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CoAn/pyCoAn Publications

 

Volkmann Group Papers

PubMed listing

 This list contains all publications from the Volkmann group with applications of CoAn and pyCoAn.

 

Preprints

Anderson KL, Page C, Swift MF, Hanein D, Volkmann N
Accurate alignment between correlated light, cryo-light, and electron cryo-microscopy data using sample support features.
bioRxiv 099077

CoAn/pyCoAn Methodology Papers

Xu XP, Volkmann N.
Validation methods for low-resolution fitting of atomic structures to electron microscopy data.
Arch Biochem Biophys. 2015 Sep; 581:49-53.

Page C, Xu XP, Volkmann N
Accurate membrane tracing in three-dimensional reconstructions from electron cryotomography data.
Ultramicrosopy, 2015 Aug; 155:20-26. 

Xu XP, Page C, Volkmann N
Efficient extraction of macromolecular complexes from electron tomograms based on reduced representation templates.
Lect Notes Comput Sc. 2015; 9256: 423-431.

Volkmann N.
The joys and perils of flexible fitting.
Adv Exp Med Biol. 2014; 805:137-155. 

Xu XP, Slaughter BD, Volkmann N.
Probabilistic determination of probe locations from distance data.
J Struct Biol. 2013 Oct; 184(1):75-82. 

Volkmann N.
Putting structure into context: fitting of atomic models into electron microscopic and electron tomographic reconstructions.
Curr Opin Cell Biol. 2012 Feb; 24(1):141-147. 

Hanein D, Volkmann N.
Correlative light-electron microscopy
Adv Protein Chem Struct Biol. 2011 Jul; 82:91-99. 

Volkmann N.
Methods for segmentation and interpretation of electron tomographic reconstructions.
Methods Enzymol. 2010; 4830:31-46. 

Volkmann N.
Confidence intervals for fitting of atomic models into low-resolution densities.
Acta Cryst D. 2009 Jul; 65(7):679-689. 

Garduño E, Wong-Barnum M, Volkmann N, Ellisman MH.
Segmentation of electron tomographic data sets using fuzzy set theory principles.
J Struct Biol. 2008 Jul; 162(3):368-379. 

van der Heide P, Xu XP, Marsh BJ, Hanein D, Volkmann N.
Efficient automatic noise reduction of electron tomographic reconstructions based on iterative median filtering.
J Struct Biol. 2007 May; 158(2):196-204. 

Shacham E, Sheehan B, Volkmann N. 
Density-based score for selecting near-native atomic models of unknown structures. 
J Struct Biol. 2007 May; 158(2):188-195.

Volkmann N. 
An approach to automated particle picking from electron micrographs based on reduced representation templates. 
J Struct Biol. 2004 Jan-Feb; 145(1-2):152-156.

Volkmann N, Hanein D. 
Docking of atomic models into reconstructions from electron microscopy. 
Methods Enzymol. 2003; 374:204-225.

Volkmann N. 
A novel three-dimensional variant of the watershed transform for segmentation of electron density maps. 
J Struct Biol. 2002 Apr-May; 138(1-2):123-129.

Volkmann N, Hanein D. 
Quantitative fitting of atomic models into observed densities derived by electron microscopy. 
J Struct Biol. 1999 Apr-May; 125(2-3):176-184.