Systematic mapping of functional enhancer–promoter connections with CRISPR interference

Cited by (674)

Items 201–300 of 674

  1. A multi-omic dissection of super-enhancer driven oncogenic gene expression programs in ovarian cancer
    Michael R. Kelly, Kamila Wiśniewska, Matthew J. Regner, Michael W. Lewis, Andrea A. Perreault, Eric S. Davis, Douglas H. Phanstiel, Joel S. Parker, Hector L. Franco · 2022 · Nature Communications
  2. Genetics of sexually dimorphic adipose distribution in humans
    Grace T. Hansen, Débora R. Sobreira, Zachary Weber, Alexis G. Thornburg, Ivy Aneas, Li Zhang, Noboru J. Sakabe, Amelia C. Joslin, Gabriela A. Haddad, Sophie Strobel et al. · 2023 · Nature Genetics
  3. Enhancer DNA methylation in acute myeloid leukemia and myelodysplastic syndromes
    Leonidas Benetatos, George Vartholomatos · 2018 · Cellular and Molecular Life Sciences
  4. CRISPRi links COVID-19 GWAS loci to LZTFL1 and RAVER1
    Iris M. Fink-Baldauf, William D. Stuart, John J. Brewington, Minzhe Guo, Yutaka Maeda · 2022 · EBioMedicine
  5. Multimodal CRISPR perturbations of GWAS loci associated with coronary artery disease in vascular endothelial cells
    Florian Wünnemann, Thierry Fotsing Tadjo, Mélissa Beaudoin, Simon Lalonde, Ken Sin Lo, Benjamin P. Kleinstiver, Guillaume Lettre · 2023 · PLoS Genetics
  6. Systematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation
    Poshen B. Chen, Patrick C. Fiaux, Kai Zhang, Bin Li, Naoki Kubo, Shan Jiang, Rong Hu, Emma Rooholfada, Sihan Wu, Mengchi Wang et al. · 2022 · Cell Reports
  7. Dissection and function of autoimmunity-associated TNFAIP3 (A20) gene enhancers in humanized mouse models
    Upneet K. Sokhi, Mark P. Liber, Laura Frye, Sungho Park, Kyuho Kang, Tania Pannellini, Baohong Zhao, Rada Norinsky, Lionel B. Ivashkiv, Shiaoching Gong · 2018 · Nature Communications
  8. Systematic dissection of transcriptional regulatory networks by genome-scale and single-cell CRISPR screens
    R. Lopes, K. Sprouffske, Caibin Sheng, E. Uijttewaal, Adriana Emma Wesdorp, J. Dahinden, Simon Wengert, Juan Díaz-Miyar, Umut Yildiz, Melusine Bleu et al. · 2021 · Science Advances
  9. Identifying oligodendrocyte enhancers governing Plp1 expression
    Dongkyeong Kim, Hongjoo An, Chuandong Fan, Yungki Park · 2021 · Human Molecular Genetics
  10. Functional Interrogation of Primary Human T Cells via CRISPR Genetic Editing
    Xin Chen, Lina Kozhaya, Cihan Taştan, Lindsey Placek, Mikail Dogan, Meghan Horne, Rebecca L. Abblett, Ece Karhan, Martin Vaeth, Stefan Feske et al. · 2018 · The Journal of Immunology
  11. Application of CRISPR/Cas to Understand Cis- and Trans-Regulatory Elements in Plants
    Felix Wolter, Holger Puchta · 2018 · Methods in molecular biology
  12. A multiplexed gRNA piggyBac transposon system facilitates efficient induction of CRISPRi and CRISPRa in human pluripotent stem cells
    Dane Z. Hazelbaker, Amanda Beccard, Gabriella Angelini, Patrizia Mazzucato, Angelica Messana, Daisy Lam, Kevin C. Eggan, Lindy E. Barrett · 2020 · Scientific Reports
  13. HyPR-seq: Single-cell quantification of chosen RNAs via hybridization and sequencing of DNA probes
    Jamie L. Marshall, Benjamin R. Doughty, Vidya Subramanian, Philine Guckelberger, Qingbo S. Wang, Linlin M. Chen, Samuel G. Rodriques, Kaite Zhang, Charles P. Fulco, Joseph Nasser et al. · 2020 · Proceedings of the National Academy of Sciences
  14. Lupus enhancer risk variant causes dysregulation of IRF8 through cooperative lncRNA and DNA methylation machinery
    Tian Zhou, Xinyi Zhu, Zhizhong Ye, Yongfei Wang, Chao Yao, Ning Xu, Mi Zhou, Jianyang Ma, Yuting Qin, Yiwei Shen et al. · 2022 · Nature Communications
  15. Species-specific regulation of XIST by the JPX/FTX orthologs
    Olga Rosspopoff, Emmanuel Cazottes, Christophe Huret, A. Loda, A. Collier, Miguel Casanova, P. Rugg-Gunn, E. Heard, Jean-François Ouimette, Claire Rougeulle · 2023 · Nucleic Acids Research
  16. SMARCB1 loss activates patient-specific distal oncogenic enhancers in malignant rhabdoid tumors
    Ning-Qing Liu, Irene Paassen, Lars Custers, Peter Zeller, Hans Teunissen, Dilara Ayyildiz, Jiayou He, Juliane L. Buhl, E. Hoving, A. van Oudenaarden et al. · 2023 · Nature Communications
  17. Functional interrogation of non-coding DNA through CRISPR genome editing
    Matthew C. Canver, Daniel E. Bauer, Stuart H. Orkin · 2017 · Methods
  18. CRISPR Genome Engineering for Human Pluripotent Stem Cell Research
    Somali Chaterji, Eun Hyun Ahn, Deok‐Ho Kim · 2017 · Theranostics
  19. Enhancer reprogramming in tumor progression: a new route towards cancer cell plasticity
    Luca Fagnocchi, Vittoria Poli, Alessio Zippo · 2018 · Cellular and Molecular Life Sciences
  20. MAUDE: inferring expression changes in sorting-based CRISPR screens
    Carl G. de Boer, John P. Ray, Nir Hacohen, Aviv Regev · 2020 · Genome biology
  21. Enhancer Talk
    Valentina Snetkova, Jane A. Skok · 2018 · Epigenomics
  22. CRISPR screens identify gene targets at breast cancer risk loci
    Tuano, Natasha K., Beesley, Jonathan, Manning, Murray, Shi, Wei, Perlaza-Jimenez, Laura, Malaver-Ortega, Luis F., Paynter, Jacob M., Black, Debra, Civitarese, Andrew, McCue, Karen et al. · 2023 · Genome Biology
  23. The Regulatory Roles of Long Noncoding RNAs in Acute Myeloid Leukemia
    Michelle Shu Wen Ng, Dirk Heckl, Jan‐Henning Klusmann · 2019 · Frontiers in Oncology
  24. The Many Faces of Gene Regulation in Cancer: A Computational Oncogenomics Outlook
    Enrique Hernandez Lemus, Helena Reyes-Gopar, Jesús Espinal Enríquez, Soledad Ochoa · 2019 · Genes
  25. Variants in tubule epithelial regulatory elements mediate most heritable differences in human kidney function
    Gabriel B. Loeb, Pooja Kathail, Richard W. Shuai, Ryan Chung, Reinier J. Grona, Sailaja Peddada, Volkan Sevi̇m, Scot Federman, Karl Mader, Audrey Y. Chu et al. · 2024 · Nature Genetics
  26. Cohesin-mediated 3D contacts tune enhancer-promoter regulation
    Philine Guckelberger, Benjamin R. Doughty, Glen Munson, Suhas S.P. Rao, Yingxuan Tan, Xiangmeng Shawn Cai, Charles P. Fulco, Joseph Nasser, Kristy S. Mualim, Drew T. Bergman et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  27. Blood disease–causing and –suppressing transcriptional enhancers: general principles and GATA2 mechanisms
    Emery H. Bresnick, Kirby D. Johnson · 2019 · Blood Advances
  28. PsychENCODE and beyond: transcriptomics and epigenomics of brain development and organoids
    Alexandre Jourdon, Soraya Scuderi, Davide Capauto, Alexej S. Abyzov, Flora Maria Vaccarino · 2020 · Neuropsychopharmacology
  29. Interpreting cis-regulatory interactions from large-scale deep neural networks
    Shushan Toneyan, Peter K. Koo · 2024 · Nature Genetics
  30. In vivo CRISPR screening for phenotypic targets of the mir-35-42 family in C. elegans
    Bing Yang, Matthew L. Schwartz, Katherine McJunkin · 2020 · Genes & Development
  31. Functional effects of variation in transcription factor binding highlight long-range gene regulation by epromoters
    Mitchelmore, Joanna, Grinberg, Nastasiya F, Wallace, Chris, Spivakov, Mikhail · 2020 · Nucleic Acids Research
  32. Fetal Liver–Derived Alveolar-like Macrophages: A Self-Replicating Ex Vivo Model of Alveolar Macrophages for Functional Genetic Studies
    Sean T Thomas, Kathryn A. Wierenga, James J. Pestka, Andrew J. Olive · 2022 · ImmunoHorizons
  33. Integrated Functional Genomic Analysis Enables Annotation of Kidney Genome-Wide Association Study Loci
    Karsten B. Sieber, Anna Batorsky, Kyle T. Siebenthall, Kelly L. Hudkins, Jeff D. Vierstra, Shawn T Sullivan, Aakash Sur, Michelle T. McNulty, Richard S. Sandstrom, Alex P. Reynolds et al. · 2019 · Journal of the American Society of Nephrology
  34. Using CRISPR to understand and manipulate gene regulation
    Ersin Akıncı, Marisa C. Hamilton, Benyapa Khowpinitchai, Richard I. Sherwood · 2021 · Development
  35. Harnessing the evolving CRISPR/Cas9 for precision oncology
    Tianye Li, Shuiquan Li, Yue Kang, Jianwei Zhou, Ming Yi · 2024 · Journal of Translational Medicine
  36. Enhancer Dysfunction in 3D Genome and Disease
    Ji‐Han Xia, Gong‐Hong Wei · 2019 · Cells
  37. Parallel characterization of cis-regulatory elements for multiple genes using CRISPRpath
    Xingjie Ren, Mengchi Wang, Bingkun Li, Kirsty Jamieson, Lina Zheng, Ian Richard Jones, Bin Li, Maya Asami Takagi, Jerry Lee, Lenka Maliskova et al. · 2021 · Science Advances
  38. CRISPR-FOCUS: A web server for designing focused CRISPR screening experiments
    Qingyi Cao, Jian Ma, Chen-Hao Chen, Han Xu, Zhi Chen, Wei Li, X. Shirley Liu · 2017 · PLoS ONE
  39. Identifying Novel Enhancer Elements with CRISPR-Based Screens
    Jason C. Klein, Wei Chen, Molly J. Gasperini, Jay Shendure · 2018 · ACS Chemical Biology
  40. CRISPR Tools for Systematic Studies of RNA Regulation
    J Engreitz, Omar O. Abudayyeh, Jonathan S. Gootenberg, Feng Zhang · 2019 · Cold Spring Harbor Perspectives in Biology
  41. Methods and applications of in vivo CRISPR screening
    António J. Santinha, Alessio Strano, Randall J. Platt · 2025 · Nature Reviews Genetics
  42. Epigenetic editing: from concept to clinic
    Elizabeth A. Heller, Lacramioara Bintu, Marianne G. Rots · 2025 · Nature Reviews Drug Discovery
  43. Application of CRISPR/Cas9 to the study of brain development and neuropsychiatric disease
    Samuel K. Powell, Jill K. Gregory, Schahram Akbarian, Kristen Brennand · 2017 · Molecular and Cellular Neuroscience
  44. Identification and characterization of functional long noncoding RNAs in cancer
    Christiane E. Olivero, Nadya Dimitrova · 2020 · The FASEB Journal
  45. Lysyl hydroxylase 2-induced collagen cross-link switching promotes metastasis in head and neck squamous cell carcinomas
    Kotaro Sato, Kshitij Parag‐Sharma, Masahiko Terajima, Adele M. Musicant, Ryan M. Murphy, Matthew R. Ramsey, Hideharu Hibi, Mitsuo Yamauchi, Antonio L. Amelio · 2021 · Neoplasia
  46. Activation of the imprinted Prader-Willi syndrome locus by CRISPR-based epigenome editing
    Dahlia Rohm, Joshua B. Black, Sean R. McCutcheon, Alejandro Barrera, Shanté S. Berry, Daniel J. Morone, Xander Nuttle, Celine E. de Esch, Derek J.C. Tai, Michael E. Talkowski et al. · 2025 · Cell Genomics
  47. Genome organization in immune cells: unique challenges
    Timothy M. Johanson, Wing Fuk Chan, Christine R. Keenan, Rhys S. Allan · 2019 · Nature reviews. Immunology
  48. Connecting high-resolution 3D chromatin organization with epigenomics
    Fan Feng, Yuan Yao, Xue Qing David Wang, Xiaotian Zhang, Jie Liu · 2022 · Nature Communications
  49. Decoding the noncoding genome via large-scale CRISPR screens
    Abhijit Shukla, Danwei Huangfu · 2018 · Current Opinion in Genetics & Development
  50. Oscillating and stable genome topologies underlie hepatic physiological rhythms during the circadian cycle
    Jérôme Mermet, Jake Yeung, Félix Naef · 2021 · PLoS Genetics
  51. Neuro-Immuno-Gene- and Genome-Editing-Therapy for Alzheimer’s Disease: Are We There Yet?
    Sudhanshu P. Raikwar, Ramasamy Thangavel, Iuliia Dubova, Mohammad Ejaz Ahmed, Govindhasamy Pushpavathi Selvakumar, Duraisamy Kempuraj, Smita A. Zaheer, Shankar S. Iyer, Asgar Zaheer · 2018 · Journal of Alzheimer s Disease
  52. Noncoding loci without epigenomic signals can be essential for maintaining global chromatin organization and cell viability
    Bo Ding, Ying Liu, Zhiheng Liu, Lina Zheng, Ping Xu, Chen Zhao, Peiyao Wu, Ying Zhao, Qian Pan, Yu Guo et al. · 2021 · Science Advances
  53. The evaluation of active transcriptional repressor domain for CRISPRi in plants
    Lei Xu, Baihua Sun, Shuang Liu, Xiaotong Gao, Huajie Zhou, Feng Li, Yansha Li · 2022 · Gene
  54. CRISP-view: a database of functional genetic screens spanning multiple phenotypes
    Cui, Yingbo, Cheng, Xiaolong, Chen, Qing, Song, Bicna, Chiu, Anthony, Gao, Yuan, Dawson, Tyson, Chao, Lumen, Zhang, Wubing, Li, Dian et al. · 2021 · Nucleic Acids Research
  55. Enduring questions in regenerative biology and the search for answers
    Ashley W. Seifert, Elizabeth M. Duncan, Ricardo M. Zayas · 2023 · Communications Biology
  56. HiC-ACT: improved detection of chromatin interactions from Hi-C data via aggregated Cauchy test
    Taylor M. Lagler, Armen Abnousi, Ming Hu, Yuchen Yang, Yun Li · 2021 · The American Journal of Human Genetics
  57. Genome-wide identification of enhancers and transcription factors regulating the myogenic differentiation of bovine satellite cells
    Pengcheng Lyu, Robert E. Settlage, Honglin Jiang · 2021 · BMC Genomics
  58. Advancing Stem Cell Models of Alpha-Synuclein Gene Regulation in Neurodegenerative Disease
    Desiree Piper, Danuta Sastre, Birgitt Schüle · 2018 · Frontiers in Neuroscience
  59. Extrachromosomal DNA associates with nuclear condensates and reorganizes chromatin structures to enhance oncogenic transcription
    Aziz Taghbalout, Chia-Hao Tung, Patricia A. Clow, Harianto Tjong, Ping Wang, Chee‐Hong Wong, Diane D. Mao, Rahul Maurya, Meng‐Fan Huang, Chew Yee Ngan et al. · 2025 · Cancer Cell
  60. Functional genomic approaches to elucidate the role of enhancers during development
    Genevieve E. Ryan, Emma K. Farley · 2019 · WIREs Systems Biology and Medicine
  61. Understanding the function of regulatory DNA interactions in the interpretation of non-coding GWAS variants
    Wujuan Zhong, Weifang Liu, Jiawen Carmen Chen, Quan Sun, Ming Hu, Yun Li · 2022 · Frontiers in Cell and Developmental Biology
  62. Aneuploidy in human cancer: new tools and perspectives
    Asad A. Lakhani, Sarah L. Thompson, Jason M. Sheltzer · 2023 · Trends in Genetics
  63. Gene-centric functional dissection of human genetic variation uncovers regulators of hematopoiesis
    Satish Kumar Nandakumar, Sean McFarland, Laura Marlene Mateyka, Caleb A. Lareau, Jacob C. Ulirsch, Leif S. Ludwig, Gaurav Agarwal, J Engreitz, Bartlomiej P. Przychodzen, Marie Ellen McConkey et al. · 2019 · eLife
  64. Cancer lineage-specific regulation of YAP responsive elements revealed through large-scale functional epigenomic screens
    Inês Amorim Monteiro Barbosa, Rajaraman Gopalakrishnan, Samuele Mercan, Thanos P. Mourikis, Typhaine Martin, Simon Wengert, Caibin Sheng, Fei Ji, Rui Lopes, Judith Knehr et al. · 2023 · Nature Communications
  65. BRCA1 mutations attenuate super-enhancer function and chromatin looping in haploinsufficient human breast epithelial cells
    Xiaowen Zhang, Yao Wang, Huai-Chin Chiang, Yuan-Pang Hsieh, Chang Lu, Ben Ho Park, Ismail Jatoi, Victor X. Jin, Yanfen Hu, Rong Li · 2019 · Breast Cancer Research
  66. Enhanced Myc Expression in Silkworm Silk Gland Promotes DNA Replication and Silk Production
    Wenliang Qian, Yan Yang, Zheng Li, Yuting Wu, Xuechuan He, Hao Li, Daojun Cheng · 2021 · Insects
  67. Predicting unrecognized enhancer-mediated genome topology by an ensemble machine learning model
    Li Tang, Matthew C. Hill, Jun Wang, Jian-Xin Wang, James F. Martin, Min Li · 2020 · bioRxiv
  68. CRISPR-Based Approaches for the High-Throughput Characterization of Long Non-Coding RNAs
    Joshua M. Hazan, Assaf C. Bester · 2021 · Non-Coding RNA
  69. A principled strategy for mapping enhancers to genes
    Dongkyeong Kim, Hongjoo An, Randall S. Shearer, Mohamed A. Sharif, Chuandong Fan, Jin‐Ok Choi, Sun Ryu, Yungki Park · 2019 · Scientific Reports
  70. Activity-by-Contact model of enhancer specificity from thousands of CRISPR perturbations
    Charles P. Fulco, Joseph Nasser, Thouis R. Jones, Glen Munson, Drew T. Bergman, Vidya Subramanian, Sharon R. Grossman, Rockwell Anyoha, Tejal A. Patwardhan, Tung H. Nguyen et al. · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
  71. Systematic genome-wide querying of coding and non-coding functional elements in E. coli using CRISPRi
    Harneet S. Rishi, Esteban Toro, Honglei Liu, Xiaowo Wang, Lei S. Qi, Adam P. Arkin · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
  72. Wnt target enhancer regulation by a CDX/TCF transcription factor collective and a novel DNA motif
    Aravinda‐Bharathi Ramakrishnan, Lisheng Chen, Peter E. Burby, Ken M. Cadigan · 2021 · Nucleic Acids Research
  73. Molecular basis of FAAH-OUT -associated human pain insensitivity
    Hajar Mikaeili, Abdella M. Habib, Charlix Yeung, Sonia Santana‐Varela, Ana Paula Luiz, Kseniia Panteleeva, Sana R. Zuberi, Alkyoni Athanasiou‐Fragkouli, Henry Houlden, John N. Wood et al. · 2023 · Brain
  74. Global analysis of contact-dependent human-to-mouse intercellular mRNA and lncRNA transfer in cell culture
    Sandipan Dasgupta, Daniella Y Dayagi, Gal Haimovich, Emanuel Wyler, Tsviya Olender, Robert H. Singer, Markus Landthaler, Jeffrey E. Gerst · 2023 · eLife
  75. Epigenomic mapping reveals distinct B cell acute lymphoblastic leukemia chromatin architectures and regulators
    Kelly R. Barnett, Robert J. Mobley, Jonathan D. Diedrich, Brennan P. Bergeron, Kashi Raj Bhattarai, Alexander C. Monovich, Shilpa Narina, Wenjian Yang, Kristine R. Crews, Christopher S. Manring et al. · 2023 · Cell Genomics
  76. A distant global control region is essential for normal expression of anterior HOXA genes during mouse and human craniofacial development
    Andrea Scarpa Wilderman, Eva D’haene, Machteld Baetens, Tara N. Yankee, Emma Wentworth Winchester, Nicole C. Glidden, Ellen Roets, Jo Van Dorpe, Sandra Janssens, Danny E. Miller et al. · 2024 · Nature Communications
  77. Massively parallel disruption of enhancers active in human neural stem cells
    Evan T. Geller, Mark A. Noble, Matheo Morales, Jake Gockley, Deena Emera, Severin Uebbing, Justin L. Cotney, James P. Noonan · 2024 · Cell Reports
  78. Functional genetic analysis in a jawless vertebrate, the sea lamprey: insights into the developmental evolution of early vertebrates
    Joshua R. York, David W. McCauley · 2020 · Journal of Experimental Biology
  79. Genome‐Wide Maps of Transcription Regulatory Elements and Transcription Enhancers in Development and Disease
    Puja Agrawal, Katelyn E. Heimbruch, Sridhar Rao · 2018 · Comprehensive physiology
  80. CRTC1/MAML2 directs a PGC-1α-IGF-1 circuit that confers vulnerability to PPARγ inhibition
    Adele M. Musicant, Kshitij Parag‐Sharma, Weida Gong, Monideepa Sengupta, Arindam Chatterjee, Erin C. Henry, Yi‐Hsuan Tsai, Michele C. Hayward, Siddharth H Sheth, Renée Betancourt et al. · 2021 · Cell Reports
  81. The application of CRISPR/Cas9–based genome-wide screening to disease research
    Xiuqin Chen, Min Zheng, Su Lin, Meiqing Huang, Shaoying Chen, Shilong Chen · 2024 · Molecular and Cellular Probes
  82. Engineering novel CRISPRi repressors for highly efficient mammalian gene regulation
    Andrew Kristof, Krithika Karunakaran, Christopher Allen, Paula Mizote, Sophie Briggs, Zixin Jian, Patrick Nash, John Blazeck · 2025 · Genome biology
  83. The role of single-cell genomics in human genetics
    Varun K. A. Sreenivasan, Saranya Balachandran, Malte Spielmann · 2022 · Journal of Medical Genetics
  84. Genomic characterization and therapeutic utilization of IL-13-responsive sequences in asthma
    Kyung Duk Koh, Luke R. Bonser, Walter L. Eckalbar, Ofer Yizhar Barnea, Jiangshan Jane Shen, Xiaoning Zeng, Kirsten L. Hargett, Dingyuan Iris Sun, Lorna T. Zlock, Walter E. Finkbeiner et al. · 2022 · Cell Genomics
  85. Systematic decoding of cis gene regulation defines context-dependent control of the multi-gene costimulatory receptor locus in human T cells
    Cody T. Mowery, Jacob W. Freimer, Zeyu Chen, Salvador Casaní-Galdón, Jennifer M. Umhoefer, Maya M. Arce, Ketrin Gjoni, Bence Dániel, Katalin Sándor, Benjamin G. Gowen et al. · 2024 · Nature Genetics
  86. ENCoRE: an efficient software for CRISPR screens identifies new players in extrinsic apoptosis
    Dietrich Trümbach, Susanne Pfeiffer, Manuel Poppe, Hagen Scherb, Sebastian G. Doll, Wolfgang Wurst, Joel Schick · 2017 · BMC Genomics
  87. CRISPR-based methods for high-throughput annotation of regulatory DNA
    Tyler S. Klann, Joshua B. Black, Charles A. Gersbach · 2018 · Current Opinion in Biotechnology
  88. Validation of prostate cancer risk variants rs10993994 and rs7098889 by CRISPR/Cas9 mediated genome editing
    Xing Wang, James E. Hayes, Xing Xu, Xiaoni Gao, Dipti Mehta, Hans G. Lilja, Robert J. Klein · 2020 · Gene
  89. Screening of ETO2-GLIS2–induced Super Enhancers identifies targetable cooperative dependencies in acute megakaryoblastic leukemia
    Salima Benbarche, Cécile K. Lopez, Eralda Salataj, Zakia Aid, Cécile Thirant, Marie-Charlotte Laiguillon, Séverine Lecourt, Yannis Belloucif, Camille Vaganay, Marion Antonini et al. · 2022 · Science Advances
  90. Machine-guided design of synthetic cell type-specific cis -regulatory elements
    Sager J. Gosai, Rodrigo I. Castro, N Fuentes, John C. Butts, Susan Kales, Ramil R. Noche, Kousuke Mouri, Pardis Christine Sabeti, Steven K. Reilly, Ryan Tewhey · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
  91. Application of CRISPR screen in mechanistic studies of tumor development, tumor drug resistance, and tumor immunotherapy
    Min Li, Jin Sun, Guohai Shi · 2023 · Frontiers in Cell and Developmental Biology
  92. Robust and inducible genome editing via an all-in-one prime editor in human pluripotent stem cells
    Youjun Wu, Aaron Zhong, Mega Sidharta, Tae Wan Kim, Bernny Ramirez, Benjamin Persily, Lorenz Studer, Ting Zhou · 2024 · Nature Communications
  93. Recent advances in neuroepigenetic editing
    Song‐Jun Xu, Elizabeth A. Heller · 2019 · Current Opinion in Neurobiology
  94. CRISPRi-mediated functional analysis of lung disease-associated loci at non-coding regions
    William D. Stuart, Minzhe Guo, Iris M. Fink-Baldauf, Alan M. Coleman, John Paul Clancy, Marcus Alexander Mall, Foong‐Yen Y. Lim, John J. Brewington, Yutaka Maeda · 2020 · NAR Genomics and Bioinformatics
  95. EPI-Mind: Identifying Enhancer–Promoter Interactions Based on Transformer Mechanism
    Yu Ni, Li-Ping Fan, Miao Wang, Ning Zhang, Yong-Chun Zuo, Mingzhi Liao · 2022 · Interdisciplinary Sciences Computational Life Sciences
  96. Highly sensitive single-cell chromatin accessibility assay and transcriptome coassay with METATAC
    Honggui Wu, Xiang Li, Fanchong Jian, Ayijiang Yisimayi, Yinghui Zheng, Longzhi Tan, Dong Xing, X. Sunney Xie · 2022 · Proceedings of the National Academy of Sciences
  97. Mapping the functional impact of non-coding regulatory elements in primary T cells through single-cell CRISPR screens
    Celia Alda-Catalinas, Ximena Ibarra-Soria, Christina Flouri, Jorge Esparza Gordillo, Diana L. Cousminer, Anna Hutchinson, Bin Sun, William G. Pembroke, Sebastian Ullrich, Adam Krejčí et al. · 2024 · Genome biology
  98. Genome-wide quantification of copy-number aberration impact on gene expression in ovarian high-grade serous carcinoma
    Sanaz Jamalzadeh, Jun Dai, Kari Lavikka, Yilin Li, Jing Jiang, Kaisa Huhtinen, Anni Virtanen, Jaana Oikkonen, Sakari Hietanen, Johanna Hynninen et al. · 2024 · BMC Cancer
  99. Insights into the Links between MYC and 3D Chromatin Structure and Epigenetics Regulation: Implications for Cancer Therapy
    Fatemeh Amjadi‐Moheb, Alireza Paniri, Haleh Akhavan‐Niaki · 2021 · Cancer Research
  100. Systematic identification of genomic elements that regulate FCGR2A expression and harbor variants linked with autoimmune disease
    Johanna Dahlqvist, Charles P. Fulco, John P Ray, Thomas Liechti, Carl G. de Boer, David Lieb, Thomas Eisenhaure, J Engreitz, Mario Roederer, Nir Hacohen · 2021 · Human Molecular Genetics