title: Differentially Expressed Long Non-Coding RNAs Were Predicted to Be Involved in the Control of Signaling Pathways in Pediatric Astrocytoma.
abstract: Expression changes for long non-coding RNAs (lncRNAs) have been identified in adult glioblastoma multiforme (GBM) and in a mixture of adult and pediatric astrocytoma. Since adult and pediatric astrocytomas are molecularly different, the mixture of both could mask specific features in each. We determined the global expression patterns of lncRNAs and messenger RNA (mRNAs) in pediatric astrocytoma of different histological grades. Transcript expression changes were determined with an HTA 2.0 array. lncRNA interactions with microRNAs and mRNAs were predicted by using an algorithm and the LncTar tool, respectively. Interactomes were constructed with the HIPPIE database and visualized with the Cytoscape platform. The array showed expression changes in 156 and 207 lncRNAs in tumors (versus the control) and in pediatric GBM (versus low-grade astrocytoma), respectively. Predictions identified lncRNAs that have putative microRNA binding sites, which might suggest that they function as sponges in these tumors. Also, lncRNAs were shown to interact with many mRNAs, such as Pleckstrin homology-like domain, family A, member 1 (PHLDA1) and sulfatase 2 (SULF2). For example, qPCR found long intergenic non-coding RNA regulator of reprogramming (linc-RoR) expression levels upregulated in pediatric GBM when they were compared with control tissues or with low-grade tumors. Meanwhile, PHLDA1 and ELAV-like RNA binding protein 1 (ELAV1) showed expression changes in tumors relative to the control. Our data showed many lncRNAs with expression changes in pediatric astrocytoma, which might be involved in the regulation of different signaling pathways.
authors.affiliation: Functional Genomics Laboratory, Unit of Human Genetics Research, Children's Hospital, "Dr. Silvestre Frenk Freund," National Medical Center Century XXI, Mexican Institute of Social Security (IMSS), 06720, Mexico City, Mexico.
authors.forename: Ruth
authors.initials: R
authors.lastname: Ruiz Esparza-Garrido
authors.affiliation: Functional Genomics Laboratory, Unit of Human Genetics Research, Children's Hospital, "Dr. Silvestre Frenk Freund," National Medical Center Century XXI, Mexican Institute of Social Security (IMSS), 06720, Mexico City, Mexico.
authors.forename: Juan Manuel
authors.initials: JM
authors.lastname: Rodríguez-Corona
authors.affiliation: Oncology Department, Children's Hospital, "Dr. Silvestre Frenk Freund," National Medical Center Century XXI, Mexican Institute of Social Security (IMSS), 06720, Mexico City, Mexico.
authors.forename: Javier Enrique
authors.initials: JE
authors.lastname: López-Aguilar
authors.affiliation: Oncology Department, Children's Hospital, "Dr. Silvestre Frenk Freund," National Medical Center Century XXI, Mexican Institute of Social Security (IMSS), 06720, Mexico City, Mexico.
authors.forename: Marco Antonio
authors.initials: MA
authors.lastname: Rodríguez-Florido
authors.affiliation: Functional Genomics Laboratory, Unit of Human Genetics Research, Children's Hospital, "Dr. Silvestre Frenk Freund," National Medical Center Century XXI, Mexican Institute of Social Security (IMSS), 06720, Mexico City, Mexico.
authors.forename: Ana Claudia
authors.initials: AC
authors.lastname: Velázquez-Wong
authors.affiliation: Developmental Biology Laboratory, Unit of Morphology and Cellular Function, Faculty of Higher Education Iztacala, National Autonomous University of Mexico, 54090, Tlalnepantla, State of Mexico, Mexico.
authors.forename: Rubí
authors.initials: R
authors.lastname: Viedma-Rodríguez
authors.affiliation: Health Research Coordination, National Medical Center Century XXI, Mexican Institute of Social Security (IMSS), 06720, Mexico City, Mexico.
authors.forename: Fabio
authors.initials: F
authors.lastname: Salamanca-Gómez
authors.affiliation: Functional Genomics Laboratory, Unit of Human Genetics Research, Children's Hospital, "Dr. Silvestre Frenk Freund," National Medical Center Century XXI, Mexican Institute of Social Security (IMSS), 06720, Mexico City, Mexico. dr.velazquez.imss@gmail.com.
authors.forename: Miguel Ángel
authors.initials: MÁ
authors.lastname: Velázquez-Flores
mesh_terms: D000293:Adolescent; D001254:Astrocytoma / Q000235:genetics / Q000378:metabolism*; D001932:Brain Neoplasms / Q000235:genetics / Q000378:metabolism*; D002648:Child; D002675:Child, Preschool; D005260:Female; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D007223:Infant; D008297:Male; D062085:RNA, Long Noncoding / Q000235:genetics / Q000378:metabolism*; D015398:Signal Transduction / Q000502:physiology*
chemical_list: D062085:RNA, Long Noncoding
keywords: Bioinformatic prediction; Interactome; Long non-coding RNAs; Pediatric astrocytoma; Sponge RNAs