Exploiting activation and inactivation mechanisms in type I-C CRISPR-Cas3 for genome-editing applications

Authors: Hu, Chunyi, Myers, Mason T., Zhou, Xufei, Hou, Zhonggang, Lozen, Macy L., Nam, Ki Hyun, Zhang, Yan, Ke, Ailong

Source: In Molecular Cell 1 February 2024 84(3):463-475

Multiple adaptations underly co-option of a CRISPR surveillance complex for RNA-guided DNA transposition

Authors: Park, Jung-Un, Petassi, Michael T., Hsieh, Shan-Chi, Mehrotra, Eshan, Schuler, Gabriel, Budhathoki, Jagat, Truong, Vinh H., Thyme, Summer B., Ke, Ailong, Kellogg, Elizabeth H., Peters, Joseph E.

Source: In Molecular Cell 1 June 2023 83(11):1827-1838

Allosteric control of type I-A CRISPR-Cas3 complexes and establishment as effective nucleic acid detection and human genome editing tools

Authors: Hu, Chunyi, Ni, Dongchun, Nam, Ki Hyun, Majumdar, Sonali, McLean, Justin, Stahlberg, Henning, Terns, Michael P., Ke, Ailong

Source: In Molecular Cell 4 August 2022 82(15):2754-2768

Cas11 enables genome engineering in human cells with compact CRISPR-Cas3 systems

Authors: Tan, Renke, Krueger, Ryan K., Gramelspacher, Max J., Zhou, Xufei, Xiao, Yibei, Ke, Ailong, Hou, Zhonggang, Zhang, Yan

Source: In Molecular Cell 17 February 2022 82(4):852-867

Using tRNA Scaffold to Assist RNA Crystallization

Authors: Lu, Changrui, Cai, Rujie, Grigg, Jason C., Ke, Ailong

Source: Methods in molecular biology. 2323:39-48

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN626856479&indx=1&recIds=ETOCRN626856479

Introducing a Spectrum of Long-Range Genomic Deletions in Human Embryonic Stem Cells Using Type I CRISPR-Cas

Authors: Dolan, Adam E., Hou, Zhonggang, Xiao, Yibei, Gramelspacher, Max J., Heo, Jaewon, Howden, Sara E., Freddolino, Peter L., Ke, Ailong, Zhang, Yan

Source: In Molecular Cell 6 June 2019 74(5):936-950

Structure basis for RNA-guided DNA degradation by Cascade and Cas3

Authors: Xiao, Yibei, Luo, Min, Dolan, Adam E., Liao, Maofu, Ke, Ailong

Source: Science, 2018 Jul 01. 361(6397), 41-41.

Access URL: https://www.jstor.org/stable/26498940

Assembly and Translocation of a CRISPR-Cas Primed Acquisition Complex

Authors: Dillard, Kaylee E., Brown, Maxwell W., Johnson, Nicole V., Xiao, Yibei, Dolan, Adam, Hernandez, Erik, Dahlhauser, Samuel D., Kim, Yoori, Myler, Logan R., Anslyn, Eric V., Ke, Ailong, Finkelstein, Ilya J.

Source: In Cell 1 November 2018 175(4):934-946

Local-to-global signal transduction at the core of a Mn2+ sensing riboswitch

Authors: Suddala, Krishna, Price, Ian, Dandpat, Shiba, Janeček, Michal, Kührová, Petra, Šponer, Jiří, Banáš, Pavel, Ke, Ailong, Walter, Nils

Source: Nature communications. 10(1):1-16

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100191328699.0x000001&indx=1&recIds=ETOCvdc_100191328699.0x000001

Introducing Large Genomic Deletions in Human Pluripotent Stem Cells Using CRISPR‐Cas3

Authors: Hou, Zhonggang, Hu, Chunyi, Ke, Ailong, Zhang, Yan

Source: Current protocols. 2(2)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100142042219.0x000001&indx=1&recIds=ETOCvdc_100142042219.0x000001

Functional characterization and crystal structure of thermostable amylase from Thermotoga petrophila, reveals high thermostability and an unusual form of dimerization

Authors: Hameed, Uzma, Price, Ian, Ikram-Ul-Haq, Ke, Ailong, Wilson, David B., Mirza, Osman

Source: In BBA - Proteins and Proteomics October 2017 1865(10):1237-1245

Massively Parallel Biophysical Analysis of CRISPR-Cas Complexes on Next Generation Sequencing Chips

Authors: Jung, Cheulhee, Hawkins, John A., Jones, Stephen K., Jr., Xiao, Yibei, Rybarski, James R., Dillard, Kaylee E., Hussmann, Jeffrey, Saifuddin, Fatema A., Savran, Cagri A., Ellington, Andrew D., Ke, Ailong, Press, William H., Finkelstein, Ilya J.

Source: In Cell 29 June 2017 170(1):35-47

Structure Basis for Directional R-loop Formation and Substrate Handover Mechanisms in Type I CRISPR-Cas System

Authors: Xiao, Yibei, Luo, Min, Hayes, Robert P., Kim, Jonathan, Ng, Sherwin, Ding, Fang, Liao, Maofu, Ke, Ailong

Source: In Cell 29 June 2017 170(1):48-60

tRNA Fusion to Streamline RNA Structure Determination: Case Studies in Probing Aminoacyl-tRNA Sensing Mechanisms by the T-Box Riboswitch.

Authors: Grigg, Jason C.^1,2, griggj@mail.ubc.ca, Price, Ian R.^1,3, irp8@cornell.edu, Ke, Ailong¹, ailong.ke@cornell.edu

Source: Crystals (2073-4352); May2022, Vol. 12 Issue 5, pN.PAG-N.PAG, 17p

Building the Class 2 CRISPR-Cas Arsenal

Authors: Lewis, Kevin M., Ke, Ailong

Source: In Molecular Cell 2 February 2017 65(3):377-379

Mn2+-Sensing Mechanisms of yybP-ykoY Orphan Riboswitches

Authors: Price, Ian R., Gaballa, Ahmed, Ding, Fang, Helmann, John D., Ke, Ailong

Source: In Molecular Cell 19 March 2015 57(6):1110-1123

Structural basis for guanidine sensing by the ykkC family of riboswitches

Authors: Battaglia, Robert A., Price, Ian R., Ke, Ailong

Source: RNA. 23(4):578-585

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN610508027&indx=1&recIds=ETOCRN610508027

Structural basis for target site selection in RNA-guided DNA transposition systems

Authors: Park, Jung-Un, Tsai, Amy W-L, Mehrotra, Eshan, Petassi, Michael T., Hsieh, Shan-Chi, Ke, Ailong, Peters, Joseph E., Kellogg, Elizabeth H.

Source: Biophysical journal. 121(S1):328a-329a

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100155585076.0x000001&indx=1&recIds=ETOCvdc_100155585076.0x000001

Common themes and differences in SAM recognition among SAM riboswitches

Authors: Price, Ian R., Grigg, Jason C., Ke, Ailong

Source: In BBA - Gene Regulatory Mechanisms October 2014 1839(10):931-938

Assessing and engineering the IscB–ωRNA system for programmed genome editing

Authors: Yan, Hao, Tan, Xiaoqing, Zou, Siyuan, Sun, Yihong, Ke, Ailong, Tang, Weixin

Source: Nature Chemical Biology; 20240101, Issue: Preprints p1-12, 12p