Widespread Shortening of 3′UTRs by Alternative Cleavage and Polyadenylation Activates Oncogenes in Cancer Cells

MicroRNAs: Target Recognition and Regulatory Functions

Bartel, D. P. (2009) · Cell · doi:10.1016/j.cell.2009.01.002 · Cited by 20,068

The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14

Lee, R. C., Feinbaum, R. L., & Ambros, V. (1993) · Cell · doi:10.1016/0092-8674(93)90529-y · Cited by 12,948

Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets

Lewis, B. P., Burge, C. B., & Bartel, D. P. (2005) · Cell · doi:10.1016/j.cell.2004.12.035 · Cited by 11,855

Untitled work

(2008) · doi:10.1038/nrg2290 · Cited by 5,199

Alternative isoform regulation in human tissue transcriptomes

Wang, E. T., Sandberg, R., Luo, S., Khrebtukova, I., Zhang, L., Mayr, C., Kingsmore, S. F., Schroth, G. P., & Burge, C. B. (2008) · Nature · doi:10.1038/nature07509 · Cited by 5,181

Frequent deletions and down-regulation of micro- RNA genes miR15 and miR16 at 13q14 in chronic lymphocytic leukemia

Calin, G. A., Dumitru, C. D., Shimizu, M., Bichi, R., Zupo, S., Noch, E., Aldler, H., Rattan, S., Keating, M., Rai, K., et al. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.242606799 · Cited by 5,111

Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans

Wightman, B., Ha, I., & Ruvkun, G. (1993) · Cell · doi:10.1016/0092-8674(93)90530-4 · Cited by 4,292

MicroRNA Targeting Specificity in Mammals: Determinants beyond Seed Pairing

Grimson, A., Farh, K. K.-H., Johnston, W. K., Garrett-Engele, P., Lim, L. P., & Bartel, D. P. (2007) · Molecular Cell · doi:10.1016/j.molcel.2007.06.017 · Cited by 3,766

RAS Is Regulated by the let-7 MicroRNA Family

Johnson, S., Großhans, H., Shingara, J., Byrom, M., JARVIS, R., Cheng, A., Labourier, E., Reinert, K. L., Brown, D., & Slack, F. J. (2005) · Cell · doi:10.1016/j.cell.2005.01.014 · Cited by 3,699

A microRNA polycistron as a potential human oncogene

He, L., Thomson, J. M., Hemann, M. T., Hernando, E., Mu, D., Goodson, S. G., Powers, S., Cordon‐Cardo, C., Lowe, S. W., Hannon, G. J., et al. (2005) · Nature · doi:10.1038/nature03552 · Cited by 3,642

Deep-sequencing of human Argonaute-associated small RNAs provides insight into miRNA sorting and reveals Argonaute association with RNA fragments of diverse origin

Burroughs, A. M., Ando, Y., de Hoon, M., Tomaru, Y., Suzuki, H., Hayashizaki, Y., & Daub, C. O. (2011) · RNA Biology · doi:10.4161/rna.8.1.14300 · Cited by 310

Translational Control in CancerPreprint

Robichaud, N., Sonenberg, N., Ruggero, D., & Schneider, R. J. (2018) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a032896 · Cited by 313

p53 and MicroRNA-34 Are Suppressors of Canonical Wnt Signaling

Kim, N. H., Kim, N.-G., Kim, N.-G., Lee, I., Choi, H.-S., Li, X.-Y., Kang, S. E., Cha, S. Y., Ryu, J. K., Na, J. M., et al. (2011) · Science Signaling · doi:10.1126/scisignal.2001744 · Cited by 311

Alternative cleavage and polyadenylation: the long and short of it

Tian, B., & Manley, J. L. (2013) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2013.03.005 · Cited by 319

Genome-wide landscape of polyadenylation in Arabidopsis provides evidence for extensive alternative polyadenylation

Wu, X., Liu, M., Downie, A. B., Liang, C., Ji, G., Li, Q. Q., & Hunt, A. G. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1019732108 · Cited by 300

Erratum: New frontiers in translational control of the cancer genome

Truitt, M., & Ruggero, D. (2017) · Nature reviews. Cancer · doi:10.1038/nrc.2017.30 · Cited by 306

Unravelling the means to an end: RNA polymerase II transcription termination

Kuehner, J. N., Pearson, E. L., & Moore, C. L. (2011) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm3098 · Cited by 299

Codon Usage and 3′ UTR Length Determine Maternal mRNA Stability in Zebrafish

Mishima, Y., & Tomari, Y. (2016) · Molecular Cell · doi:10.1016/j.molcel.2016.02.027 · Cited by 288

Loss of MBNL Leads to Disruption of Developmentally Regulated Alternative Polyadenylation in RNA-Mediated Disease

Batra, R., Charizanis, K., Manchanda, M., Mohan, A., Li, M., Finn, D. J., Goodwin, M., Zhang, C., Sobczak, K., Thornton, C. A., et al. (2014) · Molecular Cell · doi:10.1016/j.molcel.2014.08.027 · Cited by 292

Alternative start and termination sites of transcription drive most transcript isoform differences across human tissues

Reyes, A., & Huber, W. (2018) · Nucleic Acids Research · doi:10.1093/nar/gkx1165 · Cited by 290

Tunable protein synthesis by transcript isoforms in human cells

Floor, S. N., & Doudna, J. A. (2016) · eLife · doi:10.7554/elife.10921 · Cited by 265

Global Analysis of mRNA Isoform Half-Lives Reveals Stabilizing and Destabilizing Elements in Yeast

Geisberg, J. V., Moqtaderi, Z., Fan, X., Ozsolak, F., & Struhl, K. (2014) · Cell · doi:10.1016/j.cell.2013.12.026 · Cited by 270

Differential genome-wide profiling of tandem 3′ UTRs among human breast cancer and normal cells by high-throughput sequencingPreprint

Fu, Y., Sun, Y., Li, Y., Li, J., Rao, X., Chen, C., & Xu, A. (2011) · Genome Research · doi:10.1101/gr.115295.110 · Cited by 273

Reprogramming of 3′ Untranslated Regions of mRNAs by Alternative Polyadenylation in Generation of Pluripotent Stem Cells from Different Cell Types

Ji, Z., & Tian, B. (2009) · PLoS ONE · doi:10.1371/journal.pone.0008419 · Cited by 264

Systematic Profiling of Poly(A)+ Transcripts Modulated by Core 3’ End Processing and Splicing Factors Reveals Regulatory Rules of Alternative Cleavage and Polyadenylation

Li, W., You, B., Hoque, M., Zheng, D., Luo, W., Ji, Z., Park, J. Y., Gunderson, S., Kalsotra, A., Manley, J. L., et al. (2015) · PLoS Genetics · doi:10.1371/journal.pgen.1005166 · Cited by 270

RNA-binding proteins in Mendelian disease

Castelló, A., Fischer, B., Hentze, M. W., & Preiß, T. (2013) · Trends in Genetics · doi:10.1016/j.tig.2013.01.004 · Cited by 261

The dark matter of the cancer genome: aberrations in regulatory elements, untranslated regions, splice sites, non‐coding RNA and synonymous mutations

Diederichs, S., Bartsch, L., Berkmann, J. C., Fröse, K., Schaule, J., Hoppe, C., Iggena, D., Jazmati, D., Karschnia, P., Linsenmeier, M., et al. (2016) · EMBO Molecular Medicine · doi:10.15252/emmm.201506055 · Cited by 265

Widespread intronic polyadenylation inactivates tumour suppressor genes in leukaemia

Lee, S., Singh, I., Tisdale, S., Abdel-Wahab, O. I., Leslie, C. S., & Mayr, C. (2018) · Nature · doi:10.1038/s41586-018-0465-8 · Cited by 257

Selective autophagy degrades DICER and AGO2 and regulates miRNA activity

Gibbings, D., Mostowy, S., Jay, F., Schwab, Y., Cossart, P., & Voinnet, O. (2012) · Nature Cell Biology · doi:10.1038/ncb2611 · Cited by 257

Targets of miR-200c mediate suppression of cell motility and anoikis resistance

Howe, E. N., Cochrane, D. R., & Richer, J. K. (2011) · Breast Cancer Research · doi:10.1186/bcr2867 · Cited by 248

The end of the message: multiple protein–RNA interactions define the mRNA polyadenylation site

Shi, Y., & Manley, J. L. (2015) · Genes & Development · doi:10.1101/gad.261974.115 · Cited by 249

Distal Alternative Last Exons Localize mRNAs to Neural Projections

Taliaferro, J. M., Vidaki, M., Oliveira, R., Olson, S., Zhan, L., Saxena, T., Wang, E. T., Graveley, B. R., Gertler, F. B., Swanson, M. S., et al. (2016) · Molecular Cell · doi:10.1016/j.molcel.2016.01.020 · Cited by 254

Alternative mRNA splicing in cancer immunotherapy

Frankiw, L., Baltimore, D., & Li, G. (2019) · Nature reviews. Immunology · doi:10.1038/s41577-019-0195-7 · Cited by 253

Entering the era of single-cell transcriptomics in biology and medicine

Sandberg, R. (2013) · Nature Methods · doi:10.1038/nmeth.2764 · Cited by 252

Dissecting the expression landscape of RNA-binding proteins in human cancers

Kechavarzi, B., & Janga, S. C. (2014) · Genome biology · doi:10.1186/gb-2014-15-1-r14 · Cited by 243

Signals for pre‐mRNA cleavage and polyadenylation

Tian, B., & Graber, J. H. (2011) · Wiley Interdisciplinary Reviews - RNA · doi:10.1002/wrna.116 · Cited by 250

Loss of Nuclear TDP-43 Is Associated with Decondensation of LINE Retrotransposons

Liu, E. Y., Russ, J., Cali, C. P., Phan, J. M., Amlie-Wolf, A., & Lee, E. B. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.04.003 · Cited by 231

Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila

Smibert, P., Miura, P., Westholm, J. O., Shenker, S., May, G. E., Duff, M. O., Zhang, D., Eads, B. D., Carlson, J., Brown, J. B., et al. (2012) · Cell Reports · doi:10.1016/j.celrep.2012.01.001 · Cited by 226

The Spen Family Protein FPA Controls Alternative Cleavage and Polyadenylation of RNA

Hornyik, C., Terzi, L. C., & Simpson, G. G. (2010) · Developmental Cell · doi:10.1016/j.devcel.2009.12.009 · Cited by 229

Dysregulation of the basal RNA polymerase transcription apparatus in cancer

Bywater, M. J., Pearson, R. B., McArthur, G. A., & Hannan, R. D. (2013) · Nature reviews. Cancer · doi:10.1038/nrc3496 · Cited by 224

Competing endogenous RNA networks: tying the essential knots for cancer biology and therapeutics

Sánchez-Mejías, A., & Tay, Y. (2015) · Journal of Hematology & Oncology · doi:10.1186/s13045-015-0129-1 · Cited by 222

A comprehensive analysis of 3′ end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylationPreprint

Gruber, A. J., Schmidt, R., Gruber, A. J., Martin, G., Ghosh, S., Belmadani, M., Keller, W., & Zavolan, M. (2016) · Genome Research · doi:10.1101/gr.202432.115 · Cited by 213

RHOA G17V Induces T Follicular Helper Cell Specification and Promotes Lymphomagenesis

Cortés, J. R., Ambesi‐Impiombato, A., Couronné, L., Quinn, S. A., Kim, C. S., Almeida, A. C. D. S., West, Z., Belver, L., Martin, M. S., Scourzic, L., et al. (2018) · Cancer Cell · doi:10.1016/j.ccell.2018.01.001 · Cited by 219

Deletion of the RNA-binding proteins ZFP36L1 and ZFP36L2 leads to perturbed thymic development and T lymphoblastic leukemia

Hodson, D. J., Janas, M. L., Galloway, A., Bell, S. E., Andrews, S., Li, C. M., Pannell, R., Siebel, C. W., MacDonald, H. R., Keersmaecker, K. D., et al. (2010) · Nature Immunology · doi:10.1038/ni.1901 · Cited by 219

La enhances IRES-mediated translation of laminin B1 during malignant epithelial to mesenchymal transition

Petz, M., Them, N. C. C., Huber, H., Beug, H., & Mikulits, W. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkr717 · Cited by 214

3′ UTR-isoform choice has limited influence on the stability and translational efficiency of most mRNAs in mouse fibroblastsPreprint

Spies, N., Burge, C. B., & Bartel, D. P. (2013) · Genome Research · doi:10.1101/gr.156919.113 · Cited by 217

Attenuation of miR-126 Activity Expands HSC In Vivo without Exhaustion

Lechman, E. R., Gentner, B., van Galen, P., Giustacchini, A., Saini, M., Boccalatte, F. E., Hiramatsu, H., Restuccia, U., Bachi, A., Voisin, V., et al. (2012) · Cell Stem Cell · doi:10.1016/j.stem.2012.09.001 · Cited by 208

Alternative polyadenylation: New insights from global analyses

Shi, Y. (2012) · RNA · doi:10.1261/rna.035899.112 · Cited by 212

mRNA transport & local translation in neurons

Glock, C., Heumüller, M., & Schuman, E. M. (2017) · Current Opinion in Neurobiology · doi:10.1016/j.conb.2017.05.005 · Cited by 217

Deep sequencing of the small RNA transcriptome of normal and malignant human B cells identifies hundreds of novel microRNAs

Jima, D. D., Zhang, J., Jacobs, C. L., Richards, K. L., Dunphy, C. H., Choi, W. W. L., Au, W. Y., Srivastava, G., Czader, M., Rizzieri, D. A., et al. (2010) · Blood · doi:10.1182/blood-2010-05-285403 · Cited by 209

The roles of RNA processing in translating genotype to phenotype

Manning, K. S., & Cooper, T. A. (2016) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2016.139 · Cited by 212

Genetic variants in mRNA untranslated regions

Steri, M., Idda, M. L., Whalen, M. B., & Orrù, V. (2018) · Wiley Interdisciplinary Reviews - RNA · doi:10.1002/wrna.1474 · Cited by 209

The miR-200 family controls -tubulin III expression and is associated with paclitaxel-based treatment response and progression-free survival in ovarian cancer patients

Leskelä, S., Leandro-Garcia, L. J., Mendiola, M., Barriuso, J., Inglada‐Pérez, L., Muñoz, I. G., Martínez–Delgado, B., Redondo, A., de Santiago, J., Robledo, M., et al. (2010) · Endocrine Related Cancer · doi:10.1677/erc-10-0148 · Cited by 202

Global 3′ UTR shortening has a limited effect on protein abundance in proliferating T cells

Gruber, A. J., Martin, G., Müller, P., Schmidt, A., Gruber, A. J., Gumienny, R., Mittal, N., Jayachandran, R., Pieters, J., Keller, W., et al. (2014) · Nature Communications · doi:10.1038/ncomms6465 · Cited by 206

Exclusion of m6A from splice-site proximal regions by the exon junction complex dictates m6A topologies and mRNA stability

Uzonyi, A., Dierks, D., Nir, R., Kwon, O. S., Toth, U., Barbosa, I., Burel, C., Brandis, A. S., Rossmanith, W., Hir, H. L., et al. (2023) · Molecular Cell · doi:10.1016/j.molcel.2022.12.026 · Cited by 209

Evaluation and comparison of computational tools for RNA-seq isoform quantification

Zhang, C., Zhang, B., Lin, L., & Zhao, S. (2017) · BMC Genomics · doi:10.1186/s12864-017-4002-1 · Cited by 200

Translational control of stem cell function

Saba, J. A., Liakath‐Ali, K., Green, R., & Watt, F. M. (2021) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-021-00386-2 · Cited by 205

Principles of miRNA–mRNA interactions: beyond sequence complementarity

Afonso-Grunz, F., & Müller, S. (2015) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-015-1922-2 · Cited by 196

The Emerging Function and Mechanism of ceRNAs in Cancer

Wang, Y., Hou, J., He, D., Sun, M., Zhang, P., Yu, Y., & Chen, Y. (2016) · Trends in Genetics · doi:10.1016/j.tig.2016.02.001 · Cited by 187

Heterogeneous Responses of Hematopoietic Stem Cells to Inflammatory Stimuli Are Altered with Age

Mann, M., Mehta, A., de Boer, C. G., Kowalczyk, M. S., Lee, K., Haldeman, P., Rogel, N., Knecht, A. R., Farouq, D., Regev, A., et al. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.11.056 · Cited by 188

MicroRNA binding sites in the coding region of mRNAs: Extending the repertoire of post‐transcriptional gene regulation

Brümmer, A., & Hausser, J. (2014) · BioEssays · doi:10.1002/bies.201300104 · Cited by 170

MicroRNA-1 is a candidate tumor suppressor and prognostic marker in human prostate cancer

Hudson, R. S., Yi, M., Esposito, D., Watkins, S. K., Hurwitz, A. A., Yfantis, H. G., Lee, D. H., Borin, J. F., Naslund, M. J., Alexander, R. B., et al. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkr1222 · Cited by 186

Cold-induced RNA-binding proteins regulate circadian gene expression by controlling alternative polyadenylation

Liu, Y., Hu, W., Murakawa, Y., Yin, J., Wang, G., Landthaler, M., & Yan, J. (2013) · Scientific Reports · doi:10.1038/srep02054 · Cited by 188

Comprehensive Characterization of Alternative Polyadenylation in Human Cancer

Xiang, Y., Ye, Y., Lou, Y., Yang, Y., Cai, C. C., Zhang, Z., Mills, T., Chen, N., Kim, Y.-J., Ozguc, F. M., et al. (2017) · JNCI Journal of the National Cancer Institute · doi:10.1093/jnci/djx223 · Cited by 183

Inhibition of YTHDF2 triggers proteotoxic cell death in MYC-driven breast cancer

Einstein, J. M., Perelis, M., Chaim, I. A., Meena, J. K., Nussbacher, J. K., Tankka, A. T., Yee, B. A., Li, H., Madrigal, A. A., Neill, N. J., et al. (2021) · Molecular Cell · doi:10.1016/j.molcel.2021.06.014 · Cited by 187

Genome organization around nuclear speckles drives mRNA splicing efficiency

Bhat, P., Chow, A. Y., Emert, B. L., Ettlin, O., Quinodoz, S. A., Strehle, M. M., Takei, Y., Burr, A., Goronzy, I. N., Chen, A. W., et al. (2024) · Nature · doi:10.1038/s41586-024-07429-6 · Cited by 190

miR-29ab1 Deficiency Identifies a Negative Feedback Loop Controlling Th1 Bias That Is Dysregulated in Multiple Sclerosis

Smith, K. M., Guerau‐de‐Arellano, M., Costinean, S., Williams, J. L., Bottoni, A., Cox, G. M., Satoskar, A. R., Croce, C. M., Racke, M. K., Lovett‐Racke, A. E., et al. (2012) · The Journal of Immunology · doi:10.4049/jimmunol.1103171 · Cited by 183

Targeting mRNA processing as an anticancer strategy

Desterro, J. M. P., Bak‐Gordon, P., & Carmo‐Fonseca, M. (2019) · Nature Reviews Drug Discovery · doi:10.1038/s41573-019-0042-3 · Cited by 181

RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination

Choudhury, N. R., Heikel, G., Trubitsyna, M., Kubík, P., Nowak, J. S., Webb, S., Granneman, S., Spanos, C., Rappsilber, J., Castelló, A., et al. (2017) · BMC Biology · doi:10.1186/s12915-017-0444-9 · Cited by 187

3′ UTR shortening represses tumor-suppressor genes in trans by disrupting ceRNA crosstalk

Park, H. J., Ji, P., Kim, S., Xia, Z., Rodriguez, B. A. T., Li, L., Su, J., Chen, K., Masamha, C. P., Baillat, D., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0118-8 · Cited by 178

MINTmap: fast and exhaustive profiling of nuclear and mitochondrial tRNA fragments from short RNA-seq data

Loher, P., Telonis, A. G., & Rigoutsos, I. (2017) · Scientific Reports · doi:10.1038/srep41184 · Cited by 176

Multiple mechanisms disrupt the let-7 microRNA family in neuroblastoma

Powers, J. T., Tsanov, K. M., Pearson, D. S., Roels, F., Spina, C. S., Ebright, R. Y., Seligson, M. T., de Soysa, Y., Cahan, P., Theißen, J., et al. (2016) · Nature · doi:10.1038/nature18632 · Cited by 175

Cleavage and polyadenylation: Ending the message expands gene regulation

Neve, J., Patel, R. J., Wang, Z., Louey, A., & Furger, A. (2017) · RNA Biology · doi:10.1080/15476286.2017.1306171 · Cited by 185

Roles for transcript leaders in translation and mRNA decay revealed by transcript leader sequencingPreprint

Arribere, J. A., & Gilbert, W. V. (2013) · Genome Research · doi:10.1101/gr.150342.112 · Cited by 175

microRNAs and RNA-binding proteins

Ciafrè, S. A., & Galardi, S. (2013) · RNA Biology · doi:10.4161/rna.24641 · Cited by 179

3′ end formation of pre-mRNA and phosphorylation of Ser2 on the RNA polymerase II CTD are reciprocally coupled in human cellsPreprint

Davidson, L., Muniz, L., & West, S. (2014) · Genes & Development · doi:10.1101/gad.231274.113 · Cited by 183

Poly(A) binding protein nuclear 1 levels affect alternative polyadenylation

de Klerk, E., Venema, A., Anvar, S. Y., Goeman, J. J., Hu, O., Trollet, C., Dickson, G., den Dunnen, J. T., van der Maarel, S. M., Raz, V., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks655 · Cited by 166

MicroRNAs as gatekeepers of apoptosis

Subramanian, S., & Steer, C. J. (2010) · Journal of Cellular Physiology · doi:10.1002/jcp.22066 · Cited by 170

Exploring mRNA 3′-UTR G-quadruplexes: evidence of roles in both alternative polyadenylation and mRNA shortening

Beaudoin, J.-D., & Perreault, J. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt265 · Cited by 174

Translational control by 3'-UTR-binding proteins

Szostak, E., & Gebauer, F. (2012) · Briefings in Functional Genomics · doi:10.1093/bfgp/els056 · Cited by 169

Mechanisms, Hallmarks, and Implications of Stem Cell Quiescence

Cho, I., Lui, P. P., Obajdin, J., Riccio, F., Stroukov, W., Willis, T. L., Spagnoli, F. M., & Watt, F. M. (2019) · Stem Cell Reports · doi:10.1016/j.stemcr.2019.05.012 · Cited by 171

Fip1 regulates mRNA alternative polyadenylation to promote stem cell self‐renewal

Lackford, B. L., Yao, C., Charles, G. M., Weng, L., Zheng, X., Choi, E., Xie, X. S., Wan, J., Xing, Y., Freudenberg, J., et al. (2014) · The EMBO Journal · doi:10.1002/embj.201386537 · Cited by 165

The RNA-binding protein repertoire of Arabidopsis thaliana

Marondedze, C., Thomas, L. A., Serrano, N., Lilley, K. S., & Gehring, C. (2016) · Scientific Reports · doi:10.1038/srep29766 · Cited by 165

CPEB1 coordinates alternative 3′-UTR formation with translational regulation

Bava, F.-A., Eliscovich, C., Ferreira, P. G., Miñana, B., Ben-Dov, C., Guigó, R., Valcárcel, J., & Méndez, R. (2013) · Nature · doi:10.1038/nature11901 · Cited by 167

miR-196b directly targets both HOXA9/MEIS1 oncogenes and FAS tumour suppressor in MLL-rearranged leukaemia

Li, Z., Huang, H., Chen, P., He, M., Li, Y., Arnovitz, S., Jiang, X., He, C., Hyjek, E. M., Zhang, J., et al. (2012) · Nature Communications · doi:10.1038/ncomms1681 · Cited by 167

Modelling mammalian cellular quiescence

Yao, G. (2014) · Interface Focus · doi:10.1098/rsfs.2013.0074 · Cited by 180

Stable RNA interference rules for silencing

Fellmann, C., & Lowe, S. W. (2013) · Nature Cell Biology · doi:10.1038/ncb2895 · Cited by 170

Integrated proteotranscriptomics of breast cancer reveals globally increased protein-mRNA concordance associated with subtypes and survival

Tang, W., Zhou, M., Dorsey, T. H., Prieto, D. A., Wang, X. W., Ruppin, E., Veenstra, T. D., & Ambs, S. (2018) · Genome Medicine · doi:10.1186/s13073-018-0602-x · Cited by 162

High-Throughput Analysis Reveals Rules for Target RNA Binding and Cleavage by AGO2

Becker, W. R., Ober-Reynolds, B., Jouravleva, K., Jolly, S. M., Zamore, P. D., & Greenleaf, W. J. (2019) · Molecular Cell · doi:10.1016/j.molcel.2019.06.012 · Cited by 161

An extensive program of periodic alternative splicing linked to cell cycle progression

Dominguez, D., Tsai, Y., Weatheritt, R. J., Wang, Y., Blencowe, B. J., & Wang, Z. (2016) · eLife · doi:10.7554/elife.10288 · Cited by 167

Widespread intronic polyadenylation diversifies immune cell transcriptomes

Singh, I., Lee, S., Sperling, A. S., Samur, M., Tai, Y., Fulciniti, M., Munshi, N. C., Mayr, C., & Leslie, C. S. (2018) · Nature Communications · doi:10.1038/s41467-018-04112-z · Cited by 160

Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation

Sherstnev, A., Duc, C., Cole, C., Zacharaki, V., Hornyik, C., Ozsolak, F., Milos, P. M., Barton, G. J., & Simpson, G. G. (2012) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.2345 · Cited by 157

Post-transcriptional control during chronic inflammation and cancer: a focus on AU-rich elements

Khabar, K. S. A. (2010) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-010-0383-x · Cited by 157

Global Changes in Processing of mRNA 3′ Untranslated Regions Characterize Clinically Distinct Cancer Subtypes

Singh, P., Alley, T. L., Wright, S., Kamdar, S. J., Schott, W. H., Wilpan, R. Y., Mills, K. D., & Graber, J. H. (2009) · Cancer Research · doi:10.1158/0008-5472.can-09-2236 · Cited by 160

Architecture of eukaryotic mRNA 3′-end processing machinery

Casañal, A., Kumar, A., Hill, C. H., Easter, A., Emsley, P., Degliesposti, G., Gordiyenko, Y., Santhanam, B., Wolf, J., Wiederhold, K., et al. (2017) · Science · doi:10.1126/science.aao6535 · Cited by 157

Untitled work

van den Hoogenhof (2016) · doi:10.1161/circresaha.115.307872 · Cited by 134

E2F mediates enhanced alternative polyadenylation in proliferation

Elkon, R., Drost, J., van Haaften, G. W., Jenal, M., Schrier, M., Vrielink, J. A. F. O., & Agami, R. (2012) · Genome biology · doi:10.1186/gb-2012-13-7-r59 · Cited by 158

The genetic and biochemical determinants of mRNA degradation rates in mammals

Agarwal, V., & Kelley, D. R. (2022) · Genome Biology · doi:10.1186/s13059-022-02811-x · Cited by 155

Pumilio facilitates miRNA regulation of the E2F3 oncogenePreprint

Miles, W. O., Tschöp, K., Herr, A., Ji, J., & Dyson, N. J. (2012) · Genes & Development · doi:10.1101/gad.182568.111 · Cited by 154

Competing endogenous RNA interplay in cancer: mechanism, methodology, and perspectives

Cheng, D.-L., Xiang, Y., Ji, L.-J., & Lu, X. (2015) · Tumor Biology · doi:10.1007/s13277-015-3093-z · Cited by 154

Alternative polyadenylation: methods, mechanism, function, and role in cancer

Zhang, Y., Liu, L., Qiu, Q., Zhou, Q. H., Ding, J., Lü, Y., & Liu, P. (2021) · Journal of Experimental & Clinical Cancer Research · doi:10.1186/s13046-021-01852-7 · Cited by 158

Deterministic and Stochastic Allele Specific Gene Expression in Single Mouse Blastomeres

Tang, F., Bárbácioru, C., Nordman, E., Bao, S., Lee, C. G. L., Wang, X., Tuch, B. B., Heard, É., Lao, K., & Surani, M. A. (2011) · PLoS ONE · doi:10.1371/journal.pone.0021208 · Cited by 153

Alternative Polyadenylation Mediates MicroRNA Regulation of Muscle Stem Cell Function

Boutet, S. C., Cheung, T. H., Quach, N. L., Liu, L., Prescott, S. L., Edalati, A., Iori, K., & Rando, T. A. (2012) · Cell Stem Cell · doi:10.1016/j.stem.2012.01.017 · Cited by 150

Key contribution of CPEB4-mediated translational control to cancer progression

Zapater, E. O., Pineda, D., Martínez‐Bosch, N., Fernández‐Miranda, G., Iglesias, M., Alameda, F., Moreno, M., Eliscovich, C., Eyras, E., Real, F. X., et al. (2011) · Nature Medicine · doi:10.1038/nm.2540 · Cited by 149

Pre‐mRNA 3′‐end processing complex assembly and function

Chan, S., Choi, E., & Shi, Y. (2011) · WIREs RNA · doi:10.1002/wrna.54 · Cited by 147

Nudt21 Controls Cell Fate by Connecting Alternative Polyadenylation to Chromatin Signaling

Brumbaugh, J., Stefano, B. D., Wang, X., Borkent, M., Forouzmand, E., Clowers, K. J., Ji, F., Schwarz, B. A., Kalocsay, M., Elledge, S. J., et al. (2017) · Cell · doi:10.1016/j.cell.2017.11.023 · Cited by 148

Evolutionary Conservation and Expression of Human RNA-Binding Proteins and Their Role in Human Genetic Disease

Gerstberger, S. C., Hafner, M., Ascano, M., & Tuschl, T. (2014) · Advances in experimental medicine and biology · doi:10.1007/978-1-4939-1221-6_1 · Cited by 154

Alternative mRNA polyadenylation in eukaryotes: an effective regulator of gene expression

Lutz, C. S., & Moreira, A. (2010) · Wiley Interdisciplinary Reviews - RNA · doi:10.1002/wrna.47 · Cited by 143

The SLE Transcriptome Exhibits Evidence of Chronic Endotoxin Exposure and Has Widespread Dysregulation of Non-Coding and Coding RNAs

Shi, L., Zhang, Z., Yu, A. M., Wang, W., Wei, Z., Akhter, E., Maurer, K., Costa‐Reis, P., Song, L., Petri, M., et al. (2014) · PLoS ONE · doi:10.1371/journal.pone.0093846 · Cited by 142

An in-depth map of polyadenylation sites in cancer

Lin, Y., Li, Z., Ozsolak, F., Kim, S. W., Arango-Argoty, G., Liu, T. T., Tenenbaum, S. A., Bailey, T. L., Monaghan, A. P., Milos, P. M., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks637 · Cited by 142

UTR cutbacks give free rein to oncogenes

Atkinson, S. R. (2009) · Nature Reviews Genetics · doi:10.1038/nrg2668 · Cited by 1

Lengthening of 3′ Untranslated Regions of mRNAs by Alternative Polyadenylation Is Associated With Tumor Progression and Poor Prognosis of Clear Cell Renal Cell Carcinoma

Zhang, F., Chen, L., Li, W., Yang, C., Xiong, M., Zhou, M., Kazobinka, G., Zhao, J., & Hou, T. (2023) · Laboratory Investigation · doi:10.1016/j.labinv.2023.100125 · Cited by 4

The 3′ UTR Landscape in Cancer

Schmidt, R., Ghosh, S., & Zavolan, M. (2018) · Wiley eBooks · doi:10.1002/9780470015902.a0027958 · Cited by 3

Resolving the complexity of the cancer transcriptome through 3’ UTRs

Erson-Bensan, A. E. (2017) · OpenMETU (Middle East Technical University)

Abstract A14: Alternative polyadenylation drives oncogenic gene expression in pancreatic cancer

Venkat, S., Tisdale, A. A., Eng, K. H., & Feigin, M. E. (2019) · Cancer Research · doi:10.1158/1538-7445.panca19-a14