The DOI matches its Crossref record; 29 of the 30 references it cites were found in a registry or an index.
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
Open accessAbstract
We recently showed that the mammalian genome encodes >1,000 large intergenic noncoding (linc)RNAs that are clearly conserved across mammals and, thus, functional. Gene expression patterns have implicated these lincRNAs in diverse biological processes, including cell-cycle regulation, immune surveillance, and embryonic stem cell pluripotency. However, the mechanism by which these lincRNAs function is unknown. Here, we expand the catalog of human lincRNAs to ≈3,300 by analyzing chromatin-state maps of various human cell types. Inspired by the observation that the well-characterized lincRNA HOTAIR binds the polycomb repressive complex (PRC)2, we tested whether many lincRNAs are physically associated with PRC2. Remarkably, we observe that ≈20% of lincRNAs expressed in various cell types are bound by PRC2, and that additional lincRNAs are bound by other chromatin-modifying complexes. Also, we show that siRNA-mediated depletion of certain lincRNAs associated with PRC2 leads to changes in gene expression, and that the up-regulated genes are enriched for those normally silenced by PRC2. We propose a model in which some lincRNAs guide chromatin-modifying complexes to specific genomic loci to regulate gene expression.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“Several noncoding RNAs were reported to mediate p53-dependent gene regulation—these include microRNAs120 and long noncoding RNAs,121 such as TUG1,122, 123 miR-34,124 lincRNA-p21,125 PANDA126 and PINT.127”
From Census and evaluation of p53 target genes (2017) · cites this paper as [122]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506580102 · Cited by 53,625
Self-citationHigh-Resolution Profiling of Histone Methylations in the Human Genome
Barski, A., Cuddapah, S., Cui, K., Roh, T.-Y., Schones, D. E., Wang, Z., Wei, G., Chepelev, I., & Zhao, K. (2007) · Cell · doi:10.1016/j.cell.2007.05.009 · Cited by 6,845
The ENCODE Project Consortium (2007) · Nature · doi:10.1038/nature05874 · Cited by 5,223
Functional Demarcation of Active and Silent Chromatin Domains in Human HOX Loci by Noncoding RNAs
Rinn, J. L., Kertesz, M., Wang, J. K., Squazzo, S. L., Xu, X. H., Brugmann, S. A., Goodnough, L. H., Helms, J. A., Farnham, P., Segal, E., et al. (2007) · Cell · doi:10.1016/j.cell.2007.05.022 · Cited by 4,246
Self-citationGenome-wide maps of chromatin state in pluripotent and lineage-committed cells
Mikkelsen, T. S., Ku, M., Jaffe, D. B., Issac, B., Lieberman, E., Giannoukos, G., Alvarez, P., Brockman, W., Kim, T.-K., Koche, R. P., et al. (2007) · Nature · doi:10.1038/nature06008 · Cited by 4,129
Self-citationChromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
Guttman, M., Amit, I., Garber, M., French, C., Lin, M. F., Feldser, D., Huarte, M., Zuk, O., Carey, B. W., Cassady, J. P., et al. (2009) · Nature · doi:10.1038/nature07672 · Cited by 4,098
Self-citationPolycomb Proteins Targeted by a Short Repeat RNA to the Mouse X Chromosome
Zhao, J. C., Sun, B. K., Erwin, J. A., Song, J., & Lee, J. T. (2008) · Science · doi:10.1126/science.1163045 · Cited by 1,580
Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitionsPreprint
Bracken, A. P., Dietrich, N., Pasini, D., Hansen, K. H., & Helin, K. (2006) · Genes & Development · doi:10.1101/gad.381706 · Cited by 1,286
Pandey, R. R., Mondal, T., Mohammad, F., Enroth, S., Redrup, L., Komorowski, J., Nagano, T., Mancini‐DiNardo, D., & Kanduri, C. (2008) · Molecular Cell · doi:10.1016/j.molcel.2008.08.022 · Cited by 1,192
Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains
Ku, M., Koche, R. P., Rheinbay, E., Mendenhall, E. M., Endoh, M., Mikkelsen, T. S., Aiden, A. P., Nusbaum, C., Xie, X. S., Chi, A. S., et al. (2008) · PLoS Genetics · doi:10.1371/journal.pgen.1000242 · Cited by 1,053
Self-citation
Cited by
Sorted by citations
Items 801–900 of 1,004
Khan, M. R., Xiang, S., Song, Z., & Wu, M. (2017) · The EMBO Journal · doi:10.15252/embj.201696239 · Cited by 82
Yan, Q., Zhou, J., Wang, Z., Ding, X., Ma, X., Wan, L., Jia, X., Gao, S., & Lu, C. (2023) · Nature Communications · doi:10.1038/s41467-023-42135-3 · Cited by 81
Matouk, I., Halle, D., Gilon, M., & Hochberg, A. (2015) · Journal of Translational Medicine · doi:10.1186/s12967-015-0467-3 · Cited by 82
Long Noncoding RNAs: At the Intersection of Cancer and Chromatin BiologyPreprint
Schmitt, A. M., & Chang, H. Y. (2017) · Cold Spring Harbor Perspectives in Medicine · doi:10.1101/cshperspect.a026492 · Cited by 80
Long non-coding RNAs in glioma: Functional roles and clinical perspectives
Zhang, X., & Leung, G. (2014) · Neurochemistry International · doi:10.1016/j.neuint.2014.05.008 · Cited by 81
Diverse Phenotypes and Specific Transcription Patterns in Twenty Mouse Lines with Ablated LincRNAs
Lai, K. V., Gong, G., Atanasio, A., Rojas, J., Quispe, J., Posca, J., White, D., HUANG, M. L., Fedorova, D., Grant, C., et al. (2015) · PLoS ONE · doi:10.1371/journal.pone.0125522 · Cited by 81
Self-citationEpigenomics of cancer – emerging new concepts
Hassler, M. R., & Egger, G. (2012) · Biochimie · doi:10.1016/j.biochi.2012.05.007 · Cited by 85
Plant Long ncRNAs: A New Frontier for Gene Regulatory Control
Zhang, J., Mujahid, H., Hou, Y., Nallamilli, B. R. R., & Peng, Z. (2013) · American Journal of Plant Sciences · doi:10.4236/ajps.2013.45128 · Cited by 81
Aberrant expression of long noncoding RNAs in cumulus cells isolated from PCOS patients
Huang, X. Y., Hao, C., Bao, H., Wang, M., & Dai, H. (2015) · Journal of Assisted Reproduction and Genetics · doi:10.1007/s10815-015-0630-z · Cited by 81
Long non-coding RNAs on the stage of cervical cancer
Dong, J., Su, M., Chang, W., Zhang, K., Wu, S., & Xu, T. (2017) · Oncology Reports · doi:10.3892/or.2017.5905 · Cited by 81
The involvement of lncRNAs in the development and progression of pancreatic cancer
Li, D., He, J., Qian, X., Xu, P., Xiao-dong, W., Li, Z., Jian-jun, Q., & Yao, J. J. (2017) · Cancer Biology & Therapy · doi:10.1080/15384047.2017.1385682 · Cited by 80
Predicting lncRNA–miRNA interactions based on interactome network and graphlet interaction
Zhang, L., Liu, T., Chen, H., Zhao, Q., & Liu, H. (2021) · Genomics · doi:10.1016/j.ygeno.2021.02.002 · Cited by 81
Epigenetic modifications in diabetes
Kowluru, R. A., & Mohammad, G. (2021) · Metabolism · doi:10.1016/j.metabol.2021.154920 · Cited by 86
Deng, C., Li, Y., Zhou, L. J., Cho, J., Patel, B., Terada, N., Li, Y., Bungert, J., Qiu, Y., & Huang, S. (2015) · Cell Reports · doi:10.1016/j.celrep.2015.12.007 · Cited by 81
Expression of long non-coding RNA DLX6-AS1 in lung adenocarcinoma
Li, J., Li, P., Zhao, W., Yang, R., Chen, S., Bai, Y., Dun, S., Chen, X., Du, Y., Wang, Y., et al. (2015) · Cancer Cell International · doi:10.1186/s12935-015-0201-5 · Cited by 80
Single Molecule Fluorescence Approaches Shed Light on Intracellular RNAs
Pitchiaya, S., Heinicke, L. A., Custer, T. C., & Walter, N. G. (2014) · Chemical Reviews · doi:10.1021/cr400496q · Cited by 80
Chao, T., Zhang, Q., Li, Z., Tiwari, S. K., Qin, Y., Yau, E. H., Sánchez, A. B., Singh, G., Chang, K., Kaul, M., et al. (2019) · mBio · doi:10.1128/mbio.02016-19 · Cited by 85
Begum, N. A., Stanlie, A., Nakata, M., Akiyama, H., & Honjo, T. (2012) · Journal of Biological Chemistry · doi:10.1074/jbc.m112.351569 · Cited by 80
Ma, S., Ming, Z., Gong, A., Wang, Y., Chen, X., Hu, G., Zhou, R., Shibata, A., Swanson, P. C., & Chen, X. (2016) · The FASEB Journal · doi:10.1096/fj.201601056r · Cited by 82
Liu, J., Ben, Q., Lu, E., He, X., Yang, X., Ma, J., Zhang, W., Wang, Z., Liu, T., Zhang, J., et al. (2018) · Cell Death and Disease · doi:10.1038/s41419-017-0246-6 · Cited by 80
Expanding the p53 regulatory network: LncRNAs take up the challenge
Grossi, E., Sánchez, Y., & Huarte, M. (2016) · Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms · doi:10.1016/j.bbagrm.2015.07.011 · Cited by 78
Self-citationLong non-coding RNAs in cancer invasion and metastasis
Shen, X.-H., Qi, P., & Du, X. (2014) · Modern Pathology · doi:10.1038/modpathol.2014.75 · Cited by 79
Dysregulation of the long non-coding RNA transcriptome in a Rett syndrome mouse model
Petazzi, P., Sandoval, J., Szczęsna, K., Jorge-Torres, O. C., Roa, L., Sayols, S., Gómez, A., Huertas, D., & Esteller, M. (2013) · RNA Biology · doi:10.4161/rna.24286 · Cited by 80
Identification and analysis of ribosome-associated lncRNAs using ribosome profiling data
Zeng, C., Fukunaga, T., & Hamada, M. (2018) · BMC Genomics · doi:10.1186/s12864-018-4765-z · Cited by 86
Wang, Y., Li, Y., Yang, Z., Liu, K., & Wang, D. (2015) · Cellular Physiology and Biochemistry · doi:10.1159/000438579 · Cited by 78
Malouf, G. G., Zhang, J., Yuan, Y., Compérat, É., Morgan Rouprêt, A., Cussenot, O., Chen, Y., Thompson, E. J., Tannir, N. M., Weinstein, J. N., et al. (2014) · Molecular Oncology · doi:10.1016/j.molonc.2014.07.007 · Cited by 79
Xie, C., Chen, B., Wu, B., Guo, J., & Cao, Y. (2017) · Biomedicine & Pharmacotherapy · doi:10.1016/j.biopha.2017.12.004 · Cited by 78
lncRNAs in Plant and Animal Sexual Reproduction
Golicz, A. A., Bhalla, P. L., & Singh, M. B. (2018) · Trends in Plant Science · doi:10.1016/j.tplants.2017.12.009 · Cited by 77
LncRNA-Meg3 promotes Nlrp3-mediated microglial inflammation by targeting miR-7a-5p
Meng, J., Ding, T., Chen, Y., Long, T., Xu, Q., Lian, W.-Q., & Liu, W. (2020) · International Immunopharmacology · doi:10.1016/j.intimp.2020.107141 · Cited by 78
Molecular mechanisms of genomic imprinting and clinical implications for cancer
Uribe‐Lewis, S., Woodfine, K., Stojic, L., & Murrell, A. (2011) · Expert Reviews in Molecular Medicine · doi:10.1017/s1462399410001717 · Cited by 79
The Central Role of Noncoding RNA in the Brain
Guennewig, B., & Cooper, A. A. (2014) · International review of neurobiology · doi:10.1016/b978-0-12-801105-8.00007-2 · Cited by 81
The X as Model for RNA's Niche in Epigenomic RegulationPreprint
Lee, J. T. (2010) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a003749 · Cited by 78
Wang, B., Su, Y., Yang, Q., Lv, D., Zhang, W., Tang, K., Wang, H., Zhang, R., & Liu, Y. (2015) · Molecules and Cells · doi:10.14348/molcells.2015.2327 · Cited by 76
RetractedCurrent Status of Long Non-Coding RNAs in Human Breast Cancer
Cerk, S., Schwarzenbacher, D., Adiprasito, J. B., Stotz, M., Hutterer, G. C., Gerger, A., Ling, H. Y., Călin, G. A., & Pichler, M. (2016) · International Journal of Molecular Sciences · doi:10.3390/ijms17091485 · Cited by 76
Boros, F. A., Maszlag-Török, R., Vécsei, L., & Klivènyi, P. (2020) · Brain Research · doi:10.1016/j.brainres.2020.146672 · Cited by 77
cncRNAs: Bi-functional RNAs with protein coding and non-coding functions
Kumari, P., & Sampath, K. (2015) · Seminars in Cell and Developmental Biology · doi:10.1016/j.semcdb.2015.10.024 · Cited by 77
Visualization of lncRNA by Single-Molecule Fluorescence In Situ Hybridization
Dunagin, M. C., Cabili, M. N., Rinn, J. L., & Raj, A. (2014) · Methods in molecular biology · doi:10.1007/978-1-4939-2253-6_1 · Cited by 77
Self-citationKeeping abreast with long non-coding RNAs in mammary gland development and breast cancer
Hansji, H., Leung, E. Y., Baguley, B. C., Finlay, G. J., & Askarian-Amiri, M. (2014) · Frontiers in Genetics · doi:10.3389/fgene.2014.00379 · Cited by 76
Microarray analysis of long non-coding RNAs in COPD lung tissue
Bi, H., Zhou, J., Wu, D., Gao, W., Li, L., Yu, L., Liu, F., Huang, M., Adcock, I. M., Barnes, P. J., et al. (2014) · Inflammation Research · doi:10.1007/s00011-014-0790-9 · Cited by 77
Ma, Z., Huang, H., Wang, J., Zhou, Y., Pu, F., Zhao, Q., Peng, P., Hui, B., Ji, H., & Wang, K. (2017) · Oncotarget · doi:10.18632/oncotarget.20359 · Cited by 77
Functional linc-POU3F3 is overexpressed and contributes to tumorigenesis in glioma
Guo, H., Wu, L., Yang, Q. K., Ye, M., & Zhu, X. (2014) · Gene · doi:10.1016/j.gene.2014.10.038 · Cited by 75
Long non-coding RNAs link extracellular matrix gene expression to ischemic cardiomyopathy
Huang, Z.-P., Ding, Y., Chen, J., Wu, G., Kataoka, M., Hu, Y., Yang, J.-H., Liu, J., Drakos, S. G., Selzman, C. H., et al. (2016) · Cardiovascular Research · doi:10.1093/cvr/cvw201 · Cited by 76
Huang, X., Zhou, X., Hu, Q. F., Binyu, S., Deng, M., Qi, X., & Lü, M. (2017) · Cancer Letters · doi:10.1016/j.canlet.2017.10.046 · Cited by 76
Han, Y., Ye, J., Wu, D., Wu, P., Chen, Z., Chen, J., Gao, S., & Huang, J. (2014) · BMC Cancer · doi:10.1186/1471-2407-14-932 · Cited by 76
Buzas, D. M., Robertson, M., Finnegan, E. J., & Helliwell, C. A. (2010) · The Plant Journal · doi:10.1111/j.1365-313x.2010.04471.x · Cited by 76
High expression of long non-coding RNA SBF2-AS1 promotes proliferation in non-small cell lung cancer
Lv, J., Qiu, M., Xia, W., Liu, C., Xu, Y., Wang, J., Leng, X., Su, H. W., Zhu, R., Zhao, M., et al. (2016) · Journal of Experimental & Clinical Cancer Research · doi:10.1186/s13046-016-0352-9 · Cited by 76
Clinical significance of HOTAIR expression in colon cancer
Luo, Z. (2016) · World Journal of Gastroenterology · doi:10.3748/wjg.v22.i22.5254 · Cited by 76
Long Non-Coding RNAs in Neuronal Aging
Fernandes, D. P., Bitar, M., Jacobs, F. M. J., & Barry, G. (2018) · Non-Coding RNA · doi:10.3390/ncrna4020012 · Cited by 75
Emerging roles of long non-coding RNAs in breast cancer biology and management
Amelio, I., Bernassola, F., & Candi, E. (2020) · Seminars in Cancer Biology · doi:10.1016/j.semcancer.2020.06.019 · Cited by 78
Disruption of a Large Intergenic Noncoding RNA in Subjects with Neurodevelopmental Disabilities
Talkowski, M. E., Maussion, G., Crapper, L., Rosenfeld, J. A., Blumenthal, I., Hanscom, C., Chiang, C., Lindgren, A. M., Pereira, S., Ruderfer, D. M., et al. (2012) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2012.10.016 · Cited by 75
Caudron‐Herger, M., & Rippe, K. (2012) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2011.12.005 · Cited by 75
Gao, Y., Wang, T., Li, Y., Zhang, Y., & Yang, R. (2018) · The Journal of Immunology · doi:10.4049/jimmunol.1701721 · Cited by 75
Field, A. R., Jacobs, F. M. J., Fiddes, I. T., Phillips, A. P. R., Reyes-Ortiz, A. M., LaMontagne, E., Whitehead, L., Meng, V., Rosenkrantz, J. L., Olsen, M. N., et al. (2019) · Stem Cell Reports · doi:10.1016/j.stemcr.2018.12.006 · Cited by 75
Noncoding RNAs in diabetes vascular complications
Beltrami, C., Angelini, T. G., & Emanueli, C. (2014) · Journal of Molecular and Cellular Cardiology · doi:10.1016/j.yjmcc.2014.12.014 · Cited by 75
LncRNA HOTAIR controls the expression of Rab22a by sponging miR-373 in ovarian cancer
Zhang, Z., Cheng, J., Wu, Y., Qiu, J. F., Sun, Y., & Tong, X. (2016) · Molecular Medicine Reports · doi:10.3892/mmr.2016.5572 · Cited by 74
RetractedJin, X., Chen, X., Hu, Y., Ying, F., Zou, R., Lin, F., Shi, Z., Zhu, X., Yan, X., Shi, L., et al. (2017) · Cancer Medicine · doi:10.1002/cam4.1084 · Cited by 73
Li, G., Liu, K., & Du, X. (2018) · Yonsei Medical Journal · doi:10.3349/ymj.2018.59.2.226 · Cited by 74
Zhang, J., Sui, S., Wu, H., Zhang, J., Zhang, X., Xu, S., & Pang, D. (2019) · Cell Death and Disease · doi:10.1038/s41419-019-1835-3 · Cited by 74
Song, Z., Zhang, X., Lin, Y., Wei, Y., Liang, S., & Dong, C. (2019) · Journal of Cellular and Molecular Medicine · doi:10.1111/jcmm.14625 · Cited by 74
A noncoding RNA regulates the neurogenin1 gene locus during mouse neocortical development
Onoguchi, M., Hirabayashi, Y., Koseki, H., & Gotoh, Y. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1202956109 · Cited by 74
Zhou, C., York, S. R., Chen, J. Y., Pondick, J. V., Motola, D., Chung, R. T., & Mullen, A. C. (2016) · Genome Medicine · doi:10.1186/s13073-016-0285-0 · Cited by 72
Noncoding RNAs: New Players in Cancers
Chen, X., Fan, S., & Song, E. (2016) · Advances in experimental medicine and biology · doi:10.1007/978-981-10-1498-7_1 · Cited by 73
The long noncoding RNA landscape of neuroendocrine prostate cancer and its clinical implications
Ramnarine, V. R., Alshalalfa, M., Mo, F., Nabavi, N., Erho, N., Takhar, M. M., Shukin, R. J., Brahmbhatt, S., Gawronski, A., Kobelev, M., et al. (2018) · GigaScience · doi:10.1093/gigascience/giy050 · Cited by 73
Lnc-C/EBPβ Negatively Regulates the Suppressive Function of Myeloid-Derived Suppressor Cells
Gao, Y., Sun, W., Shang, W., Li, Y., Zhang, D., Wang, T., Zhang, X., Zhang, S., Zhang, Y., & Yang, R. (2018) · Cancer Immunology Research · doi:10.1158/2326-6066.cir-18-0108 · Cited by 74
Strategies to discover regulatory circuits of the mammalian immune system
Amit, I., Regev, A., & Hacohen, N. (2011) · Nature reviews. Immunology · doi:10.1038/nri3109 · Cited by 74
Self-citationLncRNA BCAR4 wires up signaling transduction in breast cancer
Xing, Z., Park, P. K., Lin, C., & Yang, L. (2015) · RNA Biology · doi:10.1080/15476286.2015.1053687 · Cited by 73
Fatemi, R. P., Velmeshev, D., & Faghihi, M. A. (2014) · Molecular Therapy — Nucleic Acids · doi:10.1038/mtna.2014.45 · Cited by 76
Zhang, E., Yin, D., Han, L., He, X., Si, X., Chen, W., Xia, R., Xu, T., Gu, D., De, W., et al. (2015) · Oncotarget · doi:10.18632/oncotarget.6745 · Cited by 73
Aiello, A., Bacci, L., Re, A., Ripoli, C., Pierconti, F., Pinto, F., Masetti, R., Grassi, C., Gaetano, C., Bassi, P. F., et al. (2016) · Scientific Reports · doi:10.1038/srep38414 · Cited by 73
Wang, M., Hu, H., Wang, Y., Huang, Q., Huang, R., Chen, Y., Ma, T., Qiao, T., Zhang, Q., Wu, H., et al. (2019) · Journal of Cancer · doi:10.7150/jca.32065 · Cited by 72
Zhou, Y., Huan, L., Wu, Y., Bao, C., Chen, B., Wang, L., Huang, S., Liang, L., & He, X. (2019) · Cancer Letters · doi:10.1016/j.canlet.2019.11.007 · Cited by 73
Analysis of chromatin-state plasticity identifies cell-type–specific regulators of H3K27me3 patterns
Pinello, L., Xu, J., Orkin, S. H., & Yuan, G. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1322570111 · Cited by 76
Formation of nuclear bodies by the lnc RNA Gomafu‐associating proteins Celf3 and SF 1
Ishizuka, A., Hasegawa, Y., Ishida, K., Yanaka, K., & Nakagawa, S. (2014) · Genes to Cells · doi:10.1111/gtc.12169 · Cited by 76
lncRNA expression signatures in response to enterovirus 71 infection
Yin, Z., Guan, D., Fan, Q., Su, J., Zheng, W., Ma, W., & Ke, C. (2012) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2012.11.101 · Cited by 72
Molema, G. (2010) · Seminars in Thrombosis and Hemostasis · doi:10.1055/s-0030-1253448 · Cited by 72
Renoux, A. J., & Todd, P. K. (2011) · Progress in Neurobiology · doi:10.1016/j.pneurobio.2011.10.006 · Cited by 75
Key concepts in glioblastoma therapy
Bartek, J. J., Ng, K., Bartek, J. J., Fischer, W., Carter, B. S., & Chen, C. C. (2012) · Journal of Neurology Neurosurgery & Psychiatry · doi:10.1136/jnnp-2011-300709 · Cited by 75
Long Non-Coding RNAs in Endometrial Carcinoma
Smolle, M. A., Bullock, M. D., Ling, H. Y., Pichler, M., & Haybaeck, J. (2015) · International Journal of Molecular Sciences · doi:10.3390/ijms161125962 · Cited by 72
Spadaro, P. A., & Bredy, T. W. (2012) · Frontiers in Genetics · doi:10.3389/fgene.2012.00132 · Cited by 72
Fan, S., Yang, Z., Ke, Z., Huang, K., Liu, N., Fang, X., & Wang, K. (2017) · Biomedicine & Pharmacotherapy · doi:10.1016/j.biopha.2017.09.076 · Cited by 72
Behind the scenes: How RNA orchestrates the epigenetic regulation of gene expression
Mangiavacchi, A., Morelli, G., & Orlando, V. (2023) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2023.1123975 · Cited by 76
Functional Analysis of Long Noncoding RNAs in Development and Disease
Chen, L., & Zhao, J. C. (2014) · Advances in experimental medicine and biology · doi:10.1007/978-1-4939-1221-6_4 · Cited by 72
Role of ART in Imprinting Disorders
Eroğlu, A., & Layman, L. C. (2012) · Seminars in Reproductive Medicine · doi:10.1055/s-0032-1307417 · Cited by 71
Guenzl, P. M., & Barlow, D. P. (2012) · RNA Biology · doi:10.4161/rna.19985 · Cited by 74
Lipovich, L., Tarca, A. L., Cai, J., Jia, H., Chugani, H. T., Sterner, K. N., Grossman, L. I., Uddin, M., Hof, P. R., Sherwood, C. C., et al. (2013) · Cerebral Cortex · doi:10.1093/cercor/bhs414 · Cited by 73
The long non-coding RNA ERIC is regulated by E2F and modulates the cellular response to DNA damage
Feldstein, O., Nizri, T., Doniger, T., Jacob, J., Rechavi, G., & Ginsberg, D. (2013) · Molecular Cancer · doi:10.1186/1476-4598-12-131 · Cited by 72
Long non-coding RNA GAS5 inhibited hepatitis C virus replication by binding viral NS3 protein
Qian, X., Xu, C., Zhao, P., & Qi, Z. (2016) · Virology · doi:10.1016/j.virol.2016.02.020 · Cited by 72
Epigenomes in Cardiovascular Disease
Rosa‐Garrido, M., Chapski, D. J., & Vondriska, T. M. (2018) · Circulation Research · doi:10.1161/circresaha.118.311597 · Cited by 73
Modulating the expression of long non‐coding RNAs for functional studies
Liu, S. J., & Lim, D. A. (2018) · EMBO Reports · doi:10.15252/embr.201846955 · Cited by 74
Long noncoding RNAs in organogenesis: making the difference
Grote, P., & Herrmann, B. G. (2015) · Trends in Genetics · doi:10.1016/j.tig.2015.02.002 · Cited by 73
Calore, F., Lovat, F., & Garofalo, M. (2013) · International Journal of Molecular Sciences · doi:10.3390/ijms140817085 · Cited by 71
Long non-coding RNAs in neurodevelopmental disorders
van deVondervoort, I. I. G. M., Gordebeke, P. M., Khoshab, N., Tiesinga, P. H. E., Buitelaar, J. K., Kozicz, T., Aschrafi, A., & Glennon, J. C. (2013) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2013.00053 · Cited by 73
Genome-wide methods for investigating long noncoding RNAs
Cao, M., Zhao, J., & Hu, G. (2018) · Biomedicine & Pharmacotherapy · doi:10.1016/j.biopha.2018.12.078 · Cited by 70
Goustin, A. S., Thepsuwan, P., Kosir, M. A., & Lipovich, L. (2019) · Non-Coding RNA · doi:10.3390/ncrna5030046 · Cited by 73
Roles of long non-coding RNAs in plant immunity
Huang, J., Zhou, W., Zhang, X., & Li, Y. (2023) · PLoS Pathogens · doi:10.1371/journal.ppat.1011340 · Cited by 71
Wang, J., Peng, H., Tian, J., Ma, J., Tang, X., Rui, K., Tian, X., Wang, Y., Chen, J., Lu, L., et al. (2015) · Immunologic Research · doi:10.1007/s12026-015-8715-4 · Cited by 71
Nuclear lncRNAs as epigenetic regulators—Beyond skepticism
Nakagawa, S., & Kageyama, Y. (2013) · Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms · doi:10.1016/j.bbagrm.2013.10.009 · Cited by 76
Dharap, A. A., Pokrzywa, C. J., & Vemuganti, R. (2013) · ASN NEURO · doi:10.1042/an20130029 · Cited by 71
He, Z., Bammann, H., Han, D., Xie, G., & Khaitovich, P. (2014) · RNA · doi:10.1261/rna.043075.113 · Cited by 71
Emerging roles of non-coding RNAs in epigenetic regulation
Chen, J., & Xue, Y. (2016) · Science China Life Sciences · doi:10.1007/s11427-016-5010-0 · Cited by 76
Metadata
- Authors
- Khalil, A. M., Guttman, M., Huarte, M., Garber, M., Raj, A., Rivea Morales, D., Thomas, K., Presser, A., Bernstein, B. E., van Oudenaarden, A., Regev, A., Lander, E. S., & Rinn, J. L.
- Affiliations
- Broad Institute (US)
- Massachusetts Institute of Technology (US)
- The Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, MA 02142;
- Physics, Massachusetts Institute of Technology, Cambridge, MA 02139;
- ORCID
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2009-07-14
- Volume
- 106
- Issue
- 28
- Pages
- 11667-11672
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC2704857
- OpenAlex
- W2144137532
- Cited by
- 2,872
- References
- 30
- Citations by year
- 2026: 35 · 2025: 54 · 2024: 81 · 2023: 96 · 2022: 115 · 2021: 164 · 2020: 206 · 2019: 208 · 2018: 216 · 2017: 230 · 2016: 235 · 2015: 269 · 2014: 248 · 2013: 243 · 2012: 197
- FWCI
- 52.20
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- CaltechAUTHORS (California Institute of Technology) (submittedVersion)
- DSpace@MIT (Massachusetts Institute of Technology) (submittedVersion, cc-by-nc)
- Funders
- National Institutes of Health (DP1OD003958)
- National Heart, Lung, and Blood Institute (T32HL007893, HL007893)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer-related molecular mechanisms research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Chromosomal and Genetic Variations
- Keywords
- long intergenic non-coding RNA, polycomb repressive complex 2, chromatin-modifying complexes, gene expression regulation, HOTAIR, chromatin state, siRNA knockdown, gene silencing, mammalian genomes
- MeSH terms
- Chromatin, Gene Expression Regulation, Humans, Models, Genetic, Repressor Proteins, Oligonucleotide Array Sequence Analysis, Gene Expression Profiling, RNA, Untranslated, Epigenesis, Genetic, Polycomb-Group Proteins
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
