Rovshan Sadygov, PhD

  • 4348 Citations
  • 21 h-Index
1991 …2020
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Research Output 1991 2019

  • 4348 Citations
  • 21 h-Index
  • 56 Article
  • 1 Conference contribution
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Article
2019

Another look at matrix correlations

Borzou, A., Yousefi, R. & Sadygov, R. G., Nov 1 2019, In : Bioinformatics (Oxford, England). 35, 22, p. 4748-4753 6 p.

Research output: Contribution to journalArticle

Correlation Matrix
Biomolecules
Boidae
Biological Phenomena
Proteome

Calculation of the protein turnover rate using the number of incorporated 2H atoms and proteomics analysis of a single labeled sample

Ilchenko, S., Haddad, A., Sadana, P., Recchia, F. A., Sadygov, R. & Kasumov, T., Jan 1 2019, (Accepted/In press) In : Analytical Chemistry.

Research output: Contribution to journalArticle

Rate constants
Atoms
Proteins
Proteome
Labeling

Proteome dynamics from heavy water metabolic labeling and peptide tandem mass spectrometry

Borzou, A., Sadygov, V. R., Zhang, W. & Sadygov, R., Nov 1 2019, In : International Journal of Mass Spectrometry. 445, 116194.

Research output: Contribution to journalArticle

proteome
Deuterium Oxide
Heavy water
heavy water
Proteome
2018
5 Citations (Scopus)

D2ome, Software for in Vivo Protein Turnover Analysis Using Heavy Water Labeling and LC-MS, Reveals Alterations of Hepatic Proteome Dynamics in a Mouse Model of NAFLD

Sadygov, R., Avva, J., Rahman, M., Lee, K., Ilchenko, S., Kasumov, T. & Borzou, A., Nov 2 2018, In : Journal of Proteome Research. 17, 11, p. 3740-3748 9 p.

Research output: Contribution to journalArticle

Deuterium Oxide
Proteome
Labeling
Software
Liver
5 Citations (Scopus)

Hepatic mitochondrial defects in a nonalcoholic fatty liver disease mouse model are associated with increased degradation of oxidative phosphorylation subunits

Lee, K., Haddad, A., Osme, A., Kim, C., Borzou, A., Ilchenko, S., Allende, D., Dasarathy, S., McCullough, A., Sadygov, R. & Kasumov, T., Dec 1 2018, In : Molecular and Cellular Proteomics. 17, 12, p. 2371-2386 16 p.

Research output: Contribution to journalArticle

Oxidative Phosphorylation
Liver
Degradation
Defects
Nutrition
4 Citations (Scopus)

Poisson Model to Generate Isotope Distribution for Biomolecules

Sadygov, R., Jan 5 2018, In : Journal of Proteome Research. 17, 1, p. 751-758 8 p.

Research output: Contribution to journalArticle

Biomolecules
Isotopes
Binomial Distribution
Protein Databases
Mass spectrometry
2017
4 Citations (Scopus)

Increased serotransferrin and ceruloplasmin turnover in diet-controlled patients with type 2 diabetes

Golizeh, M., Lee, K., Ilchenko, S., Ösme, A., Bena, J., Sadygov, R., Kashyap, S. & Kasumov, T., Dec 1 2017, In : Free Radical Biology and Medicine. 113, p. 461-469 9 p.

Research output: Contribution to journalArticle

Ceruloplasmin
Transferrin
Nutrition
Medical problems
Type 2 Diabetes Mellitus
13 Citations (Scopus)

PPARgamma agonists rescue increased phosphorylation of FGF14 at S226 in the Tg2576 mouse model of Alzheimer's disease

Hsu, W. C. J., Wildburger, N. C., Haidacher, S. J., Nenov, M. N., Folorunso, O., Singh, A. K., Chesson, B. C., Franklin, W. F., Cortez, I., Sadygov, R., Dineley, K., Rudra, J. S., Taglialatela, G., Lichti, C. F., Denner, L. & Laezza, F., Sep 1 2017, In : Experimental Neurology. 295, p. 1-17 17 p.

Research output: Contribution to journalArticle

rosiglitazone
PPAR gamma
Alzheimer Disease
Dentate Gyrus
Phosphorylation
1 Citation (Scopus)

Predicting the protein half-life in tissue from its cellular properties

Rahman, M. & Sadygov, R., Jul 1 2017, In : PLoS One. 12, 7, e0180428.

Research output: Contribution to journalArticle

half life
Half-Life
Tissue
Proteins
proteins
2016
10 Citations (Scopus)

Gaussian Process Modeling of Protein Turnover

Rahman, M., Previs, S. F., Kasumov, T. & Sadygov, R., Jul 1 2016, In : Journal of Proteome Research. 15, 7, p. 2115-2122 8 p.

Research output: Contribution to journalArticle

Labeling
Liver
Proteins
Stochastic models
Deuterium Oxide
13 Citations (Scopus)

Integrative proteomic analysis reveals reprograming tumor necrosis factor signaling in epithelial mesenchymal transition

Zhao, Y., Tian, B., Sadygov, R., Zhang, Y. & Brasier, A. R., Oct 4 2016, In : Journal of Proteomics. 148, p. 126-138 13 p.

Research output: Contribution to journalArticle

Epithelial-Mesenchymal Transition
Proteomics
Tumor Necrosis Factor-alpha
Transforming Growth Factor beta
Pulmonary diseases
7 Citations (Scopus)

Proteome Dynamics Reveals Pro-Inflammatory Remodeling of Plasma Proteome in a Mouse Model of NAFLD

Li, L., Bebek, G., Previs, S. F., Smith, J. D., Sadygov, R., McCullough, A. J., Willard, B. & Kasumov, T., Sep 2 2016, In : Journal of Proteome Research. 15, 9, p. 3388-3404 17 p.

Research output: Contribution to journalArticle

Proteome
Liver
Plasmas
Nutrition
Peroxisome Proliferator-Activated Receptors
2015
15 Citations (Scopus)

Mixed-effects model of epithelial-mesenchymal transition reveals rewiring of signaling networks

Desai, P., Yang, J., Tian, B., Sun, H., Kalita, M., Ju, H., Paulucci-Holthauzen, A., Zhao, Y., Brasier, A. R. & Sadygov, R., Jul 1 2015, In : Cellular Signalling. 27, 7, p. 1413-1425 13 p.

Research output: Contribution to journalArticle

Epithelial-Mesenchymal Transition
HSP27 Heat-Shock Proteins
Airway Remodeling
Glycogen Synthase Kinase 3
Vitamin K 3
6 Citations (Scopus)

Tracer-based estimates of protein flux in cases of incomplete product renewal: Evidence and implications of heterogeneity in collagen turnover

Zhou, H., Wang, S. P., Herath, K., Kasumov, T., Sadygov, R., Previs, S. F. & Kelley, D. E., Jul 15 2015, In : American Journal of Physiology - Endocrinology and Metabolism. 309, 2, p. E115-E121

Research output: Contribution to journalArticle

Collagen
Product Labeling
Proteins
Amino Acids
Water
3 Citations (Scopus)

Using SEQUEST with Theoretically Complete Sequence Databases

Sadygov, R., Nov 1 2015, In : Journal of the American Society for Mass Spectrometry. 26, 11, p. 1858-1864 7 p.

Research output: Contribution to journalArticle

Databases
Peptides
Protein Databases
Proteins
Chemical analysis
2014
20 Citations (Scopus)

Cardiac mitochondrial proteome dynamics with heavy water reveals stable rate of mitochondrial protein synthesis in heart failure despite decline in mitochondrial oxidative capacity

Shekar, K. C., Li, L., Dabkowski, E. R., Xu, W., Ribeiro, R. F., Hecker, P. A., Recchia, F. A., Sadygov, R., Willard, B., Kasumov, T. & Stanley, W. C., Oct 1 2014, In : Journal of Molecular and Cellular Cardiology. 75, p. 88-97 10 p.

Research output: Contribution to journalArticle

Mitochondrial Dynamics
Deuterium Oxide
Mitochondrial Proteins
Proteome
Heart Failure
39 Citations (Scopus)

Cognitive enhancing treatment with a PPARγ agonist normalizes dentate granule cell presynaptic function in Tg2576 APP mice

Nenov, M. N., Laezza, F., Haidacher, S. J., Zhao, Y., Sadygov, R., Starkey, J., Spratt, H., Luxon, B. A., Dineley, K. & Denner, L., 2014, In : Journal of Neuroscience. 34, 3, p. 1028-1036 9 p.

Research output: Contribution to journalArticle

PPAR gamma
Dentate Gyrus
Alzheimer Disease
Therapeutics
SNARE Proteins
21 Citations (Scopus)

The cancer drug tamoxifen: A potential therapeutic treatment for spinal cord injury

Guptarak, J., Wiktorowicz, J. E., Sadygov, R., Zivadinovic, D., Paulucci-Holthauzen, A. A., Vergara, L. & Nesic, O., Feb 1 2014, In : Journal of Neurotrauma. 31, 3, p. 268-283 16 p.

Research output: Contribution to journalArticle

Tamoxifen
Spinal Cord Injuries
Aquaporin 4
Neuroglia
Pharmaceutical Preparations
5 Citations (Scopus)
Singular value decomposition
Cations
Peptides
Phosphorylation
Covariance matrix
2013
41 Citations (Scopus)

Assessment of cardiac proteome dynamics with heavy water: Slower protein synthesis rates in interfibrillar than subsarcolemmal mitochondria

Kasumov, T., Dabkowski, E. R., Shekar, K. C., Li, L., Ribeiro, R. F., Walsh, K., Previs, S. F., Sadygov, R., Willard, B. & Stanley, W. C., 2013, In : American Journal of Physiology - Heart and Circulatory Physiology. 304, 9

Research output: Contribution to journalArticle

Deuterium Oxide
Proteome
Mitochondria
Proteins
Amino Acids
16 Citations (Scopus)

Detection of structural and metabolic changes in traumatically injured hippocampus by quantitative differential proteomics

Wu, P., Zhao, Y., Haidacher, S. J., Wang, E., Parsley, M. O., Gao, J., Sadygov, R., Starkey, J., Luxon, B. A., Spratt, H., Dewitt, D., Prough, D. & Denner, L., May 1 2013, In : Journal of Neurotrauma. 30, 9, p. 775-788 14 p.

Research output: Contribution to journalArticle

Proteomics
Hippocampus
Calcineurin
Down-Regulation
Knowledge Bases
1 Citation (Scopus)

Use of theoretical peptide distributions in phosphoproteome analysis

Kalita, M., Kasumov, T., Brasier, A. R. & Sadygov, R., Jul 5 2013, In : Journal of Proteome Research. 12, 7, p. 3207-3214 8 p.

Research output: Contribution to journalArticle

Peptides
Proteomics
Mass spectrometers
Measurement errors
Noise
2012
74 Citations (Scopus)

Cognitive enhancement with rosiglitazone links the hippocampal PPARγ and ERK MAPK signaling pathways

Denner, L., Rodriguez-Rivera, J., Haidacher, S. J., Jahrling, J. B., Carmical, J. R., Hernandez, C. M., Zhao, Y., Sadygov, R., Starkey, J., Spratt, H., Luxon, B. A., Wood, T. & Dineley, K., Nov 21 2012, In : Journal of Neuroscience. 32, 47, p. 16725-16735 11 p.

Research output: Contribution to journalArticle

rosiglitazone
Peroxisome Proliferator-Activated Receptors
Extracellular Signal-Regulated MAP Kinases
Mitogen-Activated Protein Kinases
Protein Kinases
4 Citations (Scopus)

Generalized linear and mixed models for label-free shotgun proteomics

Leitch, M. C., Mitra, I. & Sadygov, R., 2012, In : Statistics and its Interface. 5, 1, p. 89-98 10 p.

Research output: Contribution to journalArticle

Proteomics
Mixed Model
Generalized Linear Model
Labels
Statistical methods
8 Citations (Scopus)

Improved mass defect model for theoretical tryptic peptides

Mitra, I., Nefedov, A. V., Brasier, A. R. & Sadygov, R., Mar 20 2012, In : Analytical Chemistry. 84, 6, p. 3026-3032 7 p.

Research output: Contribution to journalArticle

Defects
Peptides
Amino Acids
Mass spectrometers
Bioinformatics

Plasma proteome dynamics: analysis of lipoproteins and acute phase response proteins with 2H2O metabolic labeling.

Li, L., Willard, B., Rachdaoui, N., Kirwan, J. P., Sadygov, R. G., Stanley, W. C., Previs, S., McCullough, A. J. & Kasumov, T., Jul 2012, In : Molecular & cellular proteomics : MCP. 11, 7

Research output: Contribution to journalArticle

Acute-Phase Reaction
Acute-Phase Proteins
Proteome
Dynamic analysis
Labeling
27 Citations (Scopus)

Plasma proteome dynamics: Analysis of lipoproteins and acute phase response proteins with 2H2O metabolic labeling

Li, N., Willard, B., Rachdaoui, N., Kirwan, J. P., Sadygov, R., Stanley, W. C., Previs, S., McCullough, A. J. & Kasumov, T., Jul 2012, In : Molecular and Cellular Proteomics. 11, 7

Research output: Contribution to journalArticle

Acute-Phase Reaction
Acute-Phase Proteins
Proteome
Dynamic analysis
Labeling
2011
9 Citations (Scopus)

A parallel method for enumerating amino acid compositions and masses of all theoretical peptides

Nefedov, A. V. & Sadygov, R., Nov 7 2011, In : BMC Bioinformatics. 12, 432.

Research output: Contribution to journalArticle

Parallel Methods
Peptides
Amino Acids
Amino acids
Enumeration
2 Citations (Scopus)

Bioinformatics tools for mass spectrometry-based high-throughput quantitative proteomics platforms

Nefedov, A. V., Gilski, M. J. & Sadygov, R., Jul 2011, In : Current Proteomics. 8, 2, p. 125-137 13 p.

Research output: Contribution to journalArticle

Bioinformatics
Computational Biology
Proteomics
Mass spectrometry
Mass Spectrometry
20 Citations (Scopus)

Examining troughs in the mass distribution of all theoretically possible tryptic peptides

Nefedov, A. V., Mitra, I., Brasier, A. R. & Sadygov, R., Sep 2 2011, In : Journal of Proteome Research. 10, 9, p. 4150-4157 8 p.

Research output: Contribution to journalArticle

Peptides
Chemical analysis
Amino Acids
Proteomics
Mass Spectrometry
38 Citations (Scopus)

Measuring protein synthesis using metabolic 2H labeling, high-resolution mass spectrometry, and an algorithm

Kasumov, T., Ilchenko, S., Li, L., Rachdaoui, N., Sadygov, R., Willard, B., McCullough, A. J. & Previs, S., May 1 2011, In : Analytical Biochemistry. 412, 1, p. 47-55 9 p.

Research output: Contribution to journalArticle

Labeling
Mass spectrometry
Mass Spectrometry
Amino Acids
Body Water
5 Citations (Scopus)

SVM model for quality assessment of medium resolution mass spectra from 18O-water labeling experiments

Nefedov, A. V., Gilski, M. J. & Sadygov, R., Apr 1 2011, In : Journal of Proteome Research. 10, 4, p. 2095-2103 9 p.

Research output: Contribution to journalArticle

Mass Media
Labeling
Support vector machines
Artifacts
Classifiers
2010
32 Citations (Scopus)

Altered retinoic acid metabolism in diabetic mouse kidney identified by 18O isotopic labeling and 2D mass spectrometry

Starkey, J., Zhao, Y., Sadygov, R., Haidacher, S. J., S.LeJeune, W., Dey, N., Luxon, B. A., Kane, M. A., Napoli, J. L., Denner, L. & Tilton, R., 2010, In : PLoS One. 5, 6, e11095.

Research output: Contribution to journalArticle

retinoic acid
Tretinoin
Metabolism
Labeling
Mass spectrometry
16 Citations (Scopus)

Using power spectrum analysis to evaluate 18o-water labeling data acquired from low resolution mass spectrometers

Sadygov, R., Zhao, Y., Haidacher, S. J., Starkey, J., Tilton, R. & Denner, L., Aug 6 2010, In : Journal of Proteome Research. 9, 8, p. 4306-4312 7 p.

Research output: Contribution to journalArticle

Mass spectrometers
Power spectrum
Spectrum analysis
Labeling
Spectrum Analysis
2009
26 Citations (Scopus)

A new probabilistic database search algorithm for ETD spectra

Sadygov, R., Good, D. M., Swaney, D. L. & Coon, J. J., Jun 5 2009, In : Journal of Proteome Research. 8, 6, p. 3198-3205 8 p.

Research output: Contribution to journalArticle

Databases
Electrons
Search Engine
Search engines
Peptides
2008
15 Citations (Scopus)
Learning algorithms
Signal processing
Discriminant analysis
Peptides
Electrons
2007
10 Citations (Scopus)

Assigning in vivo carbamylation and acetylation in human lens proteins using tandem mass spectrometry and database searching

Park, Z. Y., Sadygov, R., Clark, J. M., Clark, J. I. & Yates, J. R., Jan 1 2007, In : International Journal of Mass Spectrometry. 259, 1-3, p. 161-173 13 p.

Research output: Contribution to journalArticle

acetylation
Acetylation
Crystallins
Peptides
peptides
2006
27 Citations (Scopus)

Central limit theorem as an approximation for intensity-based scoring function

Sadygov, R., Wohlschlegel, J., Park, S. K., Xu, T. & Yates, J. R., Jan 1 2006, In : Analytical Chemistry. 78, 1, p. 89-95 7 p.

Research output: Contribution to journalArticle

Correlation methods
Peptides
Ions
Proteins
Amino Acids
70 Citations (Scopus)

ChromAlign: A two-step algorithmic procedure for time alignment of three-dimensional LC-MS chromatographic surfaces

Sadygov, R., Maroto, F. M. & Hühmer, A. F. R., Dec 15 2006, In : Analytical Chemistry. 78, 24, p. 8207-8217 11 p.

Research output: Contribution to journalArticle

Cerebrospinal fluid
T-cells
Complex Mixtures
Dynamic programming
Fast Fourier transforms
2004
1810 Citations (Scopus)

A model for random sampling and estimation of relative protein abundance in shotgun proteomics

Liu, H., Sadygov, R. & Yates, J. R., Jul 15 2004, In : Analytical Chemistry. 76, 14, p. 4193-4201 9 p.

Research output: Contribution to journalArticle

Sampling
Proteins
Ions
Peptides
Liquid chromatography
296 Citations (Scopus)

Large-scale database searching using tandem mass spectra: looking up the answer in the back of the book.

Sadygov, R., Cociorva, D. & Yates, J. R., Dec 2004, In : Nat Methods. 1, 3, p. 195-202 8 p.

Research output: Contribution to journalArticle

Databases
Proteomics
Peptides
Proteins
236 Citations (Scopus)

MS1, MS2, and SQT - Three unified, compact, and easily parsed file formats for the storage of shotgun proteomic spectra and identifications

McDonald, W. H., Tabb, D. L., Sadygov, R., MacCoss, M. J., Venable, J., Graumann, J., Johnson, J. R., Cociorva, D. & Yates, J. R., 2004, In : Rapid Communications in Mass Spectrometry. 18, 18, p. 2162-2168 7 p.

Research output: Contribution to journalArticle

Data mining
Data storage equipment
Proteomics
112 Citations (Scopus)

Statistical Models for Protein Validation Using Tandem Mass Spectral Data and Protein Amino Acid Sequence Databases

Sadygov, R., Liu, H. & Yates, J. R., Mar 15 2004, In : Analytical Chemistry. 76, 6, p. 1664-1671 8 p.

Research output: Contribution to journalArticle

Amino Acids
Proteins
Peptides
Bins
Identification (control systems)
2003
233 Citations (Scopus)

A Correlation Algorithm for the Automated Quantitative Analysis of Shotgun Proteomics Data

MacCoss, M. J., Wu, C. C., Liu, H., Sadygov, R. & Yates, J. R., Dec 15 2003, In : Analytical Chemistry. 75, 24, p. 6912-6921 10 p.

Research output: Contribution to journalArticle

Mass spectrometry
Ions
Peptides
Systematic errors
Chemical analysis
167 Citations (Scopus)
Identification (control systems)
Peptides
Proteins
Ions
Peptide Hydrolases
2002
174 Citations (Scopus)

Code developments to improve the efficiency of automated MS/MS spectra interpretation

Sadygov, R., Eng, J., Durr, E., Saraf, A., McDonald, H., MacCoss, M. J. & Yates, J. R., May 2002, In : Journal of Proteome Research. 1, 3, p. 211-215 5 p.

Research output: Contribution to journalArticle

Ions
Proteins
Software
Protein Databases
Research Personnel
3 Citations (Scopus)
Bosons
photosynthesis
Photosynthesis
polarization (charge separation)
baths
510 Citations (Scopus)

Shotgun identification of protein modifications from protein complexes and lens tissue

MacCoss, M. J., McDonald, W. H., Saraf, A., Sadygov, R., Clark, J. M., Tasto, J. J., Gould, K. L., Wolters, D., Washburn, M., Weiss, A., Clark, J. I. & Yates, J. R., Jun 11 2002, In : Proceedings of the National Academy of Sciences of the United States of America. 99, 12, p. 7900-7905 6 p.

Research output: Contribution to journalArticle

Crystallins
Firearms
Proteins
Post Translational Protein Processing
Translational Protein Modification
1999
35 Citations (Scopus)

Unusual conical intersections in the Jahn-Teller effect: The electronically excited states of Li3

Sadygov, R. & Yarkony, D. R., Feb 22 1999, In : Journal of Chemical Physics. 110, 8, p. 3639-3642 4 p.

Research output: Contribution to journalArticle

Jahn-Teller effect
Excited states
intersections
excitation
loci
1998
79 Citations (Scopus)
Poisson equation
intersections
Derivatives
Potential energy surfaces
triatomic molecules