Author

Soohong Kim

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Genomics· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

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Organism:human· 2 Assay:scRNA-seq· 2 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Approach:diffusion model· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Adam J. LittermaniD· 2 shared Ci ChuiD· 2 shared Elizabeth M Rumsey· 2 shared Philip Wright· 2 shared Rene V. Sit· 2 shared A Blocker· 1 shared Adam Barner· 1 shared Ann C Huang· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 39 mutual co-author links

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2 shared papersSystems Biology

Adam J. LittermanORCID

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2 papers

Recent·Most cited

X-Cell: Scaling Causal Perturbation Prediction Across Diverse Cellular Contexts via Diffusion Language Models

Chloe Wang, Mehran Karimzadeh, Neal G. Ravindra, Lexi R. Bounds, Nader Alerasool, Ann Huang, Shihao Ma, Daniel R. Gulbranson, Haotian Cui, Yongju Lee, Anusuya Arjavalingam, Elliot J. MacKrell, Matthew S. Wilken, Jieming Chen, Benjamin W. Herken, , Bo Wang

X-Cell predicts causal perturbation responses across diverse cellular contexts using a diffusion language model trained on a large CRISPRi Perturb-seq dataset.

bioRxiv · Mar 20, 2026 · PreprintSystems Biology

X-Atlas/Orion: Genome-wide Perturb-seq Datasets via a Scalable Fix-Cryopreserve Platform for Training Dose-Dependent Biological Foundation Models

Ann C Huang, Tsung-Han S. Hsieh, Jiang Zhu, Jackson Michuda, Ashton Teng, Soohong Kim, Elizabeth M Rumsey, Sharon K Lam, Ikenna Anigbogu, Philip Wright, Mohamed Ameen, Kwontae You, Christopher J Graves, Hyunsung John Kim, Adam J. Litterman, , Ci Chu

The paper introduces a scalable Perturb-seq platform called FiCS Perturb-seq and releases X-Atlas/Orion, a large Perturb-seq atlas, to improve foundation model development through dose-dependent genetic effects.

bioRxiv · Jun 11, 2025 · PreprintGenomics