High-Throughput Analysis Reveals Rules for Target RNA Binding and Cleavage by AGO2
Open accessAbstract
Argonaute proteins loaded with microRNAs (miRNAs) or small interfering RNAs (siRNAs) form the RNA-induced silencing complex (RISC), which represses target RNA expression. Predicting the biological targets, specificity, and efficiency of both miRNAs and siRNAs has been hamstrung by an incomplete understanding of the sequence determinants of RISC binding and cleavage. We applied high-throughput methods to measure the association kinetics, equilibrium binding energies, and single-turnover cleavage rates of mouse AGO2 RISC. We find that RISC readily tolerates insertions of up to 7 nt in its target opposite the central region of the guide. Our data uncover specific guide:target mismatches that enhance the rate of target cleavage, suggesting novel siRNA design strategies. Using these data, we derive quantitative models for RISC binding and target cleavage and show that our in vitro measurements and models predict knockdown in an engineered cellular system.
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
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?
Recent efforts have shown success at identifying candidate miRNA target sites in vitro using purified RISC complex pre-loaded with a miRNA of interest, followed by high-throughput RNA binding assays.
“Recent efforts have shown success at identifying candidate miRNA target sites in vitro using purified RISC complex pre-loaded with a miRNA of interest, followed by highthroughput RNA binding assays (Becker et al., 2019;McGeary et al., 2019).”
From Scalable and deep profiling of mRNA targets for individual microRNAs with chimeric eCLIP (2022) · cites this paper as Becker et al., 2019
Recent work performing in vitro RNA binding assays using pre-formed miRNA-loaded Argonaute complexes has shown that these complexes readily bind RNA with similar targeting principles as in vivo-identified miRNA targets.
“However, recent work performing in vitro RNA binding assays using pre-formed miRNA-loaded Argonaute complexes has shown that these complexes readily bind RNA with similar targeting principles as in vivo-identified miRNA targets (Becker et al., 2019;McGeary et al., 2019)”
From Scalable and deep profiling of mRNA targets for individual microRNAs with chimeric eCLIP (2022) · cites this paper as Becker et al., 2019
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106 · see citing works
MicroRNAs: Target Recognition and Regulatory Functions
Bartel, D. P. (2009) · Cell · doi:10.1016/j.cell.2009.01.002 · Cited by 20,068 · see citing works
Dignam, J. D., Lebovitz, R. M., & Roeder, R. G. (1983) · Nucleic Acids Research · doi:10.1093/nar/11.5.1475 · Cited by 11,262 · see citing works
Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells
Elbashir, S. M., Harborth, J., Lendeckel, W., Yalcin, A., Weber, K., & Tuschl, T. (2001) · Nature · doi:10.1038/35078107 · Cited by 9,456 · see citing works
Predicting effective microRNA target sites in mammalian mRNAs
Agarwal, V., Bell, G. W., Nam, J.-W., & Bartel, D. P. (2015) · eLife · doi:10.7554/elife.05005 · Cited by 7,318 · see citing works
Lorenz, R., Bernhart, S. H., Höner zu Siederdissen, C., Tafer, H., Flamm, C., Stadler, P. F., & Hofacker, I. L. (2011) · Algorithms for Molecular Biology · doi:10.1186/1748-7188-6-26 · Cited by 5,098 · see citing works
The HCV Life Cycle: In vitro Tissue Culture Systems and Therapeutic Targets
Gerold, G., & Pietschmann, T. (2014) · Digestive Diseases · doi:10.1159/000360830 · Cited by 4,854 · see citing works
Combinatorial microRNA target predictions
Krek, A., Grün, D., Poy, M. N., Wolf, R., Rosenberg, L., Epstein, E. J., MacMenamin, P., da Piedade, I., Gunsalus, K. C., Stoffel, M., et al. (2005) · Nature Genetics · doi:10.1038/ng1536 · Cited by 4,603 · see citing works
Prediction of Mammalian MicroRNA Targets
Lewis, B. P., Shih, I.-H., Jones-Rhoades, M. W., Bartel, D. P., & Burge, C. B. (2003) · Cell · doi:10.1016/s0092-8674(03)01018-3 · Cited by 4,333 · see citing works
Mammalian microRNAs predominantly act to decrease target mRNA levels
Guo, H., Ingolia, N. T., Weissman, J. S., & Bartel, D. P. (2010) · Nature · doi:10.1038/nature09267 · Cited by 3,886 · see citing works
Bartel, D. P. (2018) · Cell · doi:10.1016/j.cell.2018.03.006 · Cited by 3,751 · see citing works
The impact of microRNAs on protein output
Baek, D., Villén, J., Shin, C., Camargo, F. D., Gygi, S. P., & Bartel, D. P. (2008) · Nature · doi:10.1038/nature07242 · Cited by 3,592 · see citing works
Widespread changes in protein synthesis induced by microRNAs
Selbach, M., Schwanhäusser, B., Thierfelder, N., Fang, Z., Khanin, R., & Rajewsky, N. (2008) · Nature · doi:10.1038/nature07228 · Cited by 3,429 · see citing works
Patisiran, an RNAi Therapeutic, for Hereditary Transthyretin Amyloidosis
Adams, D., Gonzalez-Duarte, A., O’Riordan, W. D., Yang, C.-C., Ueda, M., Kristen, A. V., Tournev, I., Schmidt, H. H., Coelho, T., Berk, J. L., et al. (2018) · New England Journal of Medicine · doi:10.1056/nejmoa1716153 · Cited by 3,047 · see citing works
An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells
Hammond, S. M., Bernstein, E., Beach, D., & Hannon, G. J. (2000) · Nature · doi:10.1038/35005107 · Cited by 3,006 · see citing works
Zamore, P. D., Tuschl, T., Sharp, P. A., & Bartel, D. P. (2000) · Cell · doi:10.1016/s0092-8674(00)80620-0 · Cited by 2,667 · see citing works
Self-citationArgonaute2 is the catalytic engine of mammalian RNAi
Liu, J., Carmell, M. A., Rivas, F. V., Marsden, C. G., Thomson, J. M., Song, J.-J., Hammond, S. M., Joshua-Tor, L., & Hannon, G. J. (2004) · Science · doi:10.1126/science.1102513 · Cited by 2,353 · see citing works
A microRNA in a Multiple-Turnover RNAi Enzyme Complex
Hutvágner, G., & Zamore, P. D. (2002) · Science · doi:10.1126/science.1073827 · Cited by 2,081 · see citing works
Self-citationArgonaute HITS-CLIP decodes microRNA–mRNA interaction maps
Chi, S. W., Zang, J. B., Mele, A., & Darnell, R. B. (2009) · Nature · doi:10.1038/nature08170 · Cited by 1,791 · see citing works
Specificity of microRNA target selection in translational repressionPreprint
Doench, J. G., & Sharp, P. A. (2004) · Genes & Development · doi:10.1101/gad.1184404 · Cited by 1,642 · see citing works
Mayr, C., & Bartel, D. P. (2009) · Cell · doi:10.1016/j.cell.2009.06.016 · Cited by 1,613 · see citing works
Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites
Betel, D., Koppal, A., Agius, P., Sander, C., & Leslie, C. (2010) · Genome Biology · doi:10.1186/gb-2010-11-8-r90 · Cited by 1,592 · see citing works
Mapping the Human miRNA Interactome by CLASH Reveals Frequent Noncanonical Binding
Helwak, A., Kudla, G., Dudnakova, T., & Tollervey, D. (2013) · Cell · doi:10.1016/j.cell.2013.03.043 · Cited by 1,269 · see citing works
siRNAs can function as miRNAsPreprint
Doench, J. G., Petersen, C. P., & Sharp, P. A. (2003) · Genes & Development · doi:10.1101/gad.1064703 · Cited by 1,262 · see citing works
Overcoming cellular barriers for RNA therapeutics
Dowdy, S. F. (2017) · Nature Biotechnology · doi:10.1038/nbt.3802 · Cited by 1,139 · see citing works
A biochemical framework for RNA silencing in plantsPreprint
Tang, G., Reinhart, B. J., Bartel, D. P., & Zamore, P. D. (2003) · Genes & Development · doi:10.1101/gad.1048103 · Cited by 984 · see citing works
Self-citationPerspective: machines for RNAiPreprint
Tomari, Y., & Zamore, P. D. (2005) · Genes & Development · doi:10.1101/gad.1284105 · Cited by 950 · see citing works
Self-citationZeng, Y., Wagner, E. J., & Cullen, B. R. (2002) · Molecular Cell · doi:10.1016/s1097-2765(02)00541-5 · Cited by 833 · see citing works
Knocking down disease: a progress report on siRNA therapeutics
Wittrup, A., & Lieberman, J. (2015) · Nature Reviews Genetics · doi:10.1038/nrg3978 · Cited by 810 · see citing works
Therapeutic miRNA and siRNA: Moving from Bench to Clinic as Next Generation Medicine
Chakraborty, C., Sharma, A. R., Sharma, G., Doss, C. G. P., & Lee, S. (2017) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2017.06.005 · Cited by 731 · see citing works
Ribosome Profiling Shows That miR-430 Reduces Translation Before Causing mRNA Decay in Zebrafish
Bazzini, A. A., Lee, M. T., & Giraldez, A. J. (2012) · Science · doi:10.1126/science.1215704 · Cited by 709 · cited 1× · see citing works
“, 2010) or inhibit mRNA translation (Doench et al., 2003; Doench and Sharp, 2004; Hendrickson et al., 2009; Bazzini et al., 2012).”
The Crystal Structure of Human Argonaute2
Schirle, N. T., & MacRae, I. J. (2012) · Science · doi:10.1126/science.1221551 · Cited by 697 · see citing works
Structural basis for 5′-end-specific recognition of guide RNA by the A. fulgidus Piwi protein
Ma, J., Yuan, Y. A., Meister, G., Pei, Y., Tuschl, T., & Patel, D. J. (2005) · Nature · doi:10.1038/nature03514 · Cited by 649 · see citing works
The Structure of Human Argonaute-2 in Complex with miR-20a
Elkayam, E., Kuhn, C., Tocilj, A., Haase, A. D. D., Greene, E. M., Hannon, G. J., & Joshua‐Tor, L. (2012) · Cell · doi:10.1016/j.cell.2012.05.017 · Cited by 615 · see citing works
Expanding the MicroRNA Targeting Code: Functional Sites with Centered Pairing
Shin, C., Nam, J.-W., Farh, K. K.-H., Chiang, H. R., Shkumatava, A., & Bartel, D. P. (2010) · Molecular Cell · doi:10.1016/j.molcel.2010.06.005 · Cited by 611 · see citing works
Target RNA–Directed Trimming and Tailing of Small Silencing RNAs
Ameres, S. L., Horwich, M. D., Hung, J.-H., Xu, J., Ghildiyal, M., Weng, Z., & Zamore, P. D. (2010) · Science · doi:10.1126/science.1187058 · Cited by 597 · see citing works
Self-citationStructure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex
Wang, Y., Juranek, S., Li, H., Sheng, G., Tuschl, T., & Patel, D. J. (2008) · Nature · doi:10.1038/nature07666 · Cited by 577 · see citing works
Structural basis for microRNA targeting
Schirle, N. T., Sheu‐Gruttadauria, J., & MacRae, I. J. (2014) · Science · doi:10.1126/science.1258040 · Cited by 563 · see citing works
Molecular Basis for Target RNA Recognition and Cleavage by Human RISC
Ameres, S. L., Martı̂nez, J., & Schroeder, R. (2007) · Cell · doi:10.1016/j.cell.2007.04.037 · Cited by 559 · see citing works
Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes
Wang, Y., Juranek, S., Li, H., Sheng, G., Wardle, G. S., Tuschl, T., & Patel, D. J. (2009) · Nature · doi:10.1038/nature08434 · Cited by 542 · see citing works
Structural insights into mRNA recognition from a PIWI domain–siRNA guide complex
Parker, J. S., Roe, S. M., & Barford, D. (2005) · Nature · doi:10.1038/nature03462 · Cited by 531 · see citing works
Functional microRNA targets in protein coding sequences
Reczko, M., Maragkakis, M., Alexiou, P., Große, I., & Hatzigeorgiou, A. G. (2012) · Bioinformatics · doi:10.1093/bioinformatics/bts043 · Cited by 503 · see citing works
Kinetic analysis of the RNAi enzyme complex
Haley, B., & Zamore, P. D. (2004) · Nature Structural & Molecular Biology · doi:10.1038/nsmb780 · Cited by 454 · see citing works
Self-citationConcordant Regulation of Translation and mRNA Abundance for Hundreds of Targets of a Human microRNA
Hendrickson, D. G., Hogan, D. J., McCullough, H. L., Myers, J. W., Herschlag, D., Ferrell, J. E., & Brown, P. O. (2009) · PLoS Biology · doi:10.1371/journal.pbio.1000238 · Cited by 418 · see citing works
A Pumilio-induced RNA structure switch in p27-3′ UTR controls miR-221 and miR-222 accessibility
Kedde, M., van Kouwenhove, M., Zwart, W. T., Vrielink, J. A. F. O., Elkon, R., & Agami, R. (2010) · Nature Cell Biology · doi:10.1038/ncb2105 · Cited by 406 · see citing works
Argonaute Divides Its RNA Guide into Domains with Distinct Functions and RNA-Binding Properties
Wee, L. M., Flores-Jasso, C. F., Salomon, W. E., & Zamore, P. D. (2012) · Cell · doi:10.1016/j.cell.2012.10.036 · Cited by 392 · see citing works
Self-citationDevelopmental barcoding of whole mouse via homing CRISPR
Kalhor, R., Kalhor, K., Mejia, L., Leeper, K., Graveline, A., Mali, P., & Church, G. M. (2018) · Science · doi:10.1126/science.aat9804 · Cited by 363 · see citing works
A Slicer-independent role for Argonaute 2 in hematopoiesis and the microRNA pathwayPreprint
O’Carroll, D., Mecklenbräuker, I., Das, P. P., Santana, A., Koenig, U., Enright, A. J., Miska, E. A., & Tarakhovsky, A. (2007) · Genes & Development · doi:10.1101/gad.1565607 · Cited by 343 · see citing works
Hepatitis C Virus RNA Functionally Sequesters miR-122
Luna, J. M., Scheel, T. K. H., Danino, T., Shaw, K. S., Mele, A., Fak, J. J., Nishiuchi, E., Takacs, C. N., Catanese, M. T., de Jong, Y. P., et al. (2015) · Cell · doi:10.1016/j.cell.2015.02.025 · Cited by 332 · see citing works
An alternative mode of microRNA target recognition
Chi, S. W., Hannon, G. J., & Darnell, R. B. (2012) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.2230 · Cited by 328 · see citing works
The silent treatment: siRNAs as small molecule drugs
Dykxhoorn, D. M., Palliser, D., & Lieberman, J. (2006) · Gene Therapy · doi:10.1038/sj.gt.3302703 · Cited by 328 · see citing works
Transcriptome-wide miR-155 Binding Map Reveals Widespread Noncanonical MicroRNA Targeting
Loeb, G. B., Khan, A. A., Canner, D., Hiatt, J. B., Shendure, J., Darnell, R. B., Leslie, C. S., & Rudensky, A. Y. (2012) · Molecular Cell · doi:10.1016/j.molcel.2012.10.002 · Cited by 311 · see citing works
Grosswendt, S., Filipchyk, A., Manzano, M., Klironomos, F., Schilling, M., Herzog, M., Gottwein, E., & Rajewsky, N. (2014) · Molecular Cell · doi:10.1016/j.molcel.2014.03.049 · Cited by 282 · see citing works
Machlin, E. S., Sarnow, P., & Sagan, S. M. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1012464108 · Cited by 282 · see citing works
Designing siRNA That Distinguish between Genes That Differ by a Single Nucleotide
Schwarz, D. S., Ding, H., Kennington, L. A., Moore, J. T., Schelter, J. M., Burchard, J., Linsley, P. S., D, N. A. M., Xu, Z., & Zamore, P. D. (2006) · PLoS Genetics · doi:10.1371/journal.pgen.0020140 · Cited by 271 · see citing works
Self-citationSalomon, W. E., Jolly, S. M., Moore, M. J., Zamore, P. D., & Serebrov, V. (2015) · Cell · doi:10.1016/j.cell.2015.06.029 · Cited by 266 · see citing works
Self-citationPfister, E. L., Kennington, L., Straubhaar, J., Wagh, S., Liu, W., DiFiglia, M., Landwehrmeyer, B., Vonsattel, J.-P., Zamore, P. D., & Aronin, N. (2009) · Current Biology · doi:10.1016/j.cub.2009.03.030 · Cited by 261 · see citing works
Self-citationA Dynamic Search Process Underlies MicroRNA Targeting
Chandradoss, S. D., Schirle, N. T., Szczepaniak, M., MacRae, I. J., & Joo, C. (2015) · Cell · doi:10.1016/j.cell.2015.06.032 · Cited by 244 · see citing works
Gene regulation. Structural basis for microRNA targeting.
Schirle, N. T., Sheu‐Gruttadauria, J., & MacRae, I. J. (2014) · Science · doi:10.2210/pdb4w5n/pdb · Cited by 227 · see citing works
Buenrostro, J. D., Araya, C. L., Chircus, L. M., Layton, C. J., Chang, H. Y., Snyder, M. P., & Greenleaf, W. J. (2014) · Nature Biotechnology · doi:10.1038/nbt.2880 · Cited by 220 · see citing works
Self-citationHuman Argonaute 2 Has diverse reaction pathways on Target RNAs
Jo, M. H., Shin, S., Jung, S.-R., Kim, E., Song, J.-J., & Hohng, S. (2015) · Molecular Cell · doi:10.1016/j.molcel.2015.04.027 · Cited by 207 · see citing works
A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets
Khorshid, M., Hausser, J., Zavolan, M., & van Nimwegen, E. (2013) · Nature Methods · doi:10.1038/nmeth.2341 · Cited by 154 · see citing works
Enhancement of the Seed-Target Recognition Step in RNA Silencing by a PIWI/MID Domain Protein
Parker, J. S., Parizotto, E. A., Wang, M., Roe, S. M., & Barford, D. (2009) · Molecular Cell · doi:10.1016/j.molcel.2008.12.012 · Cited by 149 · see citing works
Beyond the seed: structural basis for supplementary microRNA targeting by human Argonaute2
Sheu‐Gruttadauria, J., Xiao, Y., Gebert, L. F. R., & MacRae, I. J. (2019) · The EMBO Journal · doi:10.15252/embj.2018101153 · Cited by 146 · see citing works
Highly Complementary Target RNAs Promote Release of Guide RNAs from Human Argonaute2
De, N., Young, L. E., Lau, P., Meisner-Kober, N. C., Morrissey, D. V., & MacRae, I. J. (2013) · Molecular Cell · doi:10.1016/j.molcel.2013.04.001 · Cited by 131 · see citing works
Wang, W., Yoshikawa, M., Han, B., Izumi, N., Tomari, Y., Weng, Z., & Zamore, P. D. (2014) · Molecular Cell · doi:10.1016/j.molcel.2014.10.016 · Cited by 112 · see citing works
Self-citationWater-mediated recognition of t1-adenosine anchors Argonaute2 to microRNA targets
Schirle, N. T., Sheu‐Gruttadauria, J., Chandradoss, S. D., Joo, C., & MacRae, I. J. (2015) · eLife · doi:10.7554/elife.07646 · Cited by 101 · see citing works
She, R., Chakravarty, A. K., Layton, C. J., Chircus, L. M., Andreasson, J. O. L., Damaraju, N., McMahon, P. L., Buenrostro, J. D., Jarosz, D. F., & Greenleaf, W. J. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1618370114 · Cited by 96 · see citing works
Self-citationArgonaute CLIP-Seq reveals miRNA targetome diversity across tissue types
Clark, P., Loher, P., Quann, K., Brody, J. R., Londin, E. R., & Rigoutsos, I. (2014) · Scientific Reports · doi:10.1038/srep05947 · Cited by 93 · see citing works
High-Throughput Investigation of Diverse Junction Elements in RNA Tertiary Folding
Denny, S. K., Bisaria, N., Yesselman, J. D., Das, R., Herschlag, D., & Greenleaf, W. J. (2018) · Cell · doi:10.1016/j.cell.2018.05.038 · Cited by 81 · see citing works
Self-citationBisaria, N., Jarmoskaite, I., & Herschlag, D. (2017) · Cell Systems · doi:10.1016/j.cels.2016.12.010 · Cited by 72 · see citing works
Deerberg, A., Willkomm, S., & Restle, T. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1217838110 · Cited by 67 · see citing works
Rapid and specific purification of Argonaute-small RNA complexes from crude cell lysates
Flores-Jasso, C. F., Salomon, W. E., & Zamore, P. D. (2012) · RNA · doi:10.1261/rna.036921.112 · Cited by 52 · see citing works
Self-citationChen, G. R., Sive, H. L., & Bartel, D. P. (2017) · Molecular Cell · doi:10.1016/j.molcel.2017.11.032 · Cited by 46 · see citing works
Sheng, G., Gogakos, T., Wang, J., Zhao, H., Serganov, A. A., Juranek, S., Tuschl, T., Patel, D. J., & Wang, Y. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx547 · Cited by 34 · see citing works
Werfel, S., Leierseder, S., Ruprecht, B., Küster, B., & Engelhardt, S. H. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx640 · Cited by 21 · see citing works
Flagged first, then by citations
Research works printed but not linked: 1
- Zamore PD, Tuschl T, Sharp PA, and Bartel DP (2000). RNAi: double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 101, 25– 33. 10778853
Cited by
Sorted by citations
The biochemical basis of microRNA targeting efficacy
(2019) · doi:10.1126/science.aav1741 · Cited by 1,570 · see citing works
microRNAs in action: biogenesis, function and regulation
Shang, R., Lee, S., Senavirathne, G., & Lai, E. C. (2023) · Nature Reviews Genetics · doi:10.1038/s41576-023-00611-y · Cited by 897 · see citing works
The interplay between m6A RNA methylation and noncoding RNA in cancer
Ma, S., Chen, C., Ji, X., Liu, J., Zhou, Q., Wang, G., Yuan, W., Kan, Q., & Sun, Z. (2019) · Journal of Hematology & Oncology · doi:10.1186/s13045-019-0805-7 · Cited by 636 · see citing works
Life of RISC: Formation, action, and degradation of RNA-induced silencing complex
Iwakawa, H.-O., & Tomari, Y. (2022) · Molecular Cell · doi:10.1016/j.molcel.2021.11.026 · Cited by 488 · see citing works
Systems and Synthetic microRNA Biology: From Biogenesis to Disease Pathogenesis
Matsuyama, H., & Suzuki, H. I. (2019) · International Journal of Molecular Sciences · doi:10.3390/ijms21010132 · Cited by 246 · see citing works
The evolutionarily conserved piRNA-producing locus pi6 is required for male mouse fertility
Wu, P., Fu, Y., Cecchini, K. R., Özata, D. M., Arif, A., Yu, T., Colpan, C., Gainetdinov, I. V., Weng, Z., & Zamore, P. D. (2020) · Nature Genetics · doi:10.1038/s41588-020-0657-7 · Cited by 144 · see citing works
Self-citationNucleic Acid Therapeutics: Successes, Milestones, and Upcoming Innovation
Belgrad, J., Fakih, H. H., & Khvorova, A. (2024) · Nucleic Acid Therapeutics · doi:10.1089/nat.2023.0068 · Cited by 124 · see citing works
Network Regulation of microRNA Biogenesis and Target Interaction
Komatsu, S., Kitai, H., & Suzuki, H. I. (2023) · Cells · doi:10.3390/cells12020306 · Cited by 123 · see citing works
Recent progress in miRNA biogenesis and decay
Ros, X. B., & Ørom, U. A. (2023) · RNA Biology · doi:10.1080/15476286.2023.2288741 · Cited by 111 · see citing works
Relaxed targeting rules help PIWI proteins silence transposons
Gainetdinov, I. V., Vega‐Badillo, J., Cecchini, K. R., Bagci, A., Colpan, C., De, D., Bailey, S., Arif, A., Wu, P., MacRae, I. J., et al. (2023) · Nature · doi:10.1038/s41586-023-06257-4 · Cited by 88 · see citing works
Self-citationGTSF1 accelerates target RNA cleavage by PIWI-clade Argonaute proteins
Arif, A., Bailey, S., Izumi, N., Anzelon, T. A., Özata, D. M., Andersson, C., Gainetdinov, I. V., MacRae, I. J., Tomari, Y., & Zamore, P. D. (2022) · Nature · doi:10.1038/s41586-022-05009-0 · Cited by 68 · see citing works
Self-citationNMR Chemical Exchange Measurements Reveal That N 6 -Methyladenosine Slows RNA Annealing
Shi, H., Liu, B., Nußbaumer, F., Rangadurai, A., Kreutz, C., & Al‐Hashimi, H. M. (2019) · Journal of the American Chemical Society · doi:10.1021/jacs.9b10939 · Cited by 67 · see citing works
Terminal modification, sequence, length, and PIWI-protein identity determine piRNA stability
Gainetdinov, I. V., Colpan, C., Cecchini, K. R., Arif, A., Jouravleva, K., Albosta, P., Vega‐Badillo, J., Lee, Y., Özata, D. M., & Zamore, P. D. (2021) · Molecular Cell · doi:10.1016/j.molcel.2021.09.012 · Cited by 67 · see citing works
Self-citationA guide to the biogenesis and functions of endogenous small non-coding RNAs in animals
Jouravleva, K., & Zamore, P. D. (2025) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-024-00818-9 · Cited by 68 · see citing works
Self-citationTo kill a microRNA: emerging concepts in target-directed microRNA degradation
Buhagiar, A. F., & Kleaveland, B. (2024) · Nucleic Acids Research · doi:10.1093/nar/gkae003 · Cited by 61 · see citing works
Genome-wide DNA sampling by Ago nuclease from the cyanobacterium Synechococcus elongatus
Olina, A., Kuzmenko, A., Ninova, M., Aravin, A. A., Kulbachinskiy, A. V., & Esyunina, D. (2020) · RNA Biology · doi:10.1080/15476286.2020.1724716 · Cited by 60 · see citing works
Therapeutic RNA Strategies for Chronic Obstructive Pulmonary Disease
Mei, D. F., Tan, W. S. D., Tay, Y., Mukhopadhyay, A., & Wong, W. S. F. (2020) · Trends in Pharmacological Sciences · doi:10.1016/j.tips.2020.04.007 · Cited by 59 · see citing works
CRISPR guides induce gene silencing in plants in the absence of Cas
Sharma, V. K., Marla, S., Zheng, W., Mishra, D., Huang, J. T., Zhang, W., Morris, G. P., & Cook, D. E. (2022) · Genome biology · doi:10.1186/s13059-021-02586-7 · Cited by 57 · see citing works
Conroy, F., Miller, R., Alterman, J. F., Hassler, M. R., Echeverria, D., Godinho, B. M. D. C., Knox, E. G., Sapp, E., Sousa, J., Yamada, K., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-33061-x · Cited by 50 · see citing works
mRNA structural dynamics shape Argonaute-target interactions
Ruijtenberg, S., Sonneveld, S., Cui, T.-J., Logister, I., de Steenwinkel, D., Xiao, Y., MacRae, I., Joo, C., & Tanenbaum, M. (2019) · Nature Structural & Molecular Biology · doi:10.1038/s41594-020-0461-1 · Cited by 46 · see citing works
The role of m6A epigenetic modifications in tumor coding and non-coding RNA processing
Wen, T., Li, T., Xu, Y., Zhang, Y., Pan, H., & Wang, Y. (2023) · Cell Communication and Signaling · doi:10.1186/s12964-023-01385-w · Cited by 49 · see citing works
Scalable and deep profiling of mRNA targets for individual microRNAs with chimeric eCLIP
Manakov, S. A., Shishkin, A. A., Yee, B. A., Shen, K. A., Cox, D. C., Park, S. S., Foster, H. M., Chapman, K. B., Yeo, G. W., & Van Nostrand, E. L. (2022) · doi:10.1101/2022.02.13.480296 · Cited by 43 · see citing works
Fujimoto, S., Fujita, Y., Kadota, T., Araya, J., & Kuwano, K. (2021) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2020.619697 · Cited by 39 · see citing works
scanMiR: a biochemically based toolkit for versatile and efficient microRNA target prediction
Soutschek, M., Groß, F., Schratt, G. M., & Germain, P. (2022) · Bioinformatics · doi:10.1093/bioinformatics/btac110 · Cited by 33 · see citing works
Massively parallel profiling of RNA-targeting CRISPR-Cas13d
Kuo, H., Prupes, J., Chou, C., & Finkelstein, I. J. (2024) · Nature Communications · doi:10.1038/s41467-024-44738-w · Cited by 32 · see citing works
The structural basis for RNA slicing by human Argonaute2
Mohamed, A. A., Wang, P. Y., Bartel, D. P., & Vos, S. M. (2025) · Cell Reports · doi:10.1016/j.celrep.2024.115166 · Cited by 32 · see citing works
Andersson, P. U., Burel, S. A., Estrella, H., Foy, J. W.-D., Hagedorn, P., Harper, T. A., Henry, S. P., Hoflack, J.-C., Holgersen, E. M., Levin, A. A., et al. (2025) · Nucleic Acid Therapeutics · doi:10.1089/nat.2024.0072 · Cited by 31 · see citing works
RNA Conformation Capture by Proximity Ligation
Kudla, G., Wan, Y., & Helwak, A. (2020) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-120219-073756 · Cited by 28 · see citing works
Enhancer RNAs: transcriptional regulators and workmates of NamiRNAs in myogenesis
Odame, E., Chen, Y., Zheng, S., Dai, D., Kyei, B., Zhan, S., Cao, J., Guo, J., Zhong, T., Wang, L., et al. (2021) · Cellular & Molecular Biology Letters · doi:10.1186/s11658-021-00248-x · Cited by 30 · see citing works
AGO2 silences mobile transposons in the nucleus of quiescent cells
Sala, L., Kumar, M., Prajapat, M. K., Chandrasekhar, S., Cosby, R. L., Rocca, G. L., Macfarlan, T. S., Awasthi, P., Chari, R., Kruhlak, M. J., et al. (2023) · Nature Structural & Molecular Biology · doi:10.1038/s41594-023-01151-z · Cited by 30 · see citing works
High-throughput biochemistry in RNA sequence space: predicting structure and function
Marklund, E., Ke, Y., & Greenleaf, W. J. (2023) · Nature Reviews Genetics · doi:10.1038/s41576-022-00567-5 · Cited by 29 · see citing works
Self-citationDivalent siRNA for prion disease
Gentile, J. E., Corridon, T. L., Serack, F. E., Echeverria, D., Kennedy, Z., Gallant‐Behm, C. L., Hassler, M. R., Kinberger, G. A., Kelemen, M. N., Kamath, N. G., et al. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag287 · Cited by 28 · see citing works
Structural basis for RNA slicing by a plant Argonaute
Xiao, Y., Maeda, S., Otomo, T., & MacRae, I. J. (2023) · Nature Structural & Molecular Biology · doi:10.1038/s41594-023-00989-7 · Cited by 28 · see citing works
Monopoli, K. R., Korkin, D., & Khvorova, A. (2023) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2023.06.010 · Cited by 27 · see citing works
MicroRNA-mediated gene regulation and the resilience of multicellular animals
Ambros, V. (2024) · Postępy Biochemii · doi:10.18388/pb.2021_515 · Cited by 27 · see citing works
The Life of MicroRNAs: Biogenesis, Function and Decay in Cancer
Ding, S., & Wang, P. (2025) · Biomolecules · doi:10.3390/biom15101393 · Cited by 26 · see citing works
Efficient 3′-pairing renders microRNA targeting less sensitive to mRNA seed accessibility
Kosek, D., Banijamali, S. E., Becker, W. F., Petzold, K., & Andersson, E. R. (2023) · Nucleic Acids Research · doi:10.1093/nar/gkad795 · Cited by 25 · see citing works
Self-citationWang, P. Y., & Bartel, D. P. (2024) · Molecular Cell · doi:10.1016/j.molcel.2024.06.026 · Cited by 25 · see citing works
Ye, G., Wang, P., Xie, Z., Li, J., Guan, Z., Liu, W., Cao, Q., Li, M., Cen, S., Li, Z., et al. (2021) · Clinical and Translational Medicine · doi:10.1002/ctm2.429 · Cited by 24 · see citing works
Prediction of the miRNA interactome – Established methods and upcoming perspectives
Schäfer, M., & Ciaudo, C. (2020) · Computational and Structural Biotechnology Journal · doi:10.1016/j.csbj.2020.02.019 · Cited by 25 · see citing works
Alizadeh, M., Ghasemi, H., Bazhan, D., Bolbanabad, N. M., Rahdan, F., Arianfar, N., Vahedi, F., Khatami, S. H., Taheri‐Anganeh, M., Aiiashi, S., et al. (2025) · Clinica Chimica Acta · doi:10.1016/j.cca.2025.120187 · Cited by 22 · see citing works
Yin, F., Cai, R., Gui, S., Zhang, Y., Wang, X., & Zhou, N. (2021) · Talanta · doi:10.1016/j.talanta.2021.122802 · Cited by 22 · see citing works
Target binding triggers hierarchical phosphorylation of human Argonaute-2 to promote target release
Bibel, B., Elkayam, E., Silletti, S., Komives, E. A., & Joshua‐Tor, L. (2022) · eLife · doi:10.7554/elife.76908 · Cited by 22 · see citing works
miRNA modules for precise, tunable control of gene expression
Du, R., Flynn, M. J., Mahe, K., Honsa, M., Gu, B., Li, D., McGeary, S. E., Gradinaru, V., Jungmann, R., & Elowitz, M. B. (2025) · Molecular Cell · doi:10.1016/j.molcel.2025.11.028 · Cited by 21 · see citing works
Hierarchical length and sequence preferences establish a single major piRNA 3′-end
Stoyko, D., Genzor, P., & Haase, A. D. D. (2022) · iScience · doi:10.1016/j.isci.2022.104427 · Cited by 21 · see citing works
The CXCR4-Dependent LASP1-Ago2 Interaction in Triple-Negative Breast Cancer
Tilley, A. M. C., Howard, C. M., Sridharan, S., Subramaniyan, B., Bearss, N. R., Alkhalili, S., & Raman, D. (2020) · Cancers · doi:10.3390/cancers12092455 · Cited by 21 · see citing works
circCRKL suppresses the progression of prostate cancer cells by regulating the miR-141/KLF5 axis
Nan, C., Wang, Y., Yang, S., & Chen, Y. (2020) · Pathology - Research and Practice · doi:10.1016/j.prp.2020.153182 · Cited by 20 · see citing works
Synthetic RNA-based post-transcriptional expression control methods and genetic circuits
Pardi, M. L., Wu, J., Kawasaki, S., & Saito, H. (2022) · Advanced Drug Delivery Reviews · doi:10.1016/j.addr.2022.114196 · Cited by 20 · see citing works
High-throughput biochemical profiling reveals functional adaptation of a bacterial Argonaute
Ober‐Reynolds, B., Becker, W. R., Jouravleva, K., Jolly, S. M., Zamore, P. D., & Greenleaf, W. J. (2022) · Molecular Cell · doi:10.1016/j.molcel.2022.02.026 · Cited by 20 · see citing works
Self-citationSchaepe, J. M., Fries, T., Doughty, B. R., Ramalingam, V., Liu, B. B., Crocker, O. J., Marinov, G. K., Hinks, M. M., Marklund, E., & Greenleaf, W. J. (2025) · Cell · doi:10.1016/j.cell.2025.11.008 · Cited by 19 · see citing works
Self-citationBaudouin, S. J., Giles, A. R., Pearson, N., Deforges, S., He, C., Boileau, C., Partouche, N., Borta, A., Gautron, J., Wartel, M., et al. (2024) · Molecular Therapy — Methods & Clinical Development · doi:10.1016/j.omtm.2024.101342 · Cited by 18 · see citing works
Small interfering RNA: From designing to therapeutic in cancer
Singh, J., Saeedan, A. S., Kaithwas, G., & Ansari, M. N. (2025) · Journal of Genetic Engineering and Biotechnology · doi:10.1016/j.jgeb.2025.100484 · Cited by 18 · see citing works
Small vault RNA1-2 modulates expression of cell membrane proteins through nascent RNA silencing
Alagia, A., Tereňová, J., Ketley, R. F., Fazio, A. D., Chelysheva, I., & Gullerová, M. (2023) · Life Science Alliance · doi:10.26508/lsa.202302054 · Cited by 18 · see citing works
Chen, Q., Xie, J., & Yang, Y. (2021) · Biology of Reproduction · doi:10.1093/biolre/ioab212 · Cited by 18 · see citing works
Knoblich, M., Gursinsky, T., Gago‐Zachert, S., Weinholdt, C., Grau, J., & Behrens, S. (2025) · Nucleic Acids Research · doi:10.1093/nar/gkaf136 · Cited by 17 · see citing works
piRNAs in sperm function and embryo viability
Perillo, G., Shibata, K., & Wu, P. (2022) · Reproduction · doi:10.1530/rep-22-0312 · Cited by 17 · see citing works
Toward a Comprehensive View of MicroRNA Biology
Xiao, Y., & MacRae, I. J. (2019) · Molecular Cell · doi:10.1016/j.molcel.2019.08.001 · Cited by 17 · see citing works
A conserved PIWI silencing complex detects piRNA-target engagement
De, D., Sarkar, S., Gebert, L. F., Wiryaman, T., Anzelon, T. A., & MacRae, I. J. (2025) · Molecules and Cells · doi:10.1016/j.molcel.2025.08.010 · Cited by 14 · see citing works
Functional microRNA targeting without seed pairing
Hall, M. H., Wang, P. Y., Pham, T., & Bartel, D. P. (2025) · Nucleic Acids Research · doi:10.1093/nar/gkaf1018 · Cited by 15 · see citing works
Sevoflurane-Induced miR-211-5p Promotes Neuronal Apoptosis by Inhibiting Efemp2
Shen, Y., Zhou, T., Liu, X., Liu, Y., Li, Y., Zeng, D., Zhong, W., & Zhang, M. (2021) · ASN NEURO · doi:10.1177/17590914211035036 · Cited by 16 · see citing works
Rider, D. A., Chivers, S., Aretz, J., Eisermann, M., Löffler, K., Hauptmann, J., Morrison, E., & Campion, G. (2022) · Toxicological Sciences · doi:10.1093/toxsci/kfac067 · Cited by 14 · see citing works
Mature microRNA-binding protein QKI promotes microRNA-mediated gene silencing
Min, K., Jo, M. H., Song, M., Lee, J. W., Shim, M. J., Kim, K., Park, H. B., Ha, S., Mun, H., Polash, A., et al. (2024) · RNA Biology · doi:10.1080/15476286.2024.2314846 · Cited by 14 · see citing works
MiR-CLIP reveals iso -miR selective regulation in the miR-124 targetome
Wang, Y., Soneson, C., Malinowska, A. L., Łaski, A., Ghosh, S., Kanitz, A., Gebert, L. F. R., Robinson, M. D., & Hall, J. (2020) · Nucleic Acids Research · doi:10.1093/nar/gkaa1117 · Cited by 14 · see citing works
Evolving understandings for the roles of non-coding RNAs in autoimmunity and autoimmune disease
Cheng, Z., Hou, G., & Shen, N. (2022) · Journal of Autoimmunity · doi:10.1016/j.jaut.2022.102948 · Cited by 14 · see citing works
Robust differential microRNA targeting driven by supplementary interactions in vitro
Xiao, Y., & MacRae, I. J. (2019) · RNA · doi:10.1261/rna.072264.119 · Cited by 13 · see citing works
Jouravleva, K., Vega‐Badillo, J., & Zamore, P. D. (2022) · Cell Reports Methods · doi:10.1016/j.crmeth.2022.100185 · Cited by 13 · see citing works
Self-citationNew insights into the function of mammalian Argonaute2
Marzec, M. (2020) · PLoS Genetics · doi:10.1371/journal.pgen.1009058 · Cited by 13 · see citing works
Strobel, E. J. (2021) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2021.100812 · Cited by 13 · see citing works
Conservation of Differential Animal MicroRNA Processing by Drosha and Dicer
Zhang, X., Yang, F., Liu, F., Tian, Q., Hu, M., Li, P., & Zeng, Y. (2022) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2021.730006 · Cited by 13 · see citing works
Mechanistic insights into RNA cleavage by human Argonaute2–siRNA complex
Li, Z., Xu, Q., Zhang, Y., Zhong, J., Zhang, T., Xue, J., Liu, S., Gao, H., Zhang, Z. Z., Wu, J., et al. (2025) · Cell Research · doi:10.1038/s41422-025-01114-7 · Cited by 12 · see citing works
Liu, T., Shi, Q., Yang, L., Wang, S., Song, H., Wang, Z., Xu, X., Liu, H., Zheng, H., & Shen, Z. (2021) · BMC Cancer · doi:10.1186/s12885-021-08714-7 · Cited by 12 · see citing works
Genetically Encoded Light-Up RNA Amplifier Dissecting MicroRNA Activity in Live Cells.
Dou, C.-X., Ying, Z.-M., Tang, L.-J., Wang, F.-L., & Jiang, J.-H. (2022) · Analytical Chemistry · doi:10.1021/acs.analchem.2c03643 · Cited by 11 · see citing works
Understanding off-target effects through hybridization kinetics and thermodynamics
Nazipova, N. N., & Shabalina, S. A. (2019) · Cell Biology and Toxicology · doi:10.1007/s10565-019-09505-4 · Cited by 12 · see citing works
A tiny loop in the Argonaute PIWI domain tunes small RNA seed strength
Xiao, Y., Liu, T. M., & MacRae, I. J. (2023) · EMBO Reports · doi:10.15252/embr.202255806 · Cited by 11 · see citing works
Mapping effective microRNA pairing beyond the seed using abasic modifications
Kosek, D., Petzold, K., & Andersson, E. R. (2025) · Nucleic Acids Research · doi:10.1093/nar/gkaf364 · Cited by 11 · see citing works
Severins, I., Joo, C., & van Noort, J. (2022) · Molecular Cell · doi:10.1016/j.molcel.2022.04.024 · Cited by 11 · see citing works
Structural basis for gene silencing by siRNAs in humansPreprint
Sarkar, S., Gebert, L. F. R., & MacRae, I. J. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.12.05.627081 · Cited by 11 · see citing works
Devisetty, U. K., Neef, E. D., Gordon, E. R. L., Zapata, V. V., Narva, K. E., Mézin, L., Cahon, P. M., Witwer, K. W., & Sridharan, K. (2024) · Computational Toxicology · doi:10.1016/j.comtox.2024.100340 · Cited by 10 · see citing works
Sequence, structure, and affinity of miR-34a binding sites determine repression efficacy
Sweetapple, L., Kosek, D., Banijamali, S. E., Becker, W. F., Müller, J., Karadiakos, C., Baronti, L., Guzzetti, I., Schritt, D., Chen, A. A., et al. (2025) · Nucleic Acids Research · doi:10.1093/nar/gkaf633 · Cited by 10 · see citing works
Self-citationFujiwara, Y., Takahashi, R., Saito, M., Umakoshi, M., Shimada, Y., Koyama, K., Yatabe, Y., WATANABE, S.-I. J., Koyota, S., Minamiya, Y., et al. (2024) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2407016121 · Cited by 9 · see citing works
Chen, L., Bosmajian, C., & Woo, S. (2025) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2025.102516 · Cited by 8 · see citing works
Yogev, O., Weissbrod, O., Battistoni, G., Bressan, D., Naamati, A., Falciatori, I., Berkyurek, A. C., Rasnic, R., Izuagbe, R., Hosmillo, M. D. T., et al. (2023) · Communications Biology · doi:10.1038/s42003-023-04589-5 · Cited by 9 · see citing works
Therapeutic AASS inhibition by AAV-miRNA rescues glutaric aciduria type I severe phenotype in mice
Segur‐Bailach, E., Mateu-Bosch, A., Ros, X. B., Parés, M., da Silva‐Buttkus, P., Rathkolb, B., Gailus‐Durner, V., de Angelis, M. H., Moeini, P., González‐Aseguinolaza, G., et al. (2025) · Molecular Therapy · doi:10.1016/j.ymthe.2025.07.022 · Cited by 8 · see citing works
Rinaldi, S., Colombo, G., & Paladino, A. (2022) · Protein Science · doi:10.1002/pro.4377 · Cited by 8 · see citing works
Profiling Thermus thermophilus Argonaute Guide DNA Sequence Preferences by Functional Screening
Hunt, E. A., Tamanaha, E., Bonanno, K., Cantor, E. J., & Tanner, N. A. (2021) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2021.670940 · Cited by 7 · see citing works
A unifying model for microRNA-guided silencing of messenger RNAs
Chatterjee, T., Mandal, S., Ray, S., Johnson-Buck, A. E., & Walter, N. G. (2025) · Nature Communications · doi:10.1038/s41467-025-67186-6 · Cited by 5 · see citing works
Sensing of DNA modifications by pAgo proteins in vitro
Beskrovnaia, M., Agapov, A., Makasheva, K. A., Zharkov, D. O., Esyunina, D., & Kulbachinskiy, A. V. (2023) · Biochimie · doi:10.1016/j.biochi.2023.12.006 · Cited by 6 · see citing works
Tavakoli-Koopaei, R., Javadi‐Zarnaghi, F., Aboutalebian, S., & Mirhendi, H. (2023) · Iranian Journal of Science · doi:10.1007/s40995-022-01392-5 · Cited by 6 · see citing works
microRNAs slow translating ribosomes to prevent protein misfolding in eukaryotes
Sako, H., Youssef, M., Elisseeva, O. A., Akimoto, T., Suzuki, K., Ushida, T., & Yamamoto, T. S. (2023) · The EMBO Journal · doi:10.15252/embj.2022112469 · Cited by 8 · see citing works
Patutina, O., Chiglintseva, D., Amirloo, B., Clarke, D. J., Gaponova, S., Vlassov, V. V., Bichenkova, E. V., & Аркадьевна, З. М. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23126562 · Cited by 6 · see citing works
Structural basis for RNA slicing by a plant ArgonautePreprint
Xiao, Y., Maeda, S., Otomo, T., & MacRae, I. J. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.07.15.500266 · Cited by 6 · see citing works
miRNA-target complementarity in cnidarians resembles its counterpart in plants
Admoni, Y., Fridrich, A., Weavers, P. K., Aharoni, R., Razin, T., Salinas‐Saavedra, M., Rabani, M., Uri Frank, A., & Moran, Y. (2025) · EMBO Reports · doi:10.1038/s44319-024-00350-z · Cited by 5 · see citing works
RBPscan: A quantitative in vivo tool for profiling RNA-binding protein interactions
Kretov, D. A., Sanborn, O., McIsaac, T., Park, E., Imrat, I., Wu, S., Régis, M., Harvey, L.-M., & Cifuentes, D. (2026) · Molecular Cell · doi:10.1016/j.molcel.2026.01.003 · Cited by 5 · see citing works
The Role of MicroRNAs in Liver Functioning: from Biogenesis to Therapeutic Approaches (Review)
Kozlov, D., Rodimova, S. A., & Kuznetsova, D. S. (2023) · Современные технологии в медицине · doi:10.17691/stm2023.15.5.06 · Cited by 6 · see citing works
Engineering miRNA features into siRNAs: Guide-strand bulges are compatible with gene repression
Hauptmann, J., Hehne, V., Balzer, M., Bethge, L., & Lindholm, M. (2022) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2022.02.004 · Cited by 5 · see citing works
Vega‐Badillo, J., Zamore, P. D., & Jouravleva, K. (2023) · STAR Protocols · doi:10.1016/j.xpro.2023.102336 · Cited by 5 · see citing works
Self-citationSystematic analysis of cotranscriptional RNA folding using transcription elongation complex display
Kelly, S. L., & Strobel, E. J. (2025) · Nature Communications · doi:10.1038/s41467-025-57415-3 · Cited by 5 · see citing works
Genome wide screen of RNAi molecules against SARS-CoV-2 creates a broadly potent prophylaxisPreprint
Yogev, O., Weissbrod, O., Battistoni, G., Bressan, D., Naamti, A., Falciatori, I., Berkyurek, A. C., Rasnic, R., Hosmillo, M. D. T., Ilan, S., et al. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.04.12.488010 · Cited by 5 · see citing works
Cecchini, K. R., Ajaykumar, N., Bagci, A., Zamore, P. D., & Gainetdinov, I. V. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.11.02.621675 · Cited by 5 · see citing works
Self-citation
- Authors
- Becker, W. R., Ober-Reynolds, B., Jouravleva, K., Jolly, S. M., Zamore, P. D., & Greenleaf, W. J.
- Affiliations
- Stanford University (US)
- Howard Hughes Medical Institute (US)
- Chan Zuckerberg Biohub San Francisco (US)
- Corresponding author
- Zamore, Phillip D.
- Greenleaf, William J.
- Venue
- Molecular Cell
- Publisher
- Elsevier BV
- Published
- 2019-08
- Volume
- 75
- Issue
- 4
- Pages
- 741-755.e11
- ISSN
- 1097-2765 (ISSN-L)
- PMC
- PMC6823844
- OpenAlex
- W2957005848
- Cited by
- 161
- References
- 76
- Citations by year
- 2026: 24 · 2025: 24 · 2024: 17 · 2023: 26 · 2022: 31 · 2021: 15 · 2020: 15 · 2019: 9
- FWCI
- 5.95
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Molecular Cell (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Institutes of Health (P01HD078253, GM65236, R01GM111990, P01GM066275, P50HG007735, UM1HG009436, R01HG009909, R01GM121487, T32GM007365)
- Alnylam Pharmaceuticals
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Interference and Gene Delivery
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › CRISPR and Genetic Engineering
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
- Keywords
- Argonaute 2, RNA-induced silencing complex, microRNA, siRNA, binding kinetics, siRNA design, RNA interference
- MeSH terms
- Animals, Models, Chemical, RNA, Small Interfering, RNA-Induced Silencing Complex, Mice, Argonaute 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
