Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells

Cited by (944)

Items 801–900 of 944

1. Pipeline to explore information on genome editing using large language models and genome editing meta-database
   Suzuki, Takayuki, Bono, Hidemasa · 2025 · Database
2. Ultrasensitive single-point mutation detection via digital counting of individual dCas9-DNA complexes
   Seohyun Kim, Wi-jae Lee, Hyomin K. Lee, Sangmin Ji, Junho K. Hur, Seung Hwan Lee, Hye Ran Koh · 2025 · Sensors and Actuators B Chemical
3. High-throughput evaluation of in vitro CRISPR activities enables optimized large-scale multiplex enrichment of rare variants
   Joo Hye Yeo, Seung‐Ho Lee, Seungmin Kim, Joon-Goo Min, Ramu Gopalappa, Hyeong-Cheol Oh, Hui Kwon Kim, Eun-Ji Nam, Seokjoong Kim · 2025 · Nature Biomedical Engineering
4. CRISPR-GATE: a one-stop repository and guide to computational resources for genome editing experimentation
   Asif Ali Vadakkethil, Sonali Panda, Aranya Mitra, Manaswini Dash, Mirza Jaynul Baig, U. B. Angadi, Dinesh Babu Uthaya Kumar, Sarika Jaiswal, Mir Asif Iquebal, Kutubuddin A. Molla · 2025 · Briefings in Bioinformatics
5. Combinatorial protein engineering identifies potent CRISPR activators with reduced toxicity
   Marla J. Giddins, Alexander F. Kratz, Mark B. De Los Santos, Antoine Forget, Richa Tiwari, Gwendolyn Μ. Jang, Tomasz Blazejewski, Chuyan Qin, Yiming Huang, Yeh‐Hsing Lao et al. · 2025 · Nature Communications
6. Machine-Learning-Inferred and Energy-Landscape-Guided Analyses Reveal Kinetic Determinants of CRISPR/Cas9 Gene Editing
   Lei Jin, Risi Liyanage, Dongsheng Duan, Shi‐Jie Chen · 2026 · PRX Life
7. ABE9 fused to SpRY Cas9 nickase enables precise generation of bystander free mouse models
   Jun Kai Ong, Sayari Bhunia, Beate Hilbert, Vanessa Kirschner, Sascha Duglosz, Frank Zimmermann, Marc Freichel, Alex Cornean · 2026 · Scientific Reports
8. CRISPR engineering turns on genes
   Seung Woo Cho, Howard Y. Chang · 2015 · Nature
9. Progress in Gene Editing Transgenesis Genome Manipulation in Mosquitoes
   Justin M. Overcash, Zach N. Adelman · 2016 · Advances in insect physiology
10. Genome engineering in human pluripotent stem cells
    Udit Parekh, Marianna Yusupova, Prashant Mali · 2017 · Current Opinion in Chemical Engineering
11. Modeling Cancer Using CRISPR-Cas9 Technology
    Sandra Rodríguez, Marta Martínez-Lage, Raúl Torres-Ruiz · 2017 · Elsevier eBooks
12. Isolation of Specific Genomic Regions and Identification of Associated Molecules by enChIP
    Toshitsugu Fujita, Hodaka Fujii · 2016 · Journal of Visualized Experiments
13. Emerging strategies to minimize the off-target effects in CRISPR/Cas9 system
    Chengpei Ouyang · 2024 · International Conference on Biological Engineering and Medical Science (ICBioMed)
14. Designing Epigenome Editors: Considerations of Biochemical and Locus Specificities
    Z. Begum Yagci, Gautami R Kelkar, Tyler J. Johnson, Dilara Sen, Albert J. Keung · 2024 · Methods in molecular biology
15. Modulation of CRISPR‐Cas9 Cleavage with an Oligo‐Ribonucleoprotein Design
    Yahui Gao, Yan Shan Ang, Lin Yue Lanry Yung · 2025 · ChemBioChem
16. Application of Mutagenesis in the Improvement of Industrial Crops
    Shilpa Gupta, Navjot Sharma · 2025 · Sustainable landscape planning and natural resources management
17. Breeding Oilseed Crops for Resistance to Fungal Pathogens Through Genomics-Assisted Breeding
    Venkata Ravi Prakash Reddy, K. Amarnath, Kothakota Venkataramanamma, K. Prabhakar, B. Chandra Reddy, N. C. Venkateswarlu · 2025 · Springer eBooks
18. Using CRISPR-Cas9 Genome Editing to Enhance Cell Based Therapies for the Treatment of Diabetes Mellitus
    Nicole A. J. Krentz, Francis C. Lynn · 2016 · Springer eBooks
19. Hematopoietic stem cell gene therapy: progress and challenges
    Xiao‐Bing Zhang, Tao Cheng, Jianping Zhang · 2017 · Scientia Sinica Vitae
20. Single-Cell Editing: The CRISPR/Cas9 and Applications
    Erum Dilshad, Naqoosh Zahra, Zainab Nooruddin, Arshia Amin Butt, Syeda Marriam Bakhtiar · 2019 · Elsevier eBooks
21. EDITING GENOMES VIA CRISPR/CAS9 AND APPLICATIONS IN MAIZE IMPROVEMENT
    KAMILA ELLEN SOUZA DE OLIVEIRA, Camila Bastos Ribeiro, Andréa Almeida Carneiro, Newton Portilho Carneiro · 2022 · Revista Brasileira de Milho e Sorgo
22. CRISPR-Cas9-mediated protein tagging in human cells for RESOLFT nanoscopy and the analysis of mitochondrial prohibitins
    Michael Ratz · 2016
23. Precision Genome Editing for Systems Biology – A Temporal Perspective
    Franziska Völlmy, Rune Linding · 2017 · Systems Biology
24. Epigenome Editing Enters the Arena. A New Tool to Reveal (and Reverse?) Pathologic Gene Regulation
    Qi Tan, Daniel J. Tschumperlin · 2018 · American Journal of Respiratory and Critical Care Medicine
25. Genetic Manipulation/Modulation for Target Discovery and Validation
    Christophe Lanneau, Georges Kalouche, Xinming Cai, François Lo-Presti, Christoph Potting · 2019 · Methods and principles in medicinal chemistry
26. A novel and effective Cre/ lox -based genetic tool for repeated, targeted and markerless gene integration
    Qinghua Zhou, Liangcheng Jiao, Wenjuan Li, Zhiming Hu, Yunchong Li, Houjin Zhang, Li Xu, Yunjun Yan · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
27. Engineered PAM-flexible FnCas9 variants for robust and specific genome editing and diagnostics
    Sundaram Acharya, Asgar Hussain Ansari, Seiichi Hirano, Deepanjan Paul, Riya Rauthan, Manoj Kumar, Rhythm Phutela, Sajal Sarkar, Sneha Gulati, Sudipta Mahato et al. · 2021 · Research Square
28. Massively parallel genomic perturbations with multi-target CRISPR reveal new insights on Cas9 activity and DNA damage responses at endogenous sites
    Roger S. Zou, Alberto Marín-González, Yang Liu, Hans B. Liu, Leo L. Shen, Rachel K. Dveirin, Jay X. J. Luo, Reza Kalhor, Taekjip Ha · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
29. Specificity of CRISPR‐Cas9 Gene Editing
    Niklas Selfjord, Alexandra Madsen, Pınar Akçakaya · 2022 · Wiley eBooks
30. Peer Review #2 of "Evaluating the cleavage efficacy of CRISPR-Cas9 sgRNAs targeting ineffective regions of Arabidopsis thaliana genome (v0.2)"
    2021 · PeerJ
31. Peer Review #1 of "Evaluating the cleavage efficacy of CRISPR-Cas9 sgRNAs targeting ineffective regions of Arabidopsis thaliana genome (v0.2)"
    2021 · PeerJ
32. Genetic and Epigenetic Modulation of Gene Expression by CRISPR‐dCas Systems
    Jasprina N. Noordermeer, Crystal Chen, Lei S. Qi · 2022 · Wiley eBooks
33. Diversity of Transgene Integration and Gene Editing Events in Wheat (Triticum aestivum L.) Transgenic Plants Generated Using Agrobacterium-Mediated Transformation
    Louie Cris Lopos, Natalia V. Bykova, Susan Jayne Brown, Kerry Ward, Andriy Bilichak · 2023 · Preprints.org
34. Specific modulation of CRISPR transcriptional activators through RNA-sensing guide RNAs in mammalian cells and zebrafish embryos
    Oana Pelea, Sarah Mayes, Quentin R. V. Ferry, Tudor A. Fulga, Tatjana Sauka‐Spengler · 2023 · eLife
35. Specific Modulation of CRISPR Transcriptional Activators through RNA-Sensing Guide RNAs in Mammalian Cells and Zebrafish Embryos
    Oana Pelea, Sarah Mayes, Quentin R. V. Ferry, Tudor A. Fulga, Tatjana Sauka‐Spengler · 2023 · eLife
36. CRISPR/Cas9-mediated elimination of the LMNA c.745C>G pathogenic mutation enhances survival and cardiac function in LMNA -associated congenital muscular dystrophy
    Déborah Gómez-Domínguez, Carolina Epifano, Iván Hernández, Borja Vilaplana‐Martí, Sergi César, Antonio de Molina-Iracheta, Miguel Sena‐Esteves, Georgia Sarquella‐Brugada, Ignacío Pérez de Castro · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
37. Programmable DNA integration with New-to-Nature tools using Computational Protein Design
    Hailey M. Wallace, Seong Guk Park, Adam T. Smiley, Tuba Sevik, Shubham Dubey, Shirin Fatma, Chau-Duy-Tam Vo, Ethan Creed, Alexandre Zanghellini, Elizabeth H. Kellogg · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
38. Application and Potential of Genome Engineering by Artificial Enzymes
    Wataru Nomura · 2015 · YAKUGAKU ZASSHI
39. METHOD Open Access
    Lasse Maretty, Jonas A. Sibbesen, Anders Krogh · 2014
40. Mechanism and engineering of CRISPR-associated endonucleases
    Samuel H. Sternberg · 2014 · eScholarship (California Digital Library)
41. The Use of Innovative Tools to Reproduce Human Cancer Translocations: Lessons from the CRISPR/Cas System
    Raúl Torres-Ruiz, Sandra Rodríguez, Juan David Ramírez · 2015 · Current Biotechnology
42. Novel Genome Editing With CRISPR-Cas9
    Lara Janiszewski · 2015 · CU Scholar (University of Colorado Boulder)
43. Beyond editing: repurposing CRISPR-Cas9 for precision genome regulation and interrogation
    San Francisco, Howard Hughes Medical · 2015
44. Genome Editing in Stem Cells
    Leon Tejwani, Cleber A. Trujillo, Charles A. Thomas, Alysson Renato Muotri · 2016 · Springer eBooks
45. CRISPR/Cas9: From Genome Engineering to Cancer Drug
    Discovery Luo · 2016
46. RNA-guided Genome Editing Tool CRISPR-Cas9: Its Applications and Achievements in Model and Crop Plants
    Om Prakash Patidar, Chirag Gautam, Girish Tantuway, Sunil Kumar, Ashok Yadav, Dharam Meena, Arvind Nagar · 2016 · Journal of Pure and Applied Microbiology
47. Prevention of Muscular Dystrophy in Mice by Gene Editing
    Chengzu Long · 2014
48. Single-molecule Fluorescence Study on Structural Roles of Guide RNAs in Activation of Cas9 Endonuclease
    성기원 · 2017 · Seoul National University Open Repository (Seoul National University)
49. Modeling Disease In Vivo With
    Eleanor Dow · 2015
50. Elucidation of Mechanisms of Fetal Hemoglobin Regulation by CRISPR/Cas9 Mediated Genome Editing
    Matthew C. Canver · 2016 · Digital Access to Scholarship at Harvard (DASH) (Harvard University)
51. Dissecting the Role of Synaptic Proteins with CRISPR
    Salvatore Incontro, Cédric S. Asensio, Roger A. Nicoll · 2017 · Research and perspectives in neurosciences
52. Adapting to change : on the mechanism of type I-E CRISPR-Cas defence
    Tim Künne · 2017
53. Fine-tuning of fgf8a expression through alternative polyadenylation has a selective impact on Fgf-associated developmental processes
    Sara Fernandes, Rita Fior, Francisco Rodrigues Pinto, Margarida Gama‐Carvalho, Leonor Saúde · 2018 · Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms
54. Precise genome editing human stem cells for functional interrogation of genetic variation
    Cory J. Smith · 2015
55. Effect of CRISPR-based epigenetic interference on cis-regulatory gene networks
    X. Loh · 2018
56. Clustered regularly interspaced short palindromic repeats-Cas9 gene therapy: The top 50 most-cited papers
    Jude Howaidi, Ali Howaidi, Faisal Howaidi · 2019 · Journal of Nature and Science of Medicine
57. An inducible and reversible genetics platform for novel drug target discovery
    Mei Ling Leong · 2019
58. Towards best-practice approaches for CRISPR/Cas9 gene engineering
    Claude Van Campenhout, Pauline Cabochette, Anne-Clémence Veillard, Miklós Laczik, Agnieszka Zelisko-Schmidt, Céline Sabatel, Maxime Dhainaut, Benoît Vanhollebeke, Cyril Gueydan, Véronique Kruys · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
59. Biophysics of RNA-Guided CRISPR Immunity
    Luuk Loeff, Chirlmin Joo · 2019 · Biological and medical physics, biomedical engineering
60. Sequence specificity in DNA binding is determined by association rather than dissociation
    Emil Marklund, Guanzhong Mao, Sebastian Deindl, Johan Elf · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
61. Genome Editing of Eukarya
    Jonathan Asmund Arnesen, Jakob Blæsbjerg Nielsen, Helene Faustrup Kildegaard, Irina Borodina · 2021 · Metabolic Engineering
62. CRISPR-Cas-Mediated Tethering Recruits the Yeast HMR Mating-Type Locus to the Nuclear Periphery but Fails to Silence Gene Expression
    Emily R. Cliff, Robin L. Kirkpatrick, Daniel Cunningham‐Bryant, Brianna Fernandez, Joseph L. Harman, Jesse G. Zalatan · 2021 · ACS Synthetic Biology
63. Gene editing for the cornea
    M. Andrew Nesbit, Tara Moore · 2021 · Elsevier eBooks
64. Light activation and deactivation of Cas9 for DNA repair studies
    Roger S. Zou, Taekjip Ha · 2021 · Methods in enzymology on CD-ROM/Methods in enzymology
65. SUBSTRATE DEPENDENT ACTIVATION OF CAS9 ENDONUCLEASE
    Yavuz S. Dagdas · 2017 · eScholarship (California Digital Library)
66. Right tool for the right job : Exploring the diversity of type V CRISPR-Cas systems
    Wen Y. Wu · 2021
67. Development of Novel Tools for Radial Glia Lineage Tracing and Modeling Central Nervous System Tumor
    Fuyi Chen · 2014 · OpenCommons at University of Connecticut (University of Connecticut)
68. Small chicken, big story: detection of the genetic background of dwarfism in chicken using genomic analyses
    Zhou Wu · 2021
69. enChIP-Seq Analyzer: A Software Program to Analyze and Interpret enChIP-Seq Data for the Detection of Physical Interactions between Genomic Regions
    Sarudate Ashita, Toshitsugu Fujita, Takahiro W. Nakayama, Hodaka Fujii · 2022 · Genes
70. Utilizing CRISPR/Cas9 Technologies for in vivo Disease Modeling and Therapy
    Lukas Badertscher, Michelle J. Porritt · 2022 · Wiley eBooks
71. Peer Review #1 of "Evaluating the cleavage efficacy of CRISPR-Cas9 sgRNAs targeting ineffective regions of Arabidopsis thaliana genome (v0.1)"
    2021 · PeerJ
72. Introduction
    Ken A. Dill · 2013 · Annual Review of Biophysics
73. Peer Review #2 of "Evaluating the cleavage efficacy of CRISPR-Cas9 sgRNAs targeting ineffective regions of Arabidopsis thaliana genome (v0.1)"
    2021 · PeerJ
74. Faculty Opinions recommendation of Reversible Disruption of Specific Transcription Factor-DNA Interactions Using CRISPR/Cas9.
    Andrew D Sharrocks · 2019 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
75. Faculty Opinions recommendation of A mouse geneticist's practical guide to CRISPR applications.
    Søren Warming · 2018 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
76. Faculty Opinions recommendation of The CRISPR tool kit for genome editing and beyond.
    Søren Warming · 2018 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
77. Faculty Opinions recommendation of Discovery of proteins associated with a predefined genomic locus via dCas9-APEX-mediated proximity labeling.
    John R. Yates · 2019 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
78. Using Lentivirus and CRISPR to Modify Cattle Embryonic Genes
    Jevon Upton · 2020
79. Introduction
    2014 · Annual Review of Biophysics
80. Cas9 Nickase-Based Genome Editing in Clostridium cellulolyticum
    Tao Xu, Xuanyu Tao, Megan L. Kempher, Jizhong Z. Zhou · 2022 · Methods in molecular biology
81. Genome Editing with CRISPR‐Cas Systems
    Peter Lotfy, Patrick D. Hsu · 2022 · Wiley eBooks
82. Targeted Manipulation of Histone Modification in Medaka Embryos
    Hiroto S. Fukushima, Hiroyuki Takeda, Ryohei Nakamura · 2022 · Methods in molecular biology
83. In vivo application of CRISPR/Cas9 mediated gene re-expression in the failing mouse and human myocardium
    Eric Schoger · 2022 · eDiss (Georg-August-Universität Göttingen)
84. Genome Editing
    Henrik Uwe Stotz, Nobuya Koizuka · 2021 · Royal Society of Chemistry eBooks
85. The Effects of Conventional Chemotherapeutics on the Activation of Type I Interferons (IFN-α/β) in Hepatic Cancer Cells in vitro: The Significance of Endogenous Type III Interferons (IFN-λ)
    Luca Maria Grothe · 2023 · eDiss (Georg-August-Universität Göttingen)
86. Gene editing for stem cells by CRISPR-Cas9
    Seoh Wei Teh, Hernandez Maradiaga Oscar David, Avin Ee-Hwan Koh, Suresh S. Kumar, Pooi Ling Mok · 2023 · Elsevier eBooks
87. The role of CRISPR/Cas9 technology in genomics edit
    Ezatullah Marefat · 2020 · International Journal of Advanced Academic Studies
88. Advances in the application of CRISPR/Cas9 system in the study of hematologic diseases and cancer
    Disheng Yang · 2023 · International Conference on Biomedical and Intelligent Systems (IC-BIS)
89. Tissue-specific knockout in Drosophila neuromuscular system reveals ESCRT’s role in formation of synapse-derived extracellular vesicles
    Xinchen Chen, Sarah Perry, Bei Wang, Shuran Wang, Jiayi Hu, Elizabeth Loxterkamp, Dion K. Dickman, Chun Han · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
90. Direct delivery of Cas9 or base editor protein and guide RNA complex enables genome editing in the retina
    Catherine Botto, Juliette Pulman, Hugo Malki, Duohao Ren, Paul Oudin, Anne De Cian, Marie As, Charlotte Izabelle, Bruno Saubaméa, Stéphane Fouquet et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
91. Defining the effects of mismatches on type I-E CRISPR immunity and phage escape
    Phong Tuan Phan · 2021
92. Genetic Transformation for Developing Improved Plant Varieties
    Waqas Khan Kayani, Faiza Rasheed, Humdah Qayyum, Maryam Akram Butt, Wasim Akhtar, Muhammad Zeeshan Bhatti, Khawaja Shafique Ahmad · 2024 · Advances in plant breeding strategies
93. Application of CRISPR/Cas9 based therapy in SCD, DMD and HIV
    Mia Shen · 2024 · Theoretical and Natural Science
94. CRISPR-Cas9 Guide RNA Designer using Python
    Narendra Kumar S, Arya Hariharan, B H Abhisha, K Bhumika, Pragathi Basavaraj · 2024 · International Conference on Computation System and Information Technology for Sustainable Solutions (CSITSS)
95. Genetics and Gene Therapy of the TGFBI Corneal Dystrophies
    Amanda M. Kowalczyk, M. Andrew Nesbit, Andrew McLain, Tara Moore · 2024 · Springer eBooks
96. Unlocking male sterility in horticultural crops through gene editing technology for precision breeding applications: presentation of a case study in tomato
    Silvia Farinati, Adriana Fernanda Soria Garcia, Samela Draga, Alessandro Vannozzi, Fabio Palumbo, Francesco Scariolo, Giovanni Gabelli, Gianni Barcaccia · 2025 · Frontiers in Plant Science
97. Targeting EphA2 with CRISPR/Cas9 Identifies a Novel EphA2-CDH1 Regulatory Axis in Migration of Castration-Resistant Prostate Cancer
    Yan Song, Yiting Chen, Xiaojing Li, Peng Pan, Nan Hu, Lanyi Wei, Yue Xiao, Chaogang Wei · 2025 · Biocell
98. CRISPR/Cas technologies in epigenetics research
    Changhao Zheng, Keming Hu, Jinzhou Li, Yating Wang, Jingfang Zhang · 2025 · Elsevier eBooks
99. Sensitive, direct detection of non-coding off-target base editor unwinding and editing in primary cells
    Tong Wang, Selin Jessa, Georgi K. Marinov, Sandy L. Klemm, Anshul Bharat Kundaje, William James Greenleaf · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
100. OAZ1/CASP8AP2 double knockout enhances recombinant protein production in HEK293 cells through metabolic reprogramming and antiapoptotic effects
     Junhe Zhang, Liao Zhang, Lu Hou, Wei Li, Shaolei Geng, Xiaoyin Wang, Tianyun Wang · 2025 · Acta Biochimica et Biophysica Sinica