K
Kyung Hoi Min
Researcher at Massachusetts Institute of Technology
Publications - 9
Citations - 271
Kyung Hoi Min is an academic researcher from Massachusetts Institute of Technology. The author has contributed to research in topics: Biology & Computer science. The author has an hindex of 2, co-authored 4 publications receiving 40 citations.
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Journal ArticleDOI
Modular, efficient and constant-memory single-cell RNA-seq preprocessing.
Páll Melsted,A. Sina Booeshaghi,Lauren Liu,Fan Gao,Lambda Lu,Kyung Hoi Min,Eduardo da Veiga Beltrame,Kristjan E. Hjorleifsson,Jase Gehring,Lior Pachter +9 more
TL;DR: In this article, a workflow for preprocessing single-cell RNA-sequencing data that balances efficiency and accuracy is described, based on the kallisto and bustools programs.
Journal ArticleDOI
Lineage tracing reveals the phylodynamics, plasticity, and paths of tumor evolution
Dian Yang,Matthew G. Jones,Santiago Naranjo,William M. Rideout,Kyung Hoi Min,Raymond Ho,Wei Wu,Joseph M. Replogle,Jennifer L. Page,Jeffrey J. Quinn,Felix Horns,Xiaojie Qiu,Michael Z. Chen,William A. Freed-Pastor,Christopher S. McGinnis,David M. Patterson,Zev J. Gartner,Eric D. Chow,Trever G. Bivona,Michelle Chan,Nir Yosef,Tyler Jacks,Jonathan S. Weissman +22 more
TL;DR: In this article , an evolving lineage-tracing system with a single-cell RNA-seq readout was introduced into a mouse model of Kras;Trp53(KP)-driven lung adenocarcinoma and tracked tumor evolution from single-transformed cells to metastatic tumors at unprecedented resolution.
Journal ArticleDOI
Metadata retrieval from sequence databases with ffq
TL;DR: A command-line tool, called ffq, for querying user-generated data and metadata from sequence databases, and its code can be found here: https://github.com/pachterlab/ffq.
Posted ContentDOI
Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution
Dian Yang,Matthew G. Jones,Santiago Naranjo,William M. Rideout,Kyung Hoi Min,Raymond Ho,Wei Wu,Wei Wu,Joseph M. Replogle,Jennifer L Page,Jeffrey J. Quinn,Jeffrey J. Quinn,Felix Horns,Xiaojie Qiu,Michael Z Chen,Michael Z Chen,William A. Freed-Pastor,William A. Freed-Pastor,Christopher S. McGinnis,Christopher S. McGinnis,David M. Patterson,Zev J. Gartner,Eric D. Chow,Trever G. Bivona,Trever G. Bivona,Michelle Chan,Nir Yosef,Tyler Jacks,Jonathan S. Weissman +28 more
TL;DR: In this paper, an evolving lineage-tracing system with a single-cell RNA-seq readout into a mouse model of Kras;Trp53(KP)-driven lung adenocarcinoma was introduced to track tumor evolution from single transformed cells to metastatic tumors at unprecedented resolution.
Posted ContentDOI
Spateo: multidimensional spatiotemporal modeling of single-cell spatial transcriptomics
Xiaojie Qiu,Daniel Y. Zhu,Jiajun Yao,Zehua Jing,Lulu Zuo,Mingyue Wang,Kyung Hoi Min,Hailin Pan,Shuai Wang,Sha Liao,Yiwei Lai,Shijie Hao,Yuancheng Lu,Matthew Hill,Jorge Diego Martin-Rufino,Chen-yin Weng,Anna Maria Riera-Escandell,Mengnan Chen,Liang Wu,Yong Zhang,Xiaoyu Wei,Mei Li,Xin Huang,Rong Xiang,Zhuoxuan Yang,Chao Liu,Tianyi Xia,Ying-Jie Liang,Junqiang Xu,Qinan Hu,Yuhui Hu,Hongmei Zhu,Yuxiang Li,Ao Chen,Miguel A. Esteban,Ying Gu,Douglas A. Lauffenburger,Xun Xu,Longqi Liu,Jonathan S. Weissman,Shiping Liu,Yinqi Bai +41 more
TL;DR: Spateo as mentioned in this paper is a general framework for quantitative spatiotemporal modeling of single-cell resolution spatial transcriptomics, which enables the study of the ecology of organs at a molecular level in 3D space, beyond isolated single cells.