Author

Jing Shan Lim

Stanford UniversityORCID 0000-0002-2939-6446Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Systems Biology· 2 Genetic & Genomic Medicine· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Organism:human· 3 Approach:statistical model· 3 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1

Frequent Co-Authors

Darren R. TysoniD· 2 shared Julien SageiD· 2 shared Qi LiuiD· 2 shared Sarah M. GrovesiD· 2 shared Vito QuarantaiD· 2 shared Abbie S. IrelandiD· 1 shared Alan J. SimmonsiD· 1 shared Alissa M. WeaveriD· 1 shared

Activity by Year

2019-2022 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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2 shared papersSystems Biology

Darren R. TysonORCID

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3 papers

Recent·Most cited

Cancer Hallmarks Define a Continuum of Plastic Cell States between Small Cell Lung Cancer Archetypes

Sarah M. Groves, Geena V. Ildefonso, Caitlin O. McAtee, Patricia Midori Murobushi Ozawa, Abbie S. Ireland, Philip E. Stauffer, Perry T. Wasdin, Xiaomeng Huang, Yi Qiao, Jing Shan Lim, Jackie E. Bader, Qi Liu, Alan J. Simmons, Ken S. Lau, Wade Thomas Iams, , Vito Quaranta

This study shows SCLC cells exist in a continuum of plastic states rather than discrete subtypes, with gene expression patterns linked to cancer hallmarks and potential therapeutic targets.

Cell Systems · Aug 17, 2022Peer-reviewedSystems Biology

A Viral Fragmentation Signature for SARS-CoV-2 in Clinical Samples Correlating with Contagiousness

Yukti Choudhury, Chae Yin Cher, Zi Yi Wan, Chao Xie, Jing Shan Lim, Ramandeep Kaur Virk, Min Han Tan, Alvin Kuo Jing Teo, Li Yang Hsu

This paper introduces a viral fragmentation score based on NGS to assess SARS-CoV-2 RNA integrity, showing it correlates with infectiousness and time since disease onset.

medRxiv · Jan 11, 2021 · PreprintGenetic & Genomic Medicine

Systems-level network modeling of Small Cell Lung Cancer subtypes identifies master regulators and destabilizers

David J. Wooten, Sarah M. Groves, Darren R. Tyson, Qi Liu, Jing Shan Lim, Réka Albert, Carlos F. Lopez, Julien Sage, Vito Quaranta

The paper identifies four SCLC subtypes using a systems approach, with NEv2 being a new subtype, and finds master regulators and destabilizers using BooleaBayes.

PLoS Computational Biology · Oct 31, 2019Peer-reviewedSystems Biology