List of Publications

BRIC 한빛사 논문 (Highlighted papers)

Peer-reviewed articles (* Equal contribution) 

2025-15. Epithelial NAMPT governs intestinal inflammation within the postnatal window

Hong SM, Lee J-E, Prazanowska K, Seon S-Y, Seon M-W, Jeong D-H, Ahn J-S, Seo Y, Lim SB, Kim H-S, Morgan M, Lee D, Kim Y. under review

2025-14. Cross-phenotype single-cell transcriptomic atlas of the human gastrointestinal tract

Go Y, Uesugi A, Lim SB. under review

2025-13. Comprehensive Single-Cell Transcriptomic Atlas of the Mouse Pons and Medulla

Junaid M, Lee EJ*, Lim SB*. under review

2025-12. Escherichia coli gene expression is influenced more by gut environmental changes from inflammation and microbiota modulation than by colitis severity

Kim J-T*, Prazanowska KH*, Panchali MJL, Moon C, Kim K, Lim SB*, Park S*. Scientific Reports, accepted

2025-11. A human striatal-midbrain assembloid model of alpha-synuclein propagation

Tran H-D, Shin M-K, Yeo XY, Jung S, Muhammad J, Lim SB, Kim J, Woo HG, Denman CR, Han R-R, Kim M, Jeon D, Kim H, Kim YJ, Mun JY, Lee EJ, Park SM, Kuhn B, Arbuthnott GW, Jo J. Brain, accepted

2025-10. DNMT1-mediated SPINT2 expression drives early senescence by suppressing c-Met signaling in human fibroblasts

Sim MS, Byun H-O, Min S, Hong J, Lim SB, Choi K, Yoon G. Aging, accepted, 2025

2025-09. Functional Role of Matrisome-related Gene MAMDC2 in Head and Neck Squamous Cell Carcinoma

Goh KY, Cheng TYD, Go Y, Tham SC, Tay SKY, Lu RS, Lyer NG, Lim SB, Lim DWT. Cancer Research 85 (15_Supplement), P14-P14, 2025

2025-07. Human pluripotent stem cell-derived skeletal muscle organoid model of aging-induced sarcopenia

Park S, Shin M-K, Jeong D, Yeo XY, Kim YJ, Muhammad J, Kim M, Gu S, Lee JE, Park Y, Lim SB, Mun JY, Jung S, Lee DR, Jo J. Journal of Cachexia, Sarcopenia and Muscle, accepted, 2025

2025-06. Deciphering molecular inputs to CRH-PVN neurons from POMC-ARC neurons

Junaid M, Bae Y, Choe HK,  Kondoh K, Lee EJ*, Lim SB*. Fundamental Research, accepted, 2025

2025-05. IRF3-p300 Axis Controls Global Acetylation and Mitotic Progression

Kim W-J, Basit A, Ko E-B, Heo Y, Shim J, Lim SB, Lee J-H. Biochemical and Biophysical Research Communications. Available online 14 June 2025, 152211

2025-04. Drosophila  Peptidyl-Prolyl cis/trans Isomerase-like 4 regulates circadian rhythm by supporting High-Amplitude Oscillations of PERIOD

Kang SW, Tran HT, Lee G, Ng JT, Lim SB, Kim EY. iScience, 112457, 2025

2025-03. GULP1 as a novel diagnostic and predictive biomarker in hepatocellular carcinoma

Kim HS, Yoon JH, Choi J Y, Yoon MG, Baek GO, Kang M, Jang SH, Park W, Go Y, Ng J, Nam SW, Jeong J-Y, Han JE, Cho HJ, Lim SB, Kim SS, Cheong JY, Eun JW. Clinical and Molecular Hepatology accepted 2025

2025-02. A Single-Cell RNA-Seq Dataset of Peripheral Blood Cells in Long COVID Patients on Herbal Therapy

Prazanowska K, Kim T-H, Kang JW, Jin Y-H*, Kwon S*, Lim SB*. Scientific Data 12, 177, 2025

2025-01. Single-cell and spatial omics: exploring hypothalamic heterogeneity

Junaid M, Lee EJ*, Lim SB*.  Neural Regeneration Research 20(6):1525-1540, 2025

2024-09. HepScope: CNN-based single-cell discrimination of malignant hepatocytes

Go Y*, Ng J*, Lim DWT, Lim SB. Journal of Big Data, 11, 149, 2024 *한빛사논문

2024-08. Distribution and Impact of p16INK4A+ Senescent Cells in Elderly Tissues: A Focus on Senescent Immune Cell and Epithelial Dysfunction

Park SS, Lee Y-K, Kim YH, Park SH, Kang HY, Kim JC, Kim DH, Lim SB, Yoon G, Kim J-H, Choi YW, Park TJ. Experimental & Molecular Medicine 56, 2631–2641, 2024

2024-07. Matrisomics: Beyond the Extracellular Matrix for Unveiling Tumor Microenvironment

Hong J, Jin H, Choi M, Lim DWT, Park JE, Kim YS, Lim SB. BBA - Reviews on Cancer, 1879(6), 189178, 2024 *한빛사논문

2024-06. Sortilin1 promotes angiogenesis and systemic metastasis in hepatocellular carcinoma by activating the Notch signaling pathway and increasing CD133 expression

Ahn HR, Kim S, Baek GO, Yoon MG, Kang M, Ng J, Go Y, Lim SB, Han JE, Kim SS, Cheong JY, Eun JW, Cho HJ. Cell Death & Disease 15, 634, 2024

2024-05. Correspondence on Editorial regarding “Unveiling etiology-specific blood biomarkers in hepatocellular carcinoma: a gateway to personalized medicine”

 Lim SB and Cho HJ. Clinical and Molecular Hepatology, 30(4):1009-1011, 2024 *한빛사논문

2024-04. Multi-omics Profiling of Buffy Coat and Plasma Unveils Etiology-specific Signatures in Hepatocellular Carcinoma

Hong JW*, Eun JW,* Baek GO, Park S, Cho HJ*, Lim SB*. Clinical and Molecular Hepatology 30(3), 60-374, 2024 *한빛사논문

2024-03. Cellular Senescence is Associated with the Spatial Evolution Towards a Higher Metastatic Phenotype in Colorectal Cancer

 Park SS, Lee Y-K, Choi YW, Lim SB, Park SH, Kim HK, Shin JS, Kim YH, Kim J-H, Park TJ. Cell Reports 43(3), 113912, 2024

2024-02. NAMPT-driven M2 polarization of tumor-associated macrophages leads to an immunosuppressive microenvironment in colorectal cancer

Hong SM, Lee A-Y, Ha Y-J, Ng JT, Yoon G, Lim SB, Morgan MJ, Cha J-H, Lee D, Kim Y-S. Advanced Science, 2303177, 2024

2024-01. The LKB1/TSSK1B axis controls YAP phosphorylation to regulate the Hippo–YAP pathway

Kim C-L, Lim S-B, Choi S-H, Kim DH, Sim YE, Kim K, Jo E-H, Lee K, Park H-S, Lim SB, Kang L-J, Lee Y, Jung H-S, Hansen C, Mo J-S. Cell Death & Disease, 15, 76, 2024 

2023-10.  SRSF7 downregulation induces cellular senescence through generation of MDM2 variants

 Hong J, Min S, Yoon G*, Lim SB*. Aging 15(24), 14591-14606, 2023

2023-09. Macrophage-derived TNF-enriched tumor microenvironment shapes pancreatic ductal adenocarcinoma into the basal-like molecular phenotype through upregulating TAp63

Lim SB*, Choi J-I*, Go Y, Ha Y-J, Yang MJ, Park S-H, Kim S, Kim Y-S*, Lee D*. Clinical and Translational Medicine 13(12), e1520, 2023 

*한빛사논문

2023-08. Unveiling Hypothalamic Molecular Signatures via Retrograde Viral Tracing and Single-Cell Transcriptomics

Junaid M, Choe HK,  Kondoh K, Lee EJ*, Lim SB*. Scientific Data, 10, 861, 2023 *한빛사논문

2023-07.  Mid-Old Cells are Potential Target for Anti-aging Interventions in the Elderly

YH Kim, YK Lee, SS Park, SH Park, SY Eom, YS Lee, WJ Lee, J Jang, D Seo, HY Kang, JC Kim, SB Lim, G Yoon, HS Kim, JH Kim, TJ Park. Nature Communications, 14, 7619, 2023

2023-06. Single-cell insights into the dynamic tumor microenvironment changes during immunotherapy of non-small cell lung cancer

K Prazanowska, J Hong, SB Lim. Translational Lung Cancer Research 12(8):1816-1821, 2023

2023-05. Integrative multi-omics and systems bioinformatics in translational neuroscience: A data mining perspective

O’Connor LM, O’Connor BA, Lim SB, Zeng J, Lo CH. Journal of Pharmaceutical Analysis 13(8):836-850, 2023

2023-04.  Deleterious Mechanical Deformation Selects Mechanoresilient Cancer Cells with Enhanced Proliferation and Chemoresistance

K Jiang, SB Lim, JW Xiao, DS Jokhun, ML Shang, X Song, P Zhang, LF Liang, BC Low, GV Shivashankar, CT Lim. Advanced Science 10(22), 2201663, 2023

2023-03.  An integrated single-cell transcriptomic dataset for non-small cell lung cancer

K Prazanowska and SB Lim. Scientific Data 10, 167, 2023 *한빛사논문

2023-02.  Cancer-associated fibroblast-derived secreted phosphoprotein 1 contributes to resistance of hepatocellular carcinoma to sorafenib and lenvatinib

JW Eun, JH Yoon, HR Ahn, S Kim, YB Kim, SB Lim, W Park, TW Kang, GO Baek, MG Yoon, JA Son, JH Weon, SS Kim, HJ Cho, JY Cheong.  Cancer Communications, 43(4):455-479, 2023

2023-01. p15INK4B is an alternative marker of senescent tumor cells in colorectal cancer

SS Park, Y-K Lee, SH Park, SB Lim, YW Choi, JS Shin, YH Kim, J-H Kim, TJ Park. Heliyon e13170, 2023

2022-05. Pro-metastatic and mesenchymal gene expression signatures characterize circulating tumor cells of neuroblastoma patients with bone marrow metastases and relapse

AHP Loh, C Angelina, MK Wong, SH Tan, SA Sukhatme, T Yeo, SB Lim, YT Lee, SY Soh, W Leung, KTE Chang, YW Chua, SMF Alkaff, TKH Lim, CT Lim, ZX Chen. Frontiers in Oncology, 12, 939460, 2022 

2022-04. Mitoribosomal deregulation drives senescence via TPP1-mediated telomere deprotection

S Min, SM Kwon, J Hong, YK Lee, TJ Park, SB Lim*, G Yoon*. Cells, 11, 2079. 2022

2022-03. Transcriptional heterogeneity of cellular senescence in cancer

M Junaid*, A Lee*, J Kim, TJ Park, SB Lim.  Molecules and Cells 45(9):610-619, 2022 

2022-02. Human pluripotent stem cell-derived myogenic progenitor cells engraft to become quiescent functional satellite cells in vivo

C Sun, S Kannan, IY Choi, HT Lim, Hao Zhang, GS Chen, N Zhang, SH Park, C Serra, SR Iyer, TE Lloyd, C Kwon, RM Lovering, SB Lim, P Andersen, KR Wagner, G Lee.  Cell Stem Cell , 29(4):610-619, 2022 

2022-01. Matrisomal genes in squamous cell carcinoma of head and neck influence tumor cell motility and response to cetuximab treatment

KY Goh, KW Lau, TYD Cheng, SC Tham, CT Lim, NG Iyer, SB Lim*, DWT Lim*. Cancer Communications 42(4):355-359, 2022 http://doi.org/10.1002/cac2.12279 *한빛사논문

2021-07. Multi-omic analysis of selectively vulnerable motor neuron subtypes implicates altered lipid metabolism in ALS

Lee HJ, Lee JJ, Park NY, Dubey SK, Kim TY, Ruan K, Lim SB, Park SH, Ha SW, Kovlyagina I, Kim YT, Kim SJ, Oh YH, Kim HS, Kang SU, Song MR, Lloyd TE, Maragakis NJ, Hong YB, Eoh HJ, Lee G,  Nature Neuroscience 24, 1673–1685, 2021 

2021-06. Prognostic matrisomal gene panel and its association with immune cell infiltration in head and neck carcinomas 

 Y Bellotti, SB Lim, NG Iyer, WT Lim, CT Lim. Cancers, 13(22), 5761, 2021

2021-05. PPARγ targets-derived diagnostic and prognostic index for papillary thyroid cancer

J Kim*, SY Kim*, SX Ma, SM Kim*, SJ Shin, YS Lee, HJ Chang, HS Chang, CS Park, SB Lim*, Cancers, 13(20), 5110, 2021  

2021-04. Distinct mRNAs in cancer extracellular vesicles activate angiogenesis and alter transcriptome of vascular endothelial cells

Z Pan*, SB Lim*, J Kuan, CT Weng, LB Chuan, CT Lim.  Cancers 13(9), 2009, 2021 

2021-03. Single-cell RNA sequencing in Parkinson's disease

SX Ma and SB Lim. Biomedicines 9 (4), 368, 2021 

2021-02. A flexible multiplexed immunosensor for point-of-care in situ wound monitoring

Y Gao, D Nguyen, T Yeo, SB Lim, WX Tan, L Jin, JYK Long, FAB Aloweni, YJA Liew, SY Ang, SD/O Maniya, I abdelwahab, KP Loh, CH Chen, D Leavesley, SYJ Ho, CT Lim. Science Advances 7 (21), eabg9614, 2021

2021-01. Microfluidic studies of hydrostatic pressure-enhanced doxorubicin resistance in human breast cancer cells

M Shang, SB Lim, J Kuan, YS Yap, BL Khoo, J Han, CT Lim.  Lab on a Chip 21, 746-754, 2021

2017-2020 (Publications during PhD and Postdoc)

13. ACE2-expressing endothelial cells in aging mouse brain

SB Lim, VL Dawson, TM Dawson, SU Kang.  Journal of Brain Research 3 (3), 1-5, 2020

12. Microfluidic tools for probing micro‐culprits: Opportunities and challenges in microfluidic diagnostics

SB Lim, NV Menon, CT Lim.  EMBO Reports 21 (2), e49749, 2020

11. Compendiums of cancer transcriptomes for machine learning applications

SB Lim, SJ Tan, WT Lim, CT Lim.  Scientific Data 6, 194, 2019

10. Liquid biopsy: one cell at a time

SB Lim, W Di Lee, J Vasudevan, WT Lim, CT Lim. npj Precision Oncology 3, 23, 2019 *Featured in Nature’s Leading Cancer Research collection

09. Matrisomal abnormality: a predictive biomarker for cancer immunotherapy

SB Lim, CT Lim, DWT Lim.  Annals of Oncology 30 (Supplement_6), mdz338. 057, 2019

08. Microfluidics for personalized drug screening of cancer

NV Menon, SB Lim, CT Lim. Current Opinion in Pharmacology 48, 155-161, 2019

07. Single-cell analysis of circulating tumor cells: why heterogeneity matters

SB Lim, CT Lim, WT Lim.  Cancers 11 (10), 1595, 2019

06. Addressing cellular heterogeneity in tumor and circulation for refined prognostication

SB Lim, T Yeo, W Di Lee, AAS Bhagat, SJ Tan, DSW Tan, WT Lim, CT Lim. Proceedings of the National Academy of Sciences 116 (36), 17957-17962, 2019  *한빛사논문

05. Pan-cancer analysis connects tumor matrisome to immune response

SB Lim, MLK Chua, JPS Yeong, SJ Tan, WT Lim, CT Lim.  npj Precision Oncology 3, 15, 2019 *한빛사논문

*Recommended in F1000Prime as being of special significance in its field by F1000 Faculty Members

04. Low-dose anti-inflammatory combinatorial therapy reduced cancer stem cell formation in patient-derived preclinical models for tumour relapse prevention

BL Khoo, G Grenci, JSY Lim, YP Lim, J Fong, WH Yeap, SB Lim, SL Chua, SC Wong, YS Yap, SC Lee, CT Lim, J Han. British Journal of Cancer 120 (4), 407, 2019

03. A merged lung cancer transcriptome dataset for clinical predictive modeling

SB Lim, SJ Tan, WT Lim, CT Lim. Scientific Data 5, 180136, 2018

02. An extracellular matrix-related prognostic and predictive indicator for early-stage non-small cell lung cancer

SB Lim, SJ Tan, LIM Wan-Teck, CT Lim.  Nature Communications 8 (1), 1-11, 2017 *한빛사논문

01. Biomechanical effects of body weight support with a novel robotic walker for over-ground gait rehabilitation

KR Mun, SB Lim, Z Guo, H Yu.  Medical & Biological Engineering & Computing 55 (2), 315-326, 2017