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Faculty Detail    
Name DONGQUAN CHEN
  
Campus Address ALGE 592
Phone  (205) 975-7131
E-mail  dongquan@uab.edu
Other websites Google Scholar
Pubmed
     


Faculty Appointment(s)
Appointment Type Department Division Rank
Primary  Med - Preventive Medicine  Med - Preventive Medicine Professor
Secondary    Associate Professor
Center  Comprehensive Cancer Center  Comprehensive Cancer Center Professor
Center  Ctr for Clinical & Translational Sci  Ctr for Clinical & Translational Sci Professor
Center  Informatics Institute  Informatics Institute Professor

Biographical Sketch 
Comprehensive Bioinformatics data analysis services, high quality operation and collaboration. This includes high throughput datasets of microarrays and next generation sequencing out of genomics, transcriptomics, proteomics, and microbiomics projects. We will provide statistical assistance from study design (sample size estimation and power analyses), survival analysis, data management, and publications.



Research/Clinical Interest
Title
Bioinformatics in biology and molecular mechanism in cancer and other diseases
Description
* Single cell transcriptomics: by 10x genomics or NanoString. * Spatial transcriptomics: by 10x genomics or NanoString. * DNA-seq: Whole genome-seq (WGS), exome-seq (WES) and SNPs analysis * RNA-seq: expression data analysis and annotation. * CHIP-seq: for transcription factor or cofactor binding. * Epigenetics: (acetylation, methylation) data analysis. * Proteomics: and integration of with other omics data. * Microbiomics: qiime2/PICRUST2/Stamp (through CCTS Microbiome Core.) * Lipidomics: lipid-based interaction and pathways. * Data mining and Statistical analysis based on arrays and sequencing * Other less commonly requested services, ** Gene Set Enrichment Analysis (GSEA) ** Gene Ontology (GO) analysis. ** Pathway analysis by IPA. ** Alternative splicing ** Isoforms analysis ** Copy number variation (CNV): ** Statistical analysis (Power analyses, sample size estimation, and survival analysis.

Selected Publications 
Publication PUBMEDID
Induction of cell cycle arrest and B cell terminal differentiation by CDK inhibitor p18(INK4c) and IL-6
L Morse 1, D Chen, D Franklin, Y Xiong, S Chen-Kiang. Immunity. 1997 Jan;6(1):47-56. doi: 10.1016/s1074-7613(00)80241-1. 		 PMID: 9052836 
Apoptotic Cell-Derived Extracellular Vesicles Promote Malignancy of Glioblastoma Via Intercellular Transfer of Splicing Factors
Marat S Pavlyukov, et. al. Cancer Cell. 2018 Jul 9;34(1):119-135.e10. doi: 10.1016/j.ccell.2018.05.012. Epub 2018 Jun 21. 		 PMID: 29937354 
Late developmental plasticity in the T helper 17 lineage. Yun Kyung Lee 1, Henrietta Turner, Craig L Maynard, James R Oliver, Dongquan Chen, Charles O Elson, Casey T Weaver. Immunity. 2009 Jan 16;30(1):92-107. doi: 10.1016/j.immuni.2008.11.005.  PMID: 19119024 
Insulin receptor signaling in osteoblasts regulates postnatal bone acquisition and body composition. Keertik Fulzele 1, Ryan C Riddle, Douglas J DiGirolamo, Xuemei Cao, Chao Wan, Dongquan Chen, Marie-Claude Faugere, Susan Aja, Mehboob A Hussain, Jens C Brüning, Thomas L Clemens. Cell. 2010 Jul 23;142(2):309-19. doi: 10.1016/j.cell.2010.06.002.  PMID: 20655471 
Hypoxic Stress Incites HIF1α-Driven Ribosome Biogenesis That Can Be Exploited By Targeting RNA Polymerase I" by Lalita Shevde, Amr Elhamamsy, Brandon Metge, Courtney Swain, Dominique Hinshaw, Sarah Kammerud, Dongquan Chen, Rajeev Samant, and Mohamed Elbahoty [Paper #NCOMMS-24-29628D]. Nature Communication. In press.   
 

Keywords
bioinformatics, genomics, proteomics, metabolomics, lipidomics, and microbiomics