Zhe Zhang, PhD, MS

2018

Zhang Z, Shi L, Song L, Maurer K, Petri MA, Sullivan KE. Overall Downregulation of mRNAs and Enrichment of H3K4me3 Change Near Genome-Wide Association Study Signals in Systemic Lupus Erythematosus: Cell-Specific Effects. Frontiers in immunology. 2018. PMID: 29593737

2017

*Zhang Z, Zhang Y, Evans P, Chinwalla A, Taylor D. RNA-Seq 2G: online analysis of differential gene expression with comprehensive options of statistical methods. bioRxiv Preprint. 2017. doi: https://doi.org/10.1101/122747. (* Corresponding author)

2016

*Zhang Z, Shi L, Dawany N, Kelsen J, Petri MA, Sullivan KE. H3K4 tri-methylation breadth at transcription start sites impacts the transcriptome of systemic lupus erythematosus. Clinical epigenetics. 2016. PMID: 26839600. (* Corresponding author)

2015

Chapman KA, Bush WS, Zhang Z. Gene expression in cell lines from propionic acidemia patients, carrier parents, and controls. Molecular genetics and metabolism. 2015. PMID:25963861.

Izumi K, Nakato R, Zhang Z, et.al. Germline gain-of-function mutations in AFF4 cause a developmental syndrome functionally linking the super elongation complex and cohesin. Nature genetics. 2015PMID: 25730767.

Zhang Z, Shi L, Song L, et.al. Interferon regulatory factor 1 marks activated genes and can induce target gene expression in systemic lupus erythematosus. Arthritis & rheumatology. 2015. PMID: 25418955.

2014

Zhang Z, Hailat Z, Falk MJ, Chen XW. Integrative analysis of independent transcriptome data for rare diseases. Methods. 2014. PMID: 24981076.

Zhang Z, Falk MJ. Integrated transcriptome analysis across mitochondrial disease etiologies and tissues improves understanding of common cellular adaptations to respiratory chain dysfunction. The international journal of biochemistry & cell biology. 2014. PMID: 24569120.

2013

Zhang Z, Tsukikawa M, Peng M, et.al. Primary respiratory chain disease causes tissue-specific dysregulation of the global transcriptome and nutrient-sensing signaling network. PloS one. 2013. PMID: 23894440.

*Zhang Z, Leipzig J, Sasson A, et.al. Efficient digest of high-throughput sequencing data in a reproducible report. BMC bioinformatics. 2013. PMID: 24564231. (* Corresponding author)

2012

*Zhang Z, Liu J, Kaur M, Krantz ID. Characterization of DNA methylation and its association with other biological systems in lymphoblastoid cell lines. Genomics. 2012. PMID: 22269447. (* Corresponding author)

2011

Zhang Z, Song L, Maurer K, Bagashev A, Sullivan KE. Monocyte polarization: the relationship of genome-wide changes in H4 acetylation with polarization. Genes and immunity. 2011. PMID: 21451557.

2010

Liu J, Zhang Z, Bando M, et.al. Genome-wide DNA methylation analysis in cohesin mutant human cell lines. Nucleic acids research. 2010. PMID: 20448023.

Zhang Z, Song L, Maurer K, Petri MA, Sullivan KE. Global H4 acetylation analysis by ChIP-chip in systemic lupus erythematosus monocytes. Genes and immunity. 2010. PMID: 19710693.

Zhang Z, Gasser DL, Rappaport EF, Falk MJ. Cross-platform expression microarray performance in a mouse model of mitochondrial disease therapy. Molecular genetics and metabolism. 2010. PMID: 19944634.

Zhang Z, Maurer K, Perin JC, Song L, Sullivan KE. Cytokine-induced monocyte characteristics in SLE. Journal of biomedicine & biotechnology. 2010. PMID: 20625490.

2009

Liu J, Zhang Z, Bando M, et.al. Transcriptional dysregulation in NIPBL and cohesin mutant human cells. PloS biology. 2009. PMID: 19468298.

2007

Zhang Z, Chen D, Fenstermacher DA. Integrated analysis of independent gene expression microarray datasets improves the predictability of breast cancer outcome. BMC genomics. 2007. PMID: 17883867.