Rob Mitra, Ph.D.

Alvin Goldfarb Professor of Computational Biology
Associate Professor
Biomedical Engineering

Computational and Systems Biology Program
Molecular Genetics and Genomics Program

  • 314-362-2751

  • 314-362-1715

  • MRB - McKinley Research Building, Room 4301



  • functional genomics, systems biology, technology development, bioinformatics

  • Technology development for functional genomics and systems biology

Research Abstract:

The Mitra lab is interested in understanding how transcription factors achieve their in vivo specificities and using this knowledge to dissect the gene regulatory networks that govern developmental processes and understand disease. We have developed several new technologies to help us achieve these goals. Current projects in the lab include understanding the physical principles by which transcription factors bind together as collectives and quantitatively modeling their binding, using single-cell approaches to dissect transcriptional networks, and determining whether cooperative interactions between transcription factors can be targeted for therapeutic benefit.

Selected Publications:

Schillebeeckx M, Schrade A, Lbs AK, Pihlajoki M, Wilson DB, Mitra RD., Laser capture microdissection-reduced representation bisulfite sequencing (LCM-RRBS) maps changes in DNA methylation associated with gonadectomy-induced adrenocortical neoplasia in the mouse .Nucleic Acids Res. 2013 Apr 15. [Epub ahead of print] PMID: 23589626

Ryan O, Shapiro RS, Kurat CF, Mayhew D, Baryshnikova A, Chin B, Lin ZY, Cox MJ, Vizeacoumar F, Cheung D, Bahr S, Tsui K, Tebbji F, Sellam A, Istel F, Schwarzmller T, Reynolds TB, Kuchler K, Gifford DK, Whiteway M, Giaever G, Nislow C, Costanzo M, Gingras AC, Mitra RD, Andrews B, Fink GR, Cowen LE, Boone C. Global gene deletion analysis exploring yeast filamentous growth. Science. 2012 Sep 14;337(6100):1353-6. PMID: 22984072

Yun Y, Adesanya TM, Mitra RD. A systematic study of gene expression variation at single-nucleotide resolution reveals widespread regulatory roles for uAUGs Genome Res. 2012 Jun; 22(6):1089-97. PMID:22454232.

Wang H*, Mayhew D*, Chen X, Johnston M†, Mitra RD†.“Calling Cards” for DNA-Binding Proteins in Mammalian Cells. Genetics. 2012 Jan 3. PMID: 22214611

Tessler LA, Mitra RD. (2011), Sensitive single molecule protein quantification and protein complex detection in a microarray format. Proteomics, 11: 4731-4735.

Wang H*, Mayhew D*, Chen X, Johnston M†, Mitra RD†. Calling Cards enable multiplexed identification of the genomic targets of DNA-binding proteins. Genome Res. 2011 May;21(5):748-55. Epub 2011 Apr 6. PMID: 21471402

Varley KE, Mitra RD. (2009) Nested Patch PCR for Highly Multiplexed Amplification of Genomic Loci. Cold Spring Harb Protoc. Jul;2009(7):pdb.prot5252.PMID: 20147217

Tessler LA, Reifenberger J, Mitra RD. Protein Quantification in Complex Mixtures by Solid Phase Single-Molecule Counting. Analytical Chemistry, 2009, Sep 1;81(17):7141-8. PMID: 19601620

Druley TE, Vallania FML, Wegner DJ, Varley KE, Knowles OL, Bonds JA, Robison SW, Doniger SW, Hamvas A, Cole FS, Fay JC, Mitra RD. Quantification of rare allelic variants from pooled genomic DNA. Nature Methods, 2009 Apr, 6(4): 263-5. PMID: 19252504 (PMCID: PMC2776647).

Wang, H, Heinz, ME, Crosby, SD, Johnston, HM, Mitra, RD. ‘Calling Cards’ method for high-throughput identification of targets of yeast DNA-binding proteins. Nature Protocols, 2008; 3:1569-1577. PMID: 18802438

Last Updated: 7/12/2017 4:53:48 PM

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