U.S. Department of Energy

Pacific Northwest National Laboratory

Hugh Mitchell

Hugh Mitchell
Professional Title: 

Dr Mitchell's research involves using computational analysis of 'omics data to identify key components of biological systems. Analyses focus on network inference and topology, and involves data from a diverse array of prokaryotic and eukaryotic organisms. Having a strong background in biology and extensive experience with computational analysis, Dr. Mitchell firmly believes in tight partnerships between biologists and computationalists.

  • B.S. - Molecular Biology, Brigham Young University
  • Ph.D. - Molecular Biology, Mayo Graduate School
  • 2013 - Award winner, SBV IMPROVER challenge
Research Interests: 
  • Network inference from high-throughput data
  • Network topology


  • Menachery VD, A Schafer, KE Burnum-Johnson, HD Mitchell, AJ Eisfeld-Fenney, KB Walters, CD Nicora, SO Purvine, CP Casey, ME Monroe, KK Weitz, KG Stratton, BJM Webb-Robertson, L Gralinski, TO Metz, RD Smith, KM Waters, AC Sims, Y Kawaoka, and R Baric. 2018. "MERS-CoV and H5N1 influenza virus antagonize antigen presentation by altering the epigenetic landscape." Proceedings of the National Academy of Sciences of the United States of America 115(5):E1012-E1021.  doi:10.1073/pnas.1706928115


  • Menachery VD, HD Mitchell, A Cockrell, L Gralinski, B Yount, RL Graham, E Mcanarney, MG Douglas, T Scobey, A Beall, K Dinnon, Iii, JF Kocher, AE Hale, KG Stratton, KM Waters, and R Baric. 2017. "MERS-CoV Accessory ORFs play key role for infection and pathogenesis." mBio 8(4):Article No. e00665-17.  doi:10.1128/mBio.00665-17
  • Menachery VD, L Gralinski, HD Mitchell, K Dinnon, Iii, SR Leist, B Yount, RL Graham, E Mcanarney, KG Stratton, A Cockrell, K Debbink, AC Sims, KM Waters, and R Baric. 2017. "Middle East Respiratory Syndrome Coronavirus Nonstructural Protein 16 is Necessary for Interferon Resistance and Viral Pathogenesis." mSphere 2(6):Article No. e00346-17.  doi:10.1128/mSphere.00346-17
  • Orellana R, G Chaput, LM Markillie, HD Mitchell, MJ Gaffrey, G Orr, and KM Deangelis. 2017. "Multi-time series RNA-seq analysis of Enterobacter lignolyticusSCF1 during growth in lignin-amended medium." PLoS One 12(10):e0186440. doi:10.1371/journal.pone.0186440


  • McDermott JE, HD Mitchell, L Gralinski, AJ Eisfeld, L Josset, A Bankhead, G Neumann, SC Tilton, A Schafer, C Li, S Fan, SK Mcweeney, R Baric, MG Katze, and KM Waters. 2016. "The Effect of inhibition of PP1 and TNFa signaling on pathogenesis of SARS coronavirus." BMC Systems Biology 10(1):93.  doi:10.1186/s12918-016-0336-6
  • Mitchell HD, LM Markillie, WB Chrisler, MJ Gaffrey, D Hu, CJ Szymanski, Y Xie, ES Melby, A Dohnalkova, RC Taylor, EK Grate, SK Cooley, JE McDermott, A Heredia-Langner, and G Orr. 2016. "Cells Respond to Distinct Nanoparticle Properties with Multiple Strategies as Revealed by Single-Cell RNA-Seq." ACS Nano 10(11):10173-10185. doi:10.1021/acsnano.6b05452


  • Vartanian KB, HD Mitchell, S Stevens, VK Conrad, JE McDermott, and M Stenzel-Poore. 2015. "CpG preconditioning regulates miRNA expression that modulates genomic reprogramming associated with neuroprotection against ischemic injury." Journal of Cerebral Blood Flow and Metabolism 35(2):257-266.  doi:10.1038/jcbfm.2014.193


  • Aevermann B, BE Pickett, S Kumar, EB Klem, S Agnihothram, PS Askovich, A Bankhead, M Bolles, V Carter, JH Chang, TRW Clauss, P Dash, AH Diercks, AJ Eisfeld, AL Ellis, S Fan, MT Ferris, L Gralinski, R Green, MA Gritsenko, M Hatta, RA Heegel, JM Jacobs, S Jeng, L Josset, SM Kaiser, S Kelly, GL Law, C Li, J Li, C Long, ML Luna, MM Matzke, JE McDermott, V Menachery, TO Metz, HD Mitchell, ME Monroe, G Navarro, G Neumann, RL Podyminogin, SO Purvine, C Rosenberger, CJ Sanders, AA Schepmoes, AK Shukla, A Sims, P Sova, VC Tam, N Tchitchek, PG Thomas, SC Tilton, AL Totura, J Wang, BJM Webb-Robertson, J Wen, JM Weiss, F Yang, B Yount, Q Zhang, SK Mcweeney, RD Smith, KM Waters, Y Kawaoka, R Baric, A Aderem, MG Katze, and RH Scheuermann. 2014. "A Comprehensive Collection of Systems Biology Data Characterizing the Host Response to Viral Infection." Scientific Data 1:Article No. 140033.  doi:10.1038/sdata.2014.33
  • Eraso JM, LM Markillie, HD Mitchell, RC Taylor, G Orr, and W Margolin. 2014. "The highly conserved MraZ protein is a transcriptional regulator in Escherichia coli." Journal of Bacteriology 196(11):2053-2066.  doi:10.1128/JB.01370-13
  • Welkie DG, X Zhang, LM Markillie, RC Taylor, G Orr, JM Jacobs, K Bhide, J Thimmapuram, MA Gritsenko, HD Mitchell, RD Smith, and LA Sherman. 2014. "Transcriptomic and proteomic dynamics in the metabolism of a diazotrophic cyanobacterium, Cyanothece sp. PCC 7822 during a diurnal light-dark cycle." BMC Genomics 15:Article No. 1185. 


  • Kim YM, B Schmidt, AS Kidwai, MB Jones, BL Deatherage, HM Brewer, HD Mitchell, BO Palsson, JE McDermott, F Heffron, RD Smith, SN Peterson, C Ansong, DR Hyduke, TO Metz, and JN Adkins. 2013. "Salmonella Modulates Metabolism During Growth under Conditions that Induce Expression of Virulence Genes." Molecular Biosystems 9(6):1522-1534. doi:10.1039/C3MB25598K
  • Ansong C, AC Rutledge, HD Mitchell, S Chauhan, MB Jones, YM Kim, K Mcateer, BL Deatherage, JL DuBois, HM Brewer, BC Frank, JE McDermott, TO Metz, SN Peterson, RD Smith, VL Motin, and JN Adkins. 2013. "A multi-omic systems approach to elucidating Yersinia virulence mechanisms." Molecular Biosystems 9(1):44-54.  doi:10.1039/C2MB25287B 
  • McDermott JE, J Wang, HD Mitchell, BJM Webb-Robertson, RP Hafen, JA Ramey, II, and KD Rodland. 2013. "Challenges in Biomarker Discovery: Combining Expert Insights with Statistical Analysis of Complex Omics Data." Expert Opinion on Medical Diagnostics 7(1):37-51.  doi:10.1517/17530059.2012.718329
  • Mitchell HD, AJ Eisfeld, A Sims, JE McDermott, MM Matzke, BJM Webb-Robertson, SC Tilton, N Tchitchek, L Josset, C Li, AL Ellis, JH Chang, RA Heegel, ML Luna, AA Schepmoes, AK Shukla, TO Metz, G Neumann, A Benecke, RD Smith, R Baric, Y Kawaoka, MG Katze, and KM Waters. 2013. "A Network Integration Approach to Predict Conserved Regulators Related to Pathogenicity of Influenza and SARS-CoV Respiratory Viruses." PLoS One 8(7):e69374. doi:10.1371/journal.pone.0069374


  • McDermott JE, KB Vartanian, HD Mitchell, SL Stevens, AP Sanfilippo, and M Stenzel-Poore. 2012. "Identification and Validation of Ifit1 as an Important Innate Immune Bottleneck ." PLoS One 7(6):e36465.  doi:10.1371/journal.pone.0036465
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