An alternative mode of microRNA target recognition

Cited by (328)

Items 101–200 of 328

1. A microRNA Encoded by Kaposi Sarcoma-Associated Herpesvirus Promotes B-Cell Expansion In Vivo
   Christine Dahlke, Katrin Maul, Thomas Christalla, Nicole Walz, Philipp Schult, Carol Stocking, Adam T. Grundhoff · 2012 · PLoS ONE
2. Accurate transcriptome-wide prediction of microRNA targets and small interfering RNA off-targets with MIRZA-G
   Rafal Gumienny, Mihaela Zavolan · 2015 · Nucleic Acids Research
3. Elucidation of transcriptome-wide microRNA binding sites in human cardiac tissues by Ago2 HITS-CLIP
   Ryan M. Spengler, Xiaoming Zhang, Congsheng Cheng, Jared M. McLendon, Jessica M. Skeie, Frances L. Johnson, Beverly L. Davidson, Ryan L. Boudreau · 2016 · Nucleic Acids Research
4. MicroRNA–target interactions: new insights from genome‐wide approaches
   Dooyoung Lee, Chanseok Shin · 2012 · Annals of the New York Academy of Sciences
5. Tiny giants of gene regulation: experimental strategies for microRNA functional studies
   Bruno R. Steinkraus, Markus Tögel, Tudor A. Fulga · 2016 · Wiley Interdisciplinary Reviews Developmental Biology
6. The Future of Cross-Linking and Immunoprecipitation (CLIP)
   Jernej Ule, Hun‐Way Hwang, Robert B. Darnell · 2018 · Cold Spring Harbor Perspectives in Biology
7. A Macro View of MicroRNAs: The Discovery of MicroRNAs and Their Role in Hematopoiesis and Hematologic Disease
   Cary N. Weiss, Keisuke Ito · 2017 · International review of cytology
8. STarMirDB: A database of microRNA binding sites
   William A. Rennie, Shaveta Kanoria, Chaochun Liu, Bibekanand Mallick, Dang Long, Adam Wolenc, C. Steven Carmack, Jun Lü, Ye Ding · 2016 · RNA Biology
9. Modified Cross-Linking, Ligation, and Sequencing of Hybrids (qCLASH) Identifies Kaposi's Sarcoma-Associated Herpesvirus MicroRNA Targets in Endothelial Cells
   Gay, Lauren A., Sethuraman, Sunantha, Thomas, Merin, Turner, Peter C., Renne, Rolf · 2018 · Journal of Virology
10. Combined Experimental and System-Level Analyses Reveal the Complex Regulatory Network of miR-124 during Human Neurogenesis
    Lisa K. Kutsche, Deisy Morselli Gysi, Jörg Fallmann, Kerstin Lenk, Rebecca Petri, Anka Swiersy, Simon D. Klapper, Karolina Pircs, Shahryar Khattak, Peter Florian Stadler et al. · 2018 · Cell Systems
11. Prediction of Altered 3′- UTR miRNA-Binding Sites from RNA-Seq Data: The Swine Leukocyte Antigen Complex (SLA) as a Model Region
    Marie-Laure Endale Ahanda, Eric Fritz, Jordi Estellé, Zhi-Liang Hu, Ole Madsen, Martien A. M. Groenen, Dario Beraldi, Ronan Kapétanovic, David Arthur Hume, Robert R. R. Rowland et al. · 2012 · PLoS ONE
12. Abasic pivot substitution harnesses target specificity of RNA interference
    Hye-Sook Lee, Heeyoung Seok, Dong Ha Lee, Juyoung Ham, Wooje Lee, Emilia Moonkyung Youm, Jin Seon Yoo, Yong-Seung Lee, Eun-Sook Jang, Sung Wook Chi · 2015 · Nature Communications
13. Capturing microRNA targets using an RNA-induced silencing complex (RISC)-trap approach
    Xiaolu A. Cambronne, Rongkun Shen, Paul Livermore Auer, Richard H. Goodman · 2012 · Proceedings of the National Academy of Sciences
14. Finding MicroRNA Targets in Plants: Current Status and Perspectives
    Jiandong Ding, Shuigeng Zhou, Jihong Guan · 2012 · Genomics Proteomics & Bioinformatics
15. Global identification of functional microRNA-mRNA interactions in Drosophila
    Hans‐Hermann Wessels, Svetlana Lebedeva, Antje Hirsekorn, Ricardo Wurmus, Altuna Akalin, Neelanjan Mukherjee, Uwe Ohler · 2019 · Nature Communications
16. OncomiR-17-5p: alarm signal in cancer?
    Madhusudhan Reddy Bobbili, Robert M. Mader, Johannes Grillari, Hanna Dellago · 2017 · Oncotarget
17. microRNAs and cartilage
    GARY J. GIBSON, Hiroshi Asahara · 2013 · Journal of Orthopaedic Research®
18. MicroRNAs, wild-type and mutant p53: More questions than answers
    Matthew F. Jones, Ashish Lal · 2012 · RNA Biology
19. A Conserved MicroRNA Regulatory Circuit Is Differentially Controlled during Limb/Appendage Regeneration
    Benjamin L. King, Viravuth P. Yin · 2016 · PLoS ONE
20. Developing microRNA Therapeutics: Approaching the Unique Complexities
    Aimee L. Jackson, Arthur A. Levin · 2012 · Nucleic Acid Therapeutics
21. Adaptive evolution of testis-specific, recently evolved, clustered miRNAs inDrosophila
    Jaaved Mohammed, Diane Bortolamiol-Bécet, Alex Sutton Flynt, Ilan Gronau, Adam C. Siepel, Eric C. Lai · 2014 · RNA
22. Activating stimuli induce platelet microRNA modulation and proteome reorganisation
    Giovanni Nassa, M. De Filippo, Giorgio Giurato, Maria Ravo, Francesca Maria Rizzo, Stefano Conte, Grazia Pellegrino, Plinio Lorenzo Cirillo, Paolo Calabrò, Tiina Öhman et al. · 2015 · Thrombosis and Haemostasis
23. MicroRNA Target Identification—Experimental Approaches
    Aida Martínez-Sánchez, Chris L. Murphy · 2013 · Biology
24. Epigenetic Mechanisms and Non-coding RNAs in Osteoarthritis
    Matt J. Barter, David Alan Young · 2013 · Current Rheumatology Reports
25. 3′LIFE: a functional assay to detect miRNA targets in high-throughput
    Justin M. Wolter, Kasuen Kotagama, Alexandra C. Pierre‐Bez, Mari Firago, Marco Mangone · 2014 · Nucleic Acids Research
26. Demystifying the nuclear function of Argonaute proteins
    Vera Huang, Long‐Cheng Li · 2014 · RNA Biology
27. Integrative analysis reveals disrupted pathways regulated by microRNAs in cancer
    Gary Wilk, Rosemary Braun · 2017 · Nucleic Acids Research
28. MiR-1254 suppresses HO-1 expression through seed region-dependent silencing and non-seed interaction with TFAP2A transcript to attenuate NSCLC growth
    Mengfan Pu, Chenggang Li, Xinming Qi, Jing Chen, Yizheng Wang, Lulu Gao, Lingling Miao, Jin Ren · 2017 · PLoS Genetics
29. Let-7 microRNAs and Opioid Tolerance
    Ying Hé, Zaijie Jim Wang · 2012 · Frontiers in Genetics
30. The importance of epigenetics in diagnostics and treatment of major depressive disorder
    Czarny, Piotr, Białek, Katarzyna, Ziółkowska, Sylwia, Strycharz, Justyna, Barszczewska, Gabriela, Sliwinski, Tomasz · 2021 · Journal of Personalized Medicine
31. Roles of MicroRNAs in the Life Cycles of Mammalian Viruses
    Eva Gottwein · 2013 · Current topics in microbiology and immunology
32. Divergent target recognition by coexpressed 5′-isomiRs of miR-142-3p and selective viral mimicry
    Mark Manzano, Eleonora Forte, Archana Natarajan Raja, Matthew John Schipma, Eva Gottwein · 2015 · RNA
33. ROD1 Is a Seedless Target Gene of Hypoxia-Induced miR-210
    Pasquale Fasanaro, Sveva Romani, Christine Voellenkle, Biagina Maimone, Maurizio Colognesi Capogrossi, Fabio Martelli · 2012 · PLoS ONE
34. Species‐specific micro RNA regulation influences phenotypic variability
    Eyal Mor, Noam Shomron · 2013 · BioEssays
35. microRNAs: a new class of breast cancer biomarkers
    Laoighse Mulrane, Rut W. Klinger, Sharon F. McGee, William M. Gallagher, Darran P. O’Connor · 2014 · Expert Review of Molecular Diagnostics
36. Prediction of miRNA Targets
    Anastasis Oulas, Nestoras Karathanasis, Annita Louloupi, Georgios A. Pavlopoulos, Panayiota Poirazi, Kriton Kalantidis, Ioannis Iliopoulos · 2014 · Methods in molecular biology
37. Learning to Predict miRNA-mRNA Interactions from AGO CLIP Sequencing and CLASH Data
    Yuheng Lu, Christina S. Leslie · 2016 · PLoS Computational Biology
38. Rules for functional microRNA targeting
    Kim, Doyeon, Chang, Hee Ryung, Baek, Daehyun · 2017 · BMB Reports
39. RNA binding proteins: a common denominator of neuronal function and dysfunction
    Epaminondas Doxakis · 2014 · Neuroscience Bulletin
40. MicroRNAs as Oncogenes and Tumor Suppressors
    Eva E. Rufino‐Palomares, Fernando J. Reyes‐Zurita, José Antonio Lupiáñez, Pedro P. Medina · 2013 · Wiley eBooks
41. Early Targets of miR-34a in Neuroblastoma
    Pasqualino De Antonellis, Marianeve Carotenuto, Jonathan Vandenbussche, Gennaro De Vita, Veronica Ferrucci, Chiara Medaglia, Iolanda Boffa, Alessandra Galiero, Sarah Di Somma, Daniela Magliulo et al. · 2014 · Molecular & Cellular Proteomics
42. MicroRNA Screening and the Quest for Biologically Relevant Targets
    Ana Eulálio, Miguel Mano · 2015 · SLAS DISCOVERY
43. Argonaute CLIP – A method to identify in vivo targets of miRNAs
    Łukasz Jaśkiewicz, Biter Bilen, Jean Hausser, Mihaela Zavolan · 2012 · Methods
44. From benchmarking HITS-CLIP peak detection programs to a new method for identification of miRNA-binding sites from Ago2-CLIP data
    Silvia Bottini, Nedra Hamouda‐Tekaya, Bogdan Tanasă, Laure‐Emmanuelle Zaragosi, Valérie Grandjean, Emanuela Repetto, Michèle Trabucchi · 2017 · Nucleic Acids Research
45. MicroRNA-21 ablation exacerbates aldosterone-mediated cardiac injury, remodeling, and dysfunction
    Maryam Syed, Jana P. Ball, Keisa Williams Mathis, Michael E. Hall, Michael James Ryan, Marc E. Rothenberg, Licy L. Yanes Cardozo, Damián G. Romero · 2018 · American Journal of Physiology-Endocrinology and Metabolism
46. miRNAs as Biomarkers in Chronic Myelogenous Leukemia
    Kasuen Kotagama, Yung Chang, Marco Mangone · 2015 · Drug Development Research
47. MicroRNAs in T helper cell differentiation and plasticity
    Silvia Monticelli · 2013 · Seminars in Immunology
48. A Biochemical Approach to Identify Direct MicroRNA Targets
    Murugan Subramanian, Xiao Ling Li, Toshifumi Hara, Ashish Lal · 2014 · Methods in molecular biology
49. Structure/cleavage-based insights into helical perturbations at bulge sites within T. thermophilus Argonaute silencing complexes
    Gang Sheng, Tasos Gogakos, Jiuyu Wang, Hongtu Zhao, Artem A. Serganov, Stefan Juranek, Thomas Tuschl, Dinshaw J. Patel, Yanli Wang · 2017 · Nucleic Acids Research
50. MicroRNA-124 Regulates Fatty Acid and Triglyceride Homeostasis
    Shaw, Tyler A., Singaravelu, Ragunath, Powdrill, Megan H., Nhan, Jordan, Ahmed, Nadine, Özcelik, Dennis, Pezacki, John Paul · 2018 · iScience
51. Evolutionary patterns of metazoan microRNAs reveal targeting principles in the let-7 and miR-10 families
    Justin M. Wolter, Hoai Huong Thi Le, Alexander Linse, Victoria A. Godlove, Thuy-Duyen Nguyen, Kasuen Kotagama, Alissa Lynch, Alan Rawls, Marco Mangone · 2016 · Genome Research
52. Identifying Argonaute binding sites in Caenorhabditis elegans using iCLIP
    James P. Broughton, Amy E. Pasquinelli · 2013 · Methods
53. Prioritization of Genetic Variants in the micro RNA Regulome as Functional Candidates in Genome‐Wide Association Studies
    Brendan K Bulik-Sullivan, Sara R. Selitsky, Praveen Sethupathy · 2013 · Human Mutation
54. MicroRNA biomarkers in clinical renal disease: from diabetic nephropathy renal transplantation and beyond
    Rounak Nassirpour, Dominic Raj, Raymond R. Townsend, Christos Argyropoulos · 2016 · Food and Chemical Toxicology
55. scanMiR: a biochemically based toolkit for versatile and efficient microRNA target prediction
    Michael Soutschek, Fridolin Groß, Gerhard M. Schratt, Pierre‐Luc Germain · 2022 · Bioinformatics
56. Post-transcriptional regulation of BRCA1 through its coding sequence by the miR-15/107 group of miRNAs
    Kevin Quann, Jing Yi, Isidore Rigoutsos · 2015 · Frontiers in Genetics
57. The HER2-Encoded miR-4728-3p Regulates ESR1 through a Non-Canonical Internal Seed Interaction
    Inga Newie, Rolf Søkilde, Helena Persson, Dorthe Aamand Grabau, Natalia Rego, Anders Kvist, Kristoffer von Stedingk, Håkan Axelson, Åke Borg, Johan Vallon‐Christersson et al. · 2014 · PLoS ONE
58. Comparing two approaches of miR-34a target identification, biotinylated-miRNA pulldown vs miRNA overexpression
    Hassaan Mehboob Awan, Abdullah Shah, Farooq Rashid, Shuai Wei, Liang Chen, Ge Shan · 2017 · RNA Biology
59. Recent computational developments on CLIP-seq data analysis and microRNA targeting implications
    Silvia Bottini, David Pratella, Valérie Grandjean, Emanuela Repetto, Michèle Trabucchi · 2017 · Briefings in Bioinformatics
60. miRTar2GO: a novel rule-based model learning method for cell line specific microRNA target prediction that integrates Ago2 CLIP-Seq and validated microRNA–target interaction data
    Alireza Ahadi, Gaurav Sablok, György Hutvágner · 2016 · Nucleic Acids Research
61. HITS-CLIP and PAR-CLIP Advance Viral MiRNA Targetome Analysis
    Irina Häecker, Rolf Renne · 2014 · Critical Reviews in Eukaryotic Gene Expression
62. regQTLs: Single nucleotide polymorphisms that modulate microRNA regulation of gene expression in tumors
    Gary Wilk, Rosemary Braun · 2018 · PLoS Genetics
63. Short RNA regulators: the past, the present, the future, and implications for precision medicine and health disparities
    Isidore Rigoutsos, Eric R. Londin, Yohei Kirino · 2019 · Current Opinion in Biotechnology
64. miRNA Targeting Drugs: The Next Blockbusters?
    Marco F. Schmidt · 2016 · Methods in molecular biology
65. High-Throughput Identification of MiR-145 Targets in Human Articular Chondrocytes
    Aida Martínez-Sánchez, Stefano Lazzarano, Eshita Sharma, Helen E. Lockstone, Christopher L. Murphy · 2020 · Life
66. Broad spectrum immunomodulatory effects of Anopheles gambiae microRNAs and their use for transgenic suppression of Plasmodium
    Shengzhang Dong, Xiaonan Fu, Yuemei Dong, Maria L. Simões, Jinsong Zhu, George Dimopoulos · 2020 · PLoS Pathogens
67. Critical contribution of 3′ non-seed base pairing to the in vivo function of the evolutionarily conserved let-7a microRNA
    Ye Duan, Isana Veksler‐Lublinsky, Victor Ambros · 2022 · Cell Reports
68. microRNA regulatory circuits in a mouse model of inherited retinal degeneration
    Arpad Palfi, Karsten Hokamp, Stefanie M. Hauck, Sebastian F. Vencken, Sophia Millington‐Ward, Naomi Chadderton, Mathew Carrigan, Elöd Körtvely, Catherine M. Greene, Paul F. Kenna et al. · 2016 · Scientific Reports
69. Characterization of Novel Precursor miRNAs Using Next Generation Sequencing and Prediction of miRNA Targets in Atlantic Halibut
    Teshome Tilahun Bizuayehu, Jorge M. O. Fernandes, Steinar Johansen, Igor Babiak · 2013 · PLoS ONE
70. Definition and identification of small RNA sponges: Focus on miRNA sequestration
    Mélodie Migault, Emmanuelle Donnou‐Fournet, Marie‐Dominique Galibert, David Gilot · 2016 · Methods
71. Dysregulated miRNAs and their pathogenic implications for the neurometabolic disease propionic acidemia
    Ana Rivera‐Barahona, Alejandro Fulgencio-Covián, Celia Pérez‐Cerdá, Ricardo Ramos, Michael A. Barry, Magdalena Ugarte, Belén Pérez, Eva Richard, Lourdes R. Desviat · 2017 · Scientific Reports
72. Insights into psychosis risk from leukocyte microRNA expression
    Clark D. Jeffries, Diana O. Perkins, Sharon D. Chandler, T Stark, E Yeo, Jean Addington, Carrie E. Bearden, Kristin S. Cadenhead, Tyrone D. Cannon, Barbara A. Cornblatt et al. · 2016 · Translational Psychiatry
73. The true core of RNA silencing revealed
    Hiroshi M Sasaki, Yukihide Tomari · 2012 · Nature Structural & Molecular Biology
74. ceRNAs in plants: computational approaches and associated challenges for target mimic research
    Alexandre Rossi Paschoal, Irma Lozada-Chávez, Douglas Silva Domingues, Peter Florian Stadler · 2017 · Briefings in Bioinformatics
75. The Fundamentals of miRNA Biology: Structure, Biogenesis, and Regulatory Functions
    Ivan A. Zaporozhchenko, ELENA YU. RYKOVA, Petr P. Laktionov · 2020 · Russian Journal of Bioorganic Chemistry
76. Sequence determinants as key regulators in gene expression of T cells
    Benoît P. Nicolet, Nordin D. Zandhuis, V. Maria Lattanzio, Monika C. Wolkers · 2021 · Immunological Reviews
77. Principles of miRNA-Target Regulation in Metazoan Models
    Epaminondas Doxakis · 2013 · International Journal of Molecular Sciences
78. Viral microRNAs Target a Gene Network, Inhibit STAT Activation, and Suppress Interferon Responses
    Dhivya Ramalingam, Joseph M. Ziegelbauer · 2017 · Scientific Reports
79. Clinical potential of oligonucleotide-based therapeutics in the respiratory system
    Sterghios Athanasios Moschos, Louise Usher, Mark A. Lindsay · 2016 · Pharmacology & Therapeutics
80. An efficient CRISPR ‐Cas12a‐mediated MicroRNA knockout strategy in plants
    Xuelian Zheng, Xu Tang, Yuechao Wu, Xiaoqin Zheng, Jianping Zhou, Qinqin Han, Yalan Tang, Xinxuan Fu, Jiao Deng, Yibo Wang et al. · 2024 · Plant Biotechnology Journal
81. Post-transcriptional Regulation of BRCA2 through Interactions with miR-19a and miR-19b
    Elena Mogilyansky, Peter Clark, Kevin Quann, Honglei Zhou, Eric R. Londin, Jing Yi, Isidore Rigoutsos · 2016 · Frontiers in Genetics
82. Molecular Properties, Functional Mechanisms, and Applications of Sliced siRNA
    Guihua Sun, Spencer Yele Yeh, Christine Wan-Yin Yuan, Margaret Jean-Yih Chiu, Bryan S. Yung, Yun Yen · 2015 · Molecular Therapy — Nucleic Acids
83. Literature review of baseline information to support the risk assessment of RNAi‐based GM plants
    Jan Pačes, Miloslav Nič, Tomas Novotny, Petr Svoboda · 2017 · EFSA Supporting Publications
84. Computational Prediction of microRNA Targets
    Alessandro Laganà · 2015 · Advances in experimental medicine and biology
85. MicroRNA Targeting
    Hossein Ghanbarian, Mehmet Taha Yıldız, Yusuf Tutar · 2021 · Methods in molecular biology
86. MicroRNAs in brain cholesterol metabolism and their implications for Alzheimer's disease
    Yoon, Hyejin, Flores, Luis F., Kim, Jungsu · 2016 · Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids
87. miR-503 represses human cell proliferation and directly targets the oncogene DDHD2 by non-canonical target pairing
    Damon Polioudakis, Nathan S. Abell, Vishwanath R. Iyer · 2015 · BMC Genomics
88. Long Intergenic Non-Coding RNAs: Novel Drivers of Human Lymphocyte Differentiation
    Ilaria Panzeri, Grazisa Rossetti, Sergio Abrignani, Massimiliano Pagani · 2015 · Frontiers in Immunology
89. Noncoding RNAs regulating cardiac muscle mass
    Glenn David Wadley, Séverine Lamon, Sarah E. Alexander, Julie R. McMullen, Bianca C. Bernardo · 2018 · Journal of Applied Physiology
90. Tertiary structure-based analysis of microRNA–target interactions
    Hin Hark Gan, Kristin C. Gunsalus · 2013 · RNA
91. Identification of a novelFGFRL1MicroRNA target site polymorphism for bone mineral density in meta-analyses of genome-wide association studies
    Tianhua Niu, Ning Liu, Ming Zhao, Guie Xie, Lei Zhang, Jian Li, Yu‐Fang Pei, Hui Shen, Xiaoying Fu, Hao He et al. · 2015 · Human Molecular Genetics
92. Seq and CLIP through the miRNA world
    Nitish Mittal, Mihaela Zavolan · 2014 · Genome biology
93. Prediction methods for microRNA targets in bilaterian animals: Toward a better understanding by biologists
    Aurelien A. Quillet, Youssef Anouar, Thierry Lecroq B, Christophe Dubessy · 2021 · Computational and Structural Biotechnology Journal
94. The roles of miRNAs in adult skeletal muscle satellite cells
    Pieter Jan Koopmans, Ahmed Ismaeel, Katarzyna Goljanek‐Whysall, Kevin A. Murach · 2023 · Free Radical Biology and Medicine
95. CLIP: viewing the RNA world from an RNA-protein interactome perspective
    Yin Zhang, Shu‐Juan Xie, Hui Min Xu, Liang‐Hu Qu · 2015 · Science China Life Sciences
96. MicroRNA-dependent genetic networks during neural development
    Daniel G. Abernathy, Andrew S.J. Yoo · 2014 · Cell and Tissue Research
97. Assembly and analysis of eukaryotic Argonaute–RNA complexes in microRNA-target recognition
    Hin Hark Gan, Kristin C. Gunsalus · 2015 · Nucleic Acids Research
98. The RNA world in the 21st century—a systems approach to finding non-coding keys to clinical questions
    Ulf Schmitz, Hojjat Naderi‐Meshkin, Shailendra K. Gupta, Olaf Wolkenhauer A, Julio Vera · 2015 · Briefings in Bioinformatics
99. Widespread inference of weighted microRNA-mediated gene regulation in cancer transcriptome analysis
    Hiroshi I. Suzuki, Hajime Mihira, Tetsuro Watabe, Koichi Sugimoto, Kohei Miyazono · 2012 · Nucleic Acids Research
100. Systematic design and functional analysis of artificial microRNAs
     Jason D. Arroyo, Emily N. Gallichotte, Muneesh Tewari · 2014 · Nucleic Acids Research