{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,24]],"date-time":"2025-09-24T10:20:41Z","timestamp":1758709241424,"version":"3.40.4"},"reference-count":43,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T00:00:00Z","timestamp":1748736000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T00:00:00Z","timestamp":1748736000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T00:00:00Z","timestamp":1748736000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T00:00:00Z","timestamp":1748736000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T00:00:00Z","timestamp":1748736000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T00:00:00Z","timestamp":1748736000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T00:00:00Z","timestamp":1748736000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Gene"],"published-print":{"date-parts":[[2025,6]]},"DOI":"10.1016\/j.gene.2025.149363","type":"journal-article","created":{"date-parts":[[2025,3,8]],"date-time":"2025-03-08T22:49:17Z","timestamp":1741474157000},"page":"149363","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":1,"special_numbering":"C","title":["Transcriptome analysis and lncRNA expression profile in brain tissues of neonatal hypoxic-ischemic brain damage rat model"],"prefix":"10.1016","volume":"952","author":[{"given":"Limin","family":"Wang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yanni","family":"Gu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chaobin","family":"Shen","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"issue":"4","key":"10.1016\/j.gene.2025.149363_b0005","doi-asserted-by":"crossref","first-page":"397","DOI":"10.1001\/jamapediatrics.2014.3269","article-title":"Hypoxic-ischemic encephalopathy: a review for the clinician","volume":"169","author":"Douglas-Escobar","year":"2015","journal-title":"JAMA Pediatr."},{"key":"10.1016\/j.gene.2025.149363_b0010","doi-asserted-by":"crossref","first-page":"37","DOI":"10.1016\/j.jpeds.2016.11.019","article-title":"Safety and short-term outcomes of therapeutic hypothermia in preterm neonates 34-35 weeks gestational age with hypoxic-ischemic encephalopathy","volume":"183","author":"Rao","year":"2017","journal-title":"J Pediatr."},{"issue":"6","key":"10.1016\/j.gene.2025.149363_b0015","doi-asserted-by":"crossref","first-page":"1298","DOI":"10.1016\/j.cell.2013.02.012","article-title":"Long noncoding RNAs: cellular address codes in development and disease","volume":"152","author":"Batista","year":"2013","journal-title":"Cell"},{"issue":"3","key":"10.1016\/j.gene.2025.149363_b0020","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1038\/nrg2521","article-title":"Long non-coding RNAs: insights into functions","volume":"10","author":"Mercer","year":"2009","journal-title":"Nat. Rev. Genet."},{"issue":"8","key":"10.1016\/j.gene.2025.149363_b0025","doi-asserted-by":"crossref","first-page":"528","DOI":"10.1038\/nrn3234","article-title":"Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease","volume":"13","author":"Qureshi","year":"2012","journal-title":"Nat. Rev. Neurosci."},{"key":"10.1016\/j.gene.2025.149363_b0030","doi-asserted-by":"crossref","first-page":"162","DOI":"10.1016\/j.expneurol.2015.12.014","article-title":"Altered long non-coding RNA transcriptomic profiles in brain microvascular endothelium after cerebral ischemia","volume":"277","author":"Zhang","year":"2016","journal-title":"Exp. Neurol."},{"issue":"1","key":"10.1016\/j.gene.2025.149363_b0035","doi-asserted-by":"crossref","DOI":"10.1002\/jcla.22629","article-title":"Circulating long noncoding RNA ANRIL downregulation correlates with increased risk, higher disease severity and elevated pro-inflammatory cytokines in patients with acute ischemic stroke","volume":"33","author":"Feng","year":"2019","journal-title":"J. Clin. Lab. Anal."},{"issue":"2","key":"10.1016\/j.gene.2025.149363_b0040","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1016\/j.neulet.2004.12.080","article-title":"A role for hypoxia-inducible factor-1alpha in desferoxamine neuroprotection","volume":"379","author":"Hamrick","year":"2005","journal-title":"Neurosci. Lett."},{"issue":"2","key":"10.1016\/j.gene.2025.149363_b0045","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1016\/S0092-8674(04)00045-5","article-title":"MicroRNAs: genomics, biogenesis, mechanism, and function","volume":"116","author":"Bartel","year":"2004","journal-title":"Cell"},{"issue":"3","key":"10.1016\/j.gene.2025.149363_b0050","first-page":"2503","article-title":"MicroRNA-448 serves a pivotal role in hypoxia\/reoxygenation injury by modulating oxidative stress and apoptosis in cardiomyocytes via targeting Nrf2","volume":"121","author":"Xiao","year":"2020","journal-title":"J. Cell Biochem."},{"key":"10.1016\/j.gene.2025.149363_b0055","first-page":"2113","article-title":"Correlation of increased expression of MicroRNA-155 in bladder tissue with severity of interstitial cystitis\/bladder pain syndrome","volume":"25","author":"Wang","year":"2019","journal-title":"Med. Sci. Monit."},{"key":"10.1016\/j.gene.2025.149363_b0060","first-page":"1","article-title":"The neurological outcome of perinatal asphyxia","author":"Volpe","year":"1987","journal-title":"Early Brain Dev. Infant."},{"key":"10.1016\/j.gene.2025.149363_b0065","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1016\/j.expneurol.2014.07.009","article-title":"Detecting brain injury in neonatal hypoxic ischemic encephalopathy: closing the gap between experimental and clinical research","volume":"261","author":"Aridas","year":"2014","journal-title":"Exp Neurol."},{"issue":"9","key":"10.1016\/j.gene.2025.149363_b0070","doi-asserted-by":"crossref","first-page":"1121","DOI":"10.1038\/aps.2013.89","article-title":"Inflammatory responses in hypoxic ischemic encephalopathy","volume":"34","author":"Liu","year":"2013","journal-title":"Acta Pharmacol. Sin."},{"key":"10.1016\/j.gene.2025.149363_b0075","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1186\/1742-2094-10-24","article-title":"Cerebral ischemia initiates an immediate innate immune response in neonates during cardiac surgery","volume":"10","author":"Algra","year":"2013","journal-title":"J. Neuroinflammation."},{"issue":"1\u20132","key":"10.1016\/j.gene.2025.149363_b0080","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1016\/S0165-3806(02)00636-3","article-title":"Effects of interleukin-10 on neonatal excitotoxic brain lesions in mice","volume":"141","author":"Mesples","year":"2003","journal-title":"Brain Res. Dev. Brain Res."},{"issue":"1","key":"10.1016\/j.gene.2025.149363_b0085","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1111\/rda.12230","article-title":"Oxidative stress in neonatology: a review","volume":"49","author":"Mutinati","year":"2014","journal-title":"Reprod. Domest. Anim."},{"issue":"3","key":"10.1016\/j.gene.2025.149363_b0090","doi-asserted-by":"crossref","first-page":"e722","DOI":"10.1542\/peds.2008-0269","article-title":"Free radical injury and blood-brain barrier permeability in hypoxic-ischemic encephalopathy","volume":"122","author":"Kumar","year":"2008","journal-title":"Pediatrics."},{"issue":"2\u20134","key":"10.1016\/j.gene.2025.149363_b0095","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1159\/000085978","article-title":"Perinatal hypoxic-ischemic brain damage: evolution of an animal model","volume":"27","author":"Vannucci","year":"2005","journal-title":"Dev. Neurosci."},{"issue":"15","key":"10.1016\/j.gene.2025.149363_b0100","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics."},{"issue":"4","key":"10.1016\/j.gene.2025.149363_b0105","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.3317","article-title":"HISAT: a fast spliced aligner with low memory requirements","volume":"12","author":"Kim","year":"2015","journal-title":"Nat Methods."},{"issue":"16","key":"10.1016\/j.gene.2025.149363_b0110","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The Sequence Alignment\/Map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"issue":"3","key":"10.1016\/j.gene.2025.149363_b0115","doi-asserted-by":"crossref","first-page":"290","DOI":"10.1038\/nbt.3122","article-title":"StringTie enables improved reconstruction of a transcriptome from RNA-seq reads","volume":"33","author":"Pertea","year":"2015","journal-title":"Nat. Biotechnol."},{"issue":"12","key":"10.1016\/j.gene.2025.149363_b0120","doi-asserted-by":"crossref","first-page":"550","DOI":"10.1186\/s13059-014-0550-8","article-title":"Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2","volume":"15","author":"Love","year":"2014","journal-title":"Genome. Biol."},{"issue":"5","key":"10.1016\/j.gene.2025.149363_b0125","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1089\/omi.2011.0118","article-title":"clusterProfiler: an R package for comparing biological themes among gene clusters","volume":"16","author":"Yu","year":"2012","journal-title":"OMICS"},{"issue":"Database issue","key":"10.1016\/j.gene.2025.149363_b0130","first-page":"D149","article-title":"The microRNA.org resource: targets and expression","volume":"36","author":"Betel","year":"2008","journal-title":"Nucleic Acids Res."},{"issue":"D1","key":"10.1016\/j.gene.2025.149363_b0135","doi-asserted-by":"crossref","first-page":"D296","DOI":"10.1093\/nar\/gkx1067","article-title":"miRTarBase update 2018: a resource for experimentally validated microRNA-target interactions","volume":"46","author":"Chou","year":"2018","journal-title":"Nucleic Acids Res."},{"issue":"11","key":"10.1016\/j.gene.2025.149363_b0140","doi-asserted-by":"crossref","first-page":"2498","DOI":"10.1101\/gr.1239303","article-title":"Cytoscape: a software environment for integrated models of biomolecular interaction networks","volume":"13","author":"Shannon","year":"2003","journal-title":"Genome Res."},{"issue":"4","key":"10.1016\/j.gene.2025.149363_b0145","doi-asserted-by":"crossref","first-page":"402","DOI":"10.1006\/meth.2001.1262","article-title":"Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method","volume":"25","author":"Livak","year":"2001","journal-title":"Methods"},{"key":"10.1016\/j.gene.2025.149363_b0150","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1186\/1742-2094-10-23","article-title":"Toll-like receptor 4 mediates microglial activation and production of inflammatory mediators in neonatal rat brain following hypoxia: role of TLR4 in hypoxic microglia","volume":"10","author":"Yao","year":"2013","journal-title":"J. Neuroinflammation."},{"issue":"8","key":"10.1016\/j.gene.2025.149363_b0155","doi-asserted-by":"crossref","first-page":"2588","DOI":"10.1523\/JNEUROSCI.5832-08.2009","article-title":"Developmental shift of cyclophilin D contribution to hypoxic-ischemic brain injury","volume":"29","author":"Wang","year":"2009","journal-title":"J. Neurosci."},{"issue":"5","key":"10.1016\/j.gene.2025.149363_b0160","doi-asserted-by":"crossref","first-page":"861","DOI":"10.1016\/j.neuron.2015.09.045","article-title":"Mechanisms of long non-coding RNAs in mammalian nervous system development, plasticity, disease, and evolution","volume":"88","author":"Briggs","year":"2015","journal-title":"Neuron."},{"key":"10.1016\/j.gene.2025.149363_b0165","doi-asserted-by":"crossref","first-page":"69","DOI":"10.1016\/j.brainresbull.2013.06.001","article-title":"Roles of long noncoding RNAs in brain development, functional diversification and neurodegenerative diseases","volume":"97","author":"Wu","year":"2013","journal-title":"Brain Res. Bull."},{"key":"10.1016\/j.gene.2025.149363_b0170","doi-asserted-by":"crossref","first-page":"202","DOI":"10.1016\/j.nbd.2016.02.011","article-title":"Inhibition of microRNA-210 provides neuroprotection in hypoxic-ischemic brain injury in neonatal rats","volume":"89","author":"Ma","year":"2016","journal-title":"Neurobiol. Dis."},{"issue":"2","key":"10.1016\/j.gene.2025.149363_b0175","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1007\/s00221-011-2925-3","article-title":"Upregulated miR-29b promotes neuronal cell death by inhibiting Bcl2L2 after ischemic brain injury","volume":"216","author":"Shi","year":"2012","journal-title":"Exp. Brain Res."},{"issue":"2","key":"10.1016\/j.gene.2025.149363_b0180","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1016\/j.mito.2011.09.001","article-title":"Mir-181 targets multiple Bcl-2 family members and influences apoptosis and mitochondrial function in astrocytes","volume":"12","author":"Uyang","year":"2012","journal-title":"Mitochondrion"},{"issue":"2","key":"10.1016\/j.gene.2025.149363_b0185","doi-asserted-by":"crossref","first-page":"157","DOI":"10.1016\/0361-9230(90)90200-J","article-title":"Effects of acute hypoxia on neonatal rat brain: regionally selective, long-term alterations in catecholamine levels and turnover","volume":"24","author":"Seidler","year":"1990","journal-title":"Brain Res. Bull."},{"issue":"5","key":"10.1016\/j.gene.2025.149363_b0190","doi-asserted-by":"crossref","first-page":"28","DOI":"10.21037\/pm-20-104","article-title":"Mechanisms of tertiary neurodegeneration after neonatal hypoxic-ischemic brain damage","volume":"28","author":"Levison","year":"2022","journal-title":"Pediatr. Med."},{"issue":"4","key":"10.1016\/j.gene.2025.149363_b0195","first-page":"309","article-title":"The vulnerability of the neonatal rat brain to hypoxic-ischemic injury at postnatal day 4","volume":"39","author":"Johnson","year":"2017","journal-title":"Dev. Neurosci."},{"issue":"2","key":"10.1016\/j.gene.2025.149363_b0200","doi-asserted-by":"crossref","first-page":"199","DOI":"10.33549\/physiolres.934198","article-title":"Impact of perinatal hypoxia on the developing brain","volume":"69","author":"Pie\u0161ov\u00e1","year":"2020","journal-title":"Physiol. Res."},{"key":"10.1016\/j.gene.2025.149363_b0205","doi-asserted-by":"crossref","first-page":"15583","DOI":"10.3390\/ijms242115583","article-title":"Early Neuroprotective Effects of Bovine Lactoferrin Associated with Hypothermia after Neonatal Brain Hypoxia-Ischemia in Rats","volume":"24","author":"Sanches","year":"2023","journal-title":"Int. J. Mol. Sci."},{"issue":"11","key":"10.1016\/j.gene.2025.149363_b0210","doi-asserted-by":"crossref","first-page":"78","DOI":"10.3389\/fncel.2017.00078","article-title":"Neonatal hypoxia ischaemia: mechanisms, models, and therapeutic challenges","volume":"8","author":"Millar","year":"2017","journal-title":"Front. Cell Neurosci."},{"issue":"20","key":"10.1016\/j.gene.2025.149363_b0215","doi-asserted-by":"crossref","first-page":"6653","DOI":"10.3390\/jcm12206653","article-title":"Advances in therapies to treat neonatal hypoxic-ischemic encephalopathy","volume":"12","author":"Ranjan","year":"2023","journal-title":"J. Clin. Med."}],"container-title":["Gene"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0378111925001519?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0378111925001519?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,4,9]],"date-time":"2025-04-09T21:11:48Z","timestamp":1744233108000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0378111925001519"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,6]]},"references-count":43,"alternative-id":["S0378111925001519"],"URL":"https:\/\/doi.org\/10.1016\/j.gene.2025.149363","relation":{},"ISSN":["0378-1119"],"issn-type":[{"type":"print","value":"0378-1119"}],"subject":[],"published":{"date-parts":[[2025,6]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Transcriptome analysis and lncRNA expression profile in brain tissues of neonatal hypoxic-ischemic brain damage rat model","name":"articletitle","label":"Article Title"},{"value":"Gene","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.gene.2025.149363","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2025 Elsevier B.V. All rights are reserved, including those for text and data mining, AI training, and similar technologies.","name":"copyright","label":"Copyright"}],"article-number":"149363"}}