{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,2]],"date-time":"2026-10-02T22:02:20Z","timestamp":1790978540947,"version":"4.1.0"},"reference-count":76,"publisher":"Elsevier BV","issue":"12","license":[{"start":{"date-parts":[[2022,12,1]],"date-time":"2022-12-01T00:00:00Z","timestamp":1669852800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2022,12,1]],"date-time":"2022-12-01T00:00:00Z","timestamp":1669852800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2022,11,4]],"date-time":"2022-11-04T00:00:00Z","timestamp":1667520000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/100010016","name":"Nottingham Trent University","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100010016","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["cell.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["iScience"],"published-print":{"date-parts":[[2022,12]]},"DOI":"10.1016\/j.isci.2022.105519","type":"journal-article","created":{"date-parts":[[2022,11,7]],"date-time":"2022-11-07T21:27:15Z","timestamp":1667856435000},"page":"105519","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":4,"title":["Implications of differential transcription start site selection on chronic myeloid leukemia and prostate cancer cell protein expression"],"prefix":"10.1016","volume":"25","author":[{"given":"Arif A.","family":"Surani","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Keith A.","family":"Spriggs","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christoph","family":"Ufer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christos","family":"Polytarchou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cristina","family":"Montiel-Duarte","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.isci.2022.105519_bib1","doi-asserted-by":"crossref","first-page":"3966","DOI":"10.1016\/j.febslet.2009.10.036","article-title":"Correlation of mRNA and protein in complex biological samples","volume":"583","author":"Maier","year":"2009","journal-title":"FEBS Lett."},{"key":"10.1016\/j.isci.2022.105519_bib2","doi-asserted-by":"crossref","first-page":"737","DOI":"10.1038\/nature02046","article-title":"Global analysis of protein expression in yeast","volume":"425","author":"Ghaemmaghami","year":"2003","journal-title":"Nature"},{"key":"10.1016\/j.isci.2022.105519_bib3","doi-asserted-by":"crossref","first-page":"426","DOI":"10.1111\/j.1745-7270.2008.00418.x","article-title":"How is mRNA expression predictive for protein expression? A correlation study on human circulating monocytes","volume":"40","author":"Guo","year":"2008","journal-title":"Acta Biochim. Biophys. Sin."},{"key":"10.1016\/j.isci.2022.105519_bib4","doi-asserted-by":"crossref","first-page":"390","DOI":"10.1038\/s41598-018-36888-x","article-title":"SP1 and RAR\u03b1 regulate AGAP2 expression in cancer","volume":"9","author":"Doush","year":"2019","journal-title":"Sci. Rep."},{"key":"10.1016\/j.isci.2022.105519_bib5","doi-asserted-by":"crossref","first-page":"673","DOI":"10.1016\/j.bbamcr.2019.01.008","article-title":"Role of AGAP2 in the profibrogenic effects induced by TGF\u03b2 in LX-2 hepatic stellate cells","volume":"1866","author":"Navarro-Corcuera","year":"2019","journal-title":"Biochim. Biophys. Acta. Mol. Cell Res."},{"key":"10.1016\/j.isci.2022.105519_bib6","doi-asserted-by":"crossref","first-page":"819","DOI":"10.1158\/0008-5472.CAN-08-2537","article-title":"GGAP2\/PIKE-a directly activates both the Akt and nuclear factor-kappaB pathways and promotes prostate cancer progression","volume":"69","author":"Cai","year":"2009","journal-title":"Cancer Res."},{"key":"10.1016\/j.isci.2022.105519_bib7","doi-asserted-by":"crossref","first-page":"6993","DOI":"10.1073\/pnas.0400921101","article-title":"PIKE-A is amplified in human cancers and prevents apoptosis by up-regulating Akt","volume":"101","author":"Ahn","year":"2004","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.isci.2022.105519_bib8","doi-asserted-by":"crossref","first-page":"1797","DOI":"10.1128\/MCB.01410-12","article-title":"Fyn regulates adipogenesis by promoting PIKE-A\/STAT5a interaction","volume":"33","author":"Tse","year":"2013","journal-title":"Mol. Cell Biol."},{"key":"10.1016\/j.isci.2022.105519_bib9","doi-asserted-by":"crossref","first-page":"4918","DOI":"10.1038\/sj.onc.1210290","article-title":"PIKE-A is a proto-oncogene promoting cell growth, transformation and invasion","volume":"26","author":"Liu","year":"2007","journal-title":"Oncogene"},{"key":"10.1016\/j.isci.2022.105519_bib10","doi-asserted-by":"crossref","first-page":"462","DOI":"10.1038\/nature13182","article-title":"A promoter-level mammalian expression atlas","volume":"507","author":"Forrest","year":"2014","journal-title":"Nature"},{"key":"10.1016\/j.isci.2022.105519_bib11","doi-asserted-by":"crossref","first-page":"930","DOI":"10.15252\/msb.20167374","article-title":"Alternative TSSs are co-regulated in single cells in the mouse brain","volume":"13","author":"Karlsson","year":"2017","journal-title":"Mol. Syst. Biol."},{"key":"10.1016\/j.isci.2022.105519_bib12","doi-asserted-by":"crossref","first-page":"388","DOI":"10.1093\/embo-reports\/kve085","article-title":"Diverse transcriptional initiation revealed by fine, large-scale mapping of mRNA start sites","volume":"2","author":"Suzuki","year":"2001","journal-title":"EMBO Rep."},{"key":"10.1016\/j.isci.2022.105519_bib13","doi-asserted-by":"crossref","first-page":"582","DOI":"10.1093\/nar\/gkx1165","article-title":"Alternative start and termination sites of transcription drive most transcript isoform differences across human tissues","volume":"46","author":"Reyes","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib14","doi-asserted-by":"crossref","first-page":"164","DOI":"10.1186\/s12864-018-4504-5","article-title":"Distinct core promoter codes drive transcription initiation at key developmental transitions in a marine chordate","volume":"19","author":"Danks","year":"2018","journal-title":"BMC Genom."},{"key":"10.1016\/j.isci.2022.105519_bib15","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1016\/j.tig.2008.01.008","article-title":"The functional consequences of alternative promoter use in mammalian genomes","volume":"24","author":"Davuluri","year":"2008","journal-title":"Trends Genet."},{"key":"10.1016\/j.isci.2022.105519_bib16","doi-asserted-by":"crossref","first-page":"16441","DOI":"10.1074\/jbc.M312175200","article-title":"PIKE (phosphatidylinositol 3-kinase enhancer)-A GTPase stimulates Akt activity and mediates cellular invasion","volume":"279","author":"Ahn","year":"2004","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.isci.2022.105519_bib17","doi-asserted-by":"crossref","first-page":"98","DOI":"10.1093\/nar\/gkp1017","article-title":"DBTSS provides a tissue specific dynamic view of Transcription Start Sites","volume":"38","author":"Yamashita","year":"2010","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib18","doi-asserted-by":"crossref","first-page":"269","DOI":"10.1186\/1471-2164-15-269","article-title":"RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE)","volume":"15","author":"Ohmiya","year":"2014","journal-title":"BMC Genom."},{"key":"10.1016\/j.isci.2022.105519_bib19","doi-asserted-by":"crossref","first-page":"986","DOI":"10.1186\/s12864-015-2179-8","article-title":"The effect of heterogeneous Transcription Start Sites (TSS) on the translatome: implications for the mammalian cellular phenotype","volume":"16","author":"Dieudonn\u00e9","year":"2015","journal-title":"BMC Genom."},{"key":"10.1016\/j.isci.2022.105519_bib20","doi-asserted-by":"crossref","first-page":"1045","DOI":"10.1534\/g3.118.200802","article-title":"Evidence for an integrated gene repression mechanism based on mRNA isoform toggling in human cells","volume":"9","author":"Hollerer","year":"2019","journal-title":"G3"},{"key":"10.1016\/j.isci.2022.105519_bib21","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1016\/j.semcdb.2004.11.006","article-title":"The implications of structured 5' untranslated regions on translation and disease","volume":"16","author":"Pickering","year":"2005","journal-title":"Semin. Cell Dev. Biol."},{"key":"10.1016\/j.isci.2022.105519_bib22","doi-asserted-by":"crossref","first-page":"2297","DOI":"10.1128\/MCB.20.7.2297-2307.2000","article-title":"Transcription-coupled translation control of AML1\/RUNX1 is mediated by cap- and internal ribosome entry site-dependent mechanisms","volume":"20","author":"Pozner","year":"2000","journal-title":"Mol. Cell Biol."},{"key":"10.1016\/j.isci.2022.105519_bib23","doi-asserted-by":"crossref","first-page":"4727","DOI":"10.1093\/nar\/gks068","article-title":"5'-UTR RNA G-quadruplexes: translation regulation and targeting","volume":"40","author":"Bugaut","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib24","doi-asserted-by":"crossref","first-page":"47820","DOI":"10.1074\/jbc.M306685200","article-title":"Transcriptional and\u00a0translational regulation of the Leri-Weill and Turner syndrome homeobox gene SHOX","volume":"278","author":"Blaschke","year":"2003","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.isci.2022.105519_bib25","doi-asserted-by":"crossref","first-page":"2737","DOI":"10.1016\/j.celrep.2019.04.114","article-title":"Dynamic UTR usage regulates alternative translation to modulate gap junction formation during stress and aging","volume":"27","author":"Zeitz","year":"2019","journal-title":"Cell Rep."},{"key":"10.1016\/j.isci.2022.105519_bib26","doi-asserted-by":"crossref","first-page":"875","DOI":"10.15252\/msb.20166941","article-title":"Pervasive isoform-specific translational regulation via alternative transcription start sites in mammals","volume":"12","author":"Wang","year":"2016","journal-title":"Mol. Syst. Biol."},{"key":"10.1016\/j.isci.2022.105519_bib27","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1186\/s12864-019-5650-0","article-title":"Selective translational usage of TSS and core promoters revealed by translatome sequencing","volume":"20","author":"Li","year":"2019","journal-title":"BMC Genom."},{"key":"10.1016\/j.isci.2022.105519_bib28","doi-asserted-by":"crossref","first-page":"2299","DOI":"10.1261\/rna.035865.112","article-title":"Alternative transcription start site selection leads to large differences in translation activity in yeast","volume":"18","author":"Rojas-Duran","year":"2012","journal-title":"RNA"},{"key":"10.1016\/j.isci.2022.105519_bib29","doi-asserted-by":"crossref","first-page":"977","DOI":"10.1101\/gr.150342.112","article-title":"Roles for transcript leaders in translation and mRNA decay revealed by transcript leader sequencing","volume":"23","author":"Arribere","year":"2013","journal-title":"Genome Res."},{"key":"10.1016\/j.isci.2022.105519_bib30","doi-asserted-by":"crossref","first-page":"e3000197","DOI":"10.1371\/journal.pbio.3000197","article-title":"Evidence that alternative transcriptional initiation is largely nonadaptive","volume":"17","author":"Xu","year":"2019","journal-title":"PLoS Biol."},{"key":"10.1016\/j.isci.2022.105519_bib31","doi-asserted-by":"crossref","first-page":"101372","DOI":"10.1016\/j.xpro.2022.101372","article-title":"Native RNA G quadruplex immunoprecipitation (rG4IP) from mammalian cells","volume":"3","author":"Surani","year":"2022","journal-title":"STAR Protoc."},{"key":"10.1016\/j.isci.2022.105519_bib32","doi-asserted-by":"crossref","first-page":"22","DOI":"10.1186\/s13059-014-0560-6","article-title":"Gateways to the FANTOM5 promoter level mammalian expression atlas","volume":"16","author":"Lizio","year":"2015","journal-title":"Genome Biol."},{"key":"10.1016\/j.isci.2022.105519_bib33","doi-asserted-by":"crossref","first-page":"3841","DOI":"10.1158\/1078-0432.CCR-15-0335","article-title":"Using CellMiner 1.6 for systems pharmacology and genomic analysis of the NCI-60","volume":"21","author":"Reinhold","year":"2015","journal-title":"Clin. Cancer Res."},{"key":"10.1016\/j.isci.2022.105519_bib34","doi-asserted-by":"crossref","first-page":"a034728","DOI":"10.1101\/cshperspect.a034728","article-title":"What are 3' UTRs doing?","volume":"11","author":"Mayr","year":"2019","journal-title":"Cold Spring Harb. Perspect. Biol."},{"key":"10.1016\/j.isci.2022.105519_bib35","doi-asserted-by":"crossref","first-page":"626","DOI":"10.1038\/ng1789","article-title":"Genome-wide analysis of mammalian promoter architecture and evolution","volume":"38","author":"Carninci","year":"2006","journal-title":"Nat. Genet."},{"key":"10.1016\/j.isci.2022.105519_bib36","doi-asserted-by":"crossref","first-page":"R118","DOI":"10.1186\/gb-2006-7-12-r118","article-title":"Dynamic usage of transcription start sites within core promoters","volume":"7","author":"Kawaji","year":"2006","journal-title":"Genome Biol."},{"key":"10.1016\/j.isci.2022.105519_bib37","doi-asserted-by":"crossref","first-page":"12664","DOI":"10.1021\/bi8010797","article-title":"Position and stability are determining factors for translation repression by an RNA G-quadruplex-forming sequence within the 5' UTR of the NRAS proto-oncogene","volume":"47","author":"Kumari","year":"2008","journal-title":"Biochemistry"},{"key":"10.1016\/j.isci.2022.105519_bib38","doi-asserted-by":"crossref","first-page":"1511","DOI":"10.1016\/j.chembiol.2014.09.014","article-title":"A matter of location: influence of G-quadruplexes on Escherichia coli gene expression","volume":"21","author":"Holder","year":"2014","journal-title":"Chem. Biol."},{"key":"10.1016\/j.isci.2022.105519_bib39","doi-asserted-by":"crossref","first-page":"12534","DOI":"10.1093\/nar\/gkaa1126","article-title":"Properties and biological impact of RNA G-quadruplexes: from order to turmoil and back","volume":"48","author":"Kharel","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib40","doi-asserted-by":"crossref","first-page":"182","DOI":"10.1038\/nchem.1548","article-title":"Quantitative visualization of DNA G-quadruplex structures in human cells","volume":"5","author":"Biffi","year":"2013","journal-title":"Nat. Chem."},{"key":"10.1016\/j.isci.2022.105519_bib41","doi-asserted-by":"crossref","first-page":"218","DOI":"10.1038\/nchembio864","article-title":"An RNA G-quadruplex in the 5' UTR of the NRAS proto-oncogene modulates translation","volume":"3","author":"Kumari","year":"2007","journal-title":"Nat. Chem. Biol."},{"key":"10.1016\/j.isci.2022.105519_bib42","doi-asserted-by":"crossref","first-page":"5313","DOI":"10.1021\/bi900498z","article-title":"An unusually stable G-quadruplex within the 5'-UTR of the MT3 matrix metalloproteinase mRNA represses translation in eukaryotic cells","volume":"48","author":"Morris","year":"2009","journal-title":"Biochemistry"},{"key":"10.1016\/j.isci.2022.105519_bib43","doi-asserted-by":"crossref","first-page":"2584","DOI":"10.1093\/bioinformatics\/btz928","article-title":"Pqsfinder web: G-quadruplex prediction using optimized pqsfinder algorithm","volume":"36","author":"Labudov\u00e1","year":"2020","journal-title":"Bioinformatics"},{"key":"10.1016\/j.isci.2022.105519_bib44","doi-asserted-by":"crossref","first-page":"14002","DOI":"10.1074\/jbc.273.22.14002","article-title":"4E-BP3, a new member of the eukaryotic initiation factor 4E-binding protein family","volume":"273","author":"Poulin","year":"1998","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.isci.2022.105519_bib45","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1479-0556-2-1","article-title":"Novel non-viral method for transfection of primary leukemia cells and cell lines","volume":"2","author":"Schakowski","year":"2004","journal-title":"Genet. Vaccines Ther."},{"key":"10.1016\/j.isci.2022.105519_bib46","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1038\/gt.2012.5","article-title":"Nucleofection induces transient eIF2\u03b1 phosphorylation by GCN2 and PERK","volume":"20","author":"Anderson","year":"2013","journal-title":"Gene Ther."},{"key":"10.1016\/j.isci.2022.105519_bib47","doi-asserted-by":"crossref","first-page":"2187","DOI":"10.1007\/s11033-011-0967-z","article-title":"Nucleofection induces non-specific changes in the metabolic activity of transfected cells","volume":"39","author":"Mello de Queiroz","year":"2012","journal-title":"Mol. Biol. Rep."},{"key":"10.1016\/j.isci.2022.105519_bib48","doi-asserted-by":"crossref","first-page":"123","DOI":"10.1016\/j.jim.2014.05.014","article-title":"The impact of Nucleofection\u00ae on the activation state of primary human CD4 T\u00a0cells","volume":"408","author":"Zhang","year":"2014","journal-title":"J.\u00a0Immunol. Methods"},{"key":"10.1016\/j.isci.2022.105519_bib49","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1080\/10409230902882090","article-title":"Translational control of eukaryotic gene expression","volume":"44","author":"Van Der Kelen","year":"2009","journal-title":"Crit. Rev. Biochem. Mol. Biol."},{"key":"10.1016\/j.isci.2022.105519_bib50","doi-asserted-by":"crossref","first-page":"3373","DOI":"10.1093\/bioinformatics\/btx413","article-title":"pqsfinder: an exhaustive and imperfection-tolerant search tool for potential quadruplex-forming sequences in R","volume":"33","author":"Hon","year":"2017","journal-title":"Bioinformatics"},{"key":"10.1016\/j.isci.2022.105519_bib51","doi-asserted-by":"crossref","first-page":"640","DOI":"10.1016\/j.tig.2003.09.014","article-title":"Complex controls: the role of alternative promoters in mammalian genomes","volume":"19","author":"Landry","year":"2003","journal-title":"Trends Genet."},{"key":"10.1016\/j.isci.2022.105519_bib52","doi-asserted-by":"crossref","first-page":"720","DOI":"10.1111\/tra.12397","article-title":"Human fumarate hydratase is dual localized by an alternative transcription initiation mechanism","volume":"17","author":"Dik","year":"2016","journal-title":"Traffic"},{"key":"10.1016\/j.isci.2022.105519_bib53","doi-asserted-by":"crossref","first-page":"D752","DOI":"10.1093\/nar\/gky1099","article-title":"Update of the FANTOM web resource: expansion to provide additional transcriptome atlases","volume":"47","author":"Lizio","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib54","doi-asserted-by":"crossref","first-page":"8374","DOI":"10.1093\/nar\/gkaa563","article-title":"Embryonic tissue differentiation is characterized by transitions in cell cycle dynamic-associated core promoter regulation","volume":"48","author":"Wragg","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib55","doi-asserted-by":"crossref","first-page":"527","DOI":"10.1038\/s41467-020-14404-y","article-title":"Integrative analysis reveals RNA G-quadruplexes in UTRs are selectively constrained and enriched for functional associations","volume":"11","author":"Lee","year":"2020","journal-title":"Nat. Commun."},{"key":"10.1016\/j.isci.2022.105519_bib56","doi-asserted-by":"crossref","first-page":"1528","DOI":"10.1021\/bi301365g","article-title":"The G-quadruplex augments translation in the 5' untranslated region of transforming growth factor \u03b22","volume":"52","author":"Agarwala","year":"2013","journal-title":"Biochemistry"},{"key":"10.1016\/j.isci.2022.105519_bib57","doi-asserted-by":"crossref","first-page":"6751","DOI":"10.1002\/anie.201500891","article-title":"Targeted detection of G-quadruplexes in cellular RNAs","volume":"54","author":"Kwok","year":"2015","journal-title":"Angew. Chem. Int. Ed. Engl."},{"key":"10.1016\/j.isci.2022.105519_bib58","doi-asserted-by":"crossref","first-page":"75","DOI":"10.1038\/nchem.1805","article-title":"Visualization and selective chemical targeting of RNA G-quadruplex structures in the cytoplasm of human cells","volume":"6","author":"Biffi","year":"2014","journal-title":"Nat. Chem."},{"key":"10.1016\/j.isci.2022.105519_bib59","doi-asserted-by":"crossref","first-page":"4730","DOI":"10.1038\/s41467-018-07224-8","article-title":"Transcriptome-wide identification of transient RNA G-quadruplexes in human cells","volume":"9","author":"Yang","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.isci.2022.105519_bib60","doi-asserted-by":"crossref","first-page":"aaf5371","DOI":"10.1126\/science.aaf5371","article-title":"RNA G-quadruplexes are globally unfolded in eukaryotic cells and depleted in bacteria","volume":"353","author":"Guo","year":"2016","journal-title":"Science"},{"key":"10.1016\/j.isci.2022.105519_bib61","doi-asserted-by":"crossref","first-page":"11592","DOI":"10.1093\/nar\/gky861","article-title":"Analysis of NRAS RNA G-quadruplex binding proteins reveals DDX3X as a novel interactor of cellular G-quadruplex containing transcripts","volume":"46","author":"Herdy","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib62","doi-asserted-by":"crossref","first-page":"4702","DOI":"10.1002\/anie.201801999","article-title":"Tracking the dynamic folding and unfolding of RNA G-quadruplexes in live cells","volume":"57","author":"Chen","year":"2018","journal-title":"Angew. Chem. Int. Ed. Engl."},{"key":"10.1016\/j.isci.2022.105519_bib63","doi-asserted-by":"crossref","first-page":"9813","DOI":"10.1093\/nar\/gkx765","article-title":"Self-biotinylation of DNA G-quadruplexes via intrinsic peroxidase activity","volume":"45","author":"Einarson","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib64","doi-asserted-by":"crossref","first-page":"1081","DOI":"10.1038\/s41431-019-0366-9","article-title":"De novo variants in HK1 associated with neurodevelopmental abnormalities and visual impairment","volume":"27","author":"Okur","year":"2019","journal-title":"Eur. J. Hum. Genet."},{"key":"10.1016\/j.isci.2022.105519_bib65","doi-asserted-by":"crossref","first-page":"112055","DOI":"10.1016\/j.yexcr.2020.112055","article-title":"Epigenetic regulation of the ITGB4 gene in prostate cancer","volume":"392","author":"Wilkinson","year":"2020","journal-title":"Exp. Cell Res."},{"key":"10.1016\/j.isci.2022.105519_bib66","doi-asserted-by":"crossref","first-page":"4758","DOI":"10.3390\/ijms12084758","article-title":"Interplay of dynamic transcription and chromatin remodeling: lessons from yeast","volume":"12","author":"Niederacher","year":"2011","journal-title":"Int. J. Mol. Sci."},{"key":"10.1016\/j.isci.2022.105519_bib67","doi-asserted-by":"crossref","first-page":"3326","DOI":"10.1093\/nar\/gky188","article-title":"A comprehensive catalog of predicted functional upstream open reading frames in humans","volume":"46","author":"McGillivray","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib68","doi-asserted-by":"crossref","first-page":"664","DOI":"10.1016\/j.isci.2019.10.059","article-title":"Quantitative proteome landscape of the NCI-60 cancer cell lines","volume":"21","author":"Guo","year":"2019","journal-title":"iScience"},{"key":"10.1016\/j.isci.2022.105519_bib69","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1111\/j.1749-0774.2005.tb00054.x","article-title":"Establishment and characterization of A novel Philadelphia-chromosome positive chronic myeloid leukemia cell line, TCC-S, expressing P210 and P190 BCR\/ABL transcripts but missing normal ABL gene","volume":"18","author":"Van","year":"2005","journal-title":"Hum. Cell"},{"key":"10.1016\/j.isci.2022.105519_bib70","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."},{"key":"10.1016\/j.isci.2022.105519_bib71","doi-asserted-by":"crossref","first-page":"10881","DOI":"10.1093\/nar\/16.22.10881","article-title":"Multiple sequence alignment with hierarchical clustering","volume":"16","author":"Corpet","year":"1988","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib72","doi-asserted-by":"crossref","first-page":"169","DOI":"10.1186\/s12859-015-0611-3","article-title":"InteractiVenn: a web-based tool for the analysis of sets through Venn diagrams","volume":"16","author":"Heberle","year":"2015","journal-title":"BMC Bioinf."},{"key":"10.1016\/j.isci.2022.105519_bib73","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.isci.2022.105519_bib74","first-page":"D682","article-title":"Ensembl 2020","volume":"48","author":"Yates","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105519_bib75","doi-asserted-by":"crossref","first-page":"1422","DOI":"10.1093\/bioinformatics\/btp163","article-title":"Biopython: freely available Python tools for computational molecular biology and bioinformatics","volume":"25","author":"Cock","year":"2009","journal-title":"Bioinformatics"},{"key":"10.1016\/j.isci.2022.105519_bib76","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1007\/978-1-61779-292-2_11","article-title":"CAGE (cap analysis of gene expression): a protocol for the detection of promoter and transcriptional networks","volume":"786","author":"Takahashi","year":"2012","journal-title":"Methods Mol. Biol."}],"container-title":["iScience"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2589004222017916?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2589004222017916?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,11,11]],"date-time":"2025-11-11T17:21:23Z","timestamp":1762881683000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S2589004222017916"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,12]]},"references-count":76,"journal-issue":{"issue":"12","published-print":{"date-parts":[[2022,12]]}},"alternative-id":["S2589004222017916"],"URL":"https:\/\/doi.org\/10.1016\/j.isci.2022.105519","relation":{},"ISSN":["2589-0042"],"issn-type":[{"value":"2589-0042","type":"print"}],"subject":[],"published":{"date-parts":[[2022,12]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Implications of differential transcription start site selection on chronic myeloid leukemia and prostate cancer cell protein expression","name":"articletitle","label":"Article Title"},{"value":"iScience","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.isci.2022.105519","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2022 The Author(s).","name":"copyright","label":"Copyright"}],"article-number":"105519"}}