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Items: 48

1.

A molecular portrait of maternal sepsis from Byzantine Troy.

Devault AM, Mortimer TD, Kitchen A, Kiesewetter H, Enk JM, Golding GB, Southon J, Kuch M, Duggan AT, Aylward W, Gardner SN, Allen JE, King AM, Wright G, Kuroda M, Kato K, Briggs DE, Fornaciari G, Holmes EC, Poinar HN, Pepperell CS.

Elife. 2017 Jan 10;6. pii: e20983. doi: 10.7554/eLife.20983.

2.

Identification of Genome-Wide Mutations in Ciprofloxacin-Resistant F. tularensis LVS Using Whole Genome Tiling Arrays and Next Generation Sequencing.

Jaing CJ, McLoughlin KS, Thissen JB, Zemla A, Gardner SN, Vergez LM, Bourguet F, Mabery S, Fofanov VY, Koshinsky H, Jackson PJ.

PLoS One. 2016 Sep 26;11(9):e0163458. doi: 10.1371/journal.pone.0163458. eCollection 2016.

3.

Characterization of Genetic Variability of Venezuelan Equine Encephalitis Viruses.

Gardner SN, McLoughlin K, Be NA, Allen J, Weaver SC, Forrester N, Guerbois M, Jaing C.

PLoS One. 2016 Apr 7;11(4):e0152604. doi: 10.1371/journal.pone.0152604. eCollection 2016.

4.

Targeted amplification for enhanced detection of biothreat agents by next-generation sequencing.

Gardner SN, Frey KG, Redden CL, Thissen JB, Allen JE, Allred AF, Dyer MD, Mokashi VP, Slezak TR.

BMC Res Notes. 2015 Nov 16;8:682. doi: 10.1186/s13104-015-1530-0.

5.

Using populations of human and microbial genomes for organism detection in metagenomes.

Ames SK, Gardner SN, Marti JM, Slezak TR, Gokhale MB, Allen JE.

Genome Res. 2015 Jul;25(7):1056-67. doi: 10.1101/gr.184879.114. Epub 2015 Apr 29.

6.

kSNP3.0: SNP detection and phylogenetic analysis of genomes without genome alignment or reference genome.

Gardner SN, Slezak T, Hall BG.

Bioinformatics. 2015 Sep 1;31(17):2877-8. doi: 10.1093/bioinformatics/btv271. Epub 2015 Apr 25.

PMID:
25913206
7.

Application of a pathogen microarray for the analysis of viruses and bacteria in clinical diagnostic samples from pigs.

Jaing CJ, Thissen JB, Gardner SN, McLoughlin KS, Hullinger PJ, Monday NA, Niederwerder MC, Rowland RR.

J Vet Diagn Invest. 2015 May;27(3):313-25. doi: 10.1177/1040638715578484. Epub 2015 Apr 8.

PMID:
25855363
8.

Multiplex degenerate primer design for targeted whole genome amplification of many viral genomes.

Gardner SN, Jaing CJ, Elsheikh MM, Peña J, Hysom DA, Borucki MK.

Adv Bioinformatics. 2014;2014:101894. doi: 10.1155/2014/101894. Epub 2014 Aug 3.

9.

Simulate_PCR for amplicon prediction and annotation from multiplex, degenerate primers and probes.

Gardner SN, Slezak T.

BMC Bioinformatics. 2014 Jul 9;15:237. doi: 10.1186/1471-2105-15-237.

10.

The microbial detection array for detection of emerging viruses in clinical samples--a useful panmicrobial diagnostic tool.

Rosenstierne MW, McLoughlin KS, Olesen ML, Papa A, Gardner SN, Engler O, Plumet S, Mirazimi A, Weidmann M, Niedrig M, Fomsgaard A, Erlandsson L.

PLoS One. 2014 Jun 25;9(6):e100813. doi: 10.1371/journal.pone.0100813. eCollection 2014.

11.

Current strategic thinking for the development of a trivalent alphavirus vaccine for human use.

Wolfe DN, Heppner DG, Gardner SN, Jaing C, Dupuy LC, Schmaljohn CS, Carlton K.

Am J Trop Med Hyg. 2014 Sep;91(3):442-50. doi: 10.4269/ajtmh.14-0055. Epub 2014 May 19.

12.

Microbial profiling of combat wound infection through detection microarray and next-generation sequencing.

Be NA, Allen JE, Brown TS, Gardner SN, McLoughlin KS, Forsberg JA, Kirkup BC, Chromy BA, Luciw PA, Elster EA, Jaing CJ.

J Clin Microbiol. 2014 Jul;52(7):2583-94. doi: 10.1128/JCM.00556-14. Epub 2014 May 14.

13.

Screening of viral pathogens from pediatric ileal tissue samples after vaccination.

Hewitson L, Thissen JB, Gardner SN, McLoughlin KS, Glausser MK, Jaing CJ.

Adv Virol. 2014;2014:720585. doi: 10.1155/2014/720585. Epub 2014 Mar 23.

14.
15.

Detection of Bacillus anthracis DNA in complex soil and air samples using next-generation sequencing.

Be NA, Thissen JB, Gardner SN, McLoughlin KS, Fofanov VY, Koshinsky H, Ellingson SR, Brettin TS, Jackson PJ, Jaing CJ.

PLoS One. 2013 Sep 9;8(9):e73455. doi: 10.1371/journal.pone.0073455. eCollection 2013.

16.

Optimizing SNP microarray probe design for high accuracy microbial genotyping.

Gardner SN, Thissen JB, McLoughlin KS, Slezak T, Jaing CJ.

J Microbiol Methods. 2013 Sep;94(3):303-10. doi: 10.1016/j.mimet.2013.07.006. Epub 2013 Jul 17.

17.

Scalable metagenomic taxonomy classification using a reference genome database.

Ames SK, Hysom DA, Gardner SN, Lloyd GS, Gokhale MB, Allen JE.

Bioinformatics. 2013 Sep 15;29(18):2253-60. doi: 10.1093/bioinformatics/btt389. Epub 2013 Jul 4.

18.

Bioinformatics for microbial genotyping of equine encephalitis viruses, orthopoxviruses, and hantaviruses.

Gardner SN, Jaing CJ.

J Virol Methods. 2013 Oct;193(1):112-20. doi: 10.1016/j.jviromet.2013.04.019. Epub 2013 May 25.

19.

Identification of SNPs associated with variola virus virulence.

Hoen AG, Gardner SN, Moore JH.

BioData Min. 2013 Feb 14;6(1):3. doi: 10.1186/1756-0381-6-3.

20.

Skip the alignment: degenerate, multiplex primer and probe design using K-mer matching instead of alignments.

Hysom DA, Naraghi-Arani P, Elsheikh M, Carrillo AC, Williams PL, Gardner SN.

PLoS One. 2012;7(4):e34560. doi: 10.1371/journal.pone.0034560. Epub 2012 Apr 2.

21.

LAVA: an open-source approach to designing LAMP (loop-mediated isothermal amplification) DNA signatures.

Torres C, Vitalis EA, Baker BR, Gardner SN, Torres MW, Dzenitis JM.

BMC Bioinformatics. 2011 Jun 16;12:240. doi: 10.1186/1471-2105-12-240.

22.

A microbial detection array (MDA) for viral and bacterial detection.

Gardner SN, Jaing CJ, McLoughlin KS, Slezak TR.

BMC Genomics. 2010 Nov 25;11:668. doi: 10.1186/1471-2164-11-668.

23.

Multiplex primer prediction software for divergent targets.

Gardner SN, Hiddessen AL, Williams PL, Hara C, Wagner MC, Colston BW Jr.

Nucleic Acids Res. 2009 Oct;37(19):6291-304. doi: 10.1093/nar/gkp659. Epub 2009 Sep 16.

24.

Conserved amino acid markers from past influenza pandemic strains.

Allen JE, Gardner SN, Vitalis EA, Slezak TR.

BMC Microbiol. 2009 Apr 22;9:77. doi: 10.1186/1471-2180-9-77.

25.

Predicting the sensitivity and specificity of published real-time PCR assays.

Lemmon GH, Gardner SN.

Ann Clin Microbiol Antimicrob. 2008 Sep 25;7:18. doi: 10.1186/1476-0711-7-18.

26.

When can a clonal organism escape senescence?

Gardner SN, Mangel M.

Am Nat. 1997 Oct;150(4):462-90. doi: 10.1086/286076.

PMID:
18811287
27.

DNA signatures for detecting genetic engineering in bacteria.

Allen JE, Gardner SN, Slezak TR.

Genome Biol. 2008;9(3):R56. doi: 10.1186/gb-2008-9-3-r56. Epub 2008 Mar 18.

28.

On the origin of smallpox: correlating variola phylogenics with historical smallpox records.

Li Y, Carroll DS, Gardner SN, Walsh MC, Vitalis EA, Damon IK.

Proc Natl Acad Sci U S A. 2007 Oct 2;104(40):15787-92. Epub 2007 Sep 27.

29.

Draft versus finished sequence data for DNA and protein diagnostic signature development.

Gardner SN, Lam MW, Smith JR, Torres CL, Slezak TR.

Nucleic Acids Res. 2005 Oct 20;33(18):5838-50. Print 2005.

31.

Prediction of cancer outcome with microarrays.

Gardner SN, Fernandes M.

Lancet. 2005 May 14-20;365(9472):1685. No abstract available.

PMID:
15894093
32.

System to assess genome sequencing needs for viral protein diagnostics and therapeutics.

Gardner SN, Kuczmarski TA, Zhou CE, Lam MW, Slezak TR.

J Clin Microbiol. 2005 Apr;43(4):1807-17.

33.

Sequencing needs for viral diagnostics.

Gardner SN, Lam MW, Mulakken NJ, Torres CL, Smith JR, Slezak TR.

J Clin Microbiol. 2004 Dec;42(12):5472-6.

34.

Cytostatic anticancer drug development.

Gardner SN, Fernandes M.

J Exp Ther Oncol. 2004 Apr;4(1):9-18. Review.

PMID:
15255288
35.

New tools for cancer chemotherapy: computational assistance for tailoring treatments.

Gardner SN, Fernandes M.

Mol Cancer Ther. 2003 Oct;2(10):1079-84.

36.
37.

Cell cycle phase-specific chemotherapy: computational methods for guiding treatment.

Gardner SN.

Cell Cycle. 2002 Nov-Dec;1(6):369-74. Review.

PMID:
12548007
38.

Ensuring safe and effective medical devices.

Feigal DW, Gardner SN, McClellan M.

N Engl J Med. 2003 Jan 16;348(3):191-2. No abstract available.

PMID:
12529457
39.

The cellular lethality of radiation-induced chromosome translocations in human lymphocytes.

Gardner SN, Tucker JD.

Radiat Res. 2002 May;157(5):539-52.

PMID:
11966320
40.

Modeling multi-drug chemotherapy: tailoring treatment to individuals.

Gardner SN.

J Theor Biol. 2002 Jan 21;214(2):181-207.

PMID:
11812172
41.

Consumer pressure, seed versus safe-site limitation, and plant population dynamics.

Maron JL, Gardner SN.

Oecologia. 2000 Aug;124(2):260-269. doi: 10.1007/s004420000382.

PMID:
28308187
43.

Development of a protocol for assessing time-weighted-average exposures of young children to power-frequency magnetic fields.

Kaune WT, Darby SD, Gardner SN, Hrubec Z, Iriye RN, Linet MS.

Bioelectromagnetics. 1994;15(1):33-51.

PMID:
8155068
44.

Stabilities of dobutamine, dopamine, nitroglycerin and sodium nitroprusside in disposable plastic syringes.

Pramar Y, Das Gupta V, Gardner SN, Yau B.

J Clin Pharm Ther. 1991 Jun;16(3):203-7.

PMID:
1907977
45.

Dual-chambered vials should carry warnings on label.

Gardner SN, Davis HM.

Am J Hosp Pharm. 1989 Aug;46(8):1548-9. No abstract available.

PMID:
2773955
46.
47.

Chemical stability of thiopental sodium injection in disposable plastic syringes.

Das Gupta V, Gardner SN, Jolowsky CM, Newcomer DR, Stewart KR.

J Clin Pharm Ther. 1987 Oct;12(5):339-42.

PMID:
3680403
48.

Use of sodium bicarbonate vials or syringes to buffer cardioplegic solutions.

Miller LG, Gardner SN.

Am J Hosp Pharm. 1986 Jun;43(6):1416, 1420. No abstract available.

PMID:
3014873

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