Rachel (Xian) Liu
Tagline:AI Research Scientist | Ph.D. in Computational Drug Design
Santa Clara, CA, USA
About Me
I believe the next frontier of Artificial Intelligence lies in its ability to reason about the physical world. As a former Associate Professor at Research Center for Eco-Environmental Sciences (RCEES), Chinese Academy of Sciences, I build AI systems that understand the fundamental rules of molecular interaction.
My journey began in pharmacy, where the inefficiency of traditional wet-lab experiments drove me to self-teach coding to automate data analysis. This sparked a passion for computation that led to a Ph.D. in Computer-Aided Drug Design (CADD) at the Shanghai Institute of Materia Medica and AI-based computational toxicology research at the RCEES.
For the past ten years at the RCEES, my research has focused on addressing pressing environmental health challenges through the integration of multi-modal deep learning. I lead interdisciplinary projects at the intersection of computational toxicology, AI-driven modeling, and risk governance. A central focus of my work is developing predictive frameworks that map structural signatures (molecular representations/spectral data) to biological responses and adverse outcomes, enabling intelligent identification of high-risk pollutants. I am also committed to delivering these solutions as live, accessible web services to support open scientific collaboration and decision-making.
Having moved to Silicon Valley to reunite with family, I am now looking for opportunities to join a forward-thinking research and engineering team.
Work Experiences
Associate Professor
from: 2023, until: 2025Organization:Research Center for Eco-Environmental Sciences (RCEES), Chinese Academy of SciencesLocation:Beijing, China
Assistant Professor
from: 2015, until: 2023Organization:Research Center for Eco-Environmental Sciences (RCEES), Chinese Academy of SciencesLocation:Beijing, China
Education
Doctor of Philosophy (Ph.D.)
from: 2010, until: 2015Field of study:Computational Drug DesignSchool:Shanghai Institute of Materia Medica, Chinese Academy of SciencesLocation:Shanghai, China
Publications
Machine learning for membrane bioreactor research: principles, methods, applications, and a tutorial
Journal ArticlePublisher:Frontiers of Environmental Science & EngineeringDate:2025Authors:Yizhe LaiKang XiaoYifan HeXian LiuJihua TanWenchao XueAiqian ZhangXia HuangNontarget Screening Analysis Combined with Computational Toxicology: A Promising Solution for Identification and Risk Assessment of Environmental Pollutants in the Big Data Era
Journal ArticlePublisher:Environmental Science & TechnologyDate:2025Authors:Pengyang LiBao ZhuJie FuXian LiuKai HuangWenxiao PanQiao XueHaiyan ZhangAiqian ZhangJianjie FuothersDevelopment of an Interpretable Machine Learning Model for Neurotoxicity Prediction of Environmentally Related Compounds
Journal ArticlePublisher:Environmental Science & TechnologyDate:2025Authors:Yuxing HaoZhihui DuanLizheng LiuQiao XueWenxiao PanXian LiuAiqian ZhangJianjie FuIntegrating Non-Targeted Mass Spectrometry and Machine Learning for the Classification of Organic and Conventionally Grown Agricultural Products: A Case Study on Tomatoes
Journal ArticlePublisher:Journal of Agricultural and Food ChemistryDate:2025Authors:Xiao YunXiaoxiao HanXin ZhangWenxiao PanQiao XueXian LiuJianjie FuRichard RöttgerAiqian ZhangFrom Nuclear Receptors to GPCRs: a Deep Transfer Learning Approach for Enhanced Environmental Estrogen Recognition
Journal ArticlePublisher:Environmental Science & TechnologyDate:2025Authors:Tingji YaoJiaqi LuoXiaoxiao HanHang YiHuazhou ZhangWenxiao PanQiao XueXian LiuJianjie FuAiqian ZhangFrom High Resolution Tandem Mass Spectrometry to Pollutant Toxicity AI-Based Prediction: A Case Study of 7 Endocrine Disruptors Endpoints
Journal ArticlePublisher:Environmental Science & TechnologyDate:2025Authors:Xin ZhangXiaoxiao HanTongtong XiangYanna LiuWenxiao PanQiao XueXian LiuJianjie FuAiqian ZhangGuangbo QuothersAdvancing toxicity AI-based prediction with multilevel systems biology: a case study on genotoxicity
Journal ArticlePublisher:Briefings in BioinformaticsDate:2025Authors:Xin ZhangHuazhou ZhangXiao YunWenxiao PanQiao XueXian LiuJianjie FuAiqian ZhangImplications of VOC oxidation in atmospheric chemistry: development of a comprehensive AI model for predicting reaction rate constants
Journal ArticlePublisher:Atmospheric Chemistry and PhysicsDate:2025Authors:Xin ZhangJiaqi LuoWenxiao PanQiao XueXian LiuJianjie FuAiqian ZhangGuibin JiangFirst-principles study on the heterogeneous formation of environmentally persistent free radicals (EPFRs) over α-Fe2O3 (0001) surface: Effect of oxygen vacancy
Journal ArticlePublisher:Journal of Environmental SciencesDate:2024Authors:Wenxiao PanShuming HeQiao XueXian LiuJianjie FuKang XiaoAiqian ZhangMultiscale computational simulation of pollutant behavior at water interfaces
Journal ArticlePublisher:Water ResearchDate:2024Authors:Qiao XueZhiyue JiaoWenxiao PanXian LiuJianjie FuAiqian ZhangDeciphering exogenous chemical carcinogenicity through interpretable deep learning: A novel approach for evaluating atmospheric pollutant hazards
Journal ArticlePublisher:Journal of Hazardous MaterialsDate:2024Authors:Huazhou ZhangHang YiYuxing HaoLu ZhaoWenxiao PanQiao XueXian LiuJianjie FuAiqian ZhangChemNTP: Advanced Prediction of Neurotoxicity Targets for Environmental Chemicals Using a Siamese Neural Network
Journal ArticlePublisher:Environmental Science & TechnologyDate:2024Authors:Lingjing ZhangTingji YaoJiaqi LuoHang YiXiaoxiao HanWenxiao PanQiao XueXian LiuJianjie FuAiqian ZhangPrecisely identifying the sources of magnetic particles by hierarchical classification-aided isotopic fingerprinting
Journal ArticlePublisher:Environmental Science & TechnologyDate:2024Authors:Hang YangXuezhi YangQinghua ZhangDawei LuWeichao WangHuazhou ZhangYunbo YuXian LiuAiqian ZhangQian LiuothersCatNet: Sequence-based deep learning with cross-attention mechanism for identifying endocrine-disrupting chemicals
Journal ArticlePublisher:Journal of Hazardous MaterialsDate:2024Authors:Lu ZhaoQiao XueHuazhou ZhangYuxing HaoHang YiXian LiuWenxiao PanJianjie FuAiqian ZhangTheoretical Investigation of Cytochrome P450 Enzyme-Mediated Biotransformation Mechanism of BHPF: Unveiling the Metabolic Safety Aspects of an Alternative to BPA
Journal ArticlePublisher:Environment & HealthDate:2024Authors:Wenxiao PanShuming HeYinzheng YangYongdie YangQiao XueXian LiuJianjie FuAiqian ZhangUnveiling key mechanisms: Transcriptomic meta-analysis of diverse nanomaterial applications addressing biotic and abiotic stresses in Arabidopsis thaliana
Journal ArticlePublisher:Science of The Total EnvironmentDate:2024Authors:Yining WuYvjie WangXian LiuChengdong ZhangNew mechanism for the apoptosis of human neuroblastoma cells by the interaction between fluorene-9-bisphenol and the G protein-coupled estrogen receptor 1
Journal ArticlePublisher:Environmental Science & TechnologyDate:2024Authors:Xiuchang LiuZhi ChengXueliang ShangHuazhou ZhangXian LiuWenxiao PanJianjie FuQiao XueAiqian ZhangExogenous chemicals impact virus receptor gene transcription: Insights from deep learning
Journal ArticlePublisher:Environmental Science & TechnologyDate:2023Authors:Xian LiuYunhe GuoWenxiao PanQiao XueJianjie FuGuangbo QuAiqian ZhangDynamic behavior and interaction mechanism of soil organic matter in water systems: a coarse-grained molecular dynamics study
Journal ArticlePublisher:Environmental Science & TechnologyDate:2023Authors:Qiao XueZhiyue JiaoXian LiuWenxiao PanJianjie FuAiqian ZhangMachine learning strategy on activation energy of environmental heterogeneous reactions and its application to atmospheric formation of typical montmorillonite-bound phenoxy radicals
Journal ArticlePublisher:Science of The Total EnvironmentDate:2023Authors:Wenxiao PanJiamin ChangShuming HeXian LiuJianjie FuAiqian ZhangMachine learning-aided metallomic profiling in serum and urine of thyroid cancer patients and its environmental implications
Journal ArticlePublisher:Science of the Total EnvironmentDate:2023Authors:Zigu ChenXian LiuWeichao WangLuyao ZhangWeibo LingChao WangJie JiangJiayi SongYuan LiuDawei LuothersEvaluation of the binding performance of flavonoids to estrogen receptor alpha by Autodock, Autodock Vina and Surflex-Dock
Journal ArticlePublisher:Ecotoxicology and environmental safetyDate:2022Authors:Qiao XueXian LiuPaul RussellJin LiWenxiao PanJianjie FuAiqian ZhangIdentification of two-dimensional copper signatures in human blood for bladder cancer with machine learning
Journal ArticlePublisher:Chemical scienceDate:2022Authors:Weichao WangXian LiuChangwen ZhangFei ShengShanjun SongPenghui LiShaoqing DaiBin WangDawei LuLuyao ZhangothersComputational Insights into the Allosteric Effect and Dynamic Structural Features of the SARS-COV-2 Spike Protein
Journal ArticlePublisher:Chemistry–A European JournalDate:2022Authors:Qiao XueXian LiuWenxiao PanAiqian ZhangJianjie FuGuibin JiangData-driven machine learning in environmental pollution: gains and problems
Journal ArticlePublisher:Environmental science & technologyDate:2022Authors:Xian LiuDawei LuAiqian ZhangQian LiuGuibin JiangSeppcnet: deeping learning on a 3d surface electrostatic potential point cloud for enhanced toxicity classification and its application to suspected environmental estrogens
Journal ArticlePublisher:Environmental Science & TechnologyDate:2021Authors:Liguo WangLu ZhaoXian LiuJianjie FuAiqian ZhangIn silico health effect prioritization of environmental chemicals through transcriptomics data exploration from a chemo-centric view
Journal ArticlePublisher:Science of the Total EnvironmentDate:2021Authors:Xian LiuHuazhou ZhangQiao XueWenxiao PanAiqian ZhangMajor influence of hydroxyl and nitrate radicals on air pollution by environmentally persistent free radicals
Journal ArticlePublisher:Environmental Chemistry LettersDate:2021Authors:Wenxiao PanJiamin ChangShuming HeQiao XueXian LiuJianjie FuAiqian ZhangEstrogenic activity of benzotriazole UV stabilizers evaluated through in vitro assays and computational studies
Journal ArticlePublisher:Science of The Total EnvironmentDate:2020Authors:Hongru FengHuiming CaoJuan LiHaiyan ZhangQiao XueXian LiuAiqian ZhangJianjie FuThe formation of PBDFs from the ortho-disubstituted phenol precursors: A comprehensive theoretical study on the PBDD/Fs formation from 2, 4, 6-tribromophenol
Journal ArticlePublisher:Science of The Total EnvironmentDate:2020Authors:Jiamin ChangWenxiao PanXian LiuQiao XueJianjie FuAiqian ZhangA novel computational solution to the health risk assessment of air pollution via joint toxicity prediction: A case study on selected PAH binary mixtures in particulate matters
Journal ArticlePublisher:Ecotoxicology and Environmental SafetyDate:2019Authors:Xian LiuHuazhou ZhangWenxiao PanQiao XueJianjie FuGuorui LiuMinghui ZhengAiqian ZhangPrenatal exposure to per-and polyfluoroalkyl substances (PFASs) and association between the placental transfer efficiencies and dissociation constant of serum proteins–PFAS complexes
Journal ArticlePublisher:Environmental science & technologyDate:2019Authors:Ke GaoTaifeng ZhuangXian LiuJianjie FuJingxing ZhangJie FuLiguo WangAiqian ZhangYong LiangMaoyong SongothersInterfacial formation of environmentally persistent free radicals—A theoretical investigation on pentachlorophenol activation on montmorillonite in PM2. 5
Journal ArticlePublisher:Ecotoxicology and Environmental SafetyDate:2019Authors:Wenxiao PanJiamin ChangXian LiuQiao XueJianjie FuAiqian ZhangThe effect of structural diversity on ligand specificity and resulting signaling differences of estrogen receptor α
Journal ArticlePublisher:Chemical Research in ToxicologyDate:2019Authors:Qiao XueXian LiuXiu-Chang LiuWen-Xiao PanJian-Jie FuAi-Qian ZhangDistinguishing the sources of silica nanoparticles by dual isotopic fingerprinting and machine learning
Journal ArticlePublisher:Nature CommunicationsDate:2019Authors:Xuezhi YangXian LiuAiqian ZhangDawei LuGang LiQinghua ZhangQian LiuGuibin JiangLength-specific occurrence and profile of perfluoroalkyl acids (PFAAs) in animal protein feeds
Journal ArticlePublisher:Journal of Hazardous MaterialsDate:2019Authors:Xiaomin LiKe GaoShujun DongXian LiuKehan FuPeilong WangAiqian ZhangXiaoou SuJianjie FuInhibition of thrombin by functionalized C60 nanoparticles revealed via in vitro assays and in silico studies
Journal ArticlePublisher:Journal of Environmental SciencesDate:2018Authors:Yanyan LiuJianjie FuWenxiao PanQiao XueXian LiuAiqian ZhangTheoretical study on the formation mechanism of polychlorinated dibenzothiophenes/thianthrenes from 2-chlorothiophenol molecules
Journal ArticlePublisher:Journal of Environmental SciencesDate:2018Authors:Xiaoqing YuJiamin ChangXian LiuWenxiao PanAiqian ZhangIn silico ADME/T modelling for rational drug design
Journal ArticlePublisher:Quarterly reviews of biophysicsDate:2015Authors:Yulan WangJing XingYuan XuNannan ZhouJianlong PengZhaoping XiongXian LiuXiaomin LuoCheng LuoKaixian ChenothersCombinatorial pharmacophore modeling of multidrug and toxin extrusion transporter 1 inhibitors: a theoretical perspective for understanding multiple inhibitory mechanisms
Journal ArticlePublisher:Scientific ReportsDate:2015Authors:Yuan XuXian LiuYulan WangNannan ZhouJianlong PengLikun GongJing RenCheng LuoXiaomin LuoHualiang JiangothersTarPred: a web application for predicting therapeutic and side effect targets of chemical compounds
Journal ArticlePublisher:BioinformaticsDate:2015Authors:Xian LiuYuan GaoJianlong PengYuan XuYulan WangNannan ZhouJing XingXiaomin LuoHualiang JiangMingyue ZhengCombinatorial pharmacophore-based 3D-QSAR analysis and virtual screening of FGFR1 inhibitors
Journal ArticlePublisher:International Journal of Molecular SciencesDate:2015Authors:Nannan ZhouYuan XuXian LiuYulan WangJianlong PengXiaomin LuoMingyue ZhengKaixian ChenHualiang JiangIn Silico target fishing: addressing a “Big Data” problem by ligand-based similarity rankings with data fusion
Journal ArticlePublisher:Journal of cheminformaticsDate:2014Authors:Xian LiuYuan XuShanshan LiYulan WangJianlong PengCheng LuoXiaomin LuoMingyue ZhengKaixian ChenHualiang JiangBinding sensitivity of adefovir to the polymerase from different genotypes of HBV: molecular modeling, docking and dynamics simulation studies
Journal ArticlePublisher:Acta Pharmacologica SinicaDate:2013Authors:Jing LiYun DuXian LiuQian-cheng ShenAi-long HuangMing-yue ZhengXiao-min LuoHua-liang JiangIdentification of novel small molecules as inhibitors of hepatitis C virus by structure-based virtual screening
Journal ArticlePublisher:International Journal of Molecular SciencesDate:2013Authors:Jing LiXian LiuShanshan LiYulan WangNannan ZhouCheng LuoXiaomin LuoMingyue ZhengHualiang JiangKaixian ChenStructure-based design and synthesis of C-1-and C-4-modified analogs of zanamivir as neuraminidase inhibitors
Journal ArticlePublisher:Journal of Medicinal ChemistryDate:2013Authors:Enguang FengWoo-Jin ShinXuelian ZhuJian LiDeju YeJiang WangMingyue ZhengJian-Ping ZuoKyoung Tai NoXian LiuothersComputational methods for drug design and discovery: focus on China
Journal ArticlePublisher:Trends in pharmacological sciencesDate:2013Authors:Mingyue ZhengXian LiuYuan XuHonglin LiCheng LuoHualiang JiangIn silico prediction of cytochrome P450-mediated site of metabolism (SOM)
Journal ArticlePublisher:Protein and Peptide LettersDate:2013Authors:Xian LiuQiancheng ShenJing LiShanshan LiCheng LuoWeiliang ZhuXiaomin LuoMingyue ZhengHualiang JiangNon-covalent interactions with aromatic rings: current understanding and implications for rational drug design
Journal ArticlePublisher:Current pharmaceutical designDate:2013Authors:Shanshan LiYuan XuQiancheng ShenXian LiuJing LuYadong ChenTao LuCheng LuoXiaomin LuoMingyue ZhengothersCombinatorial pharmacophore modeling of organic cation transporter 2 (OCT2) inhibitors: insights into multiple inhibitory mechanisms
Journal ArticlePublisher:Molecular pharmaceuticsDate:2013Authors:Yuan XuXian LiuShanshan LiNannan ZhouLikun GongCheng LuoXiaomin LuoMingyue ZhengHualiang JiangKaixian Chen