Taekjip Ha (Jingyi Fei)

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 39

Top Topics

Escherichia Coli

Binding Protein

Top Venues

bioRxiv : the preprint server for biology

Nature biotechnology

Nature communications

This page only lists publications with an associated author ORCID identifier.

Publications

Tong Wu, Anthony Youzhi Cheng, Yuexiu Zhang, Jiayu Xu, Jinjun Wu, Li Wen, Xiao Li, Bei Liu, Xiaoyang Dou, Pingluan Wang, Linda Zhang, Taekjip Ha, Jianrong Li, Zhengqing Ouyang, Chuan He
KARR-seq reveals cellular higher-order RNA structures and RNA-RNA interactions. Nature biotechnology (2024)
Jinjun Wu, Yu Xiao, Yunzheng Liu, Li Wen, Chuanyang Jin, Shun Liu, Sneha Paul, Chuan He, Oded Regev, Taekjip Ha
Dynamics of RNA localization to nuclear speckles are connected to splicing efficiency. bioRxiv : the preprint server for biology (2024)
Yu Xiao, Yan-Ming Chen, Zhongyu Zou, Chang Ye, Xiaoyang Dou, Jinjun Wu, Chang Liu, Shun Liu, Hao Yan, Pingluan Wang, Tie-Bo Zeng, Qinzhe Liu, Taekjip Ha, Weixin Tang, Chuan He
Profiling of RNA-binding protein binding sites by in situ reverse transcription-based sequencing. Nature methods 21 (2) (2024)
Yu Xiao, Yan-Ming Chen, Zhongyu Zou, Chang Ye, Xiaoyang Dou, Jinjun Wu, Chang Liu, Shun Liu, Hao Yan, Pingluan Wang, Tie-Bo Zeng, Qinzhe Liu, Taekjip Ha, Weixin Tang, Chuan He
Profiling of RNA-binding protein binding sites by in situ reverse transcription-based sequencing. Nature methods 21 (2) (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Eduardo Campos-Chavez, Sneha Paul, Zunwu Zhou, Dulce Alonso, Anjali R Verma, Taekjip Ha, Alfonso Mondragón
Translational T-box riboswitches bind tRNA by modulating conformational flexibility. Nature communications 15 (1) (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Yu Xiao, Yan-Ming Chen, Zhongyu Zou, Chang Ye, Xiaoyang Dou, Jinjun Wu, Chang Liu, Shun Liu, Hao Yan, Pingluan Wang, Tie-Bo Zeng, Qinzhe Liu, Taekjip Ha, Weixin Tang, Chuan He
Profiling of RNA-binding protein binding sites by in situ reverse transcription-based sequencing. Nature methods 21 (2) (2024)
Eduardo Campos-Chavez, Sneha Paul, Zunwu Zhou, Dulce Alonso, Anjali R Verma, Taekjip Ha, Alfonso Mondragón
Translational T-box riboswitches bind tRNA by modulating conformational flexibility. Nature communications 15 (1) (2024)
Yu Xiao, Yan-Ming Chen, Zhongyu Zou, Chang Ye, Xiaoyang Dou, Jinjun Wu, Chang Liu, Shun Liu, Hao Yan, Pingluan Wang, Tie-Bo Zeng, Qinzhe Liu, Taekjip Ha, Weixin Tang, Chuan He
Profiling of RNA-binding protein binding sites by in situ reverse transcription-based sequencing. Nature methods (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Tong Wu, Anthony Youzhi Cheng, Yuexiu Zhang, Jiayu Xu, Jinjun Wu, Li Wen, Xiao Li, Bei Liu, Xiaoyang Dou, Pingluan Wang, Linda Zhang, Taekjip Ha, Jianrong Li, Zhengqing Ouyang, Chuan He
KARR-seq reveals cellular higher-order RNA structures and RNA-RNA interactions. Nature biotechnology (2024)
Tong Wu, Anthony Youzhi Cheng, Yuexiu Zhang, Jiayu Xu, Jinjun Wu, Li Wen, Xiao Li, Bei Liu, Xiaoyang Dou, Pingluan Wang, Linda Zhang, Taekjip Ha, Jianrong Li, Zhengqing Ouyang, Chuan He
KARR-seq reveals cellular higher-order RNA structures and RNA-RNA interactions. Nature biotechnology (2024)
Yu Xiao, Yan-Ming Chen, Zhongyu Zou, Chang Ye, Xiaoyang Dou, Jinjun Wu, Chang Liu, Shun Liu, Hao Yan, Pingluan Wang, Tie-Bo Zeng, Qinzhe Liu, Taekjip Ha, Weixin Tang, Chuan He
Profiling of RNA-binding protein binding sites by in situ reverse transcription-based sequencing. Nature methods 21 (2) (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Tong Wu, Anthony Youzhi Cheng, Yuexiu Zhang, Jiayu Xu, Jinjun Wu, Li Wen, Xiao Li, Bei Liu, Xiaoyang Dou, Pingluan Wang, Linda Zhang, Taekjip Ha, Jianrong Li, Zhengqing Ouyang, Chuan He
KARR-seq reveals cellular higher-order RNA structures and RNA-RNA interactions. Nature biotechnology (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Yu Xiao, Yan-Ming Chen, Zhongyu Zou, Chang Ye, Xiaoyang Dou, Jinjun Wu, Chang Liu, Shun Liu, Hao Yan, Pingluan Wang, Tie-Bo Zeng, Qinzhe Liu, Taekjip Ha, Weixin Tang, Chuan He
Profiling of RNA-binding protein binding sites by in situ reverse transcription-based sequencing. Nature methods (2024)
Tong Wu, Anthony Youzhi Cheng, Yuexiu Zhang, Jiayu Xu, Jinjun Wu, Li Wen, Xiao Li, Bei Liu, Xiaoyang Dou, Pingluan Wang, Linda Zhang, Taekjip Ha, Jianrong Li, Zhengqing Ouyang, Chuan He
KARR-seq reveals cellular higher-order RNA structures and RNA-RNA interactions. Nature biotechnology (2024)
Tong Wu, Anthony Youzhi Cheng, Yuexiu Zhang, Jiayu Xu, Jinjun Wu, Li Wen, Xiao Li, Bei Liu, Xiaoyang Dou, Pingluan Wang, Linda Zhang, Taekjip Ha, Jianrong Li, Zhengqing Ouyang, Chuan He
KARR-seq reveals cellular higher-order RNA structures and RNA-RNA interactions. Nature biotechnology (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Eduardo Campos-Chavez, Sneha Paul, Zunwu Zhou, Dulce Alonso, Anjali R Verma, Taekjip Ha, Alfonso Mondragón
Translational T-box riboswitches bind tRNA by modulating conformational flexibility. Nature communications 15 (1) (2024)
Hendrik Glauninger, Jared A M Bard, Caitlin J Wong Hickernell, Edo M Airoldi, Weihan Li, Robert H Singer, Sneha Paul, Taekjip Ha, Tobin R Sosnick, Edward W J Wallace, D Allan Drummond
Transcriptome-wide mRNA condensation precedes stress granule formation and excludes stress-induced transcripts. bioRxiv : the preprint server for biology (2024)
Farès Ousalem, Shikha Singh, Nevette A Bailey, Kam-Ho Wong, Lingwei Zhu, Matthew J Neky, Cosmas Sibindi, Taekjip Ha, Ruben L Gonzalez, Grégory Boël, John F Hunt
Comparative genetic, biochemical, and biophysical analyses of the four E. coli ABCF paralogs support distinct functions related to mRNA translation. bioRxiv : the preprint server for biology (2023)
Korak Kumar Ray, Colin D Kinz-Thompson, Taekjip Ha, Bin Wang, Qiao Lin, Ruben L Gonzalez
Entropic control of the free-energy landscape of an archetypal biomolecular machine. Proceedings of the National Academy of Sciences of the United States of America 120 (21) (2023)
Korak Kumar Ray, Colin D Kinz-Thompson, Taekjip Ha, Bin Wang, Qiao Lin, Ruben L Gonzalez
Entropic control of the free-energy landscape of an archetypal biomolecular machine. Proceedings of the National Academy of Sciences of the United States of America 120 (21) (2023)
Korak Kumar Ray, Colin D Kinz-Thompson, Taekjip Ha, Bin Wang, Qiao Lin, Ruben L Gonzalez
Entropic control of the free-energy landscape of an archetypal biomolecular machine. Proceedings of the National Academy of Sciences of the United States of America 120 (21) (2023)
Zhiyuan Luo, Jiacheng Zhang, Taekjip Ha, Shengdong Ke
Deep learning modeling m 6 A deposition reveals the importance of downstream cis-element sequences. Nature communications 13 (1) (2022)
Anustup Poddar, Muhammad S Azam, Tunc Kayikcioglu, Maksym Bobrovskyy, Jichuan Zhang, Xiangqian Ma, Piyush Labhsetwar, Taekjip Ha, Digvijay Singh, Zaida Luthey-Schulten, Carin K Vanderpool, Taekjip Ha
Effects of individual base-pairs on in vivo target search and destruction kinetics of bacterial small RNA. Nature communications 12 (1) (2021)
Eitan Lerner, Anders Barth, Jelle Hendrix, Benjamin Ambrose, Victoria Birkedal, Scott C Blanchard, Richard Börner, Hoi Sung Chung, Thorben Cordes, Timothy D Craggs, Ashok A Deniz, Jiajie Diao, Taekjip Ha, Ruben L Gonzalez, Irina V Gopich, Taekjip Ha, Christian A Hanke, Gilad Haran, Nikos S Hatzakis, Sungchul Hohng, Seok-Cheol Hong, Thorsten Hugel, Antonino Ingargiola, Chirlmin Joo, Achillefs N Kapanidis, Harold D Kim, Ted Laurence, Nam Ki Lee, Tae-Hee Lee, Edward Anton Lemke, Emmanuel Margeat, Jens Michaelis, Xavier Michalet, Sua Myong, Daniel Nettels, Thomas-Otavio Peulen, Evelyn Ploetz, Yair Razvag, Nicole C Robb, Benjamin Schuler, Hamid Soleimaninejad, Chun Tang, Reza Vafabakhsh, Don C Lamb, Claus A M Seidel, Shimon Weiss
FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices. eLife 10 (2021)
David Lalaouna, Karine Prévost, Seongjin Park, Thierry Chénard, Marie-Pier Bouchard, Marie-Pier Caron, Carin K Vanderpool, Taekjip Ha, Eric Massé
Binding of the RNA Chaperone Hfq on Target mRNAs Promotes the Small RNA RyhB-Induced Degradation in Escherichia coli. Non-coding RNA 7 (4) (2021)
Yuanyuan Yu, Qingyun Zheng, Satchal K Erramilli, Man Pan, Seongjin Park, Yuan Xie, Jingxian Li, Taekjip Ha, Anthony A Kossiakoff, Sanling Liu, Minglei Zhao
K29-linked ubiquitin signaling regulates proteotoxic stress response and cell cycle. Nature chemical biology 17 (8) (2021)
Seongjin Park, Karine Prévost, Emily M Heideman, Marie-Claude Carrier, Muhammad S Azam, Matthew A Reyer, Wei Liu, Éric Massé, Taekjip Ha
Dynamic interactions between the RNA chaperone Hfq, small regulatory RNAs, and mRNAs in live bacterial cells. eLife 10 (2021)
Magda Bujnowska, Jiacheng Zhang, Qing Dai, Emily M Heideman, Taekjip Ha
Deoxyribozyme-based method for absolute quantification of N 6-methyladenosine fractions at specific sites of RNA. The Journal of biological chemistry 295 (20) (2020)
Seongjin Park, Matthew A Reyer, Eric L McLean, Wei Liu, Taekjip Ha
An Improved Method for Bacterial Immunofluorescence Staining To Eliminate Antibody Exclusion from the Fixed Nucleoid. Biochemistry 58 (45) (2019)
Jiacheng Zhang, Bhaskar Chetnani, Eric D Cormack, Dulce Alonso, Wei Liu, Alfonso Mondragón, Taekjip Ha
Specific structural elements of the T-box riboswitch drive the two-step binding of the tRNA ligand. eLife 7 (2018)
Jingyi Fei, Mahdieh Jadaliha, Tyler S Harmon, Isaac T S Li, Boyang Hua, Qinyu Hao, Alex S Holehouse, Matthew Reyer, Qinyu Sun, Susan M Freier, Rohit V Pappu, Kannanganattu V Prasanth, Taekjip Ha
Quantitative analysis of multilayer organization of proteins and RNA in nuclear speckles at super resolution. Journal of cell science 130 (24) (2017)
Matthew A Reyer, Eric L McLean, Shriram Chennakesavalu, Taekjip Ha
An Automated Image Analysis Method for Segmenting Fluorescent Bacteria in Three Dimensions. Biochemistry 57 (2) (2017)