Mark Berjanskii - Academic Portfolio

#44

The Natural Products Magnetic Resonance Database (NP-MRD) for 2025.

Authors: Wishart DS; Sajed T; Pin M; Poynton EF; Goel B; Lee BL; Guo AC; Saha S; Sayeeda Z; Han S; Berjanskii M; Peters H; Oler E; Gautam V; Jordan T; Kim J; Ledingham B; Tretter ZM; Koller JT; Shreffler HA; Stillwell LR; Jystad AM; Govind N; Bade JL; Sumner LW; Linington RG; Cort JR

Year: 2025

Journal/Conference: Nucleic acids research

Citations: 4

Categories: NMR Spectroscopy Metabolomics Chemical Shifts Prediction Computational Biology

More details Google Scholar Pubmed: 39574402 DOI: 10.1093/nar/gkae1067

#41

Accurate Prediction of (1)H NMR Chemical Shifts of Small Molecules Using Machine Learning.

Authors: Sajed T; Sayeeda Z; Lee BL; Berjanskii M; Wang F; Gautam V; Wishart DS

Year: 2024

Journal/Conference: Metabolites

Citations: 8

Categories: Metabolomics Chemical Shifts Prediction

More details Google Scholar Pubmed: 38786767 DOI: 10.3390/metabo14050290

#37

MagMet: A fully automated web server for targeted nuclear magnetic resonance metabolomics of plasma and serum.

Authors: Rout M; Lipfert M; Lee BL; Berjanskii M; Assempour N; Fresno RV; Cayuela AS; Dong Y; Johnson M; Shahin H; Gautam V; Sajed T; Oler E; Peters H; Mandal R; Wishart DS

Year: 2023

Journal/Conference: Magnetic resonance in chemistry : MRC

Citations: 20

Categories: NMR Spectroscopy Metabolomics Chemical Computational Biology

More details Google Scholar Pubmed: 37265034 DOI: 10.1002/mrc.5371

#42

Rapid and reliable protein structure determination via chemical shift threading

Authors: NE Hafsa, MV Berjanskii, D Arndt, DS Wishart

Year: 2018

Journal/Conference: Journal of Biomolecular NMR 70, 33-51

Citations: 6

Categories: Protein Structure Chemical

More details Google Scholar Pubmed

#63

Unraveling the meaning of chemical shifts in protein NMR

Authors: MV Berjanskii, DS Wishart

Year: 2017

Journal/Conference: Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics (11)-

Citations: 41

Categories: Chemical Shifts

More details Google Scholar Pubmed DOI: 10.1016/S1570963917301528

#40

A robust algorithm for optimizing protein structures with NMR chemical shifts

Authors: M Berjanskii, D Arndt, Y Liang, DS Wishart

Year: 2015

Journal/Conference: Journal of biomolecular NMR 63, 255-264

Citations: 11

Categories: Chemical Shifts

More details Google Scholar Pubmed

#64

A simple method to measure protein side-chain mobility using NMR chemical shifts.

Authors: Berjanskii MV; Wishart DS

Year: 2013

Journal/Conference: Journal of the American Chemical Society

Citations: 40

Categories: Protein Structure and Dynamics NMR Spectroscopy Protein Structure Chemical Shifts Proteins Protein Conformation Nuclear Magnetic Resonance, Biomolecular Biomolecular NMR

More details Google Scholar Pubmed: 24032347 DOI: 10.1021/ja407509z

#20

Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures

Authors: M Berjanskii, J Zhou, Y Liang, G Lin, DS Wishart

Year: 2012

Journal/Conference: Journal of biomolecular NMR 53, 167-180

Citations: 75

Categories: NMR Spectroscopy Structural Biology Protein Structure NMR Technology Proteins Protein Conformation Biomolecular NMR Protein Dynamics Protein Folding Structural Bioinformatics

More details Google Scholar Pubmed

#34

Solution NMR of a 463-residue phosphohexomutase: domain 4 mobility, substates, and phosphoryl transfer defect

Authors: AVS Sarma, A Anbanandam, A Kelm, R Mehra-Chaudhary, Y Wei, P Qin, ...

Year: 2012

Journal/Conference: Biochemistry 51 (3), 807-819

Citations: 25

Categories: NMR Spectroscopy NMR Technology Biomolecular NMR

More details Google Scholar Pubmed DOI: 10.1021/bi201609n

#16

PROSESS: a protein structure evaluation suite and server

Authors: M Berjanskii, Y Liang, J Zhou, P Tang, P Stothard, Y Zhou, J Cruz, ...

Year: 2010

Journal/Conference: Nucleic acids research 38 (suppl_2), W633-W640

Citations: 110

Categories: Protein Structure

More details Google Scholar Pubmed DOI: 10.1093/nar/W633/1104830

#21

GeNMR: a web server for rapid NMR-based protein structure determination

Authors: M Berjanskii, P Tang, J Liang, JA Cruz, J Zhou, Y Zhou, E Bassett, ...

Year: 2009

Journal/Conference: Nucleic acids research 37 (suppl_2), W670-W677

Citations: 0

Categories: Protein Structure

More details Google Scholar Pubmed DOI: 10.1093/nar/W670/1126378

#13

Application of the random coil index to studying protein flexibility

Authors: MV Berjanskii, DS Wishart

Year: 2008

Journal/Conference: Journal of biomolecular NMR 40, 31-48

Citations: 147

Categories: Flexibility

More details Google Scholar

#12

CS23D: a web server for rapid protein structure generation using NMR chemical shifts and sequence data

Authors: DS Wishart, D Arndt, M Berjanskii, P Tang, J Zhou, G Lin

Year: 2008

Journal/Conference: Nucleic acids research 36 (suppl_2), W496-W502

Citations: 233

Categories: Protein Structure Chemical Shifts

More details Google Scholar

#15

PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation

Authors: S Montgomerie, JA Cruz, S Shrivastava, D Arndt, M Berjanskii, DS Wishart

Year: 2008

Journal/Conference: Nucleic acids research 36 (suppl_2), W202-W209

Citations: 0

Categories: Protein Structure Prediction

More details Google Scholar Pubmed DOI: 10.1093/nar/W202/2506231

#18

The RCI server: rapid and accurate calculation of protein flexibility using chemical shifts

Authors: MV Berjanskii, DS Wishart

Year: 2007

Journal/Conference: Nucleic acids research 35 (suppl_2), W531-W537

Citations: 91

Categories: Chemical Shifts Flexibility

More details Google Scholar

#25

Accurate prediction of protein torsion angles using chemical shifts and sequence homology

Authors: S Neal, M Berjanskii, H Zhang, DS Wishart

Year: 2006

Journal/Conference: Magnetic Resonance in Chemistry 44 (S1), S158-S167

Citations: 60

Categories: Chemical Shifts Prediction

More details Google Scholar

#17

NMR: prediction of protein flexibility

Authors: M Berjanskii, DS Wishart

Year: 2006

Journal/Conference: Nature protocols 1 (2), 683-688

Citations: 98

Categories: Flexibility Prediction

More details Google Scholar

#57

A simple method to predict protein flexibility using secondary chemical shifts.

Authors: Berjanskii MV; Wishart DS

Year: 2005

Journal/Conference: Journal of the American Chemical Society

Citations: 497

Categories: Protein Structure and Dynamics NMR Spectroscopy Protein Structure Chemical Shifts Proteins Flexibility Protein Conformation Protein Dynamics

More details Google Scholar Pubmed: 16248604 DOI: 10.1021/ja054842f

#47

PROTEIN STRUCTURE AND FOLDING-NMR structure of the N-terminal J domain of murine polyomavirus T antigens. Implications for DnaJ-like domains and for mutations of T antigens.

Authors: MV Berjanskii, MI Riley, A Xie, V Semenchenko, WR Folk, SRV Doren

Year: 2000

Journal/Conference: Journal of Biological Chemistry 275 (46)4-3

Citations: 1

Categories: Protein Structure Antigens

More details Google Scholar

#59

TIMP-1 contact sites and perturbations of stromelysin 1 mapped by NMR and a paramagnetic surface probe.

Authors: Arumugam S; Hemme CL; Yoshida N; Suzuki K; Nagase H; Berjanskii M; Wu B; Van Doren SR

Year: 1998

Journal/Conference: Biochemistry

Citations: 62

Categories: NMR Spectroscopy Protein Structure Proteins Proteins/*chemistry Models, Molecular Nuclear Magnetic Resonance, Biomolecular Proteomics Molecular Modeling Biomolecular NMR

More details Google Scholar Pubmed: 9657677 DOI: 10.1021/bi980128h

Publications

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The Natural Products Magnetic Resonance Database (NP-MRD) for 2025.

Accurate Prediction of (1)H NMR Chemical Shifts of Small Molecules Using Machine Learning.

MagMet: A fully automated web server for targeted nuclear magnetic resonance metabolomics of plasma and serum.

Rapid and reliable protein structure determination via chemical shift threading

Unraveling the meaning of chemical shifts in protein NMR

A robust algorithm for optimizing protein structures with NMR chemical shifts

A simple method to measure protein side-chain mobility using NMR chemical shifts.

Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures

Solution NMR of a 463-residue phosphohexomutase: domain 4 mobility, substates, and phosphoryl transfer defect

PROSESS: a protein structure evaluation suite and server

GeNMR: a web server for rapid NMR-based protein structure determination

Application of the random coil index to studying protein flexibility

CS23D: a web server for rapid protein structure generation using NMR chemical shifts and sequence data

PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation

The RCI server: rapid and accurate calculation of protein flexibility using chemical shifts

Accurate prediction of protein torsion angles using chemical shifts and sequence homology

NMR: prediction of protein flexibility

A simple method to predict protein flexibility using secondary chemical shifts.

PROTEIN STRUCTURE AND FOLDING-NMR structure of the N-terminal J domain of murine polyomavirus T antigens. Implications for DnaJ-like domains and for mutations of T antigens.

TIMP-1 contact sites and perturbations of stromelysin 1 mapped by NMR and a paramagnetic surface probe.