=>5, "Professor"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>1, "Biochemistry, Genetics and Molecular Biology"=>9, "Medicine and Dentistry"=>13, "Agricultural and Biological Sciences"=>22, "Pharmacology, Toxicology and Pharmaceutical Science"=>2, "Immunology and Microbiology"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>13}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>22}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>9}, "Unspecified"=>{"Unspecified"=>1}, "Pharmacology, Toxicology and Pharmaceutical Science"=>{"Pharmacology, Toxicology and Pharmaceutical Science"=>2}}, "reader_count_by_country"=>{"United States"=>4, "Ukraine"=>1, "Brazil"=>1}, "group_count"=>3}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/770264"], "description"=>"<p>mRNA expression levels (from Affymetrix genechip hybridisation) and protein levels (from Western blots; <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020600#pone-0020600-g003\" target=\"_blank\">Fig. 3</a>) are given as the ratios between gliomas and control tissue. Up-regulated or down-regulated potential targeting miRNAs are indicated.</p><p>*ratios below 0.33 are in italics.</p><p>†ratios above 3 are in boldface.</p><p>‡undetectable levels in control and ODG.</p><p>∞undetectable levels in control samples.</p>", "links"=>[], "tags"=>["levels", "immunodetected", "proteins", "encoding"], "article_id"=>440611, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0020600.t003", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Expression_levels_of_immunodetected_proteins_and_their_encoding_mRNAs_/440611", "title"=>"Expression levels of immunodetected proteins and their encoding mRNAs.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-05-31 00:10:11"}
  • {"files"=>["https://ndownloader.figshare.com/files/769979"], "description"=>"<p><i>A,</i> tissular lysates from control brain samples, ODGs and GBMs were analyzed by western blot with antibodies directed against the proteins indicated on the left. Equal quantities of proteins loaded on the gel were ascertained by immunodetection of beta-actin. A full length blot for detection of MDH1 is presented in supplementary <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020600#pone.0020600.s003\" target=\"_blank\">Fig. S3</a>. <i>B,</i> network with miRNAs and proteins. Protein names: see <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020600#pone-0020600-t003\" target=\"_blank\">Table 3</a>; EP300: E1A binding protein p300; STAT3 Ac: acetylated form of STAT3; IL6: interleukin 6; HIF-1α: hypoxia inducible factor-1alpha.</p>", "links"=>[], "tags"=>["proteins", "synopsis", "cellular", "pathways", "interactions"], "article_id"=>440327, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0020600.g003", "stats"=>{"downloads"=>0, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Immunodetection_of_target_proteins_and_synopsis_of_their_roles_in_cellular_pathways_and_interactions_with_miRNAs_/440327", "title"=>"Immunodetection of target proteins and synopsis of their roles in cellular pathways and interactions with miRNAs.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-05-31 00:05:27"}
  • {"files"=>["https://ndownloader.figshare.com/files/386841", "https://ndownloader.figshare.com/files/386891", "https://ndownloader.figshare.com/files/386936", "https://ndownloader.figshare.com/files/386961", "https://ndownloader.figshare.com/files/386987", "https://ndownloader.figshare.com/files/387004", "https://ndownloader.figshare.com/files/387018", "https://ndownloader.figshare.com/files/387027", "https://ndownloader.figshare.com/files/387041"], "description"=>"<div><p>Gliomas such as oligodendrogliomas (ODG) and glioblastomas (GBM) are brain tumours with different clinical outcomes. Histology-based classification of these tumour types is often difficult. Therefore the first aim of this study was to gain microRNA data that can be used as reliable signatures of oligodendrogliomas and glioblastomas. We investigated the levels of 282 microRNAs using membrane-array hybridisation and real-time PCR in ODG, GBM and control brain tissues. In comparison to these control tissues, 26 deregulated microRNAs were identified in tumours and the tissue levels of seven microRNAs (miR-21, miR-128, miR-132, miR-134, miR-155, miR-210 and miR-409-5p) appropriately discriminated oligodendrogliomas from glioblastomas. Genomic, epigenomic and host gene expression studies were conducted to investigate the mechanisms involved in these deregulations. Another aim of this study was to better understand glioma physiopathology looking for targets of deregulated microRNAs. We discovered that some targets of these microRNAs such as STAT3, PTBP1 or SIRT1 are differentially expressed in gliomas consistent with deregulation of microRNA expression. Moreover, MDH1, the target of several deregulated microRNAs, is repressed in glioblastomas, making an intramitochondrial-NAD reduction mediated by the mitochondrial aspartate-malate shuttle unlikely. Understanding the connections between microRNAs and bioenergetic pathways in gliomas may lead to identification of novel therapeutic targets.</p> </div>", "links"=>[], "tags"=>["microrna", "patterns", "physiopathological", "features", "glioma", "subtypes"], "article_id"=>136361, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0020600.s001", "https://dx.doi.org/10.1371/journal.pone.0020600.s002", "https://dx.doi.org/10.1371/journal.pone.0020600.s003", "https://dx.doi.org/10.1371/journal.pone.0020600.s004", "https://dx.doi.org/10.1371/journal.pone.0020600.s005", "https://dx.doi.org/10.1371/journal.pone.0020600.s006", "https://dx.doi.org/10.1371/journal.pone.0020600.s007", "https://dx.doi.org/10.1371/journal.pone.0020600.s008", "https://dx.doi.org/10.1371/journal.pone.0020600.s009"], "stats"=>{"downloads"=>29, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/MicroRNA_and_Target_Protein_Patterns_Reveal_Physiopathological_Features_of_Glioma_Subtypes/136361", "title"=>"MicroRNA and Target Protein Patterns Reveal Physiopathological Features of Glioma Subtypes", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2011-05-31 01:46:01"}
  • {"files"=>["https://ndownloader.figshare.com/files/770171"], "description"=>"<p>miRNAs were assayed by real-time PCR and hybridisation in glioblastomas (GBM), oligodendrogliomas (ODG) and control brain tissues (N). miRNA ratios between the different tissues are reported as indicated. Statistical significance was assessed using ANOVA. All <i>P</i>-values were lower than 0.05 (and between 0.05 and 0.2 when indicated by *).</p><p>†ratios above 3 are in boldface.</p><p>‡ratios below 0.33 are in italics.</p><p>ND: not detected.</p>", "links"=>[], "tags"=>["mirnas", "gliomas"], "article_id"=>440526, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0020600.t001", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Deregulated_miRNAs_in_gliomas_versus_control_brain_tissue_/440526", "title"=>"Deregulated miRNAs in gliomas versus control brain tissue.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-05-31 00:08:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/770091"], "description"=>"<p>ACSS2: acyl-CoA synthetase short-chain family member 2; IDH1: isocitrate dehydrogenase 1 (NADP+), soluble1; GOT1: glutamic-oxaloacetic transaminase 1; GOT2: glutamic-oxaloacetic transaminase 2; MDH1: malate dehydrogenase 1, NAD (soluble); MDH2: malate dehydrogenase 2, NAD (mitochondrial); SIRT1: sirtuin 1. Inactivating mutations in IDH1 have been reported to be frequent in oligodendrogliomas <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020600#pone.0020600-Balss1\" target=\"_blank\">[8]</a>.</p>", "links"=>[], "tags"=>["pathways", "enzymatic", "idh1"], "article_id"=>440434, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0020600.g004", "stats"=>{"downloads"=>2, "page_views"=>29, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Metabolic_pathways_and_enzymatic_roles_of_MDH1_IDH1_and_SIRT1_/440434", "title"=>"Metabolic pathways and enzymatic roles of MDH1, IDH1 and SIRT1.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-05-31 00:07:14"}
  • {"files"=>["https://ndownloader.figshare.com/files/769735"], "description"=>"<p>Correlation between miRNA expression in ODG versus miRNA expression in GBM. Data were obtained by real-time PCR. ODG/N and GBM/N miRNA ratios are expressed in log<sub>10</sub>(ratio value). Triangles: miRNAs with a GBM/ODG ratio higher than 3 or lower than 0.33. Diagon illustrates identical expression of miRNAs in glioblastomas and oligodendrogliomas.</p>", "links"=>[], "tags"=>["mirnas"], "article_id"=>440088, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0020600.g001", "stats"=>{"downloads"=>2, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Deregulated_miRNAs_in_gliomas_/440088", "title"=>"Deregulated miRNAs in gliomas.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-05-31 00:01:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/769842"], "description"=>"<p>Promoter regions of seven different miRNA genes were analyzed for the presence of CpG islands and for their methylation level. DNA fragments amplified from CpG islands were analyzed by pyrosequencing as described in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020600#s2\" target=\"_blank\">Materials and Methods</a>. Two different CpG islands were investigated for miR-339 coding region upstream transcription start sites, TSS1 and TSS2. Methylation levels are reported as ratios between gliomas (GBM or ODG) versus control brain tissue (left y-axis). Black bars: GBM/N ratios; white bars: ODG/N ratios. GBM to ODG miRNA expression levels are reported in open triangles (right y-axis).</p>", "links"=>[], "tags"=>["levels", "cpg", "islands", "located", "upstream", "transcriptional", "starts", "mirna", "coding"], "article_id"=>440185, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0020600.g002", "stats"=>{"downloads"=>2, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Methylation_levels_of_CpG_islands_located_upstream_of_the_transcriptional_starts_of_miRNA_coding_regions_/440185", "title"=>"Methylation levels of CpG islands located upstream of the transcriptional starts of miRNA coding regions.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-05-31 00:03:05"}
  • {"files"=>["https://ndownloader.figshare.com/files/770216"], "description"=>"<p>Host gene expression levels in gliomas were assessed by Affymetrix genechip hybridisation and normalized to the expression levels in control brain tissue. The expression levels of the mature miRNAs measured by real-time PCR (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020600#pone-0020600-t001\" target=\"_blank\">Table 1</a>) are reported.</p><p>*ratios below 0.33 are in italics.</p><p>†ratios above 3 are in boldface.</p><p>‡miRNA loci corresponding to miRNAs that showed coexpression with their host genes in normal tissue as reported <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020600#pone.0020600-Baskerville1\" target=\"_blank\">[13]</a> are underlined.</p><p>§The 17 reported genes and transcribed regions host 19 different miRNA loci that code for 15 mature miRNAs.</p>", "links"=>[], "tags"=>["molecular biology", "oncology"], "article_id"=>440571, "categories"=>["Cancer", "Molecular Biology"], "users"=>["Elodie Lages", "Audrey Guttin", "Michèle El Atifi", "Claire Ramus", "Hélène Ipas", "Isabelle Dupré", "Delphine Rolland", "Caroline Salon", "Catherine Godfraind", "Florence deFraipont", "Mehdi Dhobb", "Laurent Pelletier", "Didier Wion", "Emmanuel Gay", "François Berger", "Jean-Paul Issartel"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0020600.t002", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_miRNA_host_gene_expression_in_gliomas_/440571", "title"=>"miRNA host gene expression in gliomas.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-05-31 00:09:31"}

PMC Usage Stats | Further Information

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