BRIMS Peer reviewed publications with collaborators
1.
Prakash A, Piening B, Whiteaker J, Zhang H, Shaffer SA, Martin D, Hohmann L, Cooke K, Olson JM, Hansen S, Flory
MR, Lee H, Watts J, Goodlett DR, Aebersold R, Paulovich A, Schwikowski B. Assessing bias in experiment design for
large scale mass spectrometry-based quantitative proteomics. Mol Cell Proteomics. 2007 Oct;6(10):1741-8.
2. Sutton JS, Richmond T, Shi X, Athanas M, Ptak C, Gertzen R, Bonilla L. Performance characteristics of an FT MSbased workflow for label-free differential MS analysis of human plasma: standards, reproducibility, targeted feature
investigation, and application to a model of controlled myocardial infarction. Proteomics Clin Appl. 2008 2:862-81.
3. Tong J, Taylor P, Peterman SM, Prakash A, Moran MF. Epidermal growth factor receptor phosphorylation sites Ser991
and Tyr998 are implicated in the regulation of receptor endocytosis and phosphorylations at Ser1039 and Thr1041. Mol
Cell Proteomics. 2009 Sep;8(9):2131-44.
4. Prakash A, Tomazela DM, Frewen B, Maclean B, Merrihew G, Peterman S, Maccoss MJ. Expediting the development
of targeted SRM assays: using data from shotgun proteomics to automate method development. J Proteome Res. 2009
Jun;8(6):2733-9.
5. Kiyonami R, Schoen A, Prakash A, Peterman S, Zabrouskov V, Picotti P, Aebersold R, Huhmer A, Domon B. Increased
selectivity, analytical precision, and throughput in targeted proteomics. Molec Cell Proteom. 2010 In Press.
6. Prakash A, Rezai T, Krastins B, Sarracino, D, Athanas M, Russo P, Ross MM, Zhang H, Tian Y, Kulasingam V,
Drabovich AP, Smith C, Batruch I, Liotta L, Petricoin E, Diamandis EP, Chan DW, Lopez MF. A platform for establishing
inter-laboratory reproducibility of selected reaction monitoring-based mass spectrometry peptide assays. J Proteome
Res. 2010 In Press.
7. Lopez MF, Rezai T, Sarracino DA, Prakash A, Krastins B, Athanas M, Singh RJ, Barnidge DR, Oran P, Borges
C, Nelson RW. Selected Reaction Monitoring-Mass Spectrometric Immunoassay Responsive to Parathyroid Hormone
and Related Variants. Clin Chem. 2010 56:281-90.
8. Lopez MF, Kuppusamy R, Sarracino DA, Prakash A, Athanas M, Krastins B, Rezai T, Sutton JN, Peterman S
Nicolaides K. Novel MS discovery-to-targeted SRM workflow incorporating ROC curve analysis of putative biomarker
candidates: Application to first-trimester maternal blood from Trisomy 21 pregnancies. J Proteome Res. Jun Epub
ahead of print 2010.
9. Nilsson, CL, Dillon R, Devakumar A, Stone DH, Grieg M, Rogers JC, Krastins B, Rosenblatt M, Kilmer G, major, M,
Kaboord BJ, Sarracino D, Rezai T, Prakash A, Lopez MF, Yongjie J, Priebe W, lang FF, Colman H, Conrad CA.
Quantitative Phosphoproteomic Analysis of the STAT3/IL-6/HIF1a Signaling Network: An initial Study in GSC11
Glioblastoma Stem Cells. J Proteome Res. 2010 9:430-43.
10. Sullivan MB, Huang KH, Ignacio-Espinoza JC, Berlin AM, Kelly L, Weigele PR, Defrancesco AS, Kern SE, Thompson
LR, Young S, Yandava C, Fu R Krastins B, Chase M, Sarracino D, Osburne MS, Henn MR, Chisholm SW. Genomic
analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments.
Environmental Microbiology. 2010 Jul 20 [Epub ahead of print].
11. Garces A, Atmakuri K, Chase MR, Woodworth JS, Krastins B, Rothchild AC, Ramsdell TL, Lopez MF, Behar SM,
Sarracino DA, Fortune SM. EspA acts as a critical mediator of ESX1-dependent virulence in Mycobacterium tuberculosis
by affecting bacterial cell wall integrity. PLoS Pathogens. 2010 June 24; 6(6): e1000957.
12. Charles RC, Sheikh A, Krastins B, Harris JB, Bhuiyan MS, LaRocque RC, Logvinenko T, Sarracino DA, Kudva IT,
Eisenstein J, Podolsky MJ, Kalsy A, Brooks WA, Ludwig A, John M, Calderwood SB, Qadri F, Ryan ET.
Characterization of anti-Salmonella enterica serotype Typhi antibody responses in bacteremic Bangladeshi patients by
an immunoaffinity proteomics-based technology. Clinical Vaccine Immunology. 2010 August; 17(8): 1188-95.
13. Salajegheh M, Kong SW, Pinkus JL, Walsh RJ, Liao A, Nazareno R, Amato AA, Krastins B, Morehouse C, Higgs BW,
Jallai B, Yao Y, Sarracino DA, Parker KC, Greenberg SA. Interferon-stimulated gene 15 (ISG15) conjugates proteins in
dermatomyositis muscle with perifascicular atrophy.Ann. Neurology. 2010 Jan; 67(1): 53-63.
14. Brown J, Wallet MA, Krastins B, Sarracino D, Goodenow MM. Proteome bioprofiles distinguish between M1 priming
and activation states in human macrophages. J Leukoc Biol. 2010 Apr; 87(4): 655-62.
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