Ahmadiyeh N, Pomerantz MM, Grisanzio C, Herman P, Jia L, Almendro V, He HH, Brown M, Liu XS, Davis M, Caswell JL, Beckwith CA, Hills A, Macconaill L, Coetzee GA, Regan MM, Freedman ML (2010) 8q24 prostate, breast, and colon cancer risk loci show tissue-specific long-range interaction with MYC. Proc Natl Acad Sci U S A 107(21):9742–9746. https://doi.org/10.1073/pnas.0910668107
Article PubMed PubMed Central Google Scholar
Alaiyan B, Ilyayev N, Stojadinovic A, Izadjoo M, Roistacher M, Pavlov V, Tzivin V, Halle D, Pan H, Trink B, Gure AO, Nissan A (2013) Differential expression of colon cancer associated transcript1 (CCAT1) along the colonic adenoma-carcinoma sequence. BMC Cancer 13:196. https://doi.org/10.1186/1471-2407-13-196
Article CAS PubMed PubMed Central Google Scholar
Amjadi-Moheb F, Paniri A, Akhavan-Niaki H (2021) Insights into the links between MYC and 3D chromatin structure and epigenetics regulation: implications for cancer therapy. Cancer Res 81(8):1925–1936. https://doi.org/10.1158/0008-5472.CAN-20-3613
Article CAS PubMed Google Scholar
Ansari H, Shahrisa A, Birgani YT, Birgani MT, Hajjari M, Asl JM (2019) Long noncoding RNAs in colorectal adenocarcinoma; an in silico analysis. Pathol Oncol Res 25(4):1387–1394. https://doi.org/10.1007/s12253-018-0428-2
Article CAS PubMed Google Scholar
Barutcu AR, Wu M, Braunschweig U, Dyakov BJA, Luo Z, Turner KM, Durbic T, Lin ZY, Weatheritt RJ, Maass PG, Gingras AC, Blencowe BJ (2022) Systematic mapping of nuclear domain-associated transcripts reveals speckles and lamina as hubs of functionally distinct retained introns. Mol Cell 82(5):1035-1052 e1039. https://doi.org/10.1016/j.molcel.2021.12.010
Article CAS PubMed Google Scholar
Belmont AS (2021) Nuclear compartments: an incomplete primer to nuclear compartments, bodies, and genome organization relative to nuclear architecture. Cold Spring Harb Perspect Biol. https://doi.org/10.1101/cshperspect.a041268
Bensaude O (2011) Inhibiting eukaryotic transcription: which compound to choose? how to evaluate its activity? Transcription 2(3):103–108. https://doi.org/10.4161/trns.2.3.16172
Article PubMed PubMed Central Google Scholar
Bentley DL (2014) Coupling mRNA processing with transcription in time and space. Nat Rev Genet 15(3):163–175. https://doi.org/10.1038/nrg3662
Article CAS PubMed PubMed Central Google Scholar
Brockdorff N, Ashworth A, Kay GF, McCabe VM, Norris DP, Cooper PJ, Swift S, Rastan S (1992) The product of the mouse Xist gene is a 15 kb inactive X-specific transcript containing no conserved ORF and located in the nucleus. Cell 71(3):515–526. https://doi.org/10.1016/0092-8674(92)90519-i
Article CAS PubMed Google Scholar
Brody Y, Neufeld N, Bieberstein N, Causse SZ, Bohnlein EM, Neugebauer KM, Darzacq X, Shav-Tal Y (2011) The in vivo kinetics of RNA polymerase II elongation during co-transcriptional splicing. PLoS Biol 9(1):e1000573. https://doi.org/10.1371/journal.pbio.1000573
Article CAS PubMed PubMed Central Google Scholar
Brown CJ, Lafreniere RG, Powers VE, Sebastio G, Ballabio A, Pettigrew AL, Ledbetter DH, Levy E, Craig IW, Willard HF (1991) Localization of the X inactivation centre on the human X chromosome in Xq13. Nature 349(6304):82–84. https://doi.org/10.1038/349082a0
Article CAS PubMed Google Scholar
Calandrelli R, Wen X, Charles Richard JL, Luo Z, Nguyen TC, Chen CJ, Qi Z, Xue S, Chen W, Yan Z, Wu W, Zaleta-Rivera K, Hu R, Yu M, Wang Y, Li W, Ma J, Ren B, Zhong S (2023) Genome-wide analysis of the interplay between chromatin-associated RNA and 3D genome organization in human cells. Nat Commun 14(1):6519. https://doi.org/10.1038/s41467-023-42274-7
Article CAS PubMed PubMed Central Google Scholar
Campbell M, Izumiya Y (2020) PAN RNA: transcriptional exhaust from a viral engine. J Biomed Sci 27(1):41. https://doi.org/10.1186/s12929-020-00637-y
Article CAS PubMed PubMed Central Google Scholar
Chen J, Zhang K, Song H, Wang R, Chu X, Chen L (2016) Long noncoding RNA CCAT1 acts as an oncogene and promotes chemoresistance in docetaxel-resistant lung adenocarcinoma cells. Oncotarget 7(38):62474–62489. https://doi.org/10.18632/oncotarget.11518
Article PubMed PubMed Central Google Scholar
Chen J, Alduais Y, Zhang K, Zhu X, Chen B (2021) CCAT1/FABP5 promotes tumour progression through mediating fatty acid metabolism and stabilizing PI3K/AKT/mTOR signalling in lung adenocarcinoma. J Cell Mol Med 25(19):9199–9213. https://doi.org/10.1111/jcmm.16815
Article CAS PubMed PubMed Central Google Scholar
Chen Z, Tian D, Chen X, Cheng M, Xie H, Zhao J, Liu J, Fang Z, Zhao B, Bian E (2023) Super-enhancer-driven lncRNA LIMD1-AS1 activated by CDK7 promotes glioma progression. Cell Death Dis 14(6):383. https://doi.org/10.1038/s41419-023-05892-z
Article CAS PubMed PubMed Central Google Scholar
Clemson CM, McNeil JA, Willard HF, Lawrence JB (1996) XIST RNA paints the inactive X chromosome at interphase: evidence for a novel RNA involved in nuclear/chromosome structure. J Cell Biol 132(3):259–275. https://doi.org/10.1083/jcb.132.3.259
Article CAS PubMed Google Scholar
Cote A, O’Farrell A, Dardani I, Dunagin M, Cote C, Wan Y, Bayatpour S, Drexler HL, Alexander KA, Chen F, Wassie AT, Patel R, Pham K, Boyden ES, Berger S, Phillips-Cremins J, Churchman LS, Raj A (2024) Post-transcriptional splicing can occur in a slow-moving zone around the gene. Elife. https://doi.org/10.7554/eLife.91357
Article PubMed PubMed Central Google Scholar
Coulon A, Ferguson ML, de Turris V, Palangat M, Chow CC, Larson DR (2014) Kinetic competition during the transcription cycle results in stochastic RNA processing. Elife. https://doi.org/10.7554/eLife.03939
Article PubMed PubMed Central Google Scholar
Custodio N, Carmo-Fonseca M, Geraghty F, Pereira HS, Grosveld F, Antoniou M (1999) Inefficient processing impairs release of RNA from the site of transcription. Embo J 18(10):2855–2866. https://doi.org/10.1093/emboj/18.10.2855
Article CAS PubMed PubMed Central Google Scholar
Darzacq X, Shav-Tal Y, de Turris V, Brody Y, Shenoy SM, Phair RD, Singer RH (2007) In vivo dynamics of RNA polymerase II transcription. Nat Struct Mol Biol 14(9):796–806
Article CAS PubMed PubMed Central Google Scholar
De Conti L, Baralle M, Buratti E (2013) Exon and intron definition in pre-mRNA splicing. Wiley Interdiscip Rev RNA 4(1):49–60. https://doi.org/10.1002/wrna.1140
Article CAS PubMed Google Scholar
Dekker J, Alber F, Aufmkolk S, Beliveau BJ, Bruneau BG, Belmont AS, Bintu L, Boettiger A, Calandrelli R, Disteche CM, Gilbert DM, Gregor T, Hansen AS, Huang B, Huangfu D, Kalhor R, Leslie CS, Li W, Li Y, Ma J, Noble WS, Park PJ, Phillips-Cremins JE, Pollard KS, Rafelski SM, Ren B, Ruan Y, Shav-Tal Y, Shen Y, Shendure J, Shu X, Strambio-De-Castillia C, Vertii A, Zhang H, Zhong S (2023) Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project. Mol Cell 83(15):2624–2640. https://doi.org/10.1016/j.molcel.2023.06.018
Article CAS PubMed Google Scholar
Deng W, Lee J, Wang H, Miller J, Reik A, Gregory PD, Dean A, Blobel GA (2012) Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor. Cell 149(6):1233–1244. https://doi.org/10.1016/j.cell.2012.03.051
Article CAS PubMed PubMed Central Google Scholar
Dixon JR, Gorkin DU, Ren B (2016) Chromatin domains: the unit of chromosome organization. Mol Cell 62(5):668–680. https://doi.org/10.1016/j.molcel.2016.05.018
Article CAS PubMed PubMed Central Google Scholar
Effenberger KA, Urabe VK, Jurica MS (2017) Modulating splicing with small molecular inhibitors of the spliceosome. Wiley Interdiscip Rev RNA. https://doi.org/10.1002/wrna.1381
Faber GP, Nadav-Eliyahu S, Shav-Tal Y (2022) Nuclear speckles - a driving force in gene expression. J Cell Sci. https://doi.org/10.1242/jcs.259594
Article PubMed PubMed Central Google Scholar
Ge X, Li GY, Jiang L, Jia L, Zhang Z, Li X, Wang R, Zhou M, Zhou Y, Zeng Z, Xiang J, Li Z (2019) Long noncoding RNA CAR10 promotes lung adenocarcinoma metastasis via miR-203/30/SNAI axis. Oncogene 38(16):3061–3076. https://doi.org/10.1038/s41388-018-0645-x
Article CAS PubMed PubMed Central Google Scholar
Gil N, Ulitsky I (2020) Regulation of gene expression by cis-acting long non-coding RNAs. Nat Rev Genet 21(2):102–117. https://doi.org/10.1038/s41576-019-0184-5
Article CAS PubMed Google Scholar
Gordon JM, Phizicky DV, Neugebauer KM (2021) Nuclear mechanisms of gene expression control: pre-mRNA splicing as a life or death decision. Curr Opin Genet Dev 67:67–76. https://doi.org/10.1016/j.gde.2020.11.002
Article CAS PubMed Google Scholar
Guo CJ, Ma XK, Xing YH, Zheng CC, Xu YF, Shan L, Zhang J, Wang S, Wang Y, Carmichael GG, Yang L, Chen LL (2020) Distinct processing of lncRNAs contributes to non-conserved functions in stem cells. Cell 181(3):621-636 e622. https://doi.org/10.1016/j.cell.2020.03.006
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