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Items: 46

1.

Salt-Treated Roots of Oryza australiensis Seedlings are Enriched with Proteins Involved in Energetics and Transport.

Yichie Y, Hasan MT, Tobias PA, Pascovici D, Goold HD, Van Sluyter SC, Roberts TH, Atwell BJ.

Proteomics. 2019 Oct;19(19):e1900175. doi: 10.1002/pmic.201900175.

PMID:
31475433
2.

Potential early clinical stage colorectal cancer diagnosis using a proteomics blood test panel.

Ahn SB, Sharma S, Mohamedali A, Mahboob S, Redmond WJ, Pascovici D, Wu JX, Zaw T, Adhikari S, Vaibhav V, Nice EC, Baker MS.

Clin Proteomics. 2019 Aug 28;16:34. doi: 10.1186/s12014-019-9255-z. eCollection 2019.

3.

Proteomics Reveals Cell-Surface Urokinase Plasminogen Activator Receptor Expression Impacts Most Hallmarks of Cancer.

Ahn SB, Mohamedali A, Pascovici D, Adhikari S, Sharma S, Nice EC, Baker MS.

Proteomics. 2019 Aug 11:e1900026. doi: 10.1002/pmic.201900026. [Epub ahead of print]

PMID:
31402590
4.

Practical Integration of Multi-Run iTRAQ Data.

Pascovici D, Song X, Wu J, Zaw T, Molloy M.

Methods Mol Biol. 2019;1977:199-215. doi: 10.1007/978-1-4939-9232-4_13.

PMID:
30980330
5.

Proteomes of Leaf-Growing Zones in Rice Genotypes with Contrasting Drought Tolerance.

Wu Y, Mirzaei M, Pascovici D, Haynes PA, Atwell BJ.

Proteomics. 2019 May;19(9):e1800310. doi: 10.1002/pmic.201800310. Epub 2019 Apr 18.

PMID:
30891909
6.

Amyloid β Induces Early Changes in the Ribosomal Machinery, Cytoskeletal Organization and Oxidative Phosphorylation in Retinal Photoreceptor Cells.

Deng L, Pushpitha K, Joseph C, Gupta V, Rajput R, Chitranshi N, Dheer Y, Amirkhani A, Kamath K, Pascovici D, Wu JX, Salekdeh GH, Haynes PA, Graham SL, Gupta VK, Mirzaei M.

Front Mol Neurosci. 2019 Feb 22;12:24. doi: 10.3389/fnmol.2019.00024. eCollection 2019.

7.

Upregulation of Proteolytic Pathways and Altered Protein Biosynthesis Underlie Retinal Pathology in a Mouse Model of Alzheimer's Disease.

Mirzaei M, Pushpitha K, Deng L, Chitranshi N, Gupta V, Rajput R, Mangani AB, Dheer Y, Godinez A, McKay MJ, Kamath K, Pascovici D, Wu JX, Salekdeh GH, Karl T, Haynes PA, Graham SL, Gupta VK.

Mol Neurobiol. 2019 Sep;56(9):6017-6034. doi: 10.1007/s12035-019-1479-4. Epub 2019 Feb 1.

PMID:
30707393
8.

Clinically Relevant Post-Translational Modification Analyses-Maturing Workflows and Bioinformatics Tools.

Pascovici D, Wu JX, McKay MJ, Joseph C, Noor Z, Kamath K, Wu Y, Ranganathan S, Gupta V, Mirzaei M.

Int J Mol Sci. 2018 Dec 20;20(1). pii: E16. doi: 10.3390/ijms20010016. Review.

9.

The Art of Validating Quantitative Proteomics Data.

Handler DC, Pascovici D, Mirzaei M, Gupta V, Salekdeh GH, Haynes PA.

Proteomics. 2018 Dec;18(23):e1800222. doi: 10.1002/pmic.201800222. Epub 2018 Nov 25.

PMID:
30352137
10.

Proteomic phenotyping of metastatic melanoma reveals putative signatures of MEK inhibitor response and prognosis.

Krisp C, Parker R, Pascovici D, Hayward NK, Wilmott JS, Thompson JF, Mann GJ, Long GV, Scolyer RA, Molloy MP.

Br J Cancer. 2018 Sep;119(6):713-723. doi: 10.1038/s41416-018-0227-2. Epub 2018 Aug 17.

11.

iSwathX: an interactive web-based application for extension of DIA peptide reference libraries.

Noor Z, Wu JX, Pascovici D, Mohamedali A, Molloy MP, Baker MS, Ranganathan S.

Bioinformatics. 2019 Feb 1;35(3):538-539. doi: 10.1093/bioinformatics/bty660.

PMID:
30052774
12.

Plasma biomarker proteins for detection of human growth hormone administration in athletes.

Tan SH, Lee A, Pascovici D, Care N, Birzniece V, Ho K, Molloy MP, Khan A.

Sci Rep. 2017 Aug 30;7(1):10039. doi: 10.1038/s41598-017-09968-7.

13.

Improving Protein Detection Confidence Using SWATH-Mass Spectrometry with Large Peptide Reference Libraries.

Wu JX, Pascovici D, Ignjatovic V, Song X, Krisp C, Molloy MP.

Proteomics. 2017 Oct;17(19). doi: 10.1002/pmic.201700174.

PMID:
28834274
14.

Pseudomonas aeruginosa Proteome under Hypoxic Stress Conditions Mimicking the Cystic Fibrosis Lung.

Kamath KS, Krisp C, Chick J, Pascovici D, Gygi SP, Molloy MP.

J Proteome Res. 2017 Oct 6;16(10):3917-3928. doi: 10.1021/acs.jproteome.7b00561. Epub 2017 Aug 31.

PMID:
28832155
15.

A preliminary investigation of short-term cytokine  expression in gingival crevicular fluid secondary to high-level orthodontic forces and the associated root resorption: case series analytical study.

Ahuja R, Almuzian M, Khan A, Pascovici D, Dalci O, Darendeliler MA.

Prog Orthod. 2017 Dec;18(1):23. doi: 10.1186/s40510-017-0177-x. Epub 2017 Aug 7.

16.

Quantitative Age-specific Variability of Plasma Proteins in Healthy Neonates, Children and Adults.

Bjelosevic S, Pascovici D, Ping H, Karlaftis V, Zaw T, Song X, Molloy MP, Monagle P, Ignjatovic V.

Mol Cell Proteomics. 2017 May;16(5):924-935. doi: 10.1074/mcp.M116.066720. Epub 2017 Mar 23.

17.

TMT One-Stop Shop: From Reliable Sample Preparation to Computational Analysis Platform.

Mirzaei M, Pascovici D, Wu JX, Chick J, Wu Y, Cooke B, Haynes P, Molloy MP.

Methods Mol Biol. 2017;1549:45-66.

PMID:
27975283
18.

Blood group antigen expression is involved in C. albicans interaction with buccal epithelial cells.

Everest-Dass AV, Kolarich D, Pascovici D, Packer NH.

Glycoconj J. 2017 Feb;34(1):31-50. doi: 10.1007/s10719-016-9726-7. Epub 2016 Sep 17.

PMID:
27639389
19.

Multiple testing corrections in quantitative proteomics: A useful but blunt tool.

Pascovici D, Handler DC, Wu JX, Haynes PA.

Proteomics. 2016 Sep;16(18):2448-53. doi: 10.1002/pmic.201600044.

PMID:
27461997
20.

Pseudomonas aeruginosa Cell Membrane Protein Expression from Phenotypically Diverse Cystic Fibrosis Isolates Demonstrates Host-Specific Adaptations.

Kamath KS, Pascovici D, Penesyan A, Goel A, Venkatakrishnan V, Paulsen IT, Packer NH, Molloy MP.

J Proteome Res. 2016 Jul 1;15(7):2152-63. doi: 10.1021/acs.jproteome.6b00058. Epub 2016 Jun 9.

PMID:
27246823
21.

Analytical performance of nano-LC-SRM using nondepleted human plasma over an 18-month period.

Song X, Amirkhani A, Wu JX, Pascovici D, Zaw T, Xavier D, Clarke SJ, Molloy MP.

Proteomics. 2016 Aug;16(15-16):2118-27. doi: 10.1002/pmic.201500507. Epub 2016 Jul 25.

PMID:
27233598
22.

Quantitative proteomic analysis of two different rice varieties reveals that drought tolerance is correlated with reduced abundance of photosynthetic machinery and increased abundance of ClpD1 protease.

Wu Y, Mirzaei M, Pascovici D, Chick JM, Atwell BJ, Haynes PA.

J Proteomics. 2016 Jun 30;143:73-82. doi: 10.1016/j.jprot.2016.05.014. Epub 2016 May 16.

PMID:
27195813
23.

SWATH Mass Spectrometry Performance Using Extended Peptide MS/MS Assay Libraries.

Wu JX, Song X, Pascovici D, Zaw T, Care N, Krisp C, Molloy MP.

Mol Cell Proteomics. 2016 Jul;15(7):2501-14. doi: 10.1074/mcp.M115.055558. Epub 2016 May 9.

24.

Induction of virulence factors in Giardia duodenalis independent of host attachment.

Emery SJ, Mirzaei M, Vuong D, Pascovici D, Chick JM, Lacey E, Haynes PA.

Sci Rep. 2016 Feb 12;6:20765. doi: 10.1038/srep20765.

25.

The Hsp90 inhibitor SNX-7081 is synergistic with fludarabine nucleoside via DNA damage and repair mechanisms in human, p53-negative chronic lymphocytic leukemia.

Kaufman KL, Jenkins Y, Alomari M, Mirzaei M, Best OG, Pascovici D, Mactier S, Mulligan SP, Haynes PA, Christopherson RI.

Oncotarget. 2015 Dec 1;6(38):40981-97. doi: 10.18632/oncotarget.5715.

26.

Correction to "Combining Protein Ratio p-Values as a Pragmatic Approach to the Analysis of Multirun iTRAQ Experiments".

Pascovici D, Song X, Solomon PS, Winterberg B, Mirzaei M, Goodchild A, Stanley WC, Liu J, Molloy MP.

J Proteome Res. 2015 Nov 6;14(11):4944. doi: 10.1021/acs.jproteome.5b00897. Epub 2015 Oct 8. No abstract available.

PMID:
26448159
27.

Protein profiles distinguish stable and progressive chronic lymphocytic leukemia.

Huang PY, Mactier S, Armacki N, Giles Best O, Belov L, Kaufman KL, Pascovici D, Mulligan SP, Christopherson RI.

Leuk Lymphoma. 2016 May;57(5):1033-43. doi: 10.3109/10428194.2015.1094692. Epub 2015 Nov 16. Erratum in: Leuk Lymphoma. 2016 May;57(5):I.

PMID:
26422656
28.

Quantitative proteomic analysis of cabernet sauvignon grape cells exposed to thermal stresses reveals alterations in sugar and phenylpropanoid metabolism.

George IS, Pascovici D, Mirzaei M, Haynes PA.

Proteomics. 2015 Sep;15(17):3048-60. doi: 10.1002/pmic.201400541. Epub 2015 Jun 15.

PMID:
25959233
29.

Combining protein ratio p-values as a pragmatic approach to the analysis of multirun iTRAQ experiments.

Pascovici D, Song X, Solomon PS, Winterberg B, Mirzaei M, Goodchild A, Stanley WC, Liu J, Molloy MP.

J Proteome Res. 2015 Feb 6;14(2):738-46. doi: 10.1021/pr501091e. Epub 2015 Jan 13. Erratum in: J Proteome Res. 2015 Nov 6;14(11):4944.

PMID:
25495031
30.

The necrotrophic effector protein SnTox3 re-programs metabolism and elicits a strong defence response in susceptible wheat leaves.

Winterberg B, Du Fall LA, Song X, Pascovici D, Care N, Molloy M, Ohms S, Solomon PS.

BMC Plant Biol. 2014 Aug 15;14:215. doi: 10.1186/s12870-014-0215-5.

31.

Cell surface phenotype profiles distinguish stable and progressive chronic lymphocytic leukemia.

Huang PY, Best OG, Almazi JG, Belov L, Davis ZA, Majid A, Dyer MJ, Pascovici D, Mulligan SP, Christopherson RI.

Leuk Lymphoma. 2014 Sep;55(9):2085-92. doi: 10.3109/10428194.2013.867486. Epub 2014 Jan 24.

PMID:
24289109
32.

Manipulating root water supply elicits major shifts in the shoot proteome.

Mirzaei M, Soltani N, Sarhadi E, George IS, Neilson KA, Pascovici D, Shahbazian S, Haynes PA, Atwell BJ, Salekdeh GH.

J Proteome Res. 2014 Feb 7;13(2):517-26. doi: 10.1021/pr400696u. Epub 2013 Dec 3.

PMID:
24266738
33.

Coverage and consistency: bioinformatics aspects of the analysis of multirun iTRAQ experiments with wheat leaves.

Pascovici D, Gardiner DM, Song X, Breen E, Solomon PS, Keighley T, Molloy MP.

J Proteome Res. 2013 Nov 1;12(11):4870-81. doi: 10.1021/pr400531y. Epub 2013 Sep 20.

PMID:
24015675
34.

Label-free quantitative shotgun proteomics using normalized spectral abundance factors.

Neilson KA, Keighley T, Pascovici D, Cooke B, Haynes PA.

Methods Mol Biol. 2013;1002:205-22. doi: 10.1007/978-1-62703-360-2_17.

PMID:
23625406
35.

Proteomic analysis indicates massive changes in metabolism prior to the inhibition of growth and photosynthesis of grapevine (Vitis vinifera L.) in response to water deficit.

Cramer GR, Van Sluyter SC, Hopper DW, Pascovici D, Keighley T, Haynes PA.

BMC Plant Biol. 2013 Mar 21;13:49. doi: 10.1186/1471-2229-13-49.

36.

Characterization of N- and O-linked glycosylation changes in milk of the tammar wallaby (Macropus eugenii) over lactation.

Wongtrakul-Kish K, Kolarich D, Pascovici D, Joss JL, Deane E, Packer NH.

Glycoconj J. 2013 Jul;30(5):523-36. doi: 10.1007/s10719-012-9452-8. Epub 2012 Oct 10.

PMID:
23053637
37.

Remarkable temporal stability of high-abundance human plasma proteins assessed by targeted mass spectrometry.

Randall SA, McKay MJ, Pascovici D, Mahon K, Horvath L, Clarke SJ, Molloy MP.

Proteomics Clin Appl. 2012 Dec;6(11-12):626-34. doi: 10.1002/prca.201200039. Epub 2012 Nov 8.

PMID:
23002053
38.

Differential regulation of aquaporins, small GTPases and V-ATPases proteins in rice leaves subjected to drought stress and recovery.

Mirzaei M, Pascovici D, Atwell BJ, Haynes PA.

Proteomics. 2012 Mar;12(6):864-77. doi: 10.1002/pmic.201100389.

PMID:
22539437
39.

PloGO: plotting gene ontology annotation and abundance in multi-condition proteomics experiments.

Pascovici D, Keighley T, Mirzaei M, Haynes PA, Cooke B.

Proteomics. 2012 Feb;12(3):406-10. doi: 10.1002/pmic.201100445. Epub 2012 Jan 18.

PMID:
22213732
40.

Shotgun proteomic analysis of long-distance drought signaling in rice roots.

Mirzaei M, Soltani N, Sarhadi E, Pascovici D, Keighley T, Salekdeh GH, Haynes PA, Atwell BJ.

J Proteome Res. 2012 Jan 1;11(1):348-58. doi: 10.1021/pr2008779. Epub 2011 Dec 2.

PMID:
22047206
41.

Differential proteomic response of rice (Oryza sativa) leaves exposed to high- and low-temperature stress.

Gammulla CG, Pascovici D, Atwell BJ, Haynes PA.

Proteomics. 2011 Jul;11(14):2839-50. doi: 10.1002/pmic.201100068. Epub 2011 Jun 22.

PMID:
21695689
42.

Shotgun proteomic profiling of five species of New Zealand Pachycladon.

Mirzaei M, Pascovici D, Keighley T, George I, Voelckel C, Heenan PB, Haynes PA.

Proteomics. 2011 Jan;11(1):166-71. doi: 10.1002/pmic.200900816. Epub 2010 Dec 6. No abstract available.

PMID:
21182204
43.

Differential metabolic response of cultured rice (Oryza sativa) cells exposed to high- and low-temperature stress.

Gammulla CG, Pascovici D, Atwell BJ, Haynes PA.

Proteomics. 2010 Aug;10(16):3001-19. doi: 10.1002/pmic.201000054.

PMID:
20645384
44.

Transcript and protein profiling identify candidate gene sets of potential adaptive significance in New Zealand Pachycladon.

Voelckel C, Mirzaei M, Reichelt M, Luo Z, Pascovici D, Heenan PB, Schmidt S, Janssen B, Haynes PA, Lockhart PJ.

BMC Evol Biol. 2010 May 20;10:151. doi: 10.1186/1471-2148-10-151.

45.

Improved membrane proteomics coverage of human embryonic stem cells by peptide IPG-IEF.

McQuade LR, Schmidt U, Pascovici D, Stojanov T, Baker MS.

J Proteome Res. 2009 Dec;8(12):5642-9. doi: 10.1021/pr900597s.

PMID:
19899800
46.

Analysis of human leukaemias and lymphomas using extensive immunophenotypes from an antibody microarray.

Belov L, Mulligan SP, Barber N, Woolfson A, Scott M, Stoner K, Chrisp JS, Sewell WA, Bradstock KF, Bendall L, Pascovici DS, Thomas M, Erber W, Huang P, Sartor M, Young GA, Wiley JS, Juneja S, Wierda WG, Green AR, Keating MJ, Christopherson RI.

Br J Haematol. 2006 Oct;135(2):184-97. Epub 2006 Aug 25.

PMID:
16939496

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