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Lynn M Schriml
Ph.D.
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| Academic Title:
Assistant Professor |
| Primary Appointment:
Epidemiology and Preventive Medicine |
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lschriml@som.umaryland.edu |
| Location:
HSF-I,
164 |
| Phone:
(410) 706-6756 |
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Personal History
I received my Ph.D. from the Department of Biology at the University of Ottawa in 1997. During my graduate training, I focused on correlates of mate selection and examination of evolutionary models of behavior. Following my postdoctoral work at the National Cancer Institute, characterizing the mouse ATP-binding cassette family, I shifted research gears to bioinformatics. As a staff scientist at NCBI, I worked to developed bioinformatics resources such as HomoloGene, Entrez Gene, RefSeq, and MapViewer.
Research Interests
Epidemiology, Bioinformatics, Data mining, Emerging Pathogens, Molecular Epidemiology, Infectious Diseases, Statistics
Currently, I am interested in developing bioinformatic tools to bring understanding to the relationship between infectious pathogens and disease.
One of my primary projects, funded by Homeland Security, is the Gemina project. The Gemina project http://gemina.igs.umaryland.edu is a web-based system designed to identify infectious pathogens and their representative genomic sequences through selection of associated epidemiology metadata. Gemina supports the development of DNA signature-based assays for the detection of pathogens or sets of pathogen through the Insignia Signature Pipeline at the University of Maryland.
The Gemina team includes: Lynn Schriml: Principal Investigator, Aaron Gussman: Bioinformatics Engineer, Suvarna Nadendla: Bioinformatic Analayst, and Anu Ganapathy: Web Developer.
A second area of my research group involves the development of ontologies and controlled vocabularies. Ontologies represent a domain of knowledge in a semantic hierarchy. I have developed several vocabularies for the Gemina project and am involved in a number of community ontology projects such as the disease ontology, the Gaz geographic locations ontology and the EnvO environmental habitat ontology.
Publications
Schriml LM, Gussman A, Phillippy K, Angiuoli S, Hari K, Goates A, Jain R, Davidsen T, Ganapathy A, Salzberg S, White O, Hall N. Gemina: a Web-Based epidemiology and genomic metadata system designed to identify infectious pathogens. D. Zeng et al. (Eds.): BioSurveillance 2007. LNCS 4506, pp. 228-229.
Hall, N and LM Schriml. Bioinformatics: Methods Express (Paul H. Dear, eds.) @Scion Publishing Limited, 2007. Chapter 1: Database resources for wet-bench scientists.
Klein SL, Gerhard DS, Wagner L, Richardson P, Schriml LM, Sater AK, Warren WC, McPherson JD. 2006. Resources for genetic and genomic studies of Xenopus. Methods in Molecular Biology. 322:1-16.
Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, DiCuccio M, Edgar R, Federhen S, Geer LY, Helmberg W, Kapustin Y, Kenton DL, Khovayko O, Lipman DJ, Madden TL, Maglott DR, Ostell J, Pruitt KD, Schuler GD, Schriml LM, Sequeira E, Sherry ST, Sirotkin K, Souvorov A, Starchenko G, Suzek TO, Tatusov R, Tatusova TA, Wagner L, Yaschenko E. 2006. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 34:D173-80.
Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Church DM, DiCuccio M, Edgar R, Federhen S, Helmberg W, Kenton DL, Khovayko O, Lipman DJ, Madden TL, Maglott DR, Ostell J, Pontius JU, Pruitt KD, Schuler GD, Schriml LM, Sequeira E, Sherry ST, Sirotkin K, Starchenko G, Suzek TO, Tatusov R, Tatusova TA, Wagner L, Yaschenko E. 2005. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 33: D39-45.
Schriml, LM and Sprague J. Data Mining the Zebrafish Genome. 2004. Methods in Cell Biology 77: 415-437.
Wheeler DL, Church DM, Edgar R, Federhen S, Helmberg W, Madden TL, Pontius JU, Schuler GD, Schriml LM, Sequeira E, Suzek TO, Tatusova TA, Wagner L. Database resources of the National Center for Biotechnology Information: update. 2004. Nucleic Acids Res. 32: D35-40.
Kasukawa T, Furuno M, Nikaido I, Bono H, Hume DA, Bult C, Hill DP, Baldarelli R, Gough J, Kanapin A, Matsuda H, Schriml LM, Hayashizaki Y, Okazaki Y, Quackenbush J. Development and evaluation of an automated annotation pipeline and cDNA annotation system. 2003. Genome Res. 13:1542-1551.
Baldarelli RM, Hill DP, Blake JA, Adachi J, Furuno M, Bradt D, Corbani LE, Cousins S, Frazer KS, Qi D, Yang L, Ramachandran S, Reed D, Zhu Y, Kasukawa T, Ringwald M, King BL, Maltais LJ, McKenzie LM, Schriml LM, Maglott D, Church DM, Pruitt K, Eppig JT, Richardson JE, Kadin JA, Bult CJ. Connecting sequence and biology in the laboratory mouse. 2003. Genome Res. 13: 1505-1519.
Schriml LM, Hill DP, Blake JA, Bono H, Wynshaw-Boris A, Pavan WJ, Ring BZ, Beisel K, Setou M, Okazaki Y; RIKEN GER Group; GSL Members.
Human disease genes and their cloned mouse orthologs: exploration of the FANTOM2 cDNA sequence data set. 2003. Genome Res. 13: 1496-1500.
Wheeler DL, Church DM, Federhen S, Lash AE, Madden TL, Pontius JU, Schuler GD, Schriml LM, Sequeira E, Tatusova TA, Wagner L. Database resources of the National Center for Biotechnology. 2003. Nucleic Acids Res. 31: 28-33.
Okazaki Y, Furuno M, Kasukawa T, Adachi J, Bono H, Kondo S, Nikaido I, Osato N, Saito R, Suzuki H, Yamanaka I, Kiyosawa H, Yagi K, Tomaru Y, Hasegawa Y, Nogami A, Schonbach C, Gojobori T, Baldarelli R, Hill DP, Bult C, Hume DA, Quackenbush J, Schriml LM, Kanapin A, Matsuda H, Batalov S, Beisel KW, Blake JA, Bradt D, Brusic V, Chothia C, Corbani LE, Cousins S, Dalla E, Dragani TA, Fletcher CF, Forrest A, Frazer KS, Gaasterland T, Gariboldi M, Gissi C, Godzik A, Gough J, Grimmond S, Gustincich S, Hirokawa N, Jackson IJ, Jarvis ED, Kanai A, Kawaji H, Kawasawa Y, Kedzierski RM, King BL, Konagaya A, Kurochkin IV, Lee Y, Lenhard B, Lyons PA, Maglott DR, Maltais L, Marchionni L, McKenzie L, Miki H, Nagashima T, Numata K, Okido T, Pavan WJ, Pertea G, Pesole G, Petrovsky N, Pillai R, Pontius JU, Qi D, Ramachandran S, Ravasi T, Reed JC, Reed DJ, Reid J, Ring BZ, Ringwald M, Sandelin A, Schneider C, Semple CA, Setou M, Shimada K, Sultana R, Takenaka Y, Taylor MS, Teasdale RD, Tomita M, Verardo R, Wagner L, Wahlestedt C, Wang Y, Watanabe Y, Wells C, Wilming LG, Wynshaw-Boris A, Yanagisawa M, Yang I, Yang L, Yuan Z, Zavolan M, Zhu Y, Zimmer A, Carninci P, Hayatsu N, Hirozane-Kishikawa T, Konno H, Nakamura M, Sakazume N, Sato K, Shiraki T, Waki K, Kawai J, Aizawa K, Arakawa T, Fukuda S, Hara A, Hashizume W, Imotani K, Ishii Y, Itoh M, Kagawa I, Miyazaki A, Sakai K, Sasaki D, Shibata K, Shinagawa A, Yasunishi A, Yoshino M, Waterston R, Lander ES, Rogers J, Birney E, Hayashizaki Y; FANTOM Consortium; RIKEN Genome Exploration Research Group Phase I & II Team. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. 2002. Nature 420: 563-573.
Wheeler DL, Church DM, Lash AE, Leipe DD, Madden TL, Pontius JU, Schuler GD, Schriml LM, Tatusova TA, Wagner L, Rapp BA.
Database resources of the National Center for Biotechnology Information: 2002 update. 2002. Nucleic Acids Res. 30:13-16.
Hudson TJ, Church DM, Greenaway S, Nguyen H, Cook A, Steen RG, Van Etten WJ, Castle AB, Strivens MA, Trickett P, Heuston C, Davison C, Southwell A, Hardisty R, Varela-Carver A, Haynes AR, Rodriguez-Tome P, Doi H, Ko MS, Pontius J, Schriml L, Wagner L, Maglott D, Brown SD, Lander ES, Schuler G, Denny P. A radiation hybrid map of mouse genes. 2001. Nat Genet. 29: 201-205.
FANTOM Consortium: Kawai J, Shinagawa A, Shibata K, Yoshino M, Itoh M, Ishii Y, Arakawa T, Hara A, Fukunishi Y, Konno H, Adachi J, Fukuda S, Aizawa K, Izawa M, Nishi K, Kiyosawa H, Kondo S, Yamanaka I, Saito T, Okazaki Y, Gojobori T, Bono H, Kasukawa T, Saito R, Kadota K, Matsuda H, Ashburner M, Batalov S, Casavant T, Fleischmann W, Gaasterland T, Gissi C, King B, Kochiwa H, Kuehl P, Lewis S, Matsuo Y, Nikaido I, Pesole G, Quackenbush J, Schriml LM, Staubli F, Suzuki R, Tomita M, Wagner L, Washio T, Sakai K, Okido T, Furuno M, Aono H, Baldarelli R, Barsh G, Blake J, Boffelli D, Bojunga N, Carninci P, de Bonaldo MF, Brownstein MJ, Bult C, Fletcher C, Fujita M, Gariboldi M, Gustincich S, Hill D, Hofmann M, Hume DA, Kamiya M, Lee NH, Lyons P, Marchionni L, Mashima J, Mazzarelli J, Mombaerts P, Nordone P, Ring B, Ringwald M, Rodriguez I, Sakamoto N, Sasaki H, Sato K, Schonbach C, Seya T, Shibata Y, Storch KF, Suzuki H, Toyo-oka K, Wang KH, Weitz C, Whittaker C, Wilming L, Wynshaw-Boris A, Yoshida K, Hasegawa Y, Kawaji H, Kohtsuki S, Hayashizaki Y; RIKEN Genome Exploration Research Group Phase II Team and the FANTOM Consortium. Functional annotation of a full-length mouse cDNA collection. 2001. Nature 409: 685-690.
Broccardo C, Osorio J, Luciani MF, Schriml LM, Prades C, Shulenin S, Arnould I, Naudin L, Lafargue C, Rosier M, Jordan B, Mattei MG, Dean M, Denefle P, Chimini G. Comparative analysis of the promoter structure and genomic organization of the human and mouse ABCA7 gene encoding a novel ABCA transporter. 2001. Cytogenet Cell Genet 92: 264-270.
Mickley L, Jain P, Miyake K, Schriml LM, Rao K, Fojo T, Bates S, Dean M. An ATP-binding cassette gene (ABCG3) closely related to the multidrug transporter
ABCG2 (MXR/ABCP) has an unusual ATP-binding domain. 2001. Mamm Genome 12: 86-88.
Shulenin S, Schriml LM, Remaley AT, Fojo S, Brewer B, Allikmets R, Dean M. An ATP-binding cassette gene (ABCG5) from the ABCG (White) gene subfamily maps to human chromosome 2p21 in the region of the Sitosterolemia locus. 2001. Cytogenet Cell Genet 92: 204-208.
Schriml LM, Peterson RJ, Gerrard B, Dean M. Use of denaturing HPLC to map human and murine genes and to validate single-nucleotide polymorphisms. 2000. Biotechniques 28: 740-745.
Schriml LM, Dean M. Identification of 18 mouse ABC genes and characterization of the ABC superfamily in Mus musculus. 2000. Genomics 64: 24-31.
Wheeler DL, Church DM, Lash AE, Leipe DD, Madden TL, Pontius JU, Schuler GD, Schriml LM, Tatusova TA, Wagner L, Rapp BA. Database resources of the National Center for Biotechnology Information. 2001. Nucleic Acids Res. 29: 11-16.
Ali IU, Schriml LM, Dean M. Mutational spectra of PTEN/MMAC1 gene: a tumor suppressor with lipid phosphatase activity. 1999. J Natl Cancer Inst. 91: 1922-1932.
Schriml LM, Padilla-Nash HM, Coleman A, Moen P, Nash WG, Menninger J, Jones G, Ried T, Dean M. Tyramide signal amplification (TSA)-FISH applied to mapping PCR-labeled probes less than 1 kb in size. 1999. Biotechniques 27: 608-613.
Saxena A, Schriml LM, Dean M, Ali IU. Comparative molecular genetic profiles of anaplastic astrocytomas/glioblastomas multiforme and their subsequent recurrences. 1999. Oncogene 18: 1385-1390.
Allikmets R, Schriml LM, Hutchinson A, Romano-Spica V, Dean M. A human placenta-specific ATP-binding cassette gene (ABCP) on chromosome 4q22 that is involved in multidrug resistance. 1998. Cancer Research 58: 5337-5339.
Stephens JC, Reich DE, Goldstein DB, Shin HD, Smith MW, Carrington M, Winkler C, Huttley GA, Allikmets R, Schriml L, Gerrard B, Malasky M, Ramos MD, Morlot S, Tzetis M, Oddoux C, di Giovine FS, Nasioulas G, Chandler D, Aseev M, Hanson M, Kalaydjieva L, Glavac D, Gasparini P, Kanavakis E, Claustres M, Kambouris M, Ostrer H, Duff G, Baranov V, Sibul H, Metspalu A, Goldman D, Martin N, Duffy D, Schmidtke J, Estivill X, O'Brien SJ, and Dean M.
Dating the origin of the CCR5-Delta32 AIDS-resistance allele by the coalescence of haplotypes. 1998. Am J Hum Genet. 62: 1507-1515.
Parent S and Schriml LM. A model for the determination of fish species at risk based upon life-history traits and ecological data. 1995. Can. J. Fish. Aqu. Sci. 52: 1768-1781.
Picman J and Schriml LM. A camera study of temporal patterns of nest predation in different habitats. 1994. Wilson Bulletin 106: 456-465.
Faculty members:
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