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Items: 15

1.

Defending Our Public Biological Databases as a Global Critical Infrastructure.

Caswell J, Gans JD, Generous N, Hudson CM, Merkley E, Johnson C, Oehmen C, Omberg K, Purvine E, Taylor K, Ting CL, Wolinsky M, Xie G.

Front Bioeng Biotechnol. 2019 Apr 5;7:58. doi: 10.3389/fbioe.2019.00058. eCollection 2019.

2.

ScalaBLAST 2.0: rapid and robust BLAST calculations on multiprocessor systems.

Oehmen CS, Baxter DJ.

Bioinformatics. 2013 Mar 15;29(6):797-8. doi: 10.1093/bioinformatics/btt013. Epub 2013 Jan 29.

3.

Inhibition of dengue virus infections in cell cultures and in AG129 mice by a small interfering RNA targeting a highly conserved sequence.

Stein DA, Perry ST, Buck MD, Oehmen CS, Fischer MA, Poore E, Smith JL, Lancaster AM, Hirsch AJ, Slifka MK, Nelson JA, Shresta S, Früh K.

J Virol. 2011 Oct;85(19):10154-66. doi: 10.1128/JVI.05298-11. Epub 2011 Jul 27.

4.

A model of cyclic transcriptomic behavior in the cyanobacterium Cyanothece sp. ATCC 51142.

McDermott JE, Oehmen CS, McCue LA, Hill E, Choi DM, Stöckel J, Liberton M, Pakrasi HB, Sherman LA.

Mol Biosyst. 2011 Aug;7(8):2407-18. doi: 10.1039/c1mb05006k. Epub 2011 Jun 23.

PMID:
21698331
5.

Computational prediction of type III and IV secreted effectors in gram-negative bacteria.

McDermott JE, Corrigan A, Peterson E, Oehmen C, Niemann G, Cambronne ED, Sharp D, Adkins JN, Samudrala R, Heffron F.

Infect Immun. 2011 Jan;79(1):23-32. doi: 10.1128/IAI.00537-10. Epub 2010 Oct 25. Review.

6.

A support vector machine model for the prediction of proteotypic peptides for accurate mass and time proteomics.

Webb-Robertson BJ, Cannon WR, Oehmen CS, Shah AR, Gurumoorthi V, Lipton MS, Waters KM.

Bioinformatics. 2010 Jul 1;26(13):1677-83.

PMID:
20568665
7.

Physicochemical property distributions for accurate and rapid pairwise protein homology detection.

Webb-Robertson BJ, Ratuiste KG, Oehmen CS.

BMC Bioinformatics. 2010 Mar 19;11:145. doi: 10.1186/1471-2105-11-145.

8.

A feature vector integration approach for a generalized support vector machine pairwise homology algorithm.

Webb-Robertson BJ, Oehmen CS, Shah AR.

Comput Biol Chem. 2008 Dec;32(6):458-61. doi: 10.1016/j.compbiolchem.2008.07.017. Epub 2008 Jul 16.

PMID:
18722814
9.

A support vector machine model for the prediction of proteotypic peptides for accurate mass and time proteomics.

Webb-Robertson BJ, Cannon WR, Oehmen CS, Shah AR, Gurumoorthi V, Lipton MS, Waters KM.

Bioinformatics. 2008 Jul 1;24(13):1503-9. doi: 10.1093/bioinformatics/btn218. Epub 2008 May 3. Corrected and republished in: Bioinformatics. 2010 Jul 1;26(13):1677-83.

PMID:
18453551
10.

SVM-HUSTLE--an iterative semi-supervised machine learning approach for pairwise protein remote homology detection.

Shah AR, Oehmen CS, Webb-Robertson BJ.

Bioinformatics. 2008 Mar 15;24(6):783-90. doi: 10.1093/bioinformatics/btn028. Epub 2008 Feb 1.

PMID:
18245127
11.

PQuad--a visual analysis platform for proteomic data exploration of microbial organisms.

Webb-Robertson BJ, Peterson ES, Singhal M, Klicker KR, Oehmen CS, Adkins JN, Havre SL.

Bioinformatics. 2007 Jul 1;23(13):1705-7. Epub 2007 May 5.

PMID:
17483503
12.

Integrating subcellular location for improving machine learning models of remote homology detection in eukaryotic organisms.

Shah AR, Oehmen CS, Harper J, Webb-Robertson BJ.

Comput Biol Chem. 2007 Apr;31(2):138-42. Epub 2007 Feb 23.

PMID:
17416337
13.

SVM-BALSA: remote homology detection based on Bayesian sequence alignment.

Webb-Robertson BJ, Oehmen C, Matzke M.

Comput Biol Chem. 2005 Dec;29(6):440-3. Epub 2005 Nov 10.

PMID:
16290168
14.

Comparison of probability and likelihood models for peptide identification from tandem mass spectrometry data.

Cannon WR, Jarman KH, Webb-Robertson BJ, Baxter DJ, Oehmen CS, Jarman KD, Heredia-Langner A, Auberry KJ, Anderson GA.

J Proteome Res. 2005 Sep-Oct;4(5):1687-98.

PMID:
16212422
15.

Mathematical model of the rapidly activating delayed rectifier potassium current I(Kr) in rabbit sinoatrial node.

Oehmen CS, Giles WR, Demir SS.

J Cardiovasc Electrophysiol. 2002 Nov;13(11):1131-40.

PMID:
12475105

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