Publications

Publications:

Book Chapter:

· John L. Markley, Arash Bahrami, Hamid R. Eghbalnia, Francis C. Peterson, Robert C. Tyler, Eldon L. Ulrich, William M. Westler, and Brian F. Volkman, “Macromolecular Structure Determination by NMR Spectroscopy” In /Structural Bioinformatics/, 2nd Ed., J. Gu, and P. Bourne eds., John Wiley, pp. 93-142 (2009).

Journal articles:

Arash Bahrami, John L. Markley, Amir Assadi, and Hamid R. Eghbalnia, Probabilistic Interaction Network of Evidence Algorithm and its Application to Complete Labeling of Peak lists from Protein NMR Spectroscopy, PLoS Comput Biol. 2009 Mar;5(3):e1000307.
Woonghee Lee, William M. Westler, Arash Bahrami, Hamid R. Eghbalnia, and John L. Markley, PINE-SPARKY: graphical interface for evaluating automated probabilistic peak assignments in protein NMR spectroscopy, Journal of Bioinformatics, 2009 Jun.
Gabriel Cornilescu, Arash Bahrami, Marco Tonelli, John L. Markley, and Hamid R. Eghbalnia, HIFI-C: a robust and fast method for determining NMR couplings from adaptive 3D to 2D projections, Journal of Biomolecular NMR. 2007 Aug; 38(4):341-51.
Nicholas J. Reiter, Donghan Lee, Yun-Xing Wang, Marco Tonelli, Arash Bahrami, Claudia C. Cornilescu, and Samuel E. Butcher, Resonance assignments for the two N-terminal RNA recognition motifs (RRM) of the S. cerevisiae Pre-mRNA Processing Protein Prp24, Journal of Biomolecular NMR. 2006; 36 Suppl 1:58.
Hamid R. Eghbalnia, Arash Bahrami, Marco Tonelli, Klaus Hallenga, and John L. Markley. "High Resolution Iterative Frequency Identification for NMR", Journal of the American Chemical Society(JACS); 2005; 127(36) pp 12528 - 12536,
Hamid R. Eghbalnia, Arash Bahrami, Liya Wang, Amir Assadi, and John L. Markley. "Probabilistic identification of spin systems and their assignments including coil–helix inference as output (PISTACHIO)", Journal of Biomolecular NMR,2005 July;32(3):219-233.
Shanteri Singh, Marco Tonelli, Robert C. Tyler, Arash Bahrami, Min S. Lee, and John L. Markley
"Three-dimensional structure of the AAH26994.1 protein from Mus musculus, a putative eukaryotic Urm1"
Protein Science, 2005 August; 14: 2095 - 2102.
Hamid R. Eghbalnia, Liya Wang, Arash Bahrami, Amir Assadi, John L. Markley, "Protein energetic conformational analysis from NMR chemical shifts (PECAN) and its use in determining secondary structural elements", Journal of Biomolecular NMR,2005 May;32(1):71-81.
Liya Wang, Hamid R. Eghbalnia, Arash Bahrami, John L. Markley, "Linear analysis of carbon-13 chemical shift differences and its application to the detection and correction of errors in referencing and spin system identifications", Journal of Biomolecular NMR, 2005 May;32(1):13-22.

Arash Bahrami, John L. Markley, Amir Assadi, and Hamid R. Eghbalnia, Probabilistic Interaction Network of Evidence Algorithm and its Application to Complete Labeling of Peak lists from Protein NMR Spectroscopy, PLoS Comput Biol. 2009 Mar;5(3):e1000307.

Woonghee Lee, William M. Westler, Arash Bahrami, Hamid R. Eghbalnia, and John L. Markley, PINE-SPARKY: graphical interface for evaluating automated probabilistic peak assignments in protein NMR spectroscopy, Journal of Bioinformatics, 2009 Jun.

Gabriel Cornilescu, Arash Bahrami, Marco Tonelli, John L. Markley, and Hamid R. Eghbalnia, HIFI-C: a robust and fast method for determining NMR couplings from adaptive 3D to 2D projections, Journal of Biomolecular NMR. 2007 Aug; 38(4):341-51.

Hamid R. Eghbalnia, Arash Bahrami, Marco Tonelli, Klaus Hallenga, and John L. Markley. "High Resolution Iterative Frequency Identification for NMR", Journal of the American Chemical Society(JACS); 2005; 127(36) pp 12528 - 12536,

Hamid R. Eghbalnia, Arash Bahrami, Liya Wang, Amir Assadi, and John L. Markley. "Probabilistic identification of spin systems and their assignments including coil–helix inference as output (PISTACHIO)", Journal of Biomolecular NMR,2005 July;32(3):219-233.

Shanteri Singh, Marco Tonelli, Robert C. Tyler, Arash Bahrami, Min S. Lee, and John L. Markley
"Three-dimensional structure of the AAH26994.1 protein from Mus musculus, a putative eukaryotic Urm1"
Protein Science, 2005 August; 14: 2095 - 2102.

Hamid R. Eghbalnia, Liya Wang, Arash Bahrami, Amir Assadi, John L. Markley, "Protein energetic conformational analysis from NMR chemical shifts (PECAN) and its use in determining secondary structural elements", Journal of Biomolecular NMR,2005 May;32(1):71-81.

Liya Wang, Hamid R. Eghbalnia, Arash Bahrami, John L. Markley, "Linear analysis of carbon-13 chemical shift differences and its application to the detection and correction of errors in referencing and spin system identifications", Journal of Biomolecular NMR, 2005 May;32(1):13-22.