Daniel Yim
Massachusetts Institute of Technology
6 Papers
67 Citations
Daniel Yim is an academic researcher from Massachusetts Institute of Technology. The author has contributed to research in topics: Oligonucleotide & Transfer RNA. The author has an hindex of 5, co-authored 6 publications. Previous affiliations of Daniel Yim include National University of Singapore & Genome Institute of Singapore.
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Papers
Structure of a novel phosphotyrosine-binding domain in Hakai that targets E-cadherin
Manjeet Mukherjee,Soah Yee Chow,Permeen Yusoff,Jayaraman Seetharaman,Cherlyn Ng,Saravanan Sinniah,Xiao Woon Koh,Nur Farehan M Asgar,Dan Li,Daniel Yim,Rebecca A. Jackson,Jingxi Yew,Jingru Qian,Audrey Iyu,Yoon Pin Lim,Xingding Zhou,Siu Kwan Sze,Graeme R. Guy,J. Sivaraman +18 more
TL;DR: The crystal structure of Hakai revealed that it forms an atypical, zinc‐coordinated homodimer by utilizing residues from the phosphotyrosine‐binding domain of two Hakai monomers, now named the HYB domain.
Quantitative mapping of the cellular small RNA landscape with AQRNA-seq.
Jennifer Hu,Jennifer Hu,Daniel Yim,Daniel Yim,Duanduan Ma,Sabrina M. Huber,Sabrina M. Huber,Nick Davis,Jo Marie Bacusmo,Sidney Vermeulen,Jieliang Zhou,Thomas J. Begley,Michael S. DeMott,Stuart S. Levine,Valérie de Crécy-Lagard,Peter C. Dedon,Peter C. Dedon,Bo Cao,Bo Cao,Bo Cao +19 more
TL;DR: The absolute quantification RNA-sequencing (AQRNA-seq) method presented in this article minimizes biases and provides a direct linear correlation between sequencing read count and copy number for all small RNAs in a sample.
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Casein kinase 1 regulates Sprouty2 in FGF-ERK signaling.
TL;DR: It is found that CSNK1E transcript abundance negatively correlates with FGF1/FGF7 message in human gastric cancer samples, and modulation of CK1 activity may be therapeutically useful in the treatment of FGF/SPRY2-related diseases.
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Dynamic expression of tRNA-derived small RNAs define cellular states
Daniel Yim,Srikar Krishna,Vairavan Lakshmanan,Judice L. Y. Koh,Jung Eun Park,Jit Kong Cheong,Joo Leng Low,Michelle Gek Liang Lim,Junyu Ip,Jie Min Nah,Iain Tan,N. Gopalakrishna Iyer,Huili Guo,Siu Kwan Sze,Srikala Raghavan,Dasaradhi Palakodeti,Ramanuj DasGupta +16 more
TL;DR: Identification and functional characterization of tRNA-derived small RNAs (tsRNAs) in cell state switches reveal that tsRNA-mediated regulation of protein translation may represent a global biological phenomenon associated with cell-state transitions.
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Sequencing-based quantitative mapping of the cellular small RNA landscape
Jennifer Hu,Daniel Yim,Sabrina M. Huber,Jo Marie Bacusmo,Duanduan Ma,Michael S. DeMott,Stuart S. Levine,Valérie de Crécy-Lagard,Peter C. Dedon,Peter C. Dedon,Bo Cao,Bo Cao +11 more
TL;DR: Application of AQRNA-seq to bacterial tRNA pools, a traditionally hard-to-sequence class of RNAs, revealed 80-fold variation in tRNA isoacceptor copy numbers, patterns of site-specific tRNA fragmentation caused by stress, and quantitative maps of ribonucleoside modifications, all in a single AQRNAs experiment.