Xiaojia (Georgia) Ren

*** ******** ***. ****, ********, WA 98033

Cell: 857-***-**** Email: adukxy@r.postjobfree.com

EDUCATION

Boston University, Department of Biostatistics, Master of Arts in Biostatistics.

The University of Tennessee, Knoxville, Master of Science in Molecular Genetics.

Lanzhou University, P. R. of China Bachelor of Science in Cell Biology.

NATIONALITY

USA

BIOSTATISTICS SPECIALTIES

Fundamental SAS

SAS STAT, SAS GRAPH, ANOVA, t- and f- tests, linear/categorical regression, survival data analysis.

R-Software

Load packages, data entry and exporting data.

Generate graphical display of data: histograms, empirical cumulative distribution, QQ-plots, box plots, bar plots, dot charts and pie charts.

Apply the general setting in creating figures in R.

Simple and multiple regression and correlation, regression diagnostics.

t-test, Wilcoxon signed-rank test, paired t-test.

One-way analysis of variance and Kruskal-Wallis test.

Perform tests on proportions for one, two or k categorical variables, carry out a logistic regression analysis in R.

SAS Analyses in Epidemiology

Risk Ratio, Odds Ratio, Relative Risk, Mental - Haenszel measures, Randomization, Matching.

Stratification, Interaction and Standardization.

Survival data and Proportional Hazards Model.

Logistic Regression in case control and matched studies. Pooled logistic regression.

Model selection and validation.

Bootstrap and meta-analysis.

Clinical Trial Analyses in SAS

Process designs and progress analyses of each stage of a clinical trial:

Phase I of kinetics, dynamics, drug dose of safety assess.

Phase II of drug efficacy, randomization of treatment and placebo groups, double blind, data monitoring and interim analysis.

Phase III of confirmatory (pivotal) trial, superiority, non-inferiority, adverse events, sample size and power.

Phase IV of exploratory and marketing, tabulation, evaluation and reporting, presentation.

In-depth further analysis skills in clinical trials:

Multiple efficacy endpoints; assessing interactions with treatments on continuous and dichotomous endpoints; meta-analysis; sample size re-estimation at interim analysis (a form of adaptive trial design); intent-to-treat and per-protocol analysis; intent-to-treat and multiple imputation; survival data analysis in clinical trials.

Understanding and performance of ICH guidelines.

Understanding and familiar with data management in clinical trials: CRF, DCC, EDC.

Applied Linear Regression Skills (with R software for computing)

Scatterplots, smoothers for mean function, added variable plots.

Least squares estimation, estimated variances, variable selection, comparing models, prediction and fitted values.

Polynomials regression and factors, nonlinear regression, binomial regression.

Transformations, weights, lack of fit.

Estimation Theory

Risk function, optimal decision rules, Bayes and minimax estimates.

Maximum likelihood estimation, EM algorithm and computational issues. Applications in spatial data and other complex data.

Bootstrap technique. Bayesian computation using MCMC methods.

Nonparametric estimation of density and regression functions and applications.

Hypothesis Testing

Likelihood ratio test, uniformly most powerful tests, Neyman-Pearson lemma, unbiased and locally most powerful test.

Interval estimation, pivotal quantities and approximate procedures, confidence sets.

Application of bootstrap procedure in hypothesis testing and interval estimation.

PAST WORK AND EXPERIENCE

KEWGROUP

2015-2015

(NGS Scientist)

Develop and implement next generation DNA sequencing technologies on cancer patient samples.

Work and optimize on FFPE sample library construction and Agilent sure select technology, Perform Miseq targeted DNA sequencing.

Testing, Trouble Shooting SOPs.

Work in R&D environment with CLIA certified.

Brigham and Women’s Hospital and Harvard Medical School

2012-2015

(Senior Research Tech)

Perform NextGen DNA sequencing for human TCGA (The Cancer Genome Atlas) projects, dealing with various human cancer samples and whole genome DNA sequencing.

Mouse RNA isolation and Real-time PCR gene expression quantitation for mouse colon cancer models

PCR validation for TCGA sample genetic variations.

Mouse colonies maintenance.

DFCI-Belfer Institute for Applied Cancer Science, Boston MA 2006 - 2012

(Senior Research Associate)

Perform Next Generation human DNA sequencing reactions on Illumina Hiseq 2000 machine.

Generate and amplify High-throughput Libraries for NextGen Sequencing for TCGA (based on Illumina HiSeq 2000 systems).

DNA shearing using Covaris S220. Performed droplet-digital PCR analysis.

Using SPRI-TE for Library generation.

Perform array CGH (comparative genomic DNA hybridization on micro-arrays) on fresh human tissues, FFPE human tissues and human single cells.

Perform human DNA quality control on Nano-drop and Bioanalyzer (Agilent 2100).

Harvard University, Boston MA 2004- 2006 (Sr. Research Assistant)

Project: “Gene expressions of single molecules in living cells”

Performed and developed single molecular based assays in living cells.

Constructed various DNA Libraries with fluorescent tags.

Performed single molecule gene expression assays and measuring gene expression life times.

Selecting protein fluorophores.

RT-PCR Amplification & Gene Library Construction

DNA was extracted, isolated & purified from bacteria or various cell lines.

Used QIA quick PCR purification Kit.

Performed RT-PCR on Tetrad thermo cycler (Bio-Rad DNA engine & PTC-225).

Used Fluorescence Plate reader (Spectramax Gemini XPS) for detection of fluorescence from the cell culture Products.

MGH (Mass General Hospital), Boston MA

2003-2004

(Research Assistant in Neuroscience)

Performed DNA and RNA amplifications on LCM samples.

Construct amplified gene libraries

Performed single neuron captures on LCM sample.

Real-Time PCR quantitation on amplified LCM samples.

Using Agilent Bioanalyzer and Nano-drop to quantify DNA and RNA.

Brown University, Providence RI 2001-2002

(Sr Research Assistant)

Perform mammalian cell cultures.

Isolating DNA and RNA from mammalian cells.

Performed PCR amplification (RT-PCR, Touchdown / Gradient PCR on PTC-200 gradient cycler).

Micro-injection on mammalian cells

Design primers for Taqman probes.

Perform Real-Time PCR on ABI PRISM 7000 machine.

Lawrence Livermore Nat’l Lab, Livermore, CA

1997-2001

(Biomedical Scientist)

Oak Ridge Nat’l Lab, Oak Ridge, TN

1995-1997

(Sr. Research Assistant)

Mice colony maintenance, mice breeding.

Using FISH techniques to map chromosome breakpoints.

Isolating DNA and RNA from mouse tissues.

2D electrophoresis for running large DNA fragments on agarose gel.

cDNA library construction in mice.

Cosmid library construction in mice.

DNA sequencing using ABI PRISM 377 DNA Sequencer.

Graduate Student at The University of Tennessee, Knoxville.

1990-1993

Thesis Project: “Identify Drosophila melanogaster male X-Y chromosome paring sites during Meiosis”.

Molecular Biology

Isolating DNA from E. coli, Drosophila embryos and testis.

Microinjection for Drosophila embryos.

Performed PCR amplification (RT-PCR, Touchdown / Gradient PCR on PTC-200 gradient cycler)

Design Primers for PCR, optimized & determined parameters for PCR analysis.

Performed agarose gel electrophoresis from analyzed PCR samples, southern and northern blots analyses.

DNA Sequencing

Sanger DNA sequencing.

RECENT YEARS’ WORK EXPERIENCE

Home Aid

2016-2022

Taken care of aged parents

New York Life

2016-2019

Insurance Agent

Premier Financial Alliance

2019-2021

Insurance Agent

SELECTED PUBLICATIONS

Nature. 2014 Mar 20;507(7492):315-22. doi: 10.1038/nature12965. Epub 2014 Jan 29.

Comprehensive molecular characterization of urothelial bladder carcinoma.

Cancer Genome Atlas Research Network.

Weinstein JN, Akbani R, Broom BM, Wang W, Verhaak RG, McConkey D, Santoso N, Parfenov M, Ren X, Pantazi A, Hadjipanayis A, Seidman J, Kucherlapati R, Lee S, Yang L,Park PJ, Baylin SB, Wei Xu A, Protopopov A, Zhang J, Bristow C, Mahadeshwar HS, Seth S

Nat Genet. 2013 Oct;45(10):1113-20. doi: 10.1038/ng.2764.

The Cancer Genome Atlas Pan-Cancer analysis project.

Chang K, Creighton CJ, Davis C, Park PJ, Protopopov A, Ren X, Santoso N, Seidman J, Seth S

Nature. 2013 May 2;497(7447):67-73. doi: 10.1038/nature12113.

Integrated genomic characterization of endometrial carcinoma.

Cancer Genome Atlas Research Network, Kandoth C, Schultz N, Cherniack AD, Akbani R, Liu Y, Shen H, Robertson AG, Pashtan I,Shen R, Benz CC, Yau C, Laird PW, Ding L, Zhang W, Mills GB, Kucherlapati R, Mardis ER, Levine DA.

Park P, Protopopov A, Ren X, Seth S, Song X, Tang J, Xi R, Yang L, Zeng D, Kucherlapati R, Chin L,

Cell. 2013 May 9;153(4):919-29. doi: 10.1016/j.cell.2013.04.010.

Diverse mechanisms of somatic structural variations in human cancer genomes.

Yang L1, Luquette LJ, Gehlenborg N, Xi R, Haseley PS, Hsieh CH, Zhang C, Ren X, Protopopov A, Chin L, Kucherlapati R, Lee C, Park PJ.

Nature. 2012 Sep 27;489(7417):519-25. doi: 10.1038/nature11404. Epub 2012 Sep 9.

Comprehensive genomic characterization of squamous cell lung cancers.

Cancer Genome Atlas Research Network.

Getz G, Meyerson M, Protopopov A, Zhang J, Hadjipanayis A, Lee S, Xi R, Yang L, Ren X, Zhang H, Shukla S, Chen PC,Haseley P, Lee E, Chin L, Park PJ, Kucherlapati R

Nature. 2012 Jul 18;487(7407):330-7. doi: 10.1038/nature11252.

Comprehensive molecular characterization of human colon and rectal cancer.

Cancer Genome Atlas Network.

Meyerson M, Protopopov A, Zhang J, Hadjipanayis A, Lee E, Xi R, Yang L, Ren X, Zhang H, Sathiamoorthy N, Shukla S, Chen PC, Haseley P, Xiao Y, Lee S, Seidman J, Chin L, Park PJ, Kucherlapati R

Cancer Discovery (July 2011 1:158-169).

PTEN Is a Major Tumor Suppressor in Pancreatic Ductal Adenocarcinoma and Regulates an NF-κB–Cytokine Network

Haoqiang Ying, Kutlu G. Elpek, Anant Vinjamoori, Stephanie M. Zimmerman, Gerald C. Chu, Haiyan Yan, Eliot Fletcher-Sananikone, Hailei Zhang, Yingchun Liu, Wei Wang, Xiaojia Ren, Hongwu Zheng, Alec C. Kimmelman, Ji-hye Paik, Carol Lim, Samuel R. Perry, Shan Jiang, Brian Malinn, Alexei Protopopov, Simona Colla, Yonghong Xiao, Aram F. Hezel, Nabeel Bardeesy, Shannon J. Turley, Y. Alan Wang, Lynda Chin, Sarah P. Thayer, and Ronald A. DePinho

Nature. 455 (1061-1068) (23 October 2008).

Comprehensive genomic characterization defines human glioblastoma genes and core pathways

The Cancer Genome Atlas Research Network

Harvard Medical School/Dana-Farber Cancer Institute

Lynda Chin22,24,25, Alexei Protopopov24, Jianhua Zhang24, Ilana Perna24, Sandy Aronson26, Narayan Sathiamoorthy26, Georgia Ren24, Jun Yao24, W. Ruprecht Wiedemeyer22, Hyunsoo Kim26, Sek Won Kong27,28, Yonghong Xiao24, Isaac S. Kohane26,27,29, Jon Seidman30, Peter J. Park26,27,29 & Raju Kucherlapati26

Science. 311(5767):1600-3 (2006)

Probing gene expression in live cells, one protein molecule at a time.

Ji Yu*, Jie Xiao*, Xiaojia Ren, Kaiqin Lao and X Sunney Xie

(*First Authors)

JBC. 278 (14): 12563. (2003)

A large-Scale Genetic Analysis of c-Myc-regulated Gene Expression Patterns.

Brenda C. O'Connell, Ann F. Cheung, Carl P. Simkevich, Wanny Tam, Xiaojia Ren, Maria K. Mateyak, and John M. Sedivy.

Genome Research. 10:1138-1147 (2000).

Discovery of a novel, paternally expressed ubiquitin carboxyl-terminal hydrolase gene through comparative analysis of mouse chromosome 7 and human chromosome 19q13.4.

Kim J, Vladimir N, Lu X, Bergmann A, Ren X, Warth T, Richardson P, Kouprina N, Stubbs L.

Mammalian Genome. 10: 870-878 (1999).

Molecular characterization of radiation- and chemically induced mutations associated with neuromuscular tremors, runting, juvenile lethality, and sperm defects in jdf2 mice.

Walkowicz M, Ji Y, Ren X, Horstemke B, Francis F, Russell B, Johnson D, Rinchik M, Nicholls R, and Stubbs L.

Lisa Stubbs, Xiaojia Ren. (Functional Genomics, LLNL) Resource Libraries for Full-Length Mouse cDNA Clones. http://compbio.ornl.gov/projects/jgi/stubbs.shtml

Lisa Stubbs, Jimmy Spearow, and Xiaojia Ren. (DOE Human Genome Program Contractor-Grantee Workshop VII, January 12-16, 1999, Oakland, CA) 124. Generation of Large-Insert Mouse cDNA Libraries. http://www.ornl.gov/hgmis/publicat/99santa/124.html

Mammalian Genome. 8:113-120 (1997).

Mutations in the Cacnl1a4 calcium channel gene are associated with seizures, cerebellar degeneration, and ataxia in tottering and leaner mutant mice.

Doyle J, Ren X, Lennon G, Stubbs L.

Genetics. 149(1):143-55 (1998).

Mckee BD, Wilhelm K, Merrill C, Ren X. Male sterility and meiotic drive associated with sex chromosome rearrangements in Drosophila. Role of X-Y pairing.

Chromosoma. 106(1):29-36 (1997).

Ren X, Eisenhour L, Hong C, Lee Y, Mckee BD. Roles of rDNA spacer and transcription unit-sequences in X-Y meiotic chromosome pairing in Drosophila melanogaster males.

Chromosoma. 104(7):479-88 (1996 Apr).

Mckee B.D., Ren X, Hong C. A recA-like gene in Drosophila melanogaster that is expressed at high levels in female but not male meiotic tissues

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