Scott Emrich

Former Graduate Student


  • B.S., Biology and Computer Science, Loyola College in Maryland, May 2002
  • Ph.D., Bioinformatics & Computational Biology, Iowa State University, Aug 2007


  • Assistant Professor, University of Notre Dame, Aug 2007-Present


* Authors contributed equally to the article
  • Liu S, HD Chen, I Makarevitch, R Shirmer, SJ Emrich, CR Dietrich, WB Barbazuk, NM Springer, PS Schnable (2010) High-throughput genetic mapping of mutants via quantitative single nucleotide polymorphism typing. Genetics, 184(1): 19-26.(Selected as an Editors' Choice by MaizeGDB, 04/2010)
    [ Abstract | Full Text PDF | Supplemental Materials | doi:10.1534/genetics.109.107557 | PMID: 19884313 | Impact Factor: 3.6 | Cited 78 times ]
  • Schnable PS*, D Ware*, RS Fulton, JC Stein, F Wei, S Pasternak, C Liang, J Zhang, LA Fulton, TA Graves, P Minx, AD Reily, L Courtney, SS Kruchowski, C Tomlinson, C Strong, K Delehaunty, C Fronick, W Courtney, SM Rock, E Belter, F Du, K Kim, RM Abbott, M Cotton, A Levy, P Marchetto, K Ochoa, SM Jackson, B Gillam, W Chen, L Yan, J Higginbotham, M Cardenas, J Waligorski, E Applebaum, L Phelps, J Falcone, K Kanchi, T Thane, A Scimone, N Thane, J Henke, T Wang, J Ruppert, N Shah, K Rotter, J Hodges, E Ingenthron, M Cordes, S Kohlberg, J Sgro, B Delgado, K Mead, A Chinwalla, S Leonard, K Crouse, K Collura, D Kudrna, J Currie, R He, A Angelova, S Rajasekar, T Mueller, R Lomeli, G Scara, A Ko, K Delaney, M Wissotski, G Lopez, D Campos, M Braidotti, E Ashley, W Golser, H Kim, S Lee, J Lin, Z Dujmic, W Kim, J Talag, A Zuccolo, C Fan, A Sebastian, M Kramer, L Spiegel, L Nascimento, T Zutavern, B Miller, C Ambroise, S Muller, W Spooner, A Narechania, L Ren, S Wei, S Kumari, BP Faga, MJ Levy, L McMahan, P Van Buren, MW Vaughn, K Ying, CT Yeh, SJ Emrich, Y Jia, A Kalyanaraman, AP Hsia, WB Barbazuk, RS Baucom, TP Brutnell, NC Carpita, C Chaparro, JM Chia, JM Deragon, JC Estill, Y Fu, JA Jeddeloh, Y Han, H Lee, P Li, DR Lisch, S Liu, Z Liu, DH Nagel, MC McCann, P San Miguel, AM Myers, D Nettleton, J Nguyen, BW Penning, L Ponnala, KL Schneider, DC Schwartz, A Sharma, C Soderlund, NM Springer, Q Sun, H Wang, M Waterman, R Westerman, TK Wolfgruber, L Yang, Y Yu, L Zhang, S Zhou, Q Zhu, JL Bennetzen, RK Dawe, J Jiang, N Jiang, GG Presting, SR Wessler, S Aluru, RA Martienssen, SW Clifton, WR McCombie, RA Wing, RK Wilson « view remaining 107 author(s) » (2009) The B73 maize genome: complexity, diversity, and dynamics. Science, 326(5956): 1112-1115.(Cover image; a commentary on this manuscript solicited by journal editors and written by C. Feuillet and K. Eversole was provided in 326: 1071-1072; cited in Wikipedia:; Selected as an Editors' Choice by MaizeGDB, 12/2009; selected as a "must read" by the Faculty of 1000 Biology)
    [ Abstract | Full Text PDF | Supplemental Materials | doi:10.1126/science.1178534 | PMID: 19965430 | Impact Factor: 41.0 | Cited 3,695 times ] Faculty1000 Recommeded Article
  • Ohtsu K, MB Smith, SJ Emrich, LA Borsuk, R Zhou, T Chen, X Zhang, MC Timmermans, J Beck, B Buckner, D Janick-Buckner, D Nettleton, MJ Scanlon, PS Schnable (2007) Global gene expression analysis of the shoot apical meristem of maize (Zea Mays L.). Plant J, 52(3): 391-404.("Recommended" by the Faculty of 1000 Biology; Selected as an Editors' Choice by MaizeGDB, 10/2007)
    [ Abstract | Full Text PDF | doi:10.1111/j.1365-313X.2007.03244.x | PMID: 17764504 | Impact Factor: 5.7 | Cited 139 times ] Faculty1000 Recommeded Article
  • Barbazuk WB*, SJ Emrich*, HD Chen, L Li, PS Schnable (2007) SNP discovery via 454 transcriptome sequencing. Plant J, 51(5): 910-918.(Cited in Wikipedia:
    [ Abstract | Full Text PDF | doi:10.1111/j.1365-313X.2007.03193.x | PMID: 17662031 | Impact Factor: 5.7 | Cited 496 times ]
  • Emrich SJ*, L Li*, TJ Wen, MD Yandeau-Nelson, Y Fu, L Guo, HH Chou, S Aluru, DA Ashlock, PS Schnable (2007) Nearly identical paralogs: implications for maize (Zea mays L.) genome evolution. Genetics, 175(1): 429-439.(Featured in Science (315:302) as in Editor's Choice: Highlights of the recent literature; Selected as an Editors' Choice by MaizeGDB, 12/2006)
    [ Abstract | Full Text PDF | Supplemental Materials | doi:10.1534/genetics.106.064006 | PMID: 17110490 | Impact Factor: 3.6 | Cited 73 times ]
  • Emrich SJ*, WB Barbazuk*, L Li, PS Schnable (2007) Gene discovery and annotation using LCM-454 transcriptome sequencing. Genome Res, 17(1): 69-73.(Epub: 9 Nov 2006)
    [ Abstract | Full Text PDF | doi:10.1101/gr.5145806 | PMID: 17095711 | Impact Factor: 9.9 ]
  • Kalyanaraman A, SJ Emrich, PS Schnable, S Aluru (2007) Assembling genomes on large-scale parallel computers. J Parallel Distr Com, 67: 1240-1255.(Special issue devoted to IPDPS best papers)
    [ Abstract | Full Text PDF | doi:10.1109/IPDPS.2006.1639259 | Impact Factor: 1.8 ]
  • Fu Y*, SJ Emrich*, L Guo, TJ Wen, DA Ashlock, S Aluru, PS Schnable (2005) Quality assessment of maize assembled genomic islands (MAGIs) and large-scale experimental verification of predicted genes. PNAS, 102(34): 12282-12287.
    [ Abstract | Full Text PDF | doi:10.1073/pnas.0503394102 | PMID: 16103354 | Impact Factor: 9.6 | Cited 85 times ]
  • Yao H, L Guo*, Y Fu*, LA Borsuk, TJ Wen, DS Skibbe, X Cui, BE Scheffler, J Cao, SJ Emrich, DA Ashlock, PS Schnable (2005) Evaluation of five ab initio gene prediction programs for the discovery of maize genes. Plant Mol Biol, 57(3): 445-460.
    [ Abstract | Full Text PDF | doi:10.1007/s11103-005-0271-1 | PMID: 15830133 | Impact Factor: 3.9 ]
  • Ashlock DA, SJ Emrich, KM Bryden, SM Corns, TJ Wen, PS Schnable (2004) A comparison of evolved finite state classifiers and interpolated Markov models for Improving PCR primer design. CIBCB'04: 190-197.
    [ Abstract | Full Text PDF | doi:10.1109/CIBCB.2004.1393953 ]
  • Emrich SJ, S Aluru, Y Fu, TJ Wen, M Narayanan, L Guo, DA Ashlock, PS Schnable (2004) A strategy for assembling the maize (Zea mays L.) genome. Bioinformatics, 20(2): 140-147.
    [ Abstract | Full Text PDF | doi:10.1093/bioinformatics/bth017 | PMID: 14734303 | Impact Factor: 4.5 | Cited 72 times ]