Yulu Chen

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Graduate Research Assistant, Ph.D., Rotation Student
Yulu Chen

Yulu is interested in the transcriptome, sequencing analysis, develop statistical methods and bioinformatics methods to solve biology problem.

Research Experience -- March 2016 – Present

Graduate Research Thesis

– Research on the effect of high fat diet on mouse mammary transcriptome during lactation.

– The objective in this study was to take advantage of using RNA-Seq and small RNA-seq high-throughput technology to provide a comprehensive transcriptome profiling of the mouse lactating mammary gland.

– Responsible for data processing and next generation sequencing (NGS) data analysis.

Graduate AGRY600 Genomics Course Project -- August 2016 – Present

– Analysis of M. roreri mitochondrial genome.

– Quality analysis and preprocessing of NGS data using FASTQC and TRIMMOMATIC, followed by K-mer size prediction and Genome Assembly to compare different assembly programs.

– Conduct transcriptome analysis: including data preprocessing, reference genome analysis, De novo transcriptome assembly, differential expression and KEGG Pathway and GO analysis.

Graduate STAT512 Applied Regression Analysis Course Project April 2016

– Worked on the effect of punishment regimes on crime rates using aggregate data on 47 states of the USA for 1960.

– Used SAS to develop a good model to analyze data collected to determine the effect of punishment regimes on crime rates.

Graduate Laboratory Research -- August 2015 – March 2016

– Investigated the role of the clock in regulation of growth and differentiation of the mammary gland. Publication resulted.  See below.

Graduate ANSC514 Animal Biotechnology Course Project -- August 2015 – December 2015

– Used Tophat, Cufflink and CummerBund to analyze and visualize the differential gene expression from the data set of

“Variation in the Ovine Abomasal Lymph Node Transcriptome between Breeds Known to Differ in Resistance to the

Gastrointestinal Nematode”.

Undergraduate Research Thesis -- August 2014 – April 2015

– Researched the selection and optimization of molecular markers for Melilotus.officinalis and M.alba.

Teaching Experience – Fall 2016

Teaching assistant for ANSC444 Dairy Management

Publications

– Co-authored publication: Casey, T*, Crodian, J, Suárez-Trujillo, A, Erickson, E, Weldon, B, Crow, K Cummings, S Chen, Y

Shamay, A, Mabjeesh, SJ and Plaut, K. 2016. CLOCK Regulates Mammary Epithelial Cell Growth and Differentiation.

American Journal of Physiology - Regulatory, Integrative and Comparative Physiology Published 5 October

2016 Vol. no., DOI: 10.1152/ajpregu.00032.2016

-- Chen, Y1., Yang, S1., Crodian, J1., Kuang, S1., Wang, J2., Gribskov, M2., Plaut, K1., and Casey, T1. Maternal high-fat diet significantly impacts milk miRNA and mRNA content of lactating mice. (in progress)

Skills

Software:

--JMP, SAS, SPSS, R, Unix commands, MS Office Suite

Biological experiment skills:

--Mammalian cell culture including routine passaging and growth curve analysis, PCR, q-PCR, ELISA, Western Blot analysis, Bradford assays; rodent handling including weighing, milking and injections.

Area of Expertise: 
transcriptome
sequencing analysis
develop statistical methods and bioinformatics methods to solve biology problem
Education: 
B.S., China Ag Univ., Beijing, China, Forage and Grassland Science
M.S., Purdue University, West Lafayette, IN, Animal Science
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