John L. Markley

According to our database, John L. Markley authored at least 19 papers between 2007 and 2021.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2021

CHESPA/CHESCA-SPARKY: automated NMR data analysis plugins for SPARKY to map protein allostery.

Hongzhao Shao, Stephen Boulton, Cristina Olivieri, Hebatallah Mohamed, Madoka Akimoto, Manu Veliparambil Subrahmanian, Gianluigi Veglia, John L. Markley, Giuseppe Melacini, Woonghee Lee

Bioinform., 2021

PyBMRB: Data visualization tool for BioMagResBank.

Kumaran Baskaran, Jonathan R. Wedell, Eldon L. Ulrich, Jeffery C. Hoch, John L. Markley

Proceedings of the 20th Python in Science Conference 2021 (SciPy 2021), Virtual Conference, July 12, 2021

2020

PISA-SPARKY: an interactive SPARKY plugin to analyze oriented solid-state NMR spectra of helical membrane proteins.

Daniel K. Weber, Songlin Wang, John L. Markley, Gianluigi Veglia, Woonghee Lee

Bioinform., 2020

2019

Approach to Improving the Quality of Open Data in the Universe of Small Molecules.

John L. Markley, Hesam Dashti, Jonathan R. Wedell, William M. Westler, Eldon L. Ulrich, Hamid R. Eghbalnia

Proceedings of the Business Information Systems Workshops, 2019

2018

PINE-SPARKY.2 for automated NMR-based protein structure research.

Woonghee Lee, John L. Markley

Bioinform., 2018

Worldwide Protein Data Bank biocuration supporting open access to high-quality 3D structural biology data.

Jasmine Young, John D. Westbrook, Zukang Feng, Ezra Peisach, Irina Persikova, Raul Sala, Sanchayita Sen, John M. Berrisford, Jawahar Swaminathan, Thomas J. Oldfield, Aleksandras Gutmanas, Reiko Igarashi, David R. Armstrong, Kumaran Baskaran, Li Chen, Minyu Chen, Alice R. Clark, Luigi Di Costanzo, Dimitris Dimitropoulos, Guanghua Gao, Sutapa Ghosh, Swanand P. Gore, Vladimir Guranovic, Pieter M. S. Hendrickx, Brian P. Hudson, Yasuyo Ikegawa, Yumiko Kengaku, Catherine L. Lawson, Yuhe Liang, Lora Mak, Abhik Mukhopadhyay, Buvaneswari Coimbatore Narayanan, Kayoko Nishiyama, Ardan Patwardhan, Gaurav Sahni, Eduardo Sanz-García, Junko Sato, Monica Sekharan, Chenghua Shao, Oliver S. Smart, Lihua Tan, Glen van Ginkel, Huanwang Yang, Marina Zhuravleva, John L. Markley, Haruki Nakamura, Genji Kurisu, Gerard J. Kleywegt, Sameer Velankar, Helen M. Berman, Stephen K. Burley

Database J. Biol. Databases Curation, 2018

2016

Publication of nuclear magnetic resonance experimental data with semantic web technology and the application thereof to biomedical research of proteins.

Masashi Yokochi, Naohiro Kobayashi, Eldon L. Ulrich, Akira R. Kinjo, Takeshi Iwata, Yannis E. Ioannidis, Miron Livny, John L. Markley, Haruki Nakamura, Chojiro Kojima, Toshimichi Fujiwara

J. Biomed. Semant., 2016

2015

NMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy.

Woonghee Lee, Marco Tonelli, John L. Markley

Bioinform., 2015

2014

The Protein Data Bank archive as an open data resource.

Helen M. Berman, Gerard J. Kleywegt, Haruki Nakamura, John L. Markley

J. Comput. Aided Mol. Des., 2014

2013

ADAPT-NMR Enhancer: complete package for reduced dimensionality in protein NMR spectroscopy.

Woonghee Lee, Arash Bahrami, John L. Markley

Bioinform., 2013

2012

NRG-CING: integrated validation reports of remediated experimental biomolecular NMR data and coordinates in wwPDB.

Jurgen F. Doreleijers, Wim F. Vranken, Christopher F. Schulte, John L. Markley, Eldon L. Ulrich, Gert Vriend, Geerten W. Vuister

Nucleic Acids Res., 2012

PACSY database, a relational database management system for Protein structure and nuclear Magnetic Resonance chemical shift analysis.

Woonghee Lee, John L. Markley

Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012

2011

PONDEROSA, an automated 3D-NOESY peak picking program, enables automated protein structure determination.

Woonghee Lee, Jin Hae Kim, William M. Westler, John L. Markley

Bioinform., 2011

2009

Probabilistic Interaction Network of Evidence Algorithm and its Application to Complete Labeling of Peak Lists from Protein NMR Spectroscopy.

Arash Bahrami, Amir H. Assadi, John L. Markley, Hamid Eghbalnia

PLoS Comput. Biol., 2009

PINE-SPARKY: graphical interface for evaluating automated probabilistic peak assignments in protein NMR spectroscopy.

Woonghee Lee, William M. Westler, Arash Bahrami, Hamid Eghbalnia, John L. Markley

Bioinform., 2009

2008

BioMagResBank.

Eldon L. Ulrich, Hideo Akutsu, Jurgen F. Doreleijers, Yoko Harano, Yannis E. Ioannidis, Jundong Lin, Miron Livny, Steve Mading, Dimitri Maziuk, Zachary Miller, Eiichi Nakatani, Christopher F. Schulte, David E. Tolmie, R. Kent Wenger, Hongyang Yao, John L. Markley

Nucleic Acids Res., 2008

Remediation of the protein data bank archive.

Kim Henrick, Zukang Feng, Wolfgang Bluhm, Dimitris Dimitropoulos, Jurgen F. Doreleijers, Shuchismita Dutta, Judith L. Flippen-Anderson, John M. C. Ionides, Chisa Kamada, Eugene Krissinel, Catherine L. Lawson, John L. Markley, Haruki Nakamura, Richard H. Newman, Yukiko Shimizu, Jawahar Swaminathan, Sameer Velankar, Jeramia Ory, Eldon L. Ulrich, Wim F. Vranken, John D. Westbrook, Reiko Yamashita, Huanwang Yang, Jasmine Young, Muhammed Yousufuddin, Helen M. Berman

Nucleic Acids Res., 2008

2007

The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data.

Helen M. Berman, Kim Henrick, Haruki Nakamura, John L. Markley

Nucleic Acids Res., 2007

New Bioinformatics Resources For Metabolomics.

John L. Markley, Mark E. Anderson, Qiu Cui, Hamid Eghbalnia, Ian A. Lewis, Adrian D. Hegeman, Jing Li, Christopher F. Schulte, Michael R. Sussman, William M. Westler, Eldon L. Ulrich, Zsolt Zolnai

Proceedings of the Biocomputing 2007, 2007