Scott Christley

According to our database, Scott Christley authored at least 25 papers between 2005 and 2022.

Collaborative distances:

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

2022

Facilitating automated conversion of scientific knowledge into scientific simulation models with the Machine Assisted Generation, Calibration, and Comparison (MAGCC) Framework.

Chase Cockrell, Scott Christley, Gary An

CoRR, 2022

2021

The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires.

Milena Pavlovic, Lonneke Scheffer, Keshav Motwani, Chakravarthi Kanduri, Radmila Kompova, Nikolay Vazov, Knut Waagan, Fabian L. M. Bernal, Alexandre Almeida Costa, Brian Corrie, Rahmad Akbar, Ghadi S. Al Hajj, Gabriel Balaban, Todd M. Brusko, Maria Chernigovskaya, Scott Christley, Lindsay G. Cowell, Robert Frank, Ivar Grytten, Sveinung Gundersen, Ingrid Hobæk Haff, Eivind Hovig, Ping-Han Hsieh, Günter Klambauer, Marieke L. Kuijjer, Christin Lund-Andersen, Antonio Martini, Thomas Minotto, Johan Pensar, Knut D. Rand, Enrico Riccardi, Philippe A. Robert, Artur Rocha, Andrei Slabodkin, Igor Snapkov, Ludvig M. Sollid, Dmytro Titov, Cédric R. Weber, Michael Widrich, Gur Yaari, Victor Greiff, Geir Kjetil Sandve

Nat. Mach. Intell., 2021

Dynamic Kernel Matching for Non-conforming Data: A Case Study of T-cell Receptor Datasets.

Jared Ostmeyer, Scott Christley, Lindsay G. Cowell

CoRR, 2021

2020

The ADC API: A Web API for the Programmatic Query of the AIRR Data Commons.

Scott Christley, Ademar Aguiar, George Blanck, Felix Breden, Syed Ahmad Chan Bukhari, Christian E. Busse, Jerome Jaglale, Srilakshmy L. Harikrishnan, Uri Laserson, Bjoern Peters, Artur Rocha, Chaim A. Schramm, Sarah Taylor, Jason A. Vander Heiden, Bojan Zimonja, Corey T. Watson, Brian Corrie, Lindsay G. Cowell

Frontiers Big Data, 2020

2017

Statistical classifiers for diagnosing disease from immune repertoires: a case study using multiple sclerosis.

Jared Ostmeyer, Scott Christley, William Rounds, Inimary T. Toby, Benjamin M. Greenberg, Nancy Monson, Lindsay G. Cowell

BMC Bioinform., 2017

VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data.

Scott Christley, Mikhail K. Levin, Inimary T. Toby, John M. Fonner, Nancy Monson, William Rounds, Florian Rubelt, Walter Scarborough, Richard H. Scheuermann, Lindsay G. Cowell

BMC Bioinform., 2017

2016

VDJML: a file format with tools for capturing the results of inferring immune receptor rearrangements.

Inimary T. Toby, Mikhail K. Levin, Edward Salinas, Scott Christley, Sanchita Bhattacharya, Felix Breden, Adam Buntzman, Brian Corrie, John M. Fonner, Namita T. Gupta, Uri Hershberg, Nishanth Marthandan, Aaron M. Rosenfeld, William Rounds, Florian Rubelt, Walter Scarborough, Jamie K. Scott, Mohamed Uduman, Jason A. Vander Heiden, Richard H. Scheuermann, Nancy Monson, Steven H. Kleinstein, Lindsay G. Cowell

BMC Bioinform., 2016

2015

Computational Studies of the Intestinal Host-Microbiota Interactome.

Scott Christley, Chase Cockrell, Gary An

Comput., 2015

2014

Investigation of Inflammation and Tissue Patterning in the Gut Using a Spatially Explicit General-Purpose Model of Enteric Tissue (SEGMEnT).

Chase Cockrell, Scott Christley, Gary An

PLoS Comput. Biol., 2014

Inference of the Xenopus tropicalis embryonic regulatory network and spatial gene expression patterns.

Zhenzhen Zheng, Scott Christley, William T. Chiu, Ira L. Blitz, Xiaohui Xie, Ken W. Y. Cho, Qing Nie

BMC Syst. Biol., 2014

2013

Examining the dynamics of epithelial metaplasia and pouchitis in an ileal pouch with a spatially-explicit computational multi-scale gut model (MSGM).

Chase Cockrell, Scott Christley, Gary An, Eugene Chang, Marc Ward

Proceedings of the Agent-Directed Simulation Symposium, 2013

2012

A proposal for augmenting biological model construction with a semi-intelligent computational modeling assistant.

Scott Christley, Gary An

Comput. Math. Organ. Theory, 2012

2011

An automated homology-based approach for identifying transposable elements.

Ryan C. Kennedy, Maria F. Unger, Scott Christley, Frank H. Collins, Gregory R. Madey

BMC Bioinform., 2011

A proposed method for dynamic knowledge representation via agent-directed composition from biomedical and simulation ontologies: an example using gut mucus layer dynamics.

Scott Christley, Gary An

Proceedings of the 2011 Spring Simulation Multi-conference, 2011

2010

Parameter inference for discretely observed stochastic kinetic models using stochastic gradient descent.

Yuanfeng Wang, Scott Christley, Eric Mjolsness, Xiaohui Xie

BMC Syst. Biol., 2010

Integrative multicellular biological modeling: a case study of 3D epidermal development using GPU algorithms.

Scott Christley, Briana Lee, Xing Dai, Qing Nie

BMC Syst. Biol., 2010

Data structures and compression algorithms for high-throughput sequencing technologies.

Kenny Daily, Paul Rigor, Scott Christley, Xiaohui Xie, Pierre Baldi

BMC Bioinform., 2010

2009

VectorBase: a data resource for invertebrate vector genomics.

Daniel Lawson, Peter Arensburger, Peter Atkinson, Nora J. Besansky, Robert V. Bruggner, Ryan Butler, Kathryn S. Campbell, George K. Christophides, Scott Christley, Emmanuel Dialynas, Martin Hammond, Catherine A. Hill, Nathan Konopinski, Neil F. Lobo, Robert M. MacCallum, Gregory R. Madey, Karine Megy, Jason Meyer, Seth Redmond, David W. Severson, Eric O. Stinson, Pantelis Topalis, Ewan Birney, William M. Gelbart, Fotis C. Kafatos, Christos Louis, Frank H. Collins

Nucleic Acids Res., 2009

Human genomes as email attachments.

Scott Christley, Yiming Lu, Chen Li, Xiaohui Xie

Bioinform., 2009

2008

Multiple organism algorithm for finding ultraconserved elements.

Scott Christley, Neil F. Lobo, Gregory R. Madey

BMC Bioinform., 2008

2007

Patterns of Mesenchymal Condensation in a Multiscale, Discrete Stochastic Model.

Scott Christley, Mark S. Alber, Stuart A. Newman

PLoS Comput. Biol., 2007

VectorBase: a home for invertebrate vectors of human pathogens.

Daniel Lawson, Peter Arensburger, Peter Atkinson, Nora J. Besansky, Robert V. Bruggner, Ryan Butler, Kathryn S. Campbell, George K. Christophides, Scott Christley, Emmanuel Dialynas, David B. Emmert, Martin Hammond, Catherine A. Hill, Ryan C. Kennedy, Neil F. Lobo, Robert M. MacCallum, Gregory R. Madey, Karine Megy, Seth Redmond, Susan Russo, David W. Severson, Eric O. Stinson, Pantelis Topalis, Evgeni M. Zdobnov, Ewan Birney, William M. Gelbart, Fotis C. Kafatos, Christos Louis, Frank H. Collins

Nucleic Acids Res., 2007

Multiscale Agent-based Simulation for Chondrogenic Pattern Formation <i>in Vitro</i>.

Scott Christley, Xuelian Zhu, Stuart A. Newman, Mark S. Alber

Cybern. Syst., 2007

Analysis of Activity in the Open Source Software Development Community.

Scott Christley, Gregory R. Madey

Proceedings of the 40th Hawaii International International Conference on Systems Science (HICSS-40 2007), 2007

2005

A Topological Analysis of the Open Souce Software Development Community.

Jin Xu, Yongqin Gao, Scott Christley, Gregory R. Madey

Proceedings of the 38th Hawaii International Conference on System Sciences (HICSS-38 2005), 2005