Pharmaco-Omics Lab facilitates the advancement of translational research and personalized medicine utilizing multi-omics technologies and data science

As to methods there may be a million and then some, but principles are few. The man who grasps principles can successfully select his own methods. The man who tries methods, ignoring principles, is sure to have trouble. -Ralph Waldo Emerson

TEAM MEMBERS

Principal Investigator

Nguyen Phuoc Long, M.D., Ph.D.

Assistant Professor (tenure-track) <to-be-updated> (2025.9 – now)

Interests: Omics, Systems Pharmacology, Personalized Medicine, Machine Learning/AI

Academic Background and Working Experience

Assistant Professor (tenure-track), Department of Pharmacology, Inje University College of Medicine (2022.3 – 2025.8)

Research Professor, PharmacoGenomics Research Center, Inje University College of Medicine (2020.9 – 2022.2)

Postdoctoral Fellow, Research Institute of Pharmaceutical Sciences, Seoul National University (2020.3 – 2020.8)

Graduate Student of the Integrated M.Sc. and Ph.D. Program, College of Pharmacy, Seoul National University (2016.3 – 2020.2)

Undergraduate Student of the M.D. Program, Faculty of Medicine, University of Medicine and Pharmacy at Ho Chi Minh City (2009 – 2015)

CURRENT STUDENTS

Nguyen Quang Thu

Ph.D. Student

Translational Omics

Vo Thuy An

Intern and incoming Ph.D. Student

Spring 2026

Translational Omics

VISITING FELLOWS AND INTERNS

Dat Le

Intern student

AI Multi-Omics

Nguyen Thien Luan

Bioinformatics and Software Engineer

Updating

ALUMNI

Nguyen Tran Nam Tien

M.S. Student

Clinical Omics

Nguyen Thi Hai Yen

M.S. Student

Translational and Clinical Omics

Nguyen Thi Van Anh

M.S. Student

Pharmacology

Co-mentor with Dr. Yong-Soon Cho (graduated 2023)

Nguyen Ky Anh

Graduate Researcher

Clinical Omics

Nguyen Ky Phat

Graduate Researcher

Bioinformatics

Tran Minh Hung

Ph.D. student in Pharmacology (graduated in 2023)

Vo Thuy Anh Thu

Molecular biologist, Former cPMTb Staff (Ph.D. Student at Dr. Yong-Soon Cho’s lab.)

Ly Da Dat

Molecular Biologist, cPMTb Staff

Tam Anh Trinh

Molecular Biologist, cPMTb Staff

Noppadol Chanhom

cPMTb Visiting Intern, Pharmacologist. Ph.D. Student of Faculty of Pharmacy, Mahidol University (graduated 2023)

Dang Thanh Vuong

Intern in Bioinformatics and Applied Math (graduated 2025)

AFFILIATED RESEARCH ASSOCIATES

Updating

RESEARCH

Main topics:

Metabolism-centric multi-omics and machine learning to facilitate the advancement of translational research and precision medicine.
Pharmaco-omics and pharmacometrics to improve diagnosis, prognosis, precision dosing, treatment monitoring, and outcome prediction.
Mechanistic studies to elucidate the underlying biological processes related to the disease progression, drug actions, and toxicity of drugs and toxicants.

Minor topics:

Pharmaceutical and biomedical analysis.
Medical ecology and environmental pollution research.
Drug discovery and repurposing.
Food science and human nutrition.

TECHNOLOGIES

Mass Spectrometry

Our metabolomics and lipidomics studies are powered by various LC-MS systems, including X500R, Q-ToF 6530, QTRAP 5500, and other QqQ platforms.

Bioinformatics

We utilize state-of-the-art bioinformatic tools for efficient data mining.

Machine Learning

We employ a wide range of machine learning algorithms for biomarker discovery and validation.

Molecular and Biochemical Assays

We develop and utilize a wide range of in vitro and clinical assays.

RNA-seq and microarray-based gene expression analyses.
Multiplex Immunoassays.
SNaPshot® Multiplex System for SNP genotyping.
CRISPR/Cas9-based gene knockout.
siRNA or shRNA-based gene knockdown.
PCR, Western Blots, and other phenotype assays.
Mitochondrial and Mitochondria-associated ER membranes isolation.

Meta-Research

We carry out systematic review, meta-analysis, and text mining when a comprehensive and up-to-date research topic is of high interest.

DEVELOPED APPS

Pharmaco-Omics Github’s page: [link]
Pharmaco-Omics EasyVerse – Publication Made Easy [link]
EasyPubPlot – EasyPubPlot provides an interactive and customizable tool to easily create publishable plots for scientific papers.

PUBLICATIONS

The full publication record can be found here. Some publications are shown below:

Tien NTN*, Yen NTT*, …, Long NP. Multi-omics and machine learning identify immunometabolic biomarkers for active tuberculosis diagnosis against nontuberculous mycobacteria and latent tuberculosis infection. Journal of Proteome Research. 2025 Jul.
Thu NQ, …, Long NP. The Lipidome Landscape of Amiodarone Toxicity: An in vivo Lipid-centric Multi-Omics Study. Toxicology and Applied Pharmacology. 2025 Jun.
Nhung TTM* and Phat NK*, …, Long NP. Endoplasmic reticulum stress inhibition preserves mitochondrial function and cell survival during the early onset of isoniazid-induced oxidative stress. Chemico-Biological Interactions. 2025 Apr.
Tien NTN, …, Park S†, Long NP†. EasyPubPlot: a shiny web application for rapid omics data exploration and visualization. Journal of Proteome Research. 2025 Apr.
Wu Z* and Tien NTN*, …, Long NP†, Nguyen DN†. Regulation of host metabolism and defense strategies to survive neonatal infection. BBA – Molecular Basis of Disease. 2024 Dec. (Co-corresponding author)
Anh NK* and Yen NTH*, …, Long NP. Metabolic Phenotyping and Global Functional Analysis Facilitate Metabolic Signature Discovery for Tuberculosis Treatment Monitoring. BBA – Molecular Basis of Disease. 2024 Feb.
Nhung TTM*, Long NP*, …, Park SK. Genome-wide kinase-MAM interactome screening reveals the role of CK2A1 in MAM Ca2+ dynamics linked to DEE66. Proceedings of the National Academy of Sciences. 2023 Aug. (Co-First author)
Yen NTH*, Phat NK*, …, DH Kim†, Long NP†. Pathway-level Multi-Omics Analysis of the Molecular Mechanisms Underlying the Toxicity of Long-term Tacrolimus Exposure. Toxicology and Applied Pharmacology. 2023 Aug. (Co-corresponding author)
Nguyen BT, …, Long NP†, Kim HM†. Lipid class-dependent alterations of Caenorhabditis elegans under harmane exposure. Journal of Pharmaceutical and Biomedical Analysis. 2023 Jul. (Co-corresponding author)
Yen NTH*, Anh NK*, …, Long NP†, Kim DH†. Multimodal plasma metabolomics and lipidomics in elucidating metabolic perturbations in tuberculosis patients with concurrent type 2 diabetes. Biochimie. 2023 Apr. (Co-corresponding author)
Yen NTH, …, Long NP†, Kim DH†. Systems-level multi-omics characterization provides novel molecular insights into indomethacin toxicity. Chemico-Biological Interactions. 2023 Apr. (Co-corresponding author)
Anh NK*, Phat NK*, …, Oh JY†, Long NP†. Comprehensive lipid profiles investigation reveals host metabolic and immune alterations during anti-tuberculosis treatment: Implications for therapeutic monitoring. Biomedicine & Pharmacotherapy. 2023 Feb. (Co-corresponding author)
Thu VTA*, Dat LD*, …, Long NP†, Shin JG†. Advancing personalized medicine for tuberculosis through the application of immune profiling. Frontiers in Cellular and Infection Microbiology. 2023 Jan. (Co-corresponding author)
Yen NTH, …, Oh JH†, Long NP†. Genome-wide gene expression analysis reveals molecular insights into the drug-induced toxicity of nephrotoxic agents. Life Sciences. 2022 Oct. (Co-corresponding author)
Long NP*, Anh NK*, …, DH Kim. Comprehensive lipid and lipid-related gene investigations of host immune responses to characterize metabolism-centric biomarkers for pulmonary tuberculosis. Scientific Reports. 2022 Aug. (Co-first author)
Long NP, …, Kim DH. Delineation of the molecular mechanisms underlying Colistin-mediated toxicity using metabolomic and transcriptomic analyses. Toxicology and Applied Pharmacology. 2022 Feb.
Long NP, Heo DY, Park S, Yen NTH, Cho YS, Shin JG, Oh JY, Kim DH. Molecular perturbations in pulmonary tuberculosis patients identified by pathway-level analysis of plasma metabolic features. PloS ONE. 2022 Jan.
Long NP, …, Shin JG. A 10-gene biosignature of tuberculosis treatment monitoring and treatment outcome prediction. Tuberculosis. 2021 Dec.
Long NP, …, Kim DH. Metabolomics-guided global pathway analysis reveals better insights into the metabolic alterations of breast cancer. Journal of Pharmaceutical and Biomedical Analysis. 2021 Aug.
Long NP, Kim HM. Distinct metabolic alterations in different Caenorhabditis elegans mitochondrial mutants. Journal of Chromatography B. 2021 Aug.
Kim HM*, Long NP*, Min JE, Anh NH, Kim SJ, Yoon SJ, Kwon SW. Comprehensive phenotyping and multi-omic profiling in the toxicity assessment of nanopolystyrene with different surface properties. Journal of Hazardous Materials. 2020 Nov. (Co-first author)
Long NP*, Min JE*, Anh NH, Kim SJ, Park S, Kim HM, Yoon SJ, Lim J, Lee SJ, Kwon SW. Isolation and metabolic assessment of cancer cell mitochondria. ACS Omega. 2020 Oct. (Co-first author)
Long NP*, Jung KH*, Anh NH, Yan HH, Nghi TD, Park S, Yoon SJ, Min JE, Kim HM, Lim JH, Kim JM. An integrative data mining and omics-based translational model for the identification and validation of oncogenic biomarkers of pancreatic cancer. Cancers. 2019 Feb. (Co-first author)
Long NP, Yoon SJ, Anh NH, Nghi TD, Lim DK, Hong YJ, Hong SS, Kwon SW. A systematic review on metabolomics-based diagnostic biomarker discovery and validation in pancreatic cancer. Metabolomics. 2018 Aug.
Lim DK*, Long NP*, Mo C, Dong Z, Cui L, Kim G, Kwon SW. Combination of mass spectrometry-based targeted lipidomics and supervised machine learning algorithms in detecting adulterated admixtures of white rice. Food Research International. 2017 Oct. (Co-first author)
Long NP*, Lim DK*, Mo C, Kim G, Kwon SW. Development and assessment of a lysophospholipid-based deep learning model to discriminate geographical origins of white rice. Scientific reports. 2017 Aug. (Co-first author)

LAB NEWS

2025.02: Congratulations to Nguyen Quang Thu and Nguyen Tran Nam Tien for earning their M.Sc. degrees!
2025.01 – 2028.12 – Dr. Long has served as a member of the Editorial Advisory Board of Metabolomics (Springer).
2023.04.20-21 – PharmOmicsLab participated in the annual conference (2023) of the Pharmaceutical Society of Korea with 3 poster presentations.
2023.04.06-07 – PharmOmicsLab participated in the annual conference (2023) of the Korea Metabolomics Society with 4 poster presentations.
2023.03.20 – The editorial entitled “Editorial: Reviews in metabolomics: Personalized and predictive medicine of infectious diseases” Dr. Long co-editted with Dr. Ilse Du Preez was published (full text). This is part of his participation in the research topic with the same name.
2023.03.08 – Dr. Long gave a keynote presentation at Metabolomics Symposium Vietnam. TDTU and Agilent organized the symposium.
2023.02.09 – Dr. Long received the Metabolites 2022 Outstanding Reviewer Award. He has received this award 3 times (2020, 2021, 2022).
2022.11.30 – 2022.12.02: PharmOmicsLab participated in the 2022 Conference organized by Korean Society of Clinical Pharmacology (KSCPT).
2022.11.10 – 2022.11.11: PharmOmicsLab participated in the 2022 Conference organized by Korean Society of Pharmacology.
2022.10-30 – 2022.11.05 – Dr. Long joined other professors in a business trip to Vietnam, participated in scientific meetings at Hanoi University of Pharmacy, Hanoi Medical University, and University of Medicine and Pharmacy at Ho Chi Minh City, and signed an MoU contract with Ton Duc Thang University (university news).
2022.10.07 – Dr. Long joined other professors in the department to welcome the delegates of Hai Phong University of Medicine and Pharmacy.
2022.06.29 – Dr. Long presented at the seminar entitled “Pharmaceutical Sciences: Recent trends and application”. The seminar was an international event organized by College of Pharmacy, Ton Duc Thang University.
2022.06.02 – Dr. Long presented in an invited seminar at College of Pharmacy, Seoul National University. The presentation was about “Integrated Framework for the Advancement of Personalized and Predictive Medicine”.
2022.03.12 – Dr. Long received the Metabolites 2021 Outstanding Reviewer Award. He also got this award last year.
2022.03.01 – Dr. Long has been officially appointed an assistant professor at Inje University College of Medicine.

FUNDINGS

Inje University Internal Grant

AVAILABLE POSITIONS

Graduate Students

Pharmaco-Omics Lab aims at recruiting and training highly potential and self-motivated graduate students. The candidate is expected to have to some degree either (1) computational and programming skills or (2) experimental skills. Please send your motivation letter, updated academic transcript, and CV to the PI (email: bsngphuoclong<at>gmail<dot>com) for a scheduled interview.

Postdoctoral Fellows

Our lab always welcomes talented and highly self-motivated young scientists with an omics background to work with us. Please send your cover letter and updated academic CV to the PI for a scheduled interview.

Internship

Our lab always welcomes talented and highly self-motivated undergraduate and graduate students to come and work with us. Please send your cover letter and updated academic CV to the PI for a scheduled interview.