biostudies-literatureModi ACCR NIH HHSChildren's Oncology GroupNational Cancer InstituteNHGRI NIH HHSNCI NIH HHSNational Human Genome Research Institute3462-3477https://www.ebi.ac.uk/biostudies/studies/S-EPMC10787516biostudies-literatureUnknown83(20)Long noncoding RNAs (lncRNA) play an important role in gene regulation and contribute to tumorigenesis. While pan-cancer studies of lncRNA expression have been performed for adult malignancies, the lncRNA landscape across pediatric cancers remains largely uncharted. Here, we curated RNA sequencing data for 1,044 pediatric leukemia and extracranial solid tumors and integrated paired tumor whole genome sequencing and epigenetic data in relevant cell line models to explore lncRNA expression, regulation, and association with cancer. A total of 2,657 lncRNAs were robustly expressed across six pediatric cancers, including 1,142 exhibiting histotype-elevated expression. DNA copy number alterations contributed to lncRNA dysregulation at a proportion comparable to protein coding genes. Application Cancer researchIntegrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors.PMC10787516R01CA124709R01 CA237562R01 CA124709CA098543R01 HG010067X01HL136997U10 CA098543R01CA237562HHSN261200800001ER01 CA204974R01HG010067R03CA230366T32HG46-18HHSN261200800001CR03 CA230366Gadd SMaris JMSu CZhang JCheung DMeshinchi SLeung TCJohnson MEConkrite KLRamanan SGrant SFAWells ADDiskin SJLopez GHunger SPModi ASmith MAPerlman EJManduchi EGuidry Auvil JMfalseIntegrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors.Long noncoding RNAs (lncRNA) play an important role in gene regulation and contribute to tumorigenesis. While pan-cancer studies of lncRNA expression have been performed for adult malignancies, the lncRNA landscape across pediatric cancers remains largely uncharted. Here, we curated RNA sequencing data for 1,044 pediatric leukemia and extracranial solid tumors and integrated paired tumor whole genome sequencing and epigenetic data in relevant cell line models to explore lncRNA expression, regulation, and association with cancer. A total of 2,657 lncRNAs were robustly expressed across six pediatric cancers, including 1,142 exhibiting histotype-elevated expression. DNA copy number alterations contributed to lncRNA dysregulation at a proportion comparable to protein coding genes. Application 2023-01-01T00:00:00Z2023 Oct2026-06-04T05:53:32.229Z2026-05-05T03:13:21.95ZS-EPMC107875163758451710.1158/0008-5472.CAN-22-318610.1158/0008-5472.can-22-3186