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% Long Professional Curriculum Vitae
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% Original author:
% Rensselaer Polytechnic Institute (http://www.rpi.edu/dept/arc/training/latex/resumes/)
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% From Zian:
% I just copy-pasted the format as-is. Encourage you to grab a copy from the
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\documentclass[10pt]{res} % Use the res.cls style, the font size can be changed to 11pt or 12pt here
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\begin{document}

% Name and addresses
\name{Zian Liu\\ \\} % Your name at the top

\address{{\bf Professional affiliation} \\
Institut Jules Bordet  \\
Université libre de Bruxelles \\
1070 Brussels, BE \\ zian.liu@ulb.be
} % Your address 1

\address{{\bf Address} \\
33 W Ontario St, Apt 39C \\ Chicago, IL, 60654 \\ zianl@zianliu66.me
} % Your address 2

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\begin{resume}


% Education

\section{\centerline{EDUCATION}} 
\vspace{8pt} % Gap between title and text

{\sl Doctor of Philosophy},
Quantitative and Computational Biosciences \hfill 2019-07 -- 2024-04 \\
Dissertation title - \\
Mechanism and consequence of CpG methylation: statistical insights into mutation rates and aging \\
Baylor College of Medicine, Houston, TX
 
{\sl Graduate Certificate},
Biochemistry and Molecular Biology \hfill 2018-08 -- 2019-05 \\
Purdue University, West Lafayette, IN

{\sl Bachelor of Science}, Biochemistry; Nutrition Science \hfill 2015-08 - 2019-05 \\
GPA: 3.95/4.00 (with distinction) \\
Minors: Statistics, Biology \\
Purdue University, West Lafayette, IN

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% Honors/awards

\section{\centerline{HONORS AND AWARDS}}
\vspace{8pt}

Graduate Student Scholarship, MD Anderson Foundation \hfill 2019-10 \\
Purdue Honors College \hfill 2016-08 -- 2019-05 \\
Dean’s List, College of HHS \hfill 2015-08 -- 2019-05 \\
Edwin T. Mertz Memorial Scholarship, Department of Biochemistry \hfill 2018-08 -- 2019-05 \\
Martin Agricultural Research Scholarship, College of Agriculture \hfill 2018-08 -- 2019-05 \\
OUR Scholars, Purdue Office of Undergraduate Research \hfill 2018-01 -- 2018-05 \\
Watts Family Scholarship, College of Health and Human Sciences \hfill 2017-08 -- 2018-05 \\
Sharon Rulon Broadhead Scholarship, College of HHS \hfill 2016-08 -- 2017-05

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% Publications

\section{\centerline{PUBLICATIONS}}
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{\sl Peer-reviewed} \\
\begin{itemize} \itemsep -2pt % Reduce space between items
\item {\bf Liu Z}, Samee MAH. Structural underpinnings of mutation rate variations in the human genome. {\sl Nucleic Acids Research} (2023); gkad551.
\item Shi X, Li M, Tan L et al. ({\bf co-author}). Purine metabolism modulates leukemia stem cell maintenance in MLL-rearranged acute leukemia. {\sl Blood} (2023); 142 (Supplement 1): 582.
\item Xu W, Graves A, Weisz-Hubshman M et al. ({\bf co-author}). Assigning pathogenicity for TAB2 variants using a novel scalable functional assay and expanding TAB2 disease spectrum. {\sl Human Molecular Genetics} (2022).
\item Akhand SA, Hao C, Purdy SC et al ({\bf co-authur}). Fibroblast growth factor receptor facilitates recurrence of minimal residual disease following trastuzumab emtansine therapy. {\sl npj Breast Cancer} (2021); 7: 5.
\item Akhand SS, {\bf Liu Z}, Purdy SC et al. Pharmacological inhibition of FGFR modulates the metastatic immune 	microenvironment and promotes response to checkpoint blockade. {\sl Cancer immunology research} (2020); 8(12): 1542–1553.
\item Mao F, Li J, Luo Q et al ({\bf co-author}). Plk1 inhibition enhances the efficacy of BET epigenetic reader blockade in castration-resistant prostate cancer. {\sl Molecular cancer therapeutics} (2018); 17(7).
\end{itemize}

{\sl Preprints/in preparation} \\
\begin{itemize} \itemsep -2pt
\item {\bf Liu Z}, Samee MAH. Imputation approaches and quality standards for single-cell epigenetic age predictions. {\sl bioRxiv} (2023); 571557.
\item {\bf Liu Z}, Samee MAH. Epigenetic age analysis of single cell colorectal cancer data reveal pathways contributing to aging variation.
\end{itemize}

\vspace{0.2in} % Some whitespace between sections


% Professional experiences

\section{\centerline{RESEARCH EXPERIENCE}}
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{\sl Samee Lab, Baylor College of Medicine, Houston, TX} \hfill 2020-03 -- 2024-04 \\
Project: Epigenetic age analysis in human single cells
\begin{itemize} \itemsep -2pt
\item Designed the first pipeline for applying epigenetic age analyses on human single-cell data
\item Benchmarked performances of epigenetic age clocks on synthetic data
\item Analyzed and interpreted epigenetic age values of single-cell colorectal cancer data
\end{itemize}
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Project: Analysis of mutation rate variations with DNA shape
\begin{itemize} \itemsep -2pt
\item Modeled DNA mutation rate variations with DNA shape features and outperformed state-of-the-art model
\item Identified relationships between DNA shape variations and transcription factor binding site position-specfic mutation rates
\item Built novel bash pipeline for mutation rate calculation with VCF files
\end{itemize}
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Various lab management experiences and collaborations
\begin{itemize} \itemsep -2pt
\item Managed the lab Codeberg repository at https://codeberg.org/sameelab
\item Mentored several past and current lab employees and trainees
\item Analyzed and interpreted transcriptomics and epigenomics sequencing data
\item Calculated pathogenicity scores for various genomic variants identified through experimental arrays
\item Performed RNA-DNA binding analyses for a novel non-coding RNA
\end{itemize}
\vspace{-6pt} % Reduce space between positions at the same organization

{\sl Wendt Lab, Purdue University, West Lafayette, IN} \hfill 2018-08 -- 2019-07 \\
Undergraduate researcher
\begin{itemize} \itemsep -2pt % Reduce space between items
\item Analyzed immune effects of a novel covalent fibroblast growth factor receptor (FGFR) inhibitor
\item Evaluated intramolecular mechanisms of antibody-drug conjugate resistance via multiple cell-based assays
\item Compared metastatic potential of drug-treated cancer cells in mice via injection, surgery, and immunostaining
\end{itemize}

{\sl Liu Lab, Purdue University, West Lafayette, IN} \hfill 2017-01 -- 2018-07 \\
Undergraduate researcher
\begin{itemize} \itemsep -2pt % Reduce space between items
\item Assisted identifying a novel Plk1 substrate by purifying wildtype/mutant DNA and protein fragments
\item Tested Plk1 as a marker for ascorbate effectiveness in inhibiting prostate cancer cell line growth
\item Genotyped transgenic mice for the presence of Plk1, Cre, or other relevant genotypes
\end{itemize}

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% Presentations

\section{\centerline{PRESENTATIONS}}
\vspace{8pt} % Gap between title and text

{\bf Liu Z}, Stoeger T. LLMs are biased toward well-studied genes. {\sl CSHL Biological Data Science} (poster). 2024-11-14 \\
{\bf Liu Z}, Samee MAH. Imputation approaches and quality standards for single-cell epigenetic age predictions.
  {\sl CSHL Single Cell Analyses} (poster). 2023-11-09 \\
{\bf Liu Z}, Samee MAH. DNA structural information underpins mutation rate variations and regulatory site polymorphisms in the human genome. {\sl ASHG Annual Meeting} (poster). 2023-11-02 \\
{\bf Liu Z}, Samee MAH. Structural underpinnings of mutation rate variations and regulatory site polymorphisms in the human genome.
  {\sl CSHL Biology of Genomes} (poster). 2021-05-11 \\
{\bf Liu Z}, Akhand SA, Wendt MK. Fibroblast growth factor receptor inhibition via FIIN-4 interferes with T-cell receptor pathway.
  {\sl Purdue Undergraduate Research Conference} (talk). 2019-04-09 \\
{\bf Liu Z}. Pharmacological targeting of growth-factor receptor to combat breast cancer drug resistance.
  {\sl Purdue Fall Undergraduate Research Exposition} (poster). 2018-11-12 \\
{\bf Liu Z}, Zhang Y, Liu X. To study the role of Plk1 in ascorbate-toxicity in prostate cancer cells.
  {\sl Purdue Undergraduate Research Conference} (poster). 2018-04-10

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% Memberships

\section{\centerline{MEMBERSHIPS}} 
\vspace{8pt}

American Thoracic Society \hfill 2024-10 -- Present \\
Phi Beta Kappa \hfill 2018-04 -- 2019-05 \\
American Society for Biochemistry and Molecular Biology \hfill 2016-11 -- 2019-05

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% Skills

\section{\centerline{SKILLS}}
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{\sl Programming}: Python, R, GNU bash, C, HTML/CSS, git, docker, nextflow \\
{\sl Scientific}: statistics, data science/machine learning, bioinformatics, molecular biology \\
{\sl Languages}: Mandarin Chinese (fluent), English (fluent), Japanese (N1), German (beginner) \\

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% Others

\section{\centerline{OTHER EXPERIENCES}}
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{\sl Mentoring Up and Down Workshop}, Northwestern University, Chicago, IL \hfill 2024-10 \\
{\sl UCLA Bio-Launch Competitive Postdoc Recruitment Program}, Virtual \hfill 2023-05 \\
{\sl Summer research program coordinator}, Baylor College of Medicine, Houston, TX \hfill 2020-07 \\
{\sl Student Editorial Board Member}, West Lafayette, IN \hfill 2017-12 -- 2019-04 \\
{\sl Lab assistant}, Camp DASH, West Lafayette, IN \hfill 2017-05 -- 2017-07 \\
{\sl Undergraduate Research Assistant}, Grant Lab, West Lafayette, IN \hfill 2015-11 -- 2016-08

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\end{resume} 
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