Widespread and Functional RNA Circularization in Localized Prostate Cancer
Open accessAbstract
The cancer transcriptome is remarkably complex, including low-abundance transcripts, many not polyadenylated. To fully characterize the transcriptome of localized prostate cancer, we performed ultra-deep total RNA-seq on 144 tumors with rich clinical annotation. This revealed a linear transcriptomic subtype associated with the aggressive intraductal carcinoma sub-histology and a fusion profile that differentiates localized from metastatic disease. Analysis of back-splicing events showed widespread RNA circularization, with the average tumor expressing 7,232 circular RNAs (circRNAs). The degree of circRNA production was correlated to disease progression in multiple patient cohorts. Loss-of-function screening identified 11.3% of highly abundant circRNAs as essential for cell proliferation; for ∼90% of these, their parental linear transcripts were not essential. Individual circRNAs can have distinct functions, with circCSNK1G3 promoting cell growth by interacting with miR-181. These data advocate for adoption of ultra-deep RNA-seq without poly-A selection to interrogate both linear and circular transcriptomes.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The text we found for this paper looks like another document, so the self-check wasn’t run.
Cites
R: A Language and Environment for Statistical Computing
R Core Team (2000) · doi:10.32614/r.manuals · Cited by 355,706 · see citing works
Fast gapped-read alignment with Bowtie 2
Langmead, B., & Salzberg, S. L. (2012) · Nature Methods · doi:10.1038/nmeth.1923 · Cited by 56,400 · see citing works
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 · see citing works
STAR: ultrafast universal RNA-seq aligner
Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics · doi:10.1093/bioinformatics/bts635 · Cited by 51,709 · see citing works
Robinson, M. D., McCarthy, D. J., & Smyth, G. K. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btp616 · Cited by 41,364 · see citing works
clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters
Yu, G., Wang, L.-G., Han, Y., & He, Q.-Y. (2012) · OMICS: A Journal of Integrative Biology · doi:10.1089/omi.2011.0118 · Cited by 36,259 · see citing works
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
Li, B., & Dewey, C. N. (2011) · BMC Bioinformatics · doi:10.1186/1471-2105-12-323 · Cited by 22,179 · see citing works
An integrated encyclopedia of DNA elements in the human genome
The ENCODE Project Consortium (2012) · Nature · doi:10.1038/nature11247 · Cited by 18,072 · see citing works
ggplot2: Elegant Graphics for Data Analysis
Ginestet, C. E. (2011) · Journal of the Royal Statistical Society Series A (Statistics in Society) · doi:10.1111/j.1467-985x.2010.00676_9.x · Cited by 14,484 · see citing works
ggplot2: Elegant Graphics for Data Analysis
Wickham, H. (2009) · doi:10.1007/978-0-387-98141-3 · Cited by 14,447 · see citing works
TopHat: discovering splice junctions with RNA-Seq
Trapnell, C., Pachter, L. S., & Salzberg, S. L. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp120 · Cited by 11,477 · see citing works
Inferring tumour purity and stromal and immune cell admixture from expression data
Yoshihara, K., Shahmoradgoli, M., Martínez, E., Vegesna, R., Kim, H., Torres-Garcia, W., Treviño, V., Shen, H., Laird, P. W., Levine, D. A., et al. (2013) · Nature Communications · doi:10.1038/ncomms3612 · Cited by 9,778 · see citing works
Modeling Survival Data: Extending the Cox Model
Therneau, T. M., & Grambsch, P. M. (2000) · Statistics for Biology and Health · doi:10.1007/978-1-4757-3294-8 · Cited by 8,674 · see citing works
<tt>BLAT</tt> —The <tt>BLAST</tt> -Like Alignment Tool
Kent, W. J. (2002) · Genome Research · doi:10.1101/gr.229202 · Cited by 8,480 · see citing works
Circular RNAs are a large class of animal RNAs with regulatory potency
Memczak, S., Jens, M., Elefsinioti, A., Torti, F., Krueger, J., Rybak, A., Maier, L., Mackowiak, S. D., Gregersen, L. H., Munschauer, M., et al. (2013) · Nature · doi:10.1038/nature11928 · Cited by 7,990 · see citing works
Natural RNA circles function as efficient microRNA sponges
Hansen, T. B., Jensen, T. I., Clausen, B. H., Bramsen, J. B., Finsen, B., Damgaard, C. K., & Kjems, J. (2013) · Nature · doi:10.1038/nature11993 · Cited by 7,985 · see citing works
ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking
Wilkerson, M. D., & Hayes, D. N. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq170 · Cited by 5,719 · see citing works
Li, J.-H., Liu, S., Zhou, H., Qu, L., & Yang, J.-H. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt1248 · Cited by 5,587 · see citing works
Self-citationMutational heterogeneity in cancer and the search for new cancer-associated genes
Lawrence, M. S., Stojanov, P., Polak, P., Kryukov, G. V., Cibulskis, K., Sivachenko, A., Carter, S. L., Stewart, C., Mermel, C. H., Roberts, S. A., et al. (2013) · Nature · doi:10.1038/nature12213 · Cited by 5,461 · see citing works
Genome-scale CRISPR-Cas9 knockout screening in human cells
Shalem, O., Sanjana, N. E., Hartenian, E., Shi, X., Scott, D. A., Mikkelsen, T. S., Heckl, D., Ebert, B. L., Root, D. E., Doench, J. G., et al. (2014) · Science · doi:10.1126/science.1247005 · Cited by 5,234 · see citing works
Software for Computing and Annotating Genomic Ranges
Lawrence, M. F., Huber, W. K., Pagès, H., Aboyoun, P., Carlson, M. R. J., Gentleman, R. C., Morgan, M. T., & Carey, V. J. (2013) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1003118 · Cited by 4,438 · see citing works
Circular RNAs are abundant, conserved, and associated with ALU repeats
Jeck, W. R., Sorrentino, J. A., Wang, K., Slevin, M. K., Burd, C. E., Liu, J., Marzluff, W. F., & Sharpless, N. E. (2013) · RNA · doi:10.1261/rna.035667.112 · Cited by 4,388 · see citing works
Molecular and genetic properties of tumors associated with local immune cytolytic activity
Rooney, M. S., Shukla, S. A., Wu, C. J., Getz, G., & Hacohen, N. (2015) · Cell · doi:10.1016/j.cell.2014.12.033 · Cited by 3,825 · see citing works
Integrative Clinical Genomics of Advanced Prostate Cancer
Robinson, D., Van Allen, E. M., Wu, Y.-M., Schultz, N., Lonigro, R. J., Mosquera, J.-M., Montgomery, B., Taplin, M.-E., Pritchard, C. C., Attard, G., et al. (2015) · Cell · doi:10.1016/j.cell.2015.05.001 · Cited by 3,645 · see citing works
Self-citationThe Molecular Taxonomy of Primary Prostate Cancer
Abeshouse, A. A., Ahn, J., Akbani, R., Ally, A., Amin, S. B., Andry, C., Annala, M., Aprikian, A. G., Armenia, J., Arora, A., et al. (2015) · Cell · doi:10.1016/j.cell.2015.10.025 · Cited by 3,082 · see citing works
Self-citationThe Split-Apply-Combine Strategy for Data Analysis
Wickham, H. (2011) · Journal of Statistical Software · doi:10.18637/jss.v040.i01 · Cited by 2,901 · see citing works
RSeQC: quality control of RNA-seq experiments
Wang, L., Wang, S., & Li, W. (2012) · Bioinformatics · doi:10.1093/bioinformatics/bts356 · Cited by 2,813 · see citing works
Li, W., Xu, H., Xiao, T., Cong, L., Love, M. I., Zhang, F., Irizarry, R. A., Liu, J. S., Brown, M., & Liu, X. S. (2014) · Genome Biology · doi:10.1186/s13059-014-0554-4 · Cited by 2,684 · see citing works
Gene expression correlates of clinical prostate cancer behavior
Singh, D., Febbo, P. G., Ross, K. N., Jackson, D. G., Manola, J. B., Ladd, C., Tamayo, P., Renshaw, A. A., D'Amico, A. V., Richie, J. P., et al. (2002) · Cancer Cell · doi:10.1016/s1535-6108(02)00030-2 · Cited by 2,513 · see citing works
Salzman, J., Gawad, C., Wang, P. L., Lacayo, N. J., & Brown, P. O. (2012) · PLoS ONE · doi:10.1371/journal.pone.0030733 · Cited by 2,457 · see citing works
A molecular signature of metastasis in primary solid tumors
Ramaswamy, S., Ross, K. N., Lander, E. S., & Golub, T. R. (2002) · Nature Genetics · doi:10.1038/ng1060 · Cited by 2,448 · see citing works
fitdistrplus : An R Package for Fitting Distributions
Delignette‐Muller, M. L., & Dutang, C. (2015) · Journal of Statistical Software · doi:10.18637/jss.v064.i04 · Cited by 2,391 · see citing works
The RNA Binding Protein Quaking Regulates Formation of circRNAs
Conn, S. J., Pillman, K. A., Toubia, J., Conn, V. M., Salmanidis, M., Phillips, C. A., Roslan, S., SCHREIBER, A. W., Gregory, P. A., & Goodall, G. J. (2015) · Cell · doi:10.1016/j.cell.2015.02.014 · Cited by 2,187 · see citing works
Complementary Sequence-Mediated Exon Circularization
Zhang, X.-O., Wang, H.-B., Zhang, Y., Lu, X., Chen, L.-L., & Yang, L. (2014) · Cell · doi:10.1016/j.cell.2014.09.001 · Cited by 1,999 · see citing works
Self-citationCell-Type Specific Features of Circular RNA Expression
Salzman, J., Chen, R. E., Olsen, M. N., Wang, P. L., & Brown, P. O. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003777 · Cited by 1,955 · see citing works
Meyers, R. M., Bryan, J. G., McFarland, J. M., Weir, B. A., Sizemore, A. E., Xu, H., Dharia, N. V., Montgomery, P. G., Cowley, G. S., Pantel, S., et al. (2017) · Nature Genetics · doi:10.1038/ng.3984 · Cited by 1,952 · see citing works
circBase: a database for circular RNAs
Glažar, P., Papavasileiou, P., & Rajewsky, N. (2014) · RNA · doi:10.1261/rna.043687.113 · Cited by 1,934 · see citing works
A Lentiviral RNAi Library for Human and Mouse Genes Applied to an Arrayed Viral High-Content Screen
Moffat, J., Grueneberg, D. A., Yang, X., Kim, S. Y., Kloepfer, A. M., Hinkle, G., Piqani, B., Eisenhaure, T., Luo, B., Grenier, J. K., et al. (2006) · Cell · doi:10.1016/j.cell.2006.01.040 · Cited by 1,803 · see citing works
The biogenesis and emerging roles of circular RNAs
Chen, L.-L. (2016) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2015.32 · Cited by 1,743 · see citing works
High-Resolution CRISPR Screens Reveal Fitness Genes and Genotype-Specific Cancer Liabilities.
Hart, T., Chandrashekhar, M., Aregger, M., Steinhart, Z., Brown, K. R., MacLeod, G., Mis, M., Zimmermann, M., Fradet-Turcotte, A., Sun, S., et al. (2015) · Cell · doi:10.1016/j.cell.2015.11.015 · Cited by 1,571 · see citing works
g:Profiler—a web server for functional interpretation of gene lists (2016 update)
Reimand, J., Arak, T., Adler, P., Kolberg, L., Reisberg, S., Peterson, H., & Vilo, J. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw199 · Cited by 1,229 · see citing works
The genomic complexity of primary human prostate cancer
Berger, M. F., Lawrence, M. S., Demichelis, F., Drier, Y., Cibulskis, K., Sivachenko, A., Sboner, A., Esgueva, R., Pflueger, D., Sougnez, C. L., et al. (2011) · Nature · doi:10.1038/nature09744 · Cited by 1,213 · see citing works
Loss of a mammalian circular RNA locus causes miRNA deregulation and affects brain function
Piwecka, M., Glažar, P., Hernandez-Miranda, L. R., Memczak, S., Wolf, S. A., Rybak-Wolf, A., Filipchyk, A., Klironomos, F., Cerda Jara, C. A., Fenske, P., et al. (2017) · Science · doi:10.1126/science.aam8526 · Cited by 1,210 · see citing works
Prensner, J. R., Iyer, M. K., Balbin, O. A., Dhanasekaran, S. M., Cao, Q., Brenner, J. C., Laxman, B., Asangani, I. A., Grasso, C. S., Kominsky, H. D., et al. (2011) · Nature Biotechnology · doi:10.1038/nbt.1914 · Cited by 1,026 · see citing works
Short intronic repeat sequences facilitate circular RNA productionPreprint
Liang, D., & Wilusz, J. E. (2014) · Genes & Development · doi:10.1101/gad.251926.114 · Cited by 959 · see citing works
A common language effect size statistic
McGraw, K. O., & Wong, S. P. (1992) · Psychological Bulletin · doi:10.1037/0033-2909.111.2.361 · Cited by 934 · see citing works
Abdelmohsen, K., Panda, A. C., Munk, R., Grammatikakis, I., Dudekula, D. B., De, S., Kim, J., Noh, J. H., Kim, K. M., Martindale, J. L., et al. (2017) · RNA Biology · doi:10.1080/15476286.2017.1279788 · Cited by 858 · see citing works
Oncogenic Role of Fusion-circRNAs Derived from Cancer-Associated Chromosomal Translocations
Guarnerio, J., Bezzi, M., Jeong, J. C., Paffenholz, S. V., Berry, K., Naldini, M. M., Lo‐Coco, F., Tay, Y., Beck, A. H., & Pandolfi, P. P. (2016) · Cell · doi:10.1016/j.cell.2016.03.020 · Cited by 739 · see citing works
Molecular landmarks of tumor hypoxia across cancer types
Bhandari, V., Hoey, C., Liu, L. Y., Lalonde, E., Ray, J., Livingstone, J., Lesurf, R., Shiah, Y.-J., Vujcic, T., Huang, X., et al. (2019) · Nature Genetics · doi:10.1038/s41588-018-0318-2 · Cited by 678 · see citing works
Self-citationPrensner, J. R., Iyer, M. K., Sahu, A., Asangani, I. A., Cao, Q., Patel, L. R., Vergara, I. A., Davicioni, E., Erho, N., Ghadessi, M., et al. (2013) · Nature Genetics · doi:10.1038/ng.2771 · Cited by 669 · see citing works
Self-citationProstate Cancer, Version 1.2016
Mohler, J. L., Armstrong, A. J., Bahnson, R. R., D'Amico, A. V., Davis, B. J., Eastham, J. A., Enke, C. A., Farrington, T. A., Higano, C. S., Horwitz, E. M., et al. (2016) · Journal of the National Comprehensive Cancer Network · doi:10.6004/jnccn.2016.0004 · Cited by 653 · see citing works
GENCODE: producing a reference annotation for ENCODE
Harrow, J., Denoeud, F., Frankish, A., Reymond, A., Chen, C.-K., Chrast, J., Lagarde, J., Gilbert, J. G., Storey, R., Swarbreck, D., et al. (2006) · Genome Biology · doi:10.1186/gb-2006-7-s1-s4 · Cited by 648 · see citing works
Memczak, S., Papavasileiou, P., Peters, O., & Rajewsky, N. (2015) · PLoS ONE · doi:10.1371/journal.pone.0141214 · Cited by 639 · see citing works
Coordinated circRNA Biogenesis and Function with NF90/NF110 in Viral Infection
Li, X., Liu, C., Xue, W., Zhang, Y., Jiang, S., Yin, Q.-F., Wei, J., Yao, R.-W., Yang, L. C., & Chen, L. (2017) · Molecular Cell · doi:10.1016/j.molcel.2017.05.023 · Cited by 629 · see citing works
Self-citationTrends in Management for Patients With Localized Prostate Cancer, 1990-2013
Cooperberg, M. R., & Carroll, P. R. (2015) · JAMA · doi:10.1001/jama.2015.6036 · Cited by 611 · see citing works
Genomic hallmarks of localized, non-indolent prostate cancer
Fraser, M. E., Sabelnykova, V. Y., Yamaguchi, T. N., Heisler, L. E., Livingstone, J. M., Huang, V., Shiah, Y.-J., Yousif, F., Lin, X., Masella, A. P., et al. (2017) · Nature · doi:10.1038/nature20788 · Cited by 589 · see citing works
Self-citationIntegrative Clinical Genomics of Advanced Prostate Cancer
Robinson, D. R., Allen, E. M. V., Wu, Y., Schultz, N. D., Lonigro, R. J., Mosquera, J., Montgomery, B., Taplin, M., Pritchard, C. C., Attard, G., et al. (2015) · Cell · doi:10.1016/j.cell.2015.06.053 · Cited by 570 · see citing works
Self-citationGenomic Copy Number Dictates a Gene-Independent Cell Response to CRISPR/Cas9 Targeting
Aguirre, A. J., Meyers, R. M., Weir, B. A., Vázquez, F., Zhang, C., Ben‐David, U., Cook, A., Ha, G., Harrington, W. F., Doshi, M. B., et al. (2016) · Cancer Discovery · doi:10.1158/2159-8290.cd-16-0154 · Cited by 565 · see citing works
Weng, W., Wei, Q., Toden, S., Yoshida, K., Nagasaka, T., Fujiwara, T., Cai, S., Qin, H., Ma, Y., & Goel, A. (2017) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-16-2541 · Cited by 511 · see citing works
Kramer, M. C., Liang, D., Tatomer, D. C., Gold, B., March, Z. M., Cherry, S. R., & Wilusz, J. E. (2015) · Genes & Development · doi:10.1101/gad.270421.115 · Cited by 494 · see citing works
Metastasis-Free Survival Is a Strong Surrogate of Overall Survival in Localized Prostate Cancer
Xie, W., Regan, M. M., Buyse, M. E., Halabi, S., Kantoff, P. W., Sartor, O. A., Soule, H. R., Clarke, N. W., Collette, L., Dignam, J. J., et al. (2017) · Journal of Clinical Oncology · doi:10.1200/jco.2017.73.9987 · Cited by 437 · see citing works
Liang, D., Tatomer, D. C., Luo, Z., Wu, H., Yang, L. C., Chen, L., Cherry, S. R., & Wilusz, J. E. (2017) · Molecular Cell · doi:10.1016/j.molcel.2017.10.034 · Cited by 435 · see citing works
Bishop, J. L., Thaper, D., Vahid, S., Davies, A., Ketola, K., Kuruma, H., Jama, R., Nip, K. M., Angeles, A., Johnson, F. D., et al. (2016) · Cancer Discovery · doi:10.1158/2159-8290.cd-15-1263 · Cited by 419 · see citing works
Self-citationWeischenfeldt, J., Dubash, T., Drainas, A. P., Mardin, B. R., Chen, Y., Stütz, A. M., Waszak, S. M., Bosco, G., Halvorsen, A. R., Raeder, B., et al. (2017) · Nature Genetics · doi:10.1038/ng.3722 · Cited by 404 · see citing works
Cowley, G., Weir, B., Vazquez, F., Tamayo, P., Scott, J. A., Rusin, S., East-Seletsky, A., Ali, L., Gerath, W. F. J., Pantel, S., et al. (2014) · Scientific Data · doi:10.1038/sdata.2014.35 · Cited by 398 · see citing works
FusionCatcher – a tool for finding somatic fusion genes in paired-end RNA-sequencing dataPreprint
Nicorici, D., Şatalan, M., Edgren, H., Kangaspeska, S., Murumägi, A., Kallioniemi, O., Virtanen, S. M. M., & Kilkku, O. (2014) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/011650 · Cited by 392 · see citing works
The circular RNA circBIRC6 participates in the molecular circuitry controlling human pluripotency
Yu, C.-Y., Li, T.-C., Wu, Y.-Y., Yeh, C.-H., Chiang, W., Chuang, C.-Y., & Kuo, H.-C. (2017) · Nature Communications · doi:10.1038/s41467-017-01216-w · Cited by 336 · see citing works
Zhao, S. G., Chang, S. L., Erho, N., Yu, M., Lehrer, J. M., Alshalalfa, M., Speers, C. W., Cooperberg, M. R., Kim, W. B., Ryan, C. J., et al. (2017) · JAMA Oncology · doi:10.1001/jamaoncol.2017.0751 · Cited by 309 · see citing works
Self-citationPrensner, J. R., Zhao, S. G., Erho, N., Schipper, M. J., Iyer, M. K., Dhanasekaran, S. M., Magi‐Galluzzi, C., Mehra, R., Sahu, A., Siddiqui, J., et al. (2014) · The Lancet Oncology · doi:10.1016/s1470-2045(14)71113-1 · Cited by 264 · see citing works
Self-citationThe Evolutionary Landscape of Localized Prostate Cancers Drives Clinical Aggression
Espiritu, S. M. G., Liu, L., Rubanova, Y., Bhandari, V., Holgersen, E. M., Szyca, L., Fox, N. S., Chua, M. L. K., Yamaguchi, T. N., Heisler, L. E., et al. (2018) · Cell · doi:10.1016/j.cell.2018.03.029 · Cited by 250 · see citing works
Self-citationRickman, D. S., Pflueger, D., Moss, B. J., VanDoren, V. E., Chen, C. X., TAILLE, A. D. L., Kuefer, R., Tewari, A. K., Setlur, S. R., Demichelis, F., et al. (2009) · Cancer Research · doi:10.1158/0008-5472.can-08-4926 · Cited by 226 · see citing works
Evolution of the Androgen Receptor Pathway during Progression of Prostate Cancer
Hendriksen, P. J. M., Dits, N. F. J., Kokame, K., Veldhoven, A., van Weerden, W. M., Bangma, C. H., Trapman, J., & Jenster, G. W. (2006) · Cancer Research · doi:10.1158/0008-5472.can-05-3082 · Cited by 226 · see citing works
Self-citationSequencing of prostate cancers identifies new cancer genes, routes of progression and drug targets
CAMCAP Study Group, Wedge, D. C., Gundem, G., Mitchell, T., Woodcock, D. J., Martincorena, I., Ghori, M., Zamora, J., Butler, A. P., Whitaker, H. C., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0086-z · Cited by 225 · see citing works
Self-citationBlattner, M., Liu, D., Robinson, B. D., Huang, D., Poliakov, A., Gao, D., Nataraj, S., Deonarine, L. D., Augello, M. A., Sailer, V., et al. (2017) · Cancer Cell · doi:10.1016/j.ccell.2017.02.004 · Cited by 204 · see citing works
MicroRNA Regulation of Cbx7 Mediates a Switch of Polycomb Orthologs during ESC Differentiation
O’Loghlen, A., Muñoz-Cabello, A. M., Gaspar‐Maia, A., Wu, H., Banito, A., Kunowska, N., Racek, T., Pemberton, H. N., Beolchi, P., Lavial, F., et al. (2012) · Cell stem cell · doi:10.1016/j.stem.2011.12.004 · Cited by 201 · see citing works
Shi, L., Yan, P., Liang, Y., Sun, Y., Shen, J., Zhou, S., Lin, H. M., Liang, X. H., & Cai, X. (2017) · Cell Death and Disease · doi:10.1038/cddis.2017.556 · Cited by 196 · see citing works
Modeling Survival Data: Extending the Cox Model
Gray, R. J. (2002) · Journal of the American Statistical Association · doi:10.1198/jasa.2002.s447 · Cited by 189 · see citing works
Chua, M. L. K., Lo, W. W., Pintilie, M., Murgić, J., Lalonde, E., Bhandari, V., Mahamud, O., Gopalan, A., Kweldam, C. F., van Leenders, G. J. L. H., et al. (2017) · European Urology · doi:10.1016/j.eururo.2017.04.034 · Cited by 177 · see citing works
Self-citationBöttcher, R., Kweldam, C. F., Livingstone, J. M., Lalonde, E., Yamaguchi, T. N., Huang, V., Yousif, F., Fraser, M. E., Bristow, R. G., van der Kwast, T., et al. (2018) · BMC Cancer · doi:10.1186/s12885-017-3976-z · Cited by 128 · see citing works
Self-citationBPG: Seamless, automated and interactive visualization of scientific data
P’ng, C., Green, J. J., Chong, L. C., Waggott, D. M., Prokopec, S. D., Shamsi, M., Nguyen, F., Mak, D. Y. F., Lam, F., Albuquerque, M., et al. (2019) · BMC Bioinformatics · doi:10.1186/s12859-019-2610-2 · Cited by 117 · see citing works
Self-citationqpure: A Tool to Estimate Tumor Cellularity from Genome-Wide Single-Nucleotide Polymorphism Profiles
Song, S., Nones, K., Miller, D. K., Harliwong, I., Kassahn, K. S., Pinese, M., Pajic, M., Gill, A. J., Johns, A. L., Anderson, M. J., et al. (2012) · PLoS ONE · doi:10.1371/journal.pone.0045835 · Cited by 112 · see citing works
Mansueto, G., Forzati, F., Ferraro, A., Pallante, P., Bianco, M. R., Esposito, F., Iaccarino, A., Troncone, G., & Fusco, A. (2010) · Genes & Cancer · doi:10.1177/1947601910366860 · Cited by 78 · see citing works
Fan, Y., Murphy, T. B., Byrne, J. C., Brennan, L., Fitzpatrick, J. M., & Watson, R. W. G. (2011) · Journal of Proteome Research · doi:10.1021/pr1011069 · Cited by 77 · see citing works
Yan, Z. P., Li, J., Xiong, Y., Xu, W., & Zheng, G. (2012) · Oncology Reports · doi:10.3892/or.2012.1891 · Cited by 60 · see citing works
Self-citationLi, S., Weng, J., Song, F., Li, L., Xiao, C. W., Yang, W., Zhu, Z., & Xu, J. (2019) · Cell Death and Disease · doi:10.1038/s41419-020-2616-8 · Cited by 50 · see citing works
Jackson, W., Suresh, K., Tumati, V., Allen, S. G., Dess, R. T., Salami, S. S., George, A. K., Kaffenberger, S. D., Miller, D. C., Hearn, J. W. D., et al. (2018) · European Urology · doi:10.1016/j.eururo.2017.12.023 · Cited by 39 · see citing works
Self-citationCircular RNA and tumor microenvironment
Song, H., Liu, Q., & Liao, Q. (2020) · Cancer Cell International · doi:10.1186/s12935-020-01301-z · Cited by 36 · see citing works
Matrix factorization with neural network for predicting circRNA-RBP interactions
Wang, Z., & Lei, X. (2020) · BMC Bioinformatics · doi:10.1186/s12859-020-3514-x · Cited by 31 · see citing works
Shuai, M., & Huang, L. (2020) · OncoTargets and Therapy · doi:10.2147/ott.s249202 · Cited by 29 · see citing works
Transcriptome Analysis of circRNA and mRNA in Theca Cells during Follicular Development in Chickens
Shen, M., Wu, P., Li, T., Wu, P., Chen, F., Chen, L., Xie, K., Wang, J., & Zhang, G. (2020) · Genes · doi:10.3390/genes11050489 · Cited by 29 · see citing works
Novel transcription-induced fusion RNAs in prostate cancer
Zhao, S., Løvf, M., Carm, K. T., Bakken, A. C., Hoff, A., & Skotheim, R. I. (2017) · Oncotarget · doi:10.18632/oncotarget.17099 · Cited by 15 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
The role of non-coding RNAs in oncology
Slack, F. J., & Chinnaiyan, A. M. (2019) · Cell · doi:10.1016/j.cell.2019.10.017 · Cited by 1,619 · see citing works
The expanding regulatory mechanisms and cellular functions of circular RNAs
Chen, L. (2020) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-020-0243-y · Cited by 1,714 · see citing works
The emerging roles of circRNAs in cancer and oncology
Kristensen, L. S., Jakobsen, T., Hager, H., & Kjems, J. (2021) · Nature Reviews Clinical Oncology · doi:10.1038/s41571-021-00585-y · Cited by 1,256 · see citing works
Goodall, G. J., & Wickramasinghe, V. O. (2020) · Nature reviews. Cancer · doi:10.1038/s41568-020-00306-0 · Cited by 1,070 · see citing works
Translation and functional roles of circular RNAs in human cancer
Lei, M., Zheng, G., Ning, Q., Zheng, J., & Dong, D. (2020) · Molecular Cancer · doi:10.1186/s12943-020-1135-7 · Cited by 814 · see citing works
Current advance of nanotechnology in diagnosis and treatment for malignant tumors
Wang, B., Hu, S., Teng, Y., Chen, J., Wang, H., Xu, Y., Wang, K., Xu, J., Cheng, Y., & Gao, X. (2024) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-024-01889-y · Cited by 604 · see citing works
Targeting circular RNAs as a therapeutic approach: current strategies and challenges
He, A. T., Liu, J., Li, F., & Yang, B. B. (2021) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-021-00569-5 · Cited by 556 · see citing works
“A high-throughput shRNA-based screening was performed to evaluate the importance of specific circRNAs in prostate cancer.(73) This analysis identified 171 circRNAs as essential for cell proliferation.”
BackgroundProteogenomic Characterization of Endometrial Carcinoma
Dou, Y., Kawaler, E. A., Cui Zhou, D., Gritsenko, M. A., Huang, C., Blumenberg, L., Karpova, A., Petyuk, V. A., Savage, S. R., Satpathy, S., et al. (2020) · Cell · doi:10.1016/j.cell.2020.01.026 · Cited by 485 · see citing works
“Circular RNAs (circRNAs) have recently drawn interest for their role in tumor biology (Chen et al., 2019; Dragomir and Calin, 2018; Hansen et al., 2013; Kristensen et al., 2018; Vo et al., 2019).”
BackgroundSelf-citationChen, S., Zhu, G., Yang, Y., Wang, F., Xiao, Y., Zhang, N., Bian, X., Zhu, Y., Yu, Y., Liu, F., et al. (2021) · Nature Cell Biology · doi:10.1038/s41556-020-00613-6 · Cited by 504 · see citing works
Self-citationLi, B., Zhu, L., Lu, C., Wang, C., Wang, H., Jin, H., Ma, X., Cheng, Z., Yu, C., Wang, S., et al. (2021) · Nature Communications · doi:10.1038/s41467-020-20527-z · Cited by 697 · see citing works
Xie, M., Yu, T., Jing, X., Ma, L., Fan, Y. J., Yang, F., Ma, P., Jiang, H., Wu, X., Shu, Y., et al. (2020) · Molecular Cancer · doi:10.1186/s12943-020-01208-3 · Cited by 429 · see citing works
“expressed in tissue, and thousands of them have differential expression between tumor and normal tissue [6, 7].”
BackgroundSelf-citationWu, W., Ji, P., & Zhao, F. (2020) · Genome biology · doi:10.1186/s13059-020-02018-y · Cited by 417 · see citing works
Screening for functional circular RNAs using the CRISPR–Cas13 system
Li, S., Li, X., Xue, W., Zhang, L., Yang, L.-Z., Cao, S.-M., Lei, Y.-N., Liu, C.-X., Guo, S.-K., Shan, L., et al. (2020) · Nature Methods · doi:10.1038/s41592-020-01011-4 · Cited by 355 · see citing works
“Cell 58, 870-885 (2015).”
Self-citationXia, X., Li, X., Li, F., Wu, X., Zhang, M., Zhou, H., Huang, N., Yang, X., Xiao, F., Liu, D., et al. (2019) · Molecular Cancer · doi:10.1186/s12943-019-1056-5 · Cited by 355 · see citing works
“The most recent study also supported that circRNAs and linear mRNAs may have individual functions during prostate cancer carcinogenesis [40].”
BackgroundSelf-citationEpigenetic Silencing of CDR1as Drives IGF2BP3-Mediated Melanoma Invasion and Metastasis
Hanniford, D., Ulloa-Morales, A. J., Karz, A., Berzoti-Coelho, M. G., Moubarak, R. S., Sánchez‐Sendra, B., Kloetgen, A., Dávalos, V., Imig, J., Wu, P., et al. (2020) · Cancer Cell · doi:10.1016/j.ccell.2019.12.007 · Cited by 345 · see citing works
“In contrast to a recent study in prostate cancer (Chen et al., 2019), we observed that the vast majority of DE circRNAs correlate strongly with their linear counterpart (Pearson, r > 0.”
ResultBiogenesis and Functions of Circular RNAs Come into Focus
Xiao, M., Ai, Y., & Wilusz, J. E. (2020) · Trends in Cell Biology · doi:10.1016/j.tcb.2019.12.004 · Cited by 315 · see citing works
Targeting epigenetic regulators to overcome drug resistance in cancers
Wang, N., Ma, T., & Yu, B. (2023) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-023-01341-7 · Cited by 319 · see citing works
“Acting as oncogenic factors or tumor suppressors, circRNAs are able to directly bind to proteins and interact with miRNAs to regulate cancer initiation.(92,93) Likewise, long non-coding RNAs are able to bind to both proteins and DNA to exert either tumor-promoting or tumorsuppressive effect.”
BackgroundBiogenesis and Regulatory Roles of Circular RNAs
Yang, L. C., Wilusz, J. E., & Chen, L. (2022) · Annual Review of Cell and Developmental Biology · doi:10.1146/annurev-cellbio-120420-125117 · Cited by 303 · see citing works
Circular RNA vaccine in disease prevention and treatment
Niu, D., Wu, Y., & Lian, J. (2023) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-023-01561-x · Cited by 273 · see citing works
“331,332 It is worth mentioning that the establishment of engineered circRNAs to mimic endogenous or exosomal noncoding circRNAs, which enables the manipulation of ceRNA interactions, may engender new research fi elds or disease therapeutic schedules.”
BackgroundNanozyme-catalysed CRISPR assay for preamplification-free detection of non-coding RNAs
Broto, M., Kaminski, M. M., Adrianus, C., Kim, N., Greensmith, R., Dissanayake-Perera, S., Schubert, A. J., Tan, X., Kim, H., Dighe, A. S., et al. (2022) · Nature Nanotechnology · doi:10.1038/s41565-022-01179-0 · Cited by 254 · see citing works
Pervasive translation of circular RNAs driven by short IRES-like elements
Fan, X., Yang, Y., Chen, C., & Wang, Z. (2022) · Nature Communications · doi:10.1038/s41467-022-31327-y · Cited by 235 · see citing works
Pan, B., Qin, J., Liu, X., He, B., Wang, X., Pan, Y., Sun, H., Xu, T., Xu, M., Chen, X., et al. (2019) · Frontiers in Genetics · doi:10.3389/fgene.2019.01096 · Cited by 232 · see citing works
Self-citationJiang, X., Guo, S., Wang, S., Zhang, Y., Chen, H., Wang, Y., Liu, R., Niu, Y., & Xu, Y. (2021) · Cancer Research · doi:10.1158/0008-5472.can-21-2988 · Cited by 218 · see citing works
Self-citationExosomal circRNA: emerging insights into cancer progression and clinical application potential
Zhang, F., Jiang, J., Qian, H., Yan, Y., & Xu, W. (2023) · Journal of Hematology & Oncology · doi:10.1186/s13045-023-01452-2 · Cited by 221 · see citing works
“Exosomal circRNAs have been shown to typically function as miRNA sponges or stabilizers [19, 20] and protein sponges or decoys [21].”
BackgroundRNA polymerase II speed: a key player in controlling and adapting transcriptome composition
Muniz, L., Nicolas, E., & Trouche, D. (2021) · The EMBO Journal · doi:10.15252/embj.2020105740 · Cited by 203 · see citing works
“Most importantly, recent results point to a causative role of circular RNAs on cancer progression (Chen et al , 2019).”
Okholm, T. L. H., Sathe, S., Park, S. S., Kamstrup, A. B., Rasmussen, A. M., Shankar, A., Chua, Z. M., Fristrup, N., Nielsen, M. M., Vang, S., et al. (2020) · Genome Medicine · doi:10.1186/s13073-020-00812-8 · Cited by 201 · see citing works
Yu, Y., Lv, D., Wang, C., Song, X., Xie, T., Wang, T., Li, Z., Guo, J.-D., Fu, D.-J., Li, K., et al. (2022) · Molecular Cancer · doi:10.1186/s12943-021-01480-x · Cited by 185 · see citing works
“Recently, more and more circRNAs have been noticed dysregulated in different kinds of malignancies, which participated in diversified physiological and pathological processes of tumors cells, including proliferation, cell cycle progression, and metastasis [9].”
BackgroundChen, Q., Liu, T., Bao, Y., Zhao, T., Wang, J., Wang, H., Wang, A., Gan, X., Wu, Z., & Wang, L. (2019) · Cancer Letters · doi:10.1016/j.canlet.2019.10.017 · Cited by 180 · see citing works
The potential of using blood circular RNA as liquid biopsy biomarker for human diseases
Wen, G., Zhou, T., & Gu, W. (2020) · Protein & Cell · doi:10.1007/s13238-020-00799-3 · Cited by 178 · see citing works
Comprehensive characterization of circular RNAs in ~ 1000 human cancer cell lines
Ruan, H., Xiang, Y., Ko, J., Li, S., Jing, Y., Zhu, X., Ye, Y., Zhang, Z., Mills, T., Feng, J. Q., et al. (2019) · Genome Medicine · doi:10.1186/s13073-019-0663-5 · Cited by 168 · see citing works
“functional roles to promote cell proliferation [14–16] and could serve as biomarkers in cancer [17, 18].”
BackgroundLin, J., Wang, X., Zhai, S., Shi, M., Peng, C., Deng, X., Fu, D., Wang, J., & Shen, B. (2022) · Journal of Hematology & Oncology · doi:10.1186/s13045-022-01348-7 · Cited by 166 · see citing works
“The loop structure of circRNAs makes them difficult to degrade in vivo, and they are widely abundant and specifically expressed in tumors and serum exosomes [13, 14].”
BackgroundZhang, Y., Nguyen, T. M., Zhang, X.-O., Wang, L., Phan, T., Clohessy, J. G., & Pandolfi, P. P. (2021) · Genome biology · doi:10.1186/s13059-021-02263-9 · Cited by 164 · see citing works
“Recently, shRNA-based functional screen has been employed to understand circRNA essentiality [15].”
BackgroundSelf-citationShen, P., Yang, T., Chen, Q., Yuan, H., Wu, P., Cai, B., Meng, L., Huang, X., Liu, J., Zhang, Y., et al. (2021) · Molecular Cancer · doi:10.1186/s12943-021-01333-7 · Cited by 165 · see citing works
Self-citationLu, J., Zhang, P., Huang, X., Guo, X.-J., Gao, C., Zeng, H., Zheng, Y.-M., Wang, S., Cai, J., Sun, Q., et al. (2021) · Journal of Hematology & Oncology · doi:10.1186/s13045-021-01207-x · Cited by 163 · see citing works
Zhu, Z., Rong, Z., Luo, Z., Yu, Z., Zhang, J., Qiu, Z., & Huang, C. (2019) · Molecular Cancer · doi:10.1186/s12943-019-1054-7 · Cited by 159 · see citing works
isoCirc catalogs full-length circular RNA isoforms in human transcriptomes
Xin, R., Gao, Y. P., Gao, Y., Wang, R., Kadash-Edmondson, K. E., Liu, B., Wang, Y., Lin, L., & Xing, Y. (2021) · Nature Communications · doi:10.1038/s41467-020-20459-8 · Cited by 159 · see citing works
circCAMSAP1 Promotes Tumor Growth in Colorectal Cancer via the miR-328-5p/E2F1 Axis
Zhou, C., Liu, H.-S., Wang, F., Hu, T., Liang, Z.-X., Lan, N., He, X.-W., Zheng, X.-B., Wu, X., Xie, D., et al. (2019) · Molecular Therapy · doi:10.1016/j.ymthe.2019.12.008 · Cited by 156 · see citing works
“Mechanistically, studies have shown that some circRNAs might serve as a microRNA (miRNA) sponge to inhibit miRNA functions.(19,20) Some circRNAs could bind to proteins and regulate gene functions.”
BackgroundSelf-citationLandscape of Noncoding RNA in Prostate Cancer
Hua, J. T., Chen, S., & He, H. H. (2019) · Trends in Genetics · doi:10.1016/j.tig.2019.08.004 · Cited by 151 · see citing works
Self-citationCellular and Molecular Mechanisms Underlying Prostate Cancer Development: Therapeutic Implications
Testa, U., Castelli, G., & Pelosi, E. (2019) · Medicines · doi:10.3390/medicines6030082 · Cited by 156 · see citing works
“The total circRNA burden correlates to disease progression in various patient cohorts [427].”
BackgroundInfluentialWang, X., Li, J., Bian, X., Wu, C., Hua, J., Chang, S., Yu, T., Li, H., Li, Y., Hu, S., et al. (2021) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2012881118 · Cited by 151 · see citing works
Self-citationCircular RNAs: The star molecules in cancer
Liu, J., Li, D., Luo, H., & Zhu, X. M. (2019) · Molecular Aspects of Medicine · doi:10.1016/j.mam.2019.10.006 · Cited by 148 · see citing works
Wang, Y., Wang, Y., Qin, Z., Cai, S., Yu, L., Hu, H., & Zeng, S. (2021) · Expert Opinion on Drug Metabolism & Toxicology · doi:10.1080/17425255.2021.1887139 · Cited by 140 · see citing works
“177 circRNAs are essential for cancer development, indicating a large number of circRNAs are related to the process of cancer or even cancer MDR [106].”
BackgroundCircRNAs: biogenesis, functions, and role in drug-resistant Tumours
Ma, S., Kong, S., Wang, F., & Ju, S. (2020) · Molecular Cancer · doi:10.1186/s12943-020-01231-4 · Cited by 137 · see citing works
HNRNPL Circularizes ARHGAP35 to Produce an Oncogenic Protein
Li, Y., Chen, B., Zhao, J., Li, Q., Chen, S., Guo, T., Li, Y., Lai, H., Chen, Z., Meng, Z., et al. (2021) · Advanced Science · doi:10.1002/advs.202001701 · Cited by 134 · see citing works
Self-citationGeng, X., Jia, Y., Zhang, Y., Shi, L., Li, Q., Zang, A., & Wang, H. (2019) · Epigenomics · doi:10.2217/epi-2019-0295 · Cited by 122 · see citing works
Self-citationAn Eight-CircRNA Assessment Model for Predicting Biochemical Recurrence in Prostate Cancer
Wang, S., Su, W., Zhong, C., Yang, T., Chen, W., Chen, G., Liu, Z., Wu, K., Zhong, W., Li, B., et al. (2020) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.599494 · Cited by 122 · see citing works
“In our work, the mRNAs and circRNAs obtained based on high-throughput sequencing and clinical data of 144 PCa patients are from GSE113124.”
MethodInfluentialNuclear export of circular RNA
Ngo, L. H., Bert, A. G., Dredge, B. K., Williams, T. D., Murphy, V. J., Li, W., Hamilton, W. B., Carey, K. T., Toubia, J., Pillman, K. A., et al. (2024) · Nature · doi:10.1038/s41586-024-07060-5 · Cited by 116 · see citing works
Nanotreatment and Nanodiagnosis of Prostate Cancer: Recent Updates
Barani, M., Sabir, F., Rahdar, A., Arshad, R., & Kyzas, G. Z. (2020) · Nanomaterials · doi:10.3390/nano10091696 · Cited by 109 · see citing works
“Prostate cancer can be localized and advanced depending upon its severity [3].”
BackgroundHuang, X., He, M., Huang, S., Lin, R., Zhan, M., Yang, D., Shen, H., Xu, S., Cheng, W., Yu, J., et al. (2019) · Molecular Cancer · doi:10.1186/s12943-019-1098-8 · Cited by 103 · see citing works
CircRNAs and their regulatory roles in cancers
Tao, M., Zheng, M., Xu, Y., Ma, S., Zhang, W., & Ju, S. (2021) · Molecular Medicine · doi:10.1186/s10020-021-00359-3 · Cited by 101 · see citing works
Understanding and targeting prostate cancer cell heterogeneity and plasticity
Tang, D. G. (2021) · Seminars in Cancer Biology · doi:10.1016/j.semcancer.2021.11.001 · Cited by 102 · see citing works
Du, W. W., Yang, W., Li, X., Fang, L., Wu, N., Li, F., Chen, Y., He, Q., Liu, E., Yang, Z., et al. (2020) · Molecular Therapy · doi:10.1016/j.ymthe.2020.03.002 · Cited by 98 · see citing works
Circular RNAs in physiology and non-immunological diseases
Chen, L., Huang, C., & Shan, G. (2021) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2021.11.004 · Cited by 97 · see citing works
Circular RNA CDR1as acts as a sponge of miR-135b-5p to suppress ovarian cancer progression
Chen, H., Mao, M., Jiang, J., Zhu, D., & Li, P. (2019) · OncoTargets and Therapy · doi:10.2147/ott.s207938 · Cited by 96 · see citing works
“Numerous studies have also demonstrated that circRNAs play an important regulatory role in the progression of various types of human tumors.(6,7) Therefore, the study of the role of circRNAs in cancer can provide new targets for the diagnosis and treatment of cancers and improve the overall survival of cancer patients.”
de Fraipont, F., Gazzéri, S., Cho, W. C. S., & Eymin, B. (2019) · Frontiers in Genetics · doi:10.3389/fgene.2019.00390 · Cited by 93 · see citing works
Xie, T., Fu, D.-J., Li, Z., Lv, D., Song, X., Yu, Y., Wang, C., Li, K., Zhai, B., Wu, J., et al. (2022) · Molecular Cancer · doi:10.1186/s12943-022-01630-9 · Cited by 93 · see citing works
“In addition, using publicly available sequencing data for circRNAs [21], we validated the prognostic relationship between circSMARCC1 and biochemical recurrence (BCR) in PCa patients.”
MethodZhang, X., Niu, W., Mu, M., Hu, S., & Niu, C. (2020) · Journal of Experimental & Clinical Cancer Research · doi:10.1186/s13046-020-01695-8 · Cited by 90 · see citing works
“RNA pull-down with 5′-biotinylated AS oligos was used a previously described method [50].”
MethodEmerging Roles of Exosomal Circular RNAs in Cancer
Seimiya, T., Otsuka, M., Iwata, T., Shibata, C., Tanaka, E., Suzuki, T., & Koike, K. (2020) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.568366 · Cited by 90 · see citing works
Best practices to ensure robust investigation of circular RNAs: pitfalls and tips
Dodbele, S., Mutlu, N., & Wilusz, J. E. (2021) · EMBO Reports · doi:10.15252/embr.202052072 · Cited by 82 · see citing works
“There are currently conflicting data as to whether circular RNAs made in vitro trigger innate immune responses when added to cells (Chen et al , 2017; Wesselhoeft et al , 2018; Wesselhoeft et al , 2019; Chen et al , 2019b).”
Circular RNAs as promising biomarkers in cancer: detection, function, and beyond
Li, S., & Han, L. (2019) · Genome Medicine · doi:10.1186/s13073-019-0629-7 · Cited by 79 · see citing works
Guidance of circular RNAs to proteins’ behavior as binding partners
Luo, J., Liu, H., Luan, S., & Li, Z. (2019) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-019-03216-z · Cited by 77 · see citing works
Mazrooei, P., Kron, K. J., Zhu, Y., Zhou, S., Grillo, G., Mehdi, T., Ahmed, M., Severson, T., Guilhamon, P., Armstrong, N. S., et al. (2019) · Cancer Cell · doi:10.1016/j.ccell.2019.10.005 · Cited by 73 · see citing works
Self-citationZhao, J., Jiang, Y., Zhang, H., Zhou, J., Chen, L., Li, H. R., Xu, J., Zhang, G., & Jing, Z. (2021) · Journal of Experimental & Clinical Cancer Research · doi:10.1186/s13046-021-01931-9 · Cited by 75 · see citing works
Xu, Z., Chen, S., Liu, R., Chen, H., Xu, B., Xu, W., & Chen, M. (2022) · Molecular Cancer · doi:10.1186/s12943-022-01607-8 · Cited by 75 · see citing works
Self-citationCui, Y., Wu, X., Jin, J., Man, W., Li, J., Li, X., Li, Y., He, Y., Liu, M., Zhong, R., et al. (2023) · Molecular Cancer · doi:10.1186/s12943-023-01888-7 · Cited by 76 · see citing works
“The landscape and action of circRNAs have been widely reported in various types of cancer [10], suggesting that circRNAs may be potential biomarkers or therapeutic targets [5, 11].”
BackgroundSelf-citationThe Circular RNA circHUWE1 Sponges the miR-29b-AKT3 Axis to Regulate Myoblast Development
Yue, B., Wang, J., Ru, W., Wu, J., Cao, X., Yang, H., Huang, Y., Lan, X., Lei, C., Huang, B., et al. (2020) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2019.12.039 · Cited by 71 · see citing works
“Among potential functions of circRNA, ceRNA effects, by which circRNA sponges miRNAs to alleviate degradation or translation repression of target mRNAs, have been increasingly described, especially in processes related to oncology.(22) Many studies showed that ceRNA crosstalk could be related to processes of myogenesi…”
BackgroundCircular RNAs drive oncogenic chromosomal translocations within the MLL recombinome in leukemia
Conn, V. M., Gabryelska, M., Toubia, J., Kirk, K., Gantley, L., Powell, J. A., Cildir, G., Marri, S., Liu, R., Stringer, B. W., et al. (2023) · Cancer Cell · doi:10.1016/j.ccell.2023.05.002 · Cited by 71 · see citing works
Ding, L., Wang, R., Zheng, Q., Shen, D., Wang, H., Lu, Z., Luo, W., Xie, H., Ren, L., Jiang, M., et al. (2022) · Journal of Experimental & Clinical Cancer Research · doi:10.1186/s13046-022-02391-5 · Cited by 70 · see citing works
Dong, Y., Gao, Q., Chen, Y., Zhang, Z., Du, Y., Liu, Y., Zhang, G., Li, S., Wang, G., Chen, X., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-38232-y · Cited by 70 · see citing works
“We performed overlap analyses among the two cohorts in this study, circAtlas 61 , and the MiOncoCirc 62,63 database.”
The influence of BRCA2 mutation on localized prostate cancer
Taylor, R. A., Fraser, M. E., Rebello, R. J., Boutros, P. C., Murphy, D. G., Bristow, R. G., & Risbridger, G. P. (2019) · Nature Reviews Urology · doi:10.1038/s41585-019-0164-8 · Cited by 69 · see citing works
Self-citationA Multi-Omics Perspective of Quantitative Trait Loci in Precision Medicine
Ye, Y., Zhang, Z., Liu, Y., Diao, L., & Han, L. (2020) · Trends in Genetics · doi:10.1016/j.tig.2020.01.009 · Cited by 64 · see citing works
Ahmed, M., Soares, F., Xia, J., Yang, Y., Li, J., Guo, H., Su, P., Tian, Y., Lee, H. J., Wang, M., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-21867-0 · Cited by 61 · see citing works
Self-citationSensitive, reliable and robust circRNA detection from RNA-seq with CirComPara2
Gaffo, E., Buratin, A., Molin, A. D., & Bortoluzzi, S. (2021) · Briefings in Bioinformatics · doi:10.1093/bib/bbab418 · Cited by 62 · see citing works
“GSE113120 (24 samples) 22Rv1, 42D, PC3, V16, LNCaP [48]”
Li, S., Li, J., Zhang, H., Zhang, Y., Wang, X., Yang, H., Zhou, Z., Hao, X., Ying, G., & Ba, Y. (2021) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2021.04.099 · Cited by 60 · see citing works
Self-citationHe, Y., Tao, W., He, T., Wang, B.-Y., Tang, X., Zhang, L., Zhenquan, W., Deng, W., Zhang, L.-X., Shao, C., et al. (2021) · Molecular Cancer · doi:10.1186/s12943-021-01388-6 · Cited by 60 · see citing works
The cell-free DNA methylome captures distinctions between localized and metastatic prostate tumors
Chen, S., Petricca, J., Ye, W., Guan, J., Zeng, Y., Cheng, N., Gong, L., Shen, S. Y., Hua, J. T., Crumbaker, M., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-34012-2 · Cited by 64 · see citing works
Self-citationXin, S., Liu, X., Li, Z., Sun, X., Wang, R., Zhang, Z., Feng, X., Jin, L., Li, W., Tang, C., et al. (2023) · Experimental Hematology and Oncology · doi:10.1186/s40164-023-00407-0 · Cited by 61 · see citing works
“PCa is a malignant tumor with significant heterogeneity, including inter-tumor, intratumor, and clinical heterogeneity, which is manifested by spatial and clonal genomic diversity [9].”
Backgroundhsa_circ_0007841: A Novel Potential Biomarker and Drug Resistance for Multiple Myeloma
Gao, M., Li, C., Xiao, H., Dong, H., Jiang, S., Fu, Y., & Gong, L. (2019) · Frontiers in Oncology · doi:10.3389/fonc.2019.01261 · Cited by 59 · see citing works
“They reported that circCSNK1G3 competitively bind to miR-181b/d and exhibit fundamental function on four prostate cancer cells (22).”
BackgroundMa, J., Du, W. W., Zeng, K., Wu, N., Fang, L., Lyu, J., Yee, A., & Yang, B. B. (2021) · Molecular Therapy · doi:10.1016/j.ymthe.2021.08.002 · Cited by 59 · see citing works
Understanding aberrant RNA splicing to facilitate cancer diagnosis and therapy
Dong, X., & Chen, R. (2019) · Oncogene · doi:10.1038/s41388-019-1138-2 · Cited by 58 · see citing works
“Two recent studies reported widespread expression of circRNAs in prostate tumor tissue samples [110, 111], advocating efforts to search for PCa-specific circRNAs detectable in patient plasma or urine.”
BackgroundRNA Dysregulation: An Expanding Source of Cancer Immunotherapy Targets
Pan, Y., Kadash-Edmondson, K. E., Wang, R., Phillips, J., Liu, S., Ribas, A., Aplenc, R., Witte, O. N., & Xing, Y. (2021) · Trends in Pharmacological Sciences · doi:10.1016/j.tips.2021.01.006 · Cited by 59 · see citing works
“CircRNAs perform biological functions in normal cells but can be dysregulated in cancer cells, resulting in distinct circRNA expression profiles in tumor tissues [36, 37].”
BackgroundSelf-citationHNRNPM controls circRNA biogenesis and splicing fidelity to sustain cancer cell fitness
Ho, J., Tullio, F. D., Schwarz, M. C., Low, D. H. P., Incarnato, D., Gay, F. P. H., Tabaglio, T., Zhang, J., Wollmann, H., Chen, L., et al. (2021) · eLife · doi:10.7554/elife.59654 · Cited by 58 · see citing works
“Data for circRNA in PCa patients was obtained from Chen et al., 2019 , NCBI GEO repository accession number: GSE113120.”
InfluentialSelf-citationCircRNA–miRNA networks in regulating bone disease
Huang, W., Wu, Y., Qiao, M., Xie, Z., Cen, X. B., Huang, X., & Zhao, Z. (2021) · Journal of Cellular Physiology · doi:10.1002/jcp.30625 · Cited by 56 · see citing works
“Nowadays, we find circRNAs play vital roles in many physiological or pathological processes, such as regulation of the immune system, proliferation of cancer cells, and neuronal functions, and so on (S. Chen et al., 2019; Gokool et al., 2020; Z. Liu et al., 2019).”
BackgroundThe landscape of RNA polymerase II–associated chromatin interactions in prostate cancer
Ramanand, S. G., Chen, Y., Yuan, J., Daescu, K., Lambros, M. B. K., Houlahan, K. E., Carreira, S., Yuan, W., Baek, G., Sharp, A., et al. (2020) · Journal of Clinical Investigation · doi:10.1172/jci134260 · Cited by 57 · see citing works
Self-citationChen, W., Cen, S., Zhou, X., Yang, T., Wu, K., Zou, L., Luo, J., Li, C., Lv, D., & Mao, X. (2021) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.624764 · Cited by 56 · see citing works
Liu, X., Liu, X., Cai, M., Luo, A., He, Y., Liu, S., Zhang, X., Yang, X., Xu, L., & Jiang, H. (2021) · Molecular Cancer · doi:10.1186/s12943-021-01395-7 · Cited by 56 · see citing works
“RNA pulldown assay A pulldown assay was performed as previously reported [27].”
MethodSelf-citationLi, D., Yang, Y. X., Li, Z.-Q., Li, L.-C., & Zhu, X. (2019) · Chinese Medical Journal · doi:10.1097/cm9.0000000000000465 · Cited by 55 · see citing works
The role of noncoding RNAs in epithelial cancer
Agostini, M., Ganini, C., Candi, E., & Melino, G. (2020) · Cell Death Discovery · doi:10.1038/s41420-020-0247-6 · Cited by 55 · see citing works
Circular RNA circMBOAT2 promotes prostate cancer progression via a miR-1271-5p/mTOR axis
Shi, J., Liu, C., Chen, C., Guo, K., Tang, Z., Luo, Y., Chen, L., Su, Y., & Xu, K. (2020) · Aging · doi:10.18632/aging.103432 · Cited by 54 · see citing works
“A recent study has revealed widespread expression and significant involvement of circRNAs in PCa [11].”
BackgroundLi, Y., Wang, Z., Gao, P., Cao, D., Dong, R., Zhu, M., Fei, Y., Zuo, X., & Cai, J. (2024) · Journal of Translational Medicine · doi:10.1186/s12967-024-05498-9 · Cited by 55 · see citing works
“With advances in high-throughput sequencing technology, many novel circRNAs have been identified in various cancers [38].”
BackgroundPan-cancer pervasive upregulation of 3′ UTR splicing drives tumourigenesis
Chan, J. J., Zhang, B., Chew, X. H., Salhi, A., Kwok, Z. H., Lim, C. Y., Desi, N., Subramaniam, N., Siemens, A., Kinanti, T., et al. (2022) · Nature Cell Biology · doi:10.1038/s41556-022-00913-z · Cited by 52 · see citing works
Circular RNAs in cardiovascular diseases
Mei, X., & Chen, S. (2021) · Pharmacology & Therapeutics · doi:10.1016/j.pharmthera.2021.107991 · Cited by 52 · see citing works
Self-citationPotential miRNA Use as a Biomarker: From Breast Cancer Diagnosis to Metastasis
Jordan‐Alejandre, E., Campos-Parra, A. D., Castro-López, D. L., & Silva-Cázares, M. B. (2023) · Cells · doi:10.3390/cells12040525 · Cited by 54 · see citing works
Zheng, Z., Chen, Z., Zhong, Q., Zhu, D., Xie, Y., Shangguan, W., & Xie, W. (2021) · Cancer Science · doi:10.1111/cas.14814 · Cited by 51 · see citing works
Li, S., Weng, J., Song, F., Li, L., Xiao, C. W., Yang, W., Zhu, Z., & Xu, J. (2019) · Cell Death and Disease · doi:10.1038/s41419-020-2616-8 · Cited by 50 · see citing works
The transcriptional landscape and biomarker potential of circular RNAs in prostate cancer
Hansen, E. B., Fredsøe, J., Okholm, T. L. H., Ulhøi, B. P., Klingenberg, S., Jensen, J. B., Kjems, J., Bouchelouche, K., Borre, M., Damgaard, C. K., et al. (2022) · Genome Medicine · doi:10.1186/s13073-021-01009-3 · Cited by 48 · see citing works
“Two previous studies have characterized the landscape of circRNA in cancer [10] and in PC in particular [11], demonstrating that circRNA expression is dysregulated in several malignancies, including in PC.”
BackgroundYao, B., Zhu, S., Wei, X., Chen, M., Feng, Y., Li, Z., Xu, X., Zhang, Y., Wang, Y., Zhou, J., et al. (2022) · Molecular Cancer · doi:10.1186/s12943-022-01598-6 · Cited by 48 · see citing works
“For example, circCSNK1G3 has been shown to promote the progression of PCa by interacting with miR-181 [52].”
BackgroundSelf-citationPotential circRNA-disease association prediction using DeepWalk and network consistency projection
Li, G., Luo, J., Wang, D., Liang, C., Xiao, Q., Ding, P., & Chen, H. (2020) · Journal of Biomedical Informatics · doi:10.1016/j.jbi.2020.103624 · Cited by 48 · see citing works
Novel insights into the interaction between N6-methyladenosine modification and circular RNA
Xu, T., He, B., Sun, H., Xiong, M., Nie, J., Wang, S., & Pan, Y. (2022) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2022.01.007 · Cited by 47 · see citing works
A New Era of Prostate Cancer Precision Medicine
Malik, A., Srinivasan, S., & Batra, J. (2019) · Frontiers in Oncology · doi:10.3389/fonc.2019.01263 · Cited by 47 · see citing works
- Authors
- Chen, S., Huang, V., Xu, X., Livingstone, J., Soares, F., Jeon, J., Zeng, Y., Hua, J. T., Petricca, J., Guo, H., Wang, M., Yousif, F., Zhang, Y., Donmez, N., Ahmed, M., Volik, S., Lapuk, A., Chua, M. L. K., Heisler, L. E., Foucal, A., Fox, N. S., Fraser, M., Bhandari, V., Shiah, Y.-J., Guan, J., Li, J., Orain, M., Picard, V., Hovington, H., Bergeron, A., Lacombe, L., Fradet, Y., Têtu, B., Liu, S., Feng, F., Wu, X., Shao, Y. W., Komor, M. A., Sahinalp, C., Collins, C., Hoogstrate, Y., de Jong, M., Fijneman, R. J. A., Fei, T., Jenster, G., van der Kwast, T., Bristow, R. G., Boutros, P. C., & He, H. H.
- Affiliations
- Ontario Institute for Cancer Research (CA)
- University Health Network (CA)
- Vancouver Prostate Centre (CA)
- Fudan University (CN)
- Centre de recherche du CHU de Québec-Université Laval (CA)
- Sunnybrook Health Science Centre (CA)
- University of California, San Francisco (US)
- Nanjing Medical University (CN)
- The Netherlands Cancer Institute (NL)
- University of British Columbia (CA)
- Erasmus MC (NL)
- Northeastern University (CN)
- Corresponding author
- Boutros, Paul C.
- He, Housheng Hansen
- ORCID
- Chen, Sujun
- Huang, Vincent
- Xu, Xin
- Livingstone, Julie
- Soares, Fraser
- Jeon, Jouhyun
- Zeng, Yong
- Hua, Junjie Tony
- Guo, Haiyang
- Zhang, Yuzhe
- Ahmed, Musaddeque
- Lapuk, Anna
- Chua, Melvin L.K.
- Heisler, Lawrence E.
- Foucal, Adrien
- Fox, Natalie S.
- Fraser, Michael
- Bhandari, Vinayak
- Shiah, Yu-Jia
- Guan, Jiansheng
- Li, Jixi
- Orain, Michèle
- Picard, Valérie
- Hovington, Hélène
- Bergeron, Alain
- Lacombe, Louis
- Fradet, Yves
- Têtu, Bernard
- Liu, Stanley
- Feng, Felix
- Wu, Xue
- Shao, Yang W.
- Komor, Malgorzata A.
- Collins, Colin
- Hoogstrate, Youri
- Fijneman, Remond J.A.
- Fei, Teng
- Jenster, Guido
- Bristow, Robert G.
- Boutros, Paul C.
- He, Housheng Hansen
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2019-02
- Volume
- 176
- Issue
- 4
- Pages
- 831-843.e22
- ISSN
- 0092-8674 (ISSN-L)
- OpenAlex
- W2913336364
- Cited by
- 544
- References
- 91
- Citations by year
- 2026: 13 · 2025: 26 · 2024: 107 · 2023: 44 · 2022: 105 · 2021: 110 · 2020: 83 · 2019: 55
- FWCI
- 31.45
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Cell (publishedVersion)
- PubMed (publishedVersion)
- Research Explorer (The University of Manchester) (publishedVersion)
- EUR Research Repository (Erasmus University Rotterdam) (submittedVersion)
- Funders
- Princess Margaret Cancer Foundation (886012001223)
- Canada Foundation for Innovation and Ontario Research Fund (CFI32372)
- NSERC (498706)
- Canadian Cancer Society (705649, 703800)
- Prostate Cancer Canada (RS2014-01, RS2016-1022)
- CIHR (146586, 142246, 152863, 152864, 159567)
- Ontario Institute for Cancer Research
- TFRI
- OMIR
- Shanghai Committee of Science and Technology (18430711400)
- University of Toronto
- STARS21
- CTMM (03O-402)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Circular RNAs in diseases
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer-related molecular mechanisms research
- Keywords
- circular RNA, RNA circularization, localized prostate cancer, back-splicing, intraductal carcinoma, metastatic prostate cancer, miR-181, cell proliferation, transcriptomic subtypes
- MeSH terms
- Genetic Profile, RNA, Circular, Humans, Male, Prostate, Prostatic Neoplasms, RNA, RNA Splicing, Sequence Analysis, RNA, Gene Expression Profiling, RNA, Untranslated, MicroRNAs, HEK293 Cells, Transcriptome
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