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Results: 1 to 20 of 61

1.

Bayesian Proteoform Modeling Improves Protein Quantification of Global Proteomic Measurements.

Webb-Robertson BJ, Matzke MM, Datta S, Payne SH, Kang J, Bramer LM, Nicora CD, Shukla AK, Metz TO, Rodland KD, Smith RD, Tardiff MF, McDermott JE, Pounds JG, Waters KM.

Mol Cell Proteomics. 2014 Aug 16. pii: mcp.O113.030932. [Epub ahead of print]

PMID:
25129695
[PubMed - as supplied by publisher]
Free Article
2.

Integrative genomics and computational systems medicine.

McDermott JE, Huang Y, Zhang B, Xu H, Zhao Z.

Biomed Res Int. 2014;2014:945253. doi: 10.1155/2014/945253. Epub 2014 Jun 15. No abstract available.

PMID:
25025078
[PubMed - in process]
Free PMC Article
3.

Computational methods for omics data.

Zhao Z, Zhang B, Huang Y, Xu H, McDermott JE.

Int J Comput Biol Drug Des. 2014;7(2-3):97-101. doi: 10.1504/IJCBDD.2014. Epub 2014 May 28. No abstract available.

PMID:
24878722
[PubMed - in process]
4.

Interdisciplinary dialogue for education, collaboration, and innovation: intelligent Biology and Medicine in and beyond 2013.

Zhang B, Huang Y, McDermott JE, Posey RH, Xu H, Zhao Z.

BMC Genomics. 2013;14 Suppl 8:S1. doi: 10.1186/1471-2164-14-S8-S1. Epub 2013 Dec 9.

PMID:
24564388
[PubMed - in process]
Free PMC Article
5.

A semiautomated framework for integrating expert knowledge into disease marker identification.

Wang J, Webb-Robertson BJ, Matzke MM, Varnum SM, Brown JN, Riensche RM, Adkins JN, Jacobs JM, Hoidal JR, Scholand MB, Pounds JG, Blackburn MR, Rodland KD, McDermott JE.

Dis Markers. 2013;35(5):513-23. doi: 10.1155/2013/613529. Epub 2013 Oct 10.

PMID:
24223463
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

A network integration approach to predict conserved regulators related to pathogenicity of influenza and SARS-CoV respiratory viruses.

Mitchell HD, Eisfeld AJ, Sims AC, McDermott JE, Matzke MM, Webb-Robertson BJ, Tilton SC, Tchitchek N, Josset L, Li C, Ellis AL, Chang JH, Heegel RA, Luna ML, Schepmoes AA, Shukla AK, Metz TO, Neumann G, Benecke AG, Smith RD, Baric RS, Kawaoka Y, Katze MG, Waters KM.

PLoS One. 2013 Jul 25;8(7):e69374. doi: 10.1371/journal.pone.0069374. Print 2013.

PMID:
23935999
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Genus-optimized strategy for the identification of chlamydial type III secretion substrates.

Hovis KM, Mojica S, McDermott JE, Pedersen L, Simhi C, Rank RG, Myers GS, Ravel J, Hsia RC, Bavoil PM.

Pathog Dis. 2013 Dec;69(3):213-22. doi: 10.1111/2049-632X.12070. Epub 2013 Aug 14.

PMID:
23873765
[PubMed - indexed for MEDLINE]
8.

Reproducibility: two more red flags for suspect work.

McDermott JE.

Nature. 2013 Jul 18;499(7458):284. doi: 10.1038/499284b. No abstract available.

PMID:
23868253
[PubMed - indexed for MEDLINE]
9.

Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes.

Kim YM, Schmidt BJ, Kidwai AS, Jones MB, Deatherage Kaiser BL, Brewer HM, Mitchell HD, Palsson BO, McDermott JE, Heffron F, Smith RD, Peterson SN, Ansong C, Hyduke DR, Metz TO, Adkins JN.

Mol Biosyst. 2013 Jun;9(6):1522-34. doi: 10.1039/c3mb25598k. Epub 2013 Apr 5.

PMID:
23559334
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Sequential projection pursuit principal component analysis--dealing with missing data associated with new -omics technologies.

Webb-Robertson BJ, Matzke MM, Metz TO, McDermott JE, Walker H, Rodland KD, Pounds JG, Waters KM.

Biotechniques. 2013 Mar;54(3):165-8. doi: 10.2144/000113978.

PMID:
23477384
[PubMed - indexed for MEDLINE]
Free Article
11.

RNA type III secretion signals that require Hfq.

Niemann GS, Brown RN, Mushamiri IT, Nguyen NT, Taiwo R, Stufkens A, Smith RD, Adkins JN, McDermott JE, Heffron F.

J Bacteriol. 2013 May;195(10):2119-25. doi: 10.1128/JB.00024-13. Epub 2013 Feb 8.

PMID:
23396917
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Challenges in Biomarker Discovery: Combining Expert Insights with Statistical Analysis of Complex Omics Data.

McDermott JE, Wang J, Mitchell H, Webb-Robertson BJ, Hafen R, Ramey J, Rodland KD.

Expert Opin Med Diagn. 2013 Jan;7(1):37-51.

PMID:
23335946
[PubMed]
Free PMC Article
13.

A multi-omic systems approach to elucidating Yersinia virulence mechanisms.

Ansong C, Schrimpe-Rutledge AC, Mitchell HD, Chauhan S, Jones MB, Kim YM, McAteer K, Deatherage Kaiser BL, Dubois JL, Brewer HM, Frank BC, McDermott JE, Metz TO, Peterson SN, Smith RD, Motin VL, Adkins JN.

Mol Biosyst. 2013 Jan 27;9(1):44-54. doi: 10.1039/c2mb25287b. Epub 2012 Nov 13.

PMID:
23147219
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Modeling dynamic regulatory processes in stroke.

McDermott JE, Jarman K, Taylor R, Lancaster M, Shankaran H, Vartanian KB, Stevens SL, Stenzel-Poore MP, Sanfilippo A.

PLoS Comput Biol. 2012;8(10):e1002722. doi: 10.1371/journal.pcbi.1002722. Epub 2012 Oct 11.

PMID:
23071432
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

A comparative analysis of computational approaches to relative protein quantification using peptide peak intensities in label-free LC-MS proteomics experiments.

Matzke MM, Brown JN, Gritsenko MA, Metz TO, Pounds JG, Rodland KD, Shukla AK, Smith RD, Waters KM, McDermott JE, Webb-Robertson BJ.

Proteomics. 2013 Feb;13(3-4):493-503. doi: 10.1002/pmic.201200269. Epub 2012 Nov 8. Review.

PMID:
23019139
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Mio/dChREBP coordinately increases fat mass by regulating lipid synthesis and feeding behavior in Drosophila.

Sassu ED, McDermott JE, Keys BJ, Esmaeili M, Keene AC, Birnbaum MJ, DiAngelo JR.

Biochem Biophys Res Commun. 2012 Sep 14;426(1):43-8. doi: 10.1016/j.bbrc.2012.08.028. Epub 2012 Aug 12.

PMID:
22910416
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Studying Salmonellae and Yersiniae host-pathogen interactions using integrated 'omics and modeling.

Ansong C, Deatherage BL, Hyduke D, Schmidt B, McDermott JE, Jones MB, Chauhan S, Charusanti P, Kim YM, Nakayasu ES, Li J, Kidwai A, Niemann G, Brown RN, Metz TO, McAteer K, Heffron F, Peterson SN, Motin V, Palsson BO, Smith RD, Adkins JN.

Curr Top Microbiol Immunol. 2013;363:21-41. doi: 10.1007/82_2012_247. Review.

PMID:
22886542
[PubMed - indexed for MEDLINE]
18.

Suppressed expression of T-box transcription factors is involved in senescence in chronic obstructive pulmonary disease.

Acquaah-Mensah GK, Malhotra D, Vulimiri M, McDermott JE, Biswal S.

PLoS Comput Biol. 2012;8(7):e1002597. doi: 10.1371/journal.pcbi.1002597. Epub 2012 Jul 19.

PMID:
22829758
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Identification and validation of Ifit1 as an important innate immune bottleneck.

McDermott JE, Vartanian KB, Mitchell H, Stevens SL, Sanfilippo A, Stenzel-Poore MP.

PLoS One. 2012;7(6):e36465. doi: 10.1371/journal.pone.0036465. Epub 2012 Jun 20.

PMID:
22745654
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Topological analysis of protein co-abundance networks identifies novel host targets important for HCV infection and pathogenesis.

McDermott JE, Diamond DL, Corley C, Rasmussen AL, Katze MG, Waters KM.

BMC Syst Biol. 2012 Apr 30;6:28. doi: 10.1186/1752-0509-6-28.

PMID:
22546282
[PubMed - indexed for MEDLINE]
Free PMC Article

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