My research interests include molecular biology, microbiology, and genetics. This includes DNA sequencing that encompasses Expressed Sequence Tag (EST) projects, plus bacterial, viral and plant and animal genomic sequencing, annotation and analysis.
I have 15 years experience in this particular field, and I have managed numerous projects. I coordinated the microbial sequencing projects at the Advanced Center for Genome Technology at the University of Oklahoma. Since coming to the Genome sequencing Center, I have been Group Leader of Darwin EST Projects, 1999-2003. The Genome Sequencing Center has contributed over 3 million EST sequences to the dbEST division of GenBank. In addition, I have supervised Small Projects, in which I directed the sequencing, finishing and annotation of smaller genomes (those less than 100 Mb). (
Salmonella typhimurium,
Salmonella Paratyphi A,
maize mitochondria,
Schmidtea mediterrania (planarian) and
Drosophila yakuba and
simulans).
Most recently (2003-present), I serve as an Assistant Director of the GSC, Washington University School of Medicine, responsible for projects that include all non-vertebrate genomes. In that capacity, I participate in the intake of genome sequencing requests, assist with the team-based selection process for the genome sequencing of various species, draft sequencing plans for those organisms assigned by the NHGRI, and engage in the writing of grant proposals. I also oversee the progress of each accepted sequencing project and interact with the collaborators in those projects.
I have an active interest in comparative genomics: the analysis and comparison of genomes from different species, to gain a better understanding of how species have evolved, as well as the biochemical, genetic, metabolic, and physiological pathways involved. This will be one of the keys that will aid in unlocking the "mysteries" of biological systems.
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Hillier LW, Clifton, SW, et al: (2005) Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. Apr 7; 434(7034):724-31.
Mitreva M, McCarter JP, Arasu P, Hawdon J, Martin J, Dante M, Wylie T, Xu J, Stajich JE, Kapulkin W, Clifton SW, Waterston RH, Wilson RK: (2005) Investigating hookworm genomes by comparative analysis of two Ancylostoma species.BMC Genomics. 2005; 6: 58.
Giannakis M, Stappenbeck TS, Mills JC, Leip DG, Lovett M, Clifton SW, Ippolito JE, Glasscock JI, Arumugam M, Brent MR, Gordon JI. Molecular properties of adult
mouse gastric and intestinal epithelial progenitors in their niches. J Biol Chem. 2006 Apr 21;281(16):11292-300. Epub 2006 Feb 7.
Yin Y, Martin J, McCarter JP, Clifton SW, Wilson RK, Mitreva M. Identification and analysis of genes expressed in the adult filarial parasitic nematode Dirofilaria immitis. Int J Parasitol. 2006 Jun;36(7):829-39. Epub 2006 Mar 31.
Sandra W. Clifton, Patrick Minx, Christiane M-R. Fauron, Michael Gibson, James O. Allen, Hui Sun, Melissa Thompson, W. Brad Barbazuk, Suman Kanuganti, Cathey Tayloe, Louis Meyer, Richard K. Wilson and Kathleen J. Newton (2004) Sequence and Comparative Analysis of the Maize NB mitochondrial Genome. Plant Phys, 136: 3486-3503.
Christiane M_R. Fauron, James O. Allen, Sandra W. Clifton, Kathleen J. Newton. (2004). Plant Mitochondrial Genomes. In H Daniell and D.D. Chase (eds.) Molecular Biology and Biothechnology of Plant Organelles. Kluwer academic publishers, p 151-177.
Li, L., Brunck, B.P., Kissinger, J., Pape, D., Tang, K, Cole, R., Martin, J., Wylie, T., Dante, M., Fogarty, S.J., Howe, D.K., Liberator, P., Dias, C., Anderson, J., White, M., Jerome, M.E., Johnson, E.A., Radke, J.A., Stoeckert, Jr., C.J., Waterston, R.H., Clifton, S.W., Sibley, D. (2003) Gene Discovery in the Apicomplexa as Revealed by EST Sequencing and Assembly of a Comparative Gene Database , Genome Reseach 13, 443-454.
Shoemaker, R., Keim, P., Vodkin, L., Retzel, E., Clifton, S. W., Waterston, R., Smoller, D., Coryell, V., Khanna, A., Erpelding, J., Gai, X., Brendel, V., Raph-Schmidt, C., Shoop., Vielweber, C. J., Schmatz, M., Pape. D., Theising, B., Martin, J., Dante. M., Wylie, T., and Granger, C. (2002) A Compilation of Soybean ESTs: Generation and Analysis, Genome 45, 329-338.
McClelland, M., Sanderson, K E., Spieth, J., Clifton, S. W., Latreille, P., Courtney, L., Porwollik, S., Ali, J., Dante, M., Du, F., Hou, S., Layman, D., Leonard, S., Nguyrn, C., Scott, K., Holmes, A., Grewal, N., Mulvaney, E., Ryan, E., Sun, H., Florea, L., Miller, W. Stoneking, T., Nhan, M., Waterston, R., Wilson, R. K. (2001) The Complete Genome Complete Genome Sequence of Salmonella enterica serovar Typhimurium LT2. Nature 413, 852-856.
[Clifton, contributing author] The International Human Genome Sequencing Consortium. (2001) Initial Sequencing and Analysis of the Human Genome. Nature 409, 860-921.
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