Combinatorial CRISPR–Cas9 screens for de novo mapping of genetic interactions

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Items 101–200 of 359

1. Lentiviral co-packaging mitigates the effects of intermolecular recombination and multiple integrations in pooled genetic screens
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2. Deciphering essential cistromes using genome-wide CRISPR screens
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3. Integrative analysis of large-scale loss-of-function screens identifies robust cancer-associated genetic interactions
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4. Prediction of Synthetic Lethal Interactions in Human Cancers Using Multi-View Graph Auto-Encoder
   Zhifeng Hao, Di Wu, Yuan Fang, Min Wu, Ruichu Cai, Xiaoli Li · 2021 · IEEE Journal of Biomedical and Health Informatics
5. CRISPR/Cas9 System: A Bacterial Tailor for Genomic Engineering
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6. A Three-Way Combinatorial CRISPR Screen for Analyzing Interactions among Druggable Targets
   Peng Zhou, Becky K.C. Chan, Yuk Kei Wan, Chaya T. L. Yuen, Gigi C.G. Choi, Xinran Li, Cindy S.W. Tong, Sophia S.W. Zhong, Jieran Sun, Yufan Bao et al. · 2020 · Cell Reports
7. Enhanced Genome Editing Tools For Multi‐Gene Deletion Knock‐Out Approaches Using Paired CRISPR sgRNAs in CHO Cells
   Valerie Schmieder, Nina Bydlinski, Richard Strasser, Martina Baumann, Helene Faustrup Kildegaard, Vaibhav Jadhav, Nicole Borth · 2017 · Biotechnology Journal
8. Individualized genetic network analysis reveals new therapeutic vulnerabilities in 6,700 cancer genomes
   Chuang Liu, Junfei Zhao, Weiqiang Lü, Yao Dai, Jennifer K. Hockings, Yadi Zhou, Ruth Nussinov, Charis Eng, Feixiong Cheng · 2020 · PLoS Computational Biology
9. Time for remodeling: SNF2-family DNA translocases in replication fork metabolism and human disease
   Sarah A. Joseph, Angelo Taglialatela, Giuseppe Leuzzi, Jen‐Wei Huang, Raquel Cuella-Martin, Alberto Ciccia · 2020 · DNA repair
10. The legal aspect of the current use of genetically modified organisms in Kenya, Tanzania, and Uganda
    Gideon Sadikiel Mmbando · 2023 · GM crops & food
11. Applications of CRISPR-Cas9 for advancing precision medicine in oncology: from target discovery to disease modeling
    Mirunalini Ravichandran, Danilo Maddalo · 2023 · Frontiers in Genetics
12. Pooled library screening with multiplexed Cpf1 library
    Jintan Liu, Sanjana Srinivasan, Chieh-Yuan Li, I-Lin Ho, Johnathon Lynn Rose, MennatAllah Shaheen, Gang Wang, Wantong Yao, Angela K. Deem, Chris Bristow et al. · 2019 · Nature Communications
13. Combined Proteomic and Genetic Interaction Mapping Reveals New RAS Effector Pathways and Susceptibilities
    Marcus R. Kelly, Kaja Kostyrko, Kyuho Han, Nancie A. Mooney, Edwin E. Jeng, Kaitlyn K. Spees, Phuong Dinh, Keene L. Abbott, Dana M. Gwinn, Alejandro Sweet-Cordero et al. · 2020 · Cancer Discovery
14. Metabolic Engineering Strategies of Industrial Hemp (Cannabis sativa L.): A Brief Review of the Advances and Challenges
    Michihito Deguchi, Shriya Kane, Shobha Devi Potlakayala, Hannah S. George, Renata Proano, Vijay Sheri, Wayne R. Curtis, Sairam V. Rudrabhatla · 2020 · Frontiers in Plant Science
15. Tackling Cancer with Yeast-Based Technologies
    Raphaël Ferreira, Angelo Limeta, Jens Nielsen · 2018 · Trends in biotechnology
16. Darwin-WGA: A Co-processor Provides Increased Sensitivity in Whole Genome Alignments with High Speedup
    Yatish Turakhia, Sneha D. Goenka, Gill Bejerano, W.J. Dally · 2019 · IEEE International Symposium on High-Performance Computer Architecture (HPCA)
17. Integrating molecular networks with genetic variant interpretation for precision medicine
    Emidio Capriotti, Kıvılcım Öztürk, Hannah K. Carter · 2018 · WIREs Systems Biology and Medicine
18. Leveraging genetic interactions for adverse drug-drug interaction prediction
    Sheng Qian, Siqi Liang, Haiyuan Yu · 2019 · PLoS Computational Biology
19. Why and how to study genetic changes with context-dependent effects
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20. GEARS: Predicting transcriptional outcomes of novel multi-gene perturbations
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21. Benchmarking machine learning methods for synthetic lethality prediction in cancer
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22. Randomized CRISPR-Cas Transcriptional Perturbation Screening Reveals Protective Genes against Alpha-Synuclein Toxicity
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23. Recording of elapsed time and temporal information about biological events using Cas9
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24. CRISPR-Combo–mediated orthogonal genome editing and transcriptional activation for plant breeding
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25. Genetic interaction mapping informs integrative structure determination of protein complexes
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26. Genetic interaction networks in cancer cells
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27. Comparative optimization of combinatorial CRISPR screens
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28. A Road Map to Personalizing Targeted Cancer Therapies Using Synthetic Lethality
    Sreejit Parameswaran, Deeksha Kundapur, Frederick S. Vizeacoumar, Andrew Freywald, Maruti Uppalapati, Franco J. Vizeacoumar · 2018 · Trends in cancer
29. Prediction of sgRNA on-target activity in bacteria by deep learning
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30. Advancing biotechnology with CRISPR/Cas9: recent applications and patent landscape
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31. MARK2/MARK3 Kinases Are Catalytic Codependencies of YAP/TAZ in Human Cancer
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32. EXP2SL: A Machine Learning Framework for Cell-Line-Specific Synthetic Lethality Prediction
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33. Genomics-guided pre-clinical development of cancer therapies
    Hayley E. Francies, Ultan McDermott, Mathew J. Garnett · 2020 · Nature Cancer
34. Discovery of putative tumor suppressors from CRISPR screens reveals rewired lipid metabolism in acute myeloid leukemia cells
    W. Frank Lenoir, Micaela C. Morgado, Peter C. DeWeirdt, Megan E. McLaughlin, Audrey L Griffith, Annabel K. Sangree, Marissa N. Feeley, Nazanin Esmaeili Anvar, Eiru Kim, Lori L. Bertolet et al. · 2021 · Nature Communications
35. Combinatorial CRISPR/Cas9 Screening Reveals Epistatic Networks of Interacting Tumor Suppressor Genes and Therapeutic Targets in Human Breast Cancer
    Xiaoyu Zhao, Jinyu Li, Zhimin Liu, Scott Powers · 2021 · Cancer Research
36. Pooled genetic screens with image‐based profiling
    Russell T. Walton, Avtar K Singh, Paul C. Blainey · 2022 · Molecular Systems Biology
37. Discovery of synthetic lethal interactions from large-scale pan-cancer perturbation screens
    Sumana Srivatsa, Hesam Montazeri, Gaia Bianco, Mairene Coto‐Llerena, Mattia Marinucci, Charlotte K.Y. Ng, Salvatore Piscuoglio, Niko Beerenwinkel · 2022 · Nature Communications
38. Mapping the protein–protein and genetic interactions of cancer to guide precision medicine
    Mehdi Bouhaddou, Manon Eckhardt, Zun Zar Chi Naing, Minkyu Kim, Trey Ideker, Nevan J. Krogan · 2019 · Current Opinion in Genetics & Development
39. Genome-wide Screens Implicate Loss of Cullin Ring Ligase 3 in Persistent Proliferation and Genome Instability in TP53-Deficient Cells
    Alexandros P. Drainas, Ruxandra A. Lambuta, Irina Ivanova, Özdemirhan Serçin, Ioannis Sarropoulos, Mike L. Smith, Theocharis Efthymiopoulos, Benjamin Raeder, Adrian M. Stütz, Sebastian M. Waszak et al. · 2020 · Cell Reports
40. From systems to structure — using genetic data to model protein structures
    Hannes Braberg, Ignacia Echeverria, Robyn M. Kaake, Andrej Šali, Nevan J. Krogan · 2022 · Nature Reviews Genetics
41. Multiplex genome editing eliminates lactate production without impacting growth rate in mammalian cells
    Hooman Hefzi, Iván Martínez‐Monge, Igor Marín de Mas, Nicholas Luke Cowie, Alejandro Gómez Toledo, Soo Min Noh, Karen Julie la Cour Karottki, Marianne Decker, Johnny Arnsdorf, Jose Manuel Camacho-Zaragoza et al. · 2025 · Nature Metabolism
42. Synthetic Lethal Networks for Precision Oncology: Promises and Pitfalls
    John Paul Shen, Trey Ideker · 2018 · Journal of Molecular Biology
43. Synthetic lethal gene pairs: Experimental approaches and predictive models
    Shan Tang, Birkan Gökbağ, Kunjie Fan, Shuai Shao, Yang Huo, Xue Wu, Lijun Cheng, Lang Li · 2022 · Frontiers in Genetics
44. Time-resolved mapping of genetic interactions to model rewiring of signaling pathways
    Florian Heigwer, Christian Scheeder, Thilo Miersch, Barbara A. Schmitt, Claudia Blass, Mischan Vali Pour-Jamnani, Michael Boutros · 2018 · eLife
45. A Quantitative Genetic Interaction Map of HIV Infection
    David Ezra Gordon, Ariane Watson, Assen Roguev, Simin Zheng, Gwendolyn Μ. Jang, Joshua Kane, Jiewei Xu, Jeffrey Z. Guo, Erica J. Stevenson, Danielle L. Swaney et al. · 2020 · Molecular Cell
46. Mapping genetic interactions in cancer: a road to rational combination therapies
    Beril Tutuncuoglu, Nevan J. Krogan · 2019 · Genome Medicine
47. Mind the translational gap: using iPS cell models to bridge from genetic discoveries to perturbed pathways and therapeutic targets
    Greta Pintacuda, Jacqueline M. Martín, Kevin C. Eggan · 2021 · Molecular Autism
48. Deciphering pathogenicity of variants of uncertain significance with CRISPR-edited iPSCs
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49. Biased genome editing using the local accumulation of DSB repair molecules system
    Shota Nakade, Keiji Mochida, Atsushi Kunii, Kazuki Nakamae, Tomomi Aida, Kohichi Tanaka, Naoaki Sakamoto, Tetsushi Sakuma, Takashi Yamamoto · 2018 · Nature Communications
50. Typing tumors using pathways selected by somatic evolution
    Sheng Wang, Jianzhu Ma, Wei Zhang, John Paul Shen, Justin Kwang-Lay Huang, Jian Peng, Trey E. Ideker · 2018 · Nature Communications
51. A CRISPR-drug perturbational map for identifying compounds to combine with commonly used chemotherapeutics
    Hyeong-Min Lee, William C. Wright, Min Pan, Jonathan A. Low, Duane G. Currier, Jie Fang, Shivendra Vikram Singh, Stephanie Nance, Ian Michael Delahunty, Yuna Kim et al. · 2023 · Nature Communications
52. Applications of CRISPR-Cas in Bioengineering, Biotechnology, and Translational Research
    Cia‐Hin Lau · 2018 · The CRISPR Journal
53. Highly Combinatorial Genetic Interaction Analysis Reveals a Multi-Drug Transporter Influence Network
    Albi Celaj, Marinella Gebbia, Louai Musa, Atina G. Coté, Jamie D. Snider, Victoria Wong, Minjeong Ko, Tiffany Fong, Paul Bansal, Joseph C. Mellor et al. · 2019 · Cell Systems
54. Synthetic lethality in cancer drug discovery: challenges and opportunities
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55. Re-defining synthetic lethality by phenotypic profiling for precision oncology
    Yevhen A. Akimov, Tero A. Aittokallio · 2021 · Cell chemical biology
56. CRISPR/Cas9‐mediated seamless gene replacement in protoplasts expands the resistance spectrum to TMV‐U1 strain in regenerated Nicotiana tabacum
    Yanli Li, Changjun Huang, Yong Liu, Jianmin Zeng, Haiqin Yu, Zhijun Tong, Xinjie Yuan, Xueyi Sui, Dunhuang Fang, Bingguang Xiao et al. · 2023 · Plant Biotechnology Journal
57. CRISPR screening in hematology research: from bulk to single-cell level
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58. Mapping a diversity of genetic interactions in yeast
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59. A case of mistaken identity
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60. Application of CHyMErA Cas9-Cas12a combinatorial genome-editing platform for genetic interaction mapping and gene fragment deletion screening
    Michael Aregger, Kun Xing, Thomas Gonatopoulos-Pournatzis · 2021 · Nature Protocols
61. Genetic Interaction-Based Biomarkers Identification for Drug Resistance and Sensitivity in Cancer Cells
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62. Massively parallel evaluation and computational prediction of the activities and specificities of 17 small Cas9s
    Sang-Yeon Seo, Seonwoo Min, Sungtae Lee, Jung Hwa Seo, Jinman Park, Hui Kwon Kim, Myungjae Song, Dawoon Baek, Sung‐Rae Cho, Seokjoong Kim · 2023 · Nature Methods
63. Paralogous synthetic lethality underlies genetic dependencies of the cancer-mutated gene STAG2
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64. SLKB: synthetic lethality knowledge base
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65. The autophagy protein Ambra1 regulates gene expression by supporting novel transcriptional complexes.
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66. CRISPR and transposon in vivo screens for cancer drivers and therapeutic targets
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67. Context-dependent genetic interactions in cancer
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68. A multilineage screen identifies actionable synthetic lethal interactions in human cancers
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69. SLOAD: a comprehensive database of cancer-specific synthetic lethal interactions for precision cancer therapy via multi-omics analysis
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70. Identifying Targets of Selection in Laboratory Evolution Experiments
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71. Reproducibility metrics for context-specific CRISPR screens
    Maximilian Billmann, Henry N. Ward, Michael Aregger, Michael Costanzo, Brenda Andrews, Charles M. Boone, Jason Moffat, Chad L. Myers · 2023 · Cell Systems
72. Approaches to Investigating the Protein Interactome of PTEN
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73. Synthetic lethal connectivity and graph transformer improve synthetic lethality prediction
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74. Genotype-Fitness Maps of EGFR-Mutant Lung Adenocarcinoma Chart the Evolutionary Landscape of Resistance for Combination Therapy Optimization
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75. Double knockout CRISPR screen for cancer resistance to T cell cytotoxicity
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76. iSeq 2.0: A Modular and Interchangeable Toolkit for Interaction Screening in Yeast
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77. Gene editing in an international context
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78. Covering the Combinatorial Design Space of Multiplex CRISPR/Cas Experiments in Plants
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79. Analysis of combinatorial CRISPR screens with the Orthrus scoring pipeline
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80. VHL Synthetic Lethality Signatures Uncovered by Genotype-Specific CRISPR-Cas9 Screens
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81. Generation of dual-gRNA library for combinatorial CRISPR screening of synthetic lethal gene pairs
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82. X-CHIME enables combinatorial, inducible, lineage-specific and sequential knockout of genes in the immune system
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83. An interpretable artificial intelligence framework for designing synthetic lethality-based anti-cancer combination therapies
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84. A next-generation dual guide CRISPR system for genetic interaction library screening
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85. Joint effects of genes underlying a temperature specialization tradeoff in yeast
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86. Functional Genomics for Cancer Research: Applications In Vivo and In Vitro
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87. Common computational tools for analyzing CRISPR screens
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88. Mapping the Genetic Interaction Network of PARP inhibitor Response
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89. Direct capture of CRISPR guides enables scalable, multiplexed, and multi-omic Perturb-seq
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90. Molecularly Targeted Clinical Trials
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91. Challenges and prospects in using biotechnological interventions in O. glaberrima, an African cultivated rice
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92. Large-scale datasets uncovering cell signalling networks in cancer: context matters
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93. CRISPR/Cas-based devices for mammalian synthetic biology
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94. Pairwise effects between lipid GWAS genes modulate lipid plasma levels and cellular uptake
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95. Importance of genetic screens in precision oncology
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96. Genome editing in animals: an overview
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97. CRISPRi: a way to integrate iPSC-derived neuronal models
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98. Chemogenetic interactions in human cancer cells
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99. CRISPR Screens in Toxicology Research: An Overview
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100. Revealing biomarkers associated with PARP inhibitors based on genetic interactions in cancer genome
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