{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,27]],"date-time":"2026-09-27T03:17:20Z","timestamp":1790479040655,"version":"4.1.0"},"reference-count":83,"publisher":"Elsevier BV","issue":"1","license":[{"start":{"date-parts":[[2021,1,1]],"date-time":"2021-01-01T00:00:00Z","timestamp":1609459200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2021,1,1]],"date-time":"2021-01-01T00:00:00Z","timestamp":1609459200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2022,7,1]],"date-time":"2022-07-01T00:00:00Z","timestamp":1656633600000},"content-version":"vor","delay-in-days":546,"URL":"http:\/\/www.elsevier.com\/open-access\/userlicense\/1.0\/"}],"funder":[{"DOI":"10.13039\/501100001503","name":"Indian Council of Agricultural Research","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001503","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001409","name":"Department of Science and Technology, Ministry of Science and Technology, India","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001409","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001843","name":"Science and Engineering Research Board","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001843","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Genomics"],"published-print":{"date-parts":[[2021,1]]},"DOI":"10.1016\/j.ygeno.2020.11.023","type":"journal-article","created":{"date-parts":[[2020,11,29]],"date-time":"2020-11-29T17:26:50Z","timestamp":1606670810000},"page":"29-43","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":17,"special_numbering":"P1","title":["Genome-wide identification of novel long non-coding RNAs and their possible roles in hypoxic zebrafish brain"],"prefix":"10.1016","volume":"113","author":[{"given":"Bodhisattwa","family":"Banerjee","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Debaprasad","family":"Koner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Karasik","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nirmalendu","family":"Saha","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.ygeno.2020.11.023_bb0005","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1038\/nature11233","article-title":"Landscape of transcription in human cells","volume":"489","author":"Djebali","year":"2012","journal-title":"Nature."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0010","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pgen.1003569","article-title":"Pervasive transcription of the human genome produces thousands of previously unidentified Long Intergenic noncoding RNAs","volume":"9","author":"Hangauer","year":"2013","journal-title":"PLoS Genet."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0015","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gks776","article-title":"Genome-wide analysis reveals distinct patterns of epigenetic features in long non-coding RNA loci","volume":"40","author":"Sati","year":"2012","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0020","doi-asserted-by":"crossref","first-page":"1446","DOI":"10.1101\/gr.152942.112","article-title":"CCAT2, a novel noncoding RNA mapping to 8q24, underlies metastatic progression and chromosomal instability in colon cancer","volume":"23","author":"Ling","year":"2013","journal-title":"Genome Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0025","doi-asserted-by":"crossref","first-page":"752","DOI":"10.1016\/j.stem.2014.05.014","article-title":"Long noncoding RNAs in cell-fate programming and reprogramming","volume":"14","author":"Flynn","year":"2014","journal-title":"Cell Stem Cell"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0030","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1038\/nrg.2015.10","article-title":"Unique features of long non-coding RNA biogenesis and function","volume":"17","author":"Quinn","year":"2016","journal-title":"Nat. Rev. Genet."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0035","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0017514","article-title":"Scaling of brain metabolism with a fixed energy budget per neuron: implications for neuronal activity, plasticity and evolution","volume":"6","author":"Herculano-Houzel","year":"2011","journal-title":"PLoS One"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0040","doi-asserted-by":"crossref","first-page":"189","DOI":"10.3389\/fgene.2014.00189","article-title":"Using the zebrafish model for Alzheimer's disease research","volume":"5","author":"Newman","year":"2014","journal-title":"Front. Genet."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0045","doi-asserted-by":"crossref","first-page":"1029","DOI":"10.1083\/jcb.200609074","article-title":"The Qo site of the mitochondrial complex III is required for the transduction of hypoxic signaling via reactive oxygen species production","volume":"177","author":"Bell","year":"2007","journal-title":"J. Cell Biol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0050","doi-asserted-by":"crossref","first-page":"353","DOI":"10.1038\/nrg2091","article-title":"Animal models of human disease: Zebrafish swim into view","volume":"8","author":"Lieschke","year":"2007","journal-title":"Nat. Rev. Genet."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0055","doi-asserted-by":"crossref","first-page":"252","DOI":"10.1016\/S0959-437X(00)00074-5","article-title":"Zebrafish: a model system for the study of human disease","volume":"10","author":"Dooley","year":"2000","journal-title":"Curr. Opin. Genet. Dev."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0060","doi-asserted-by":"crossref","first-page":"179","DOI":"10.1097\/FBP.0000000000000284","article-title":"Alzheimer's disease in the zebrafish: where can we take it?","volume":"28","author":"Caramillo","year":"2017","journal-title":"Behav. Pharmacol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0065","doi-asserted-by":"crossref","first-page":"1537","DOI":"10.1016\/j.cell.2011.11.055","article-title":"Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution","volume":"147","author":"Ulitsky","year":"2011","journal-title":"Cell."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0070","doi-asserted-by":"crossref","first-page":"577","DOI":"10.1101\/gr.133009.111","article-title":"Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis","volume":"22","author":"Pauli","year":"2012","journal-title":"Genome Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0075","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0083616","article-title":"Dynamic expression of long non-coding RNAs (lncRNAs) in adult zebrafish","volume":"8","author":"Kaushik","year":"2013","journal-title":"PLoS One"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0080","doi-asserted-by":"crossref","first-page":"1537","DOI":"10.1016\/j.cell.2011.11.055","article-title":"Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution","volume":"147","author":"Ulitsky","year":"2011","journal-title":"Cell."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0085","doi-asserted-by":"crossref","DOI":"10.1093\/database\/bay114","article-title":"ZFLNC: a comprehensive and well-annotated database for zebrafish lncRNA","volume":"2018","author":"Hu","year":"2018","journal-title":"Database."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0090","doi-asserted-by":"crossref","first-page":"1938","DOI":"10.1101\/gr.153692.112","article-title":"Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis","volume":"23","author":"Nepal","year":"2013","journal-title":"Genome Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0095","first-page":"D87","article-title":"JASPAR 2020: update of the open-access database of transcription factor binding profiles","volume":"48","author":"Fornes","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0100","doi-asserted-by":"crossref","unstructured":"K. Howe, M.D. Clark, C.F. Torroja, J. Torrance, C. Berthelot, M. Muffato, J.E. Collins, S. Humphray, K. McLaren, L. Matthews, S. McLaren, I. Sealy, M. Caccamo, C. Churcher, C. Scott, J.C. Barrett, R. Koch, G.-J. Rauch, S. White, W. Chow, B. Kilian, L.T. Quintais, J.A. Guerra-Assun\u00e7\u00e3o, Y. Zhou, Y. Gu, J. Yen, J.-H. Vogel, T. Eyre, S. Redmond, R. Banerjee, J. Chi, B. Fu, E. Langley, S.F. Maguire, G.K. Laird, D. Lloyd, E. Kenyon, S. Donaldson, H. Sehra, J. Almeida-King, J. Loveland, S. Trevanion, M. Jones, M. Quail, D. Willey, A. Hunt, J. Burton, S. Sims, K. McLay, B. Plumb, J. Davis, C. Clee, K. Oliver, R. Clark, C. Riddle, D. Elliott, G. Threadgold, G. Harden, D. Ware, S. Begum, B. Mortimore, G. Kerry, P. Heath, B. Phillimore, A. Tracey, N. Corby, M. Dunn, C. Johnson, J. Wood, S. Clark, S. Pelan, G. Griffiths, M. Smith, R. Glithero, P. Howden, N. Barker, C. Lloyd, C. Stevens, J. Harley, K. Holt, G. Panagiotidis, J. Lovell, H. Beasley, C. Henderson, D. Gordon, K. Auger, D. Wright, J. Collins, C. Raisen, L. Dyer, K. Leung, L. Robertson, K. Ambridge, D. Leongamornlert, S. McGuire, R. Gilderthorp, C. Griffiths, D. Manthravadi, S. Nichol, G. Barker, S. Whitehead, M. Kay, J. Brown, C. Murnane, E. Gray, M. Humphries, N. Sycamore, D. Barker, D. Saunders, J. Wallis, A. Babbage, S. Hammond, M. Mashreghi-Mohammadi, L. Barr, S. Martin, P. Wray, A. Ellington, N. Matthews, M. Ellwood, R. Woodmansey, G. Clark, J.D. Cooper, A. Tromans, D. Grafham, C. Skuce, R. Pandian, R. Andrews, E. Harrison, A. Kimberley, J. Garnett, N. Fosker, R. Hall, P. Garner, D. Kelly, C. Bird, S. Palmer, I. Gehring, A. Berger, C.M. Dooley, Z. Ersan-\u00dcr\u00fcn, C. Eser, H. Geiger, M. Geisler, L. Karotki, A. Kirn, J. Konantz, M. Konantz, M. Oberl\u00e4nder, S. Rudolph-Geiger, M. Teucke, C. Lanz, G. Raddatz, K. Osoegawa, B. Zhu, A. Rapp, S. Widaa, C. Langford, F. Yang, S.C. Schuster, N.P. Carter, J. Harrow, Z. Ning, J. Herrero, S.M.J. Searle, A. Enright, R. Geisler, R.H.A. Plasterk, C. Lee, M. Westerfield, P.J. de Jong, L.I. Zon, J.H. Postlethwait, C. N\u00fcsslein-Volhard, T.J.P. Hubbard, H.R. Crollius, J. Rogers, D.L. Stemple, The zebrafish reference genome sequence and its relationship to the human genome, Nature. 496 (2013) 498\u2013503. doi.https:\/\/doi.org\/10.1038\/nature12111.","DOI":"10.1038\/nature12111"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0105","doi-asserted-by":"crossref","first-page":"30","DOI":"10.1159\/000229011","article-title":"An evolutionary interpretation of Teleostean forebrain anatomy","volume":"74","author":"Mueller","year":"2009","journal-title":"Brain Behav. Evol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0110","series-title":"The Brain of the Zebrafish Danio rerio: An Overview, in: Neuroanat","first-page":"7","author":"Wullimann","year":"1996"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0115","series-title":"Introduction: Neuroanatomy for a Neurogenetic Model System, in: Neuroanat","first-page":"1","author":"Wullimann","year":"1996"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0120","doi-asserted-by":"crossref","first-page":"259","DOI":"10.1159\/000113278","article-title":"Comparative aspects of forebrain Organization in the ray-Finned Fishes: touchstones or not?","volume":"46","author":"Braford","year":"1995","journal-title":"Brain Behav. Evol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0125","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1038\/s41420-018-0109-7","article-title":"Zebrafish: an emerging real-time model system to study Alzheimer's disease and neurospecific drug discovery","volume":"4","author":"Saleem","year":"2018","journal-title":"Cell Death Discov."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0130","first-page":"268","article-title":"Can zebrafish be used as a model to study the neurodevelopmental causes of autism?, genes","volume":"2","author":"Tropepe","year":"2003","journal-title":"Brain Behav."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0135","doi-asserted-by":"crossref","first-page":"69","DOI":"10.1146\/annurev-genom-090314-024939","article-title":"The properties of Long noncoding RNAs that regulate chromatin","volume":"17","author":"Rutenberg-Schoenberg","year":"2016","journal-title":"Annu. Rev. Genomics Hum. Genet."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0140","first-page":"1","article-title":"The identification and characterization of novel transcripts from RNA-seq data","volume":"17","author":"Weirick","year":"2015","journal-title":"Brief. Bioinform."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0145","first-page":"1","article-title":"Hypoxia alters expression of Zebrafish microtubule-associated protein tau (mapta, maptb) gene transcripts","volume":"7","author":"Nik","year":"2014","journal-title":"BMC Res. Notes."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0150","doi-asserted-by":"crossref","first-page":"155","DOI":"10.3389\/fphys.2014.00155","article-title":"Recent advances in the involvement of long non-coding RNAs in neural stem cell biology and brain pathophysiology","volume":"5","author":"Antoniou","year":"2014","journal-title":"Front. Physiol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0155","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1016\/j.neulet.2015.12.025","article-title":"Uncovering the roles of long noncoding RNAs in neural development and glioma progression","volume":"625","author":"Ramos","year":"2016","journal-title":"Neurosci. Lett."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0160","doi-asserted-by":"crossref","DOI":"10.1098\/rstb.2013.0507","article-title":"The role of long non-coding RNAs in neurodevelopment, brain function and neurological disease","volume":"369","author":"Roberts","year":"2014","journal-title":"Philos. Trans. R. Soc. B Biol. Sci."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0165","doi-asserted-by":"crossref","first-page":"12463","DOI":"10.1074\/jbc.R109.080895","article-title":"Calcium signaling and amyloid toxicity in Alzheimer disease","volume":"285","author":"Demuro","year":"2010","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0170","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1016\/j.npep.2018.05.008","article-title":"Apelin, a promising target for Alzheimer disease prevention and treatment","volume":"70","author":"Masoumi","year":"2018","journal-title":"Neuropeptides."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0175","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1186\/s13059-016-0932-1","article-title":"Single-cell analysis of long non-coding RNAs in the developing human neocortex","volume":"17","author":"Liu","year":"2016","journal-title":"Genome Biol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0180","doi-asserted-by":"crossref","first-page":"589","DOI":"10.1007\/s12031-012-9880-8","article-title":"Aberrant expression of Long noncoding RNAs in autistic brain","volume":"49","author":"Ziats","year":"2013","journal-title":"J. Mol. Neurosci."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0185","doi-asserted-by":"crossref","first-page":"63","DOI":"10.3389\/fncel.2015.00063","article-title":"Transcriptome analyses of adult mouse brain reveal enrichment of lncRNAs in specific brain regions and neuronal populations","volume":"9","author":"Kadakkuzha","year":"2015","journal-title":"Front. Cell. Neurosci."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0190","doi-asserted-by":"crossref","first-page":"483","DOI":"10.1016\/0197-4580(92)90076-A","article-title":"Reduced temporal lobe blood flow in alzheimer's disease","volume":"13","author":"Eberling","year":"1992","journal-title":"Neurobiol. Aging"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0195","doi-asserted-by":"crossref","first-page":"2925","DOI":"10.1016\/j.neurobiolaging.2015.07.015","article-title":"Identification of Alzheimer's disease\u2013associated long noncoding RNAs","volume":"36","author":"Zhou","year":"2015","journal-title":"Neurobiol. Aging"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0200","doi-asserted-by":"crossref","first-page":"160","DOI":"10.1016\/j.brainresbull.2017.03.010","article-title":"Long non-coding RNAs in brain development, synaptic biology, and Alzheimer's disease","volume":"132","author":"Shi","year":"2017","journal-title":"Brain Res. Bull."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0205","doi-asserted-by":"crossref","unstructured":"D.S. Meyers, S. Skwish, K.E.J. Dickinson, B. Kienzle, C.M. Arbeeny, \u03b2 3 -Adrenergic Receptor-Mediated Lipolysis and Oxygen Consumption in Brown Adipocytes from Cynomolgus Monkeys, J. Clin. Endocrinol. Metab. 82 (1997) 395\u2013401. doi.https:\/\/doi.org\/10.1210\/jcem.82.2.3738.","DOI":"10.1210\/jcem.82.2.3738"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0210","doi-asserted-by":"crossref","first-page":"183","DOI":"10.1007\/s10048-009-0182-4","article-title":"Extended tracts of homozygosity identify novel candidate genes associated with late-onset Alzheimer's disease","volume":"10","author":"Nalls","year":"2009","journal-title":"Neurogenetics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0215","doi-asserted-by":"crossref","first-page":"126","DOI":"10.1038\/emm.2006.16","article-title":"Caveolin-1 upregulation in senescent neurons alters amyloid precursor protein processing","volume":"38","author":"Kang","year":"2006","journal-title":"Exp. Mol. Med."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0220","doi-asserted-by":"crossref","first-page":"912","DOI":"10.1002\/jnr.20981","article-title":"BACE1 interacts with lipid raft proteins","volume":"84","author":"Hattori","year":"2006","journal-title":"J. Neurosci. Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0225","doi-asserted-by":"crossref","first-page":"1343","DOI":"10.2147\/NDT.S203103","article-title":"What are the links between hypoxia and Alzheimer's disease?","volume":"15","author":"Lall","year":"2019","journal-title":"Neuropsychiatr. Dis. Treat. Volume"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0230","doi-asserted-by":"crossref","first-page":"12393","DOI":"10.1038\/srep12393","article-title":"Integrated genomic approaches identify major pathways and upstream regulators in late onset Alzheimer's disease","volume":"5","author":"Li","year":"2015","journal-title":"Sci. Rep."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0235","doi-asserted-by":"crossref","DOI":"10.15252\/emmm.201809665","article-title":"Inhibition of Stat3-mediated astrogliosis ameliorates pathology in an Alzheimer's disease model","volume":"11","author":"Reichenbach","year":"2019","journal-title":"EMBO Mol. Med."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0240","doi-asserted-by":"crossref","first-page":"435","DOI":"10.1111\/jnc.12200","article-title":"Fishing for function - distinct roles of Bace1 and Bace2 in Zebrafish development","volume":"127","author":"Walter","year":"2013","journal-title":"J. Neurochem."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0245","doi-asserted-by":"crossref","first-page":"824","DOI":"10.1194\/jlr.R075481","article-title":"Apolipoprotein E and Alzheimer's disease: the influence of apolipoprotein E on amyloid-\u03b2 and other amyloidogenic proteins","volume":"58","author":"Huynh","year":"2017","journal-title":"J. Lipid Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0250","doi-asserted-by":"crossref","first-page":"820","DOI":"10.1016\/j.neuron.2019.01.056","article-title":"A quarter century of APOE and Alzheimer's disease: Progress to date and the path forward","volume":"101","author":"Belloy","year":"2019","journal-title":"Neuron."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0255","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1186\/1471-213X-6-36","article-title":"Molecular characterization of retinal stem cells and their niches in adult zebrafish","volume":"6","author":"Raymond","year":"2006","journal-title":"BMC Dev. Biol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0260","doi-asserted-by":"crossref","first-page":"330","DOI":"10.1016\/j.ydbio.2005.12.056","article-title":"Reverse genetic analysis of neurogenesis in the zebrafish retina","volume":"293","author":"Pujic","year":"2006","journal-title":"Dev. Biol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0265","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pgen.1001310","article-title":"Mutations in Zebrafish lrp2 result in adult-onset ocular pathogenesis that models myopia and other risk factors for Glaucoma","volume":"7","author":"Veth","year":"2011","journal-title":"PLoS Genet."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0270","doi-asserted-by":"crossref","first-page":"515","DOI":"10.3233\/JAD-2011-110533","article-title":"The BACE1-PSEN-A\u03b2PP regulatory axis has an ancient role in response to low oxygen\/oxidative stress","volume":"28","author":"Moussavi Nik","year":"2012","journal-title":"J. Alzheimers Dis."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0275","doi-asserted-by":"crossref","first-page":"223","DOI":"10.1159\/000086924","article-title":"Pathological opening of the blood-brain barrier to horseradish peroxidase and amyloid precursor protein following ischemia-reperfusion brain injury","volume":"51","author":"Pluta","year":"2005","journal-title":"Chemotherapy."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0280","doi-asserted-by":"crossref","first-page":"38","DOI":"10.1186\/1750-1326-5-38","article-title":"Presenilin-1 regulates induction of hypoxia inducible factor-1\u03b1: altered activation by a mutation associated with familial Alzheimer's disease","volume":"5","author":"De Gasperi","year":"2010","journal-title":"Mol. Neurodegener."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0285","doi-asserted-by":"crossref","first-page":"299","DOI":"10.1016\/j.expneurol.2009.07.033","article-title":"Pathological role of hypoxia in Alzheimer's disease","volume":"223","author":"Zhang","year":"2010","journal-title":"Exp. Neurol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0290","doi-asserted-by":"crossref","first-page":"463","DOI":"10.3389\/fnins.2019.00463","article-title":"S100 Proteins in Alzheimer's Disease","volume":"13","author":"Crist\u00f3v\u00e3o","year":"2019","journal-title":"Front. Neurosci."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0295","doi-asserted-by":"crossref","first-page":"674","DOI":"10.1038\/nature11729","article-title":"NLRP3 is activated in Alzheimer's disease and contributes to pathology in APP\/PS1 mice","volume":"493","author":"Heneka","year":"2013","journal-title":"Nature."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0300","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41467-018-06449-x","article-title":"Caspase-1 inhibition alleviates cognitive impairment and neuropathology in an Alzheimer's disease mouse model","volume":"9","author":"Flores","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0305","doi-asserted-by":"crossref","first-page":"13075","DOI":"10.1096\/fj.201900439","article-title":"Inflammasome-mediated innate immunity in Alzheimer's disease","volume":"33","author":"Venegas","year":"2019","journal-title":"FASEB J."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0310","doi-asserted-by":"crossref","first-page":"2687","DOI":"10.1074\/jbc.M117.803411","article-title":"HspB1 and Hsc70 chaperones engage distinct tau species and have different inhibitory effects on amyloid formation","volume":"293","author":"Baughman","year":"2018","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0315","doi-asserted-by":"crossref","first-page":"3553","DOI":"10.1021\/bi002186k","article-title":"Apolipoprotein A-I directly interacts with amyloid precursor protein and inhibits A\u03b2 aggregation and toxicity","volume":"40","author":"Koldamova","year":"2001","journal-title":"Biochemistry."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0320","doi-asserted-by":"crossref","first-page":"75","DOI":"10.1016\/S0009-8981(97)00207-6","article-title":"Alzheimer's amyloid \u03b2 interaction with normal human plasma high density lipoprotein: association with apolipoprotein and lipids","volume":"270","author":"Koudinov","year":"1998","journal-title":"Clin. Chim. Acta"},{"key":"10.1016\/j.ygeno.2020.11.023_bb0325","doi-asserted-by":"crossref","first-page":"1159","DOI":"10.1159\/000489058","article-title":"Metabolic plasticity enables circadian adaptation to acute hypoxia in Zebrafish cells","volume":"46","author":"Sandbichler","year":"2018","journal-title":"Cell. Physiol. Biochem."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0330","doi-asserted-by":"crossref","first-page":"73","DOI":"10.1016\/j.cmet.2016.09.009","article-title":"Reciprocal regulation between the circadian clock and hypoxia Signaling at the genome level in mammals","volume":"25","author":"Wu","year":"2017","journal-title":"Cell Metab."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0335","doi-asserted-by":"crossref","first-page":"510","DOI":"10.3109\/07420528.2012.754447","article-title":"Linking oxygen to time: the bidirectional interaction between the hypoxic Signaling pathway and the circadian clock","volume":"30","author":"Egg","year":"2013","journal-title":"Chronobiol. Int."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0340","doi-asserted-by":"crossref","first-page":"615","DOI":"10.3233\/JAD-160942","article-title":"Alterations of clock gene RNA expression in brain regions of a triple transgenic model of Alzheimer's disease","volume":"59","author":"Bellanti","year":"2017","journal-title":"J. Alzheimers Dis."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0345","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1016\/j.cell.2009.01.002","article-title":"MicroRNAs: target recognition and regulatory functions","volume":"136","author":"Bartel","year":"2009","journal-title":"Cell."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0350","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1093\/bioinformatics\/bts635","article-title":"STAR: ultrafast universal RNA-seq aligner","volume":"29","author":"Dobin","year":"2013","journal-title":"Bioinformatics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0355","doi-asserted-by":"crossref","first-page":"1650","DOI":"10.1038\/nprot.2016.095","article-title":"Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown","volume":"11","author":"Pertea","year":"2016","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0360","article-title":"FEELnc: A tool for long non-coding RNA annotation and its application to the dog transcriptome","volume":"45","author":"Wucher","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0365","doi-asserted-by":"crossref","first-page":"W12","DOI":"10.1093\/nar\/gkx428","article-title":"CPC2: a fast and accurate coding potential calculator based on sequence intrinsic features","volume":"45","author":"Kang","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0370","doi-asserted-by":"crossref","first-page":"W516","DOI":"10.1093\/nar\/gkz400","article-title":"CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition","volume":"47","author":"Guo","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0375","doi-asserted-by":"crossref","first-page":"2628","DOI":"10.1093\/bioinformatics\/btz931","article-title":"ShinyGO: a graphical gene-set enrichment tool for animals and plants","volume":"36","author":"Ge","year":"2019","journal-title":"Bioinformatics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0380","doi-asserted-by":"crossref","first-page":"923","DOI":"10.1093\/bioinformatics\/btt656","article-title":"featureCounts: an efficient general purpose program for assigning sequence reads to genomic features","volume":"30","author":"Liao","year":"2013","journal-title":"Bioinformatics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0385","doi-asserted-by":"crossref","first-page":"144","DOI":"10.1186\/1471-2105-6-144","article-title":"PAGE: parametric analysis of gene set enrichment","volume":"6","author":"Kim","year":"2005","journal-title":"BMC Bioinformatics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0390","doi-asserted-by":"crossref","first-page":"534","DOI":"10.1186\/s12859-018-2486-6","article-title":"iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data","volume":"19","author":"Ge","year":"2018","journal-title":"BMC Bioinformatics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0395","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1186\/1471-2105-9-559","article-title":"WGCNA: an R package for weighted correlation network analysis","volume":"9","author":"Langfelder","year":"2008","journal-title":"BMC Bioinformatics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0400","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."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0405","doi-asserted-by":"crossref","first-page":"S11","DOI":"10.1186\/1752-0509-8-S4-S11","article-title":"cytoHubba: identifying hub objects and sub-networks from complex interactome","volume":"8","author":"Chin","year":"2014","journal-title":"BMC Syst. Biol."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0410","doi-asserted-by":"crossref","first-page":"2247","DOI":"10.1016\/j.ygeno.2019.12.021","article-title":"Molecular characterization and ornithine-urea cycle genes expression in air-breathing Magur catfish (Clarias Magur) during exposure to high external ammonia","volume":"112","author":"Banerjee","year":"2020","journal-title":"Genomics."},{"key":"10.1016\/j.ygeno.2020.11.023_bb0415","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\u2212\u0394\u0394CT method","volume":"25","author":"Livak","year":"2001","journal-title":"Methods."}],"container-title":["Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0888754320320218?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0888754320320218?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T06:20:17Z","timestamp":1760163617000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0888754320320218"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,1]]},"references-count":83,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2021,1]]}},"alternative-id":["S0888754320320218"],"URL":"https:\/\/doi.org\/10.1016\/j.ygeno.2020.11.023","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/2020.07.10.181842","asserted-by":"object"}]},"ISSN":["0888-7543"],"issn-type":[{"value":"0888-7543","type":"print"}],"subject":[],"published":{"date-parts":[[2021,1]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Genome-wide identification of novel long non-coding RNAs and their possible roles in hypoxic zebrafish brain","name":"articletitle","label":"Article Title"},{"value":"Genomics","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.ygeno.2020.11.023","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2020 Elsevier Inc.","name":"copyright","label":"Copyright"}]}}