Emine Gokce

Works (4)

Updated: April 23rd, 2025 19:31

2013 article

Monolignol Pathway 4-Coumaric Acid:Coenzyme A Ligases in Populus. trichocarpa: Novel Specificity, Metabolic Regulation, and Simulation of Coenzyme A Ligation Fluxes 

Chen, H.-C., Song, J., Williams, C. M., Shuford, C. M., Liu, J., Wang, J. P., … Chiang, V. L. (2013, January 23). PLANT PHYSIOLOGY, Vol. 161, pp. 1501–1516.

By: H. Chen n, J. Song n, C. Williams n , C. Shuford n, J. Liu  n, J. Wang n , Q. Li n, R. Shi n ...

Contributors: H. Chen n, J. Song n, C. Williams n , C. Shuford n, J. Liu  n, J. Wang n , Q. Li n, R. Shi n ...

MeSH headings : Allosteric Regulation / drug effects; Binding Sites; Biosynthetic Pathways / drug effects; Blotting, Western; Caffeic Acids / pharmacology; Coenzyme A / metabolism; Coenzyme A Ligases / antagonists & inhibitors; Coenzyme A Ligases / metabolism; Computer Simulation; Coumaric Acids / chemistry; Coumaric Acids / metabolism; Coumaric Acids / pharmacology; Kinetics; Lignin / biosynthesis; Lignin / chemistry; Phenylpropionates / metabolism; Phosphoproteins / metabolism; Phosphorylation / drug effects; Plant Extracts; Populus / drug effects; Populus / enzymology; Propionates; Proteomics; Recombinant Fusion Proteins / metabolism; Sequence Homology, Amino Acid; Substrate Specificity / drug effects; Xylem / drug effects; Xylem / metabolism
topics (OpenAlex): Biochemical and biochemical processes; Plant biochemistry and biosynthesis; Plant Gene Expression Analysis
TL;DR: Evidence is presented of two monolignol 4CLs, Ptr4CL3 and P tr4CL5, in Populus trichocarpa that act to mitigate the inhibition by caffeic acid to maintain a proper ligation flux and coenzyme A flux with novel specificity. (via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2012 article

In-Depth Analysis of the Magnaporthe oryzae Conidial Proteome

Gokce, E., Franck, W. L., Oh, Y., Dean, R. A., & Muddiman, D. C. (2012, October 8). Journal of Proteome Research, Vol. 11, pp. 5827–5835.

By: E. Gokce n, W. Franck n, Y. Oh n, R. Dean n  & D. Muddiman n 

author keywords: proteomics; mass spectrometry; Magnaporthe oryzae; FASP; statistical tests; differential protein expression
MeSH headings : Cell Nucleus / chemistry; Chemical Fractionation / methods; Chromatography, Liquid / methods; Cytoplasm / chemistry; Fungal Proteins / analysis; Fungal Proteins / chemistry; Magnaporthe / chemistry; Mass Spectrometry / methods; Nanotechnology; Nuclear Proteins / analysis; Nuclear Proteins / chemistry; Peptides / analysis; Peptides / chemistry; Proteome / analysis; Proteome / chemistry; Reproducibility of Results; Sensitivity and Specificity; Spores, Fungal / chemistry; Time Factors
topics (OpenAlex): Fungal and yeast genetics research; Mycotoxins in Agriculture and Food; Advanced Proteomics Techniques and Applications
TL;DR: The identification of 2912 conidial proteins at a 1% protein false discovery rate (FDR) is reported and the most extensive study performed on M. oryzae conidia to date is presented, suggesting the detected proteins build a representative portion of the predicted proteome. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2011 article

Evaluation of Normalization Methods on GeLC-MS/MS Label-Free Spectral Counting Data to Correct for Variation during Proteomic Workflows

Gokce, E., Shuford, C. M., Franck, W. L., Dean, R. A., & Muddiman, D. C. (2011, September 23). Journal of the American Society for Mass Spectrometry, Vol. 22, pp. 2199–2208.

By: E. Gokce n, C. Shuford n, W. Franck n, R. Dean n  & D. Muddiman n 

author keywords: Label-free; Proteomics; Mass spectrometry; Total spectral count normalization; Normalized spectral abundance factor; Quantification; Spectral counting; Significance test; Fold-change; GeLC-MS/MS; nanoLC-MS; Orbitrap XL
MeSH headings : Animals; Chickens; Chromatography, Gel / methods; Fungal Proteins / analysis; Fungal Proteins / chemistry; Horses; Myoglobin / analysis; Myoglobin / chemistry; Ovalbumin / analysis; Ovalbumin / chemistry; Peptide Mapping / methods; Proteomics / methods; Proteomics / standards; Regression Analysis; Reproducibility of Results; Tandem Mass Spectrometry / methods
topics (OpenAlex): Advanced Proteomics Techniques and Applications; Mass Spectrometry Techniques and Applications; Metabolomics and Mass Spectrometry Studies
TL;DR: The correlation between SpCs of the same proteins across the different data sets was investigated and it was reported that TSpC normalization and NSAF normalization yielded almost ideal slopes of unity for normalized SpC versus average normalized SpCs, while NSP did not afford effective corrections of the unnormalized data. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2011 article

Increasing proteome coverage with offline RP HPLC coupled to online RP nanoLC–MS

Gokce, E., Andrews, G. L., Dean, R. A., & Muddiman, D. C. (2011, February 5). Journal of Chromatography B, Vol. 879, pp. 610–614.

By: E. Gokce n, G. Andrews n, R. Dean n  & D. Muddiman n 

author keywords: RP HPLC; Fractionation methods; Proteomics; Mass spectrometry
MeSH headings : Chromatography, High Pressure Liquid / methods; Chromatography, Reverse-Phase / methods; Mass Spectrometry / methods; Nanotechnology; Peptide Fragments / analysis; Peptide Fragments / metabolism; Proteome / analysis; Proteome / metabolism; Proteomics / methods; Saccharomyces cerevisiae Proteins / analysis; Saccharomyces cerevisiae Proteins / metabolism
topics (OpenAlex): Advanced Proteomics Techniques and Applications; Mass Spectrometry Techniques and Applications; Metabolomics and Mass Spectrometry Studies
TL;DR: The success of performing offline reversed phase high pressure liquid chromatography (HPLC) fractionation on a C18 2.0 mm×150 mm column at the peptide level with microliter per minute flow rates prior to online nano-flow reversed phase liquid Chromatography mass spectrometry (nanoLC-MS) using the well-studied fungus Saccharomyces cerevisiae is reported. (via Semantic Scholar)
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Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

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