Stephen Ficklin

Stephen Ficklin

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Stephen Ficklin

Stephen Ficklin

Publications by authors named "Stephen Ficklin"

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36Publications

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Structural and Functional Annotation of Eukaryotic Genomes with GenSAS.

Methods Mol Biol 2019 ;1962:29-51

Department of Horticulture, Washington State University, Pullman, WA, USA.

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http://dx.doi.org/10.1007/978-1-4939-9173-0_3DOI Listing
August 2019

High-density multi-population consensus genetic linkage map for peach.

PLoS One 2018 21;13(11):e0207724. Epub 2018 Nov 21.

Clemson University, Department of Plant and Environmental Sciences, Clemson, SC, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0207724PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6248993PMC
April 2019

Discovery and validation of a glioblastoma co-expressed gene module.

Oncotarget 2018 Feb 13;9(13):10995-11008. Epub 2018 Jan 13.

Department of Genetics and Biochemistry, Clemson University, Clemson, SC 29634, USA.

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http://dx.doi.org/10.18632/oncotarget.24228DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5834250PMC
February 2018

Growing and cultivating the forest genomics database, TreeGenes.

Database (Oxford) 2018 01 1;2018:1-11. Epub 2018 Jan 1.

Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA.

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http://dx.doi.org/10.1093/database/bay084DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6146132PMC
January 2018

blend4php: a PHP API for galaxy.

Database (Oxford) 2017 10;2017. Epub 2017 Jan 10.

Department of Horticulture and.

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http://dx.doi.org/10.1093/database/baw154DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5225400PMC
November 2017

Chado use case: storing genomic, genetic and breeding data of Rosaceae and Gossypium crops in Chado.

Database (Oxford) 2016 17;2016. Epub 2016 Mar 17.

Department of Horticulture, Washington State University Pullman, WA, USA.

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http://dx.doi.org/10.1093/database/baw010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4795932PMC
October 2016

Tripal v1.1: a standards-based toolkit for construction of online genetic and genomic databases.

Database (Oxford) 2013 25;2013:bat075. Epub 2013 Oct 25.

Department of Plant Sciences, University of Saskatchewan. Saskatoon, SK Canada, Department of Horticulture, Washington State University. Pullman, WA, USA and Department of Genetics and Biochemistry, Clemson University. Clemson, SC, USA.

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http://dx.doi.org/10.1093/database/bat075DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3808541PMC
March 2014

A systems-genetics approach and data mining tool to assist in the discovery of genes underlying complex traits in Oryza sativa.

PLoS One 2013 16;8(7):e68551. Epub 2013 Jul 16.

Plant and Environmental Sciences, Clemson University, Clemson, South Carolina, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0068551PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3713027PMC
February 2014

CottonGen: a genomics, genetics and breeding database for cotton research.

Nucleic Acids Res 2014 Jan 6;42(Database issue):D1229-36. Epub 2013 Nov 6.

Department of Horticulture, Washington State University, Pullman, WA 99164-6414, USA, Cotton Incorporated, Cary, NC 27513, USA and Crop Germplasm Research Unit, USDA-ARS-SPARC, College Station, TX 77845, USA.

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http://dx.doi.org/10.1093/nar/gkt1064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3964939PMC
January 2014

The Genome Database for Rosaceae (GDR): year 10 update.

Nucleic Acids Res 2014 Jan 12;42(Database issue):D1237-44. Epub 2013 Nov 12.

Department of Horticulture, Washington State University, Pullman, WA 99164-6414, USA, Department of Genetics and Biochemistry, Clemson University, Clemson, SC 29634, USA, Boyce Thompson Institute for Plant Research, Tower Road, Ithaca, NY 14853, USA, Department of Computer Science, Saginaw Valley State University, University Center, MI 48710, USA and Horticultural Sciences Department, University of Florida, Gainesville, FL 32611, USA.

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http://dx.doi.org/10.1093/nar/gkt1012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3965003PMC
January 2014

Massive-scale gene co-expression network construction and robustness testing using random matrix theory.

PLoS One 2013 7;8(2):e55871. Epub 2013 Feb 7.

Holcombe Department of Electrical and Computer Engineering, Clemson University, Clemson, South Carolina, USA.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0055871PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3567026PMC
August 2013

Maximizing capture of gene co-expression relationships through pre-clustering of input expression samples: an Arabidopsis case study.

BMC Syst Biol 2013 Jun 5;7:44. Epub 2013 Jun 5.

Department of Genetics & Biochemistry, Clemson University, 105 Collings Street, Clemson, SC 29634, USA.

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http://dx.doi.org/10.1186/1752-0509-7-44DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3679940PMC
June 2013

Conserved non-coding regulatory signatures in Arabidopsis co-expressed gene modules.

PLoS One 2012 14;7(9):e45041. Epub 2012 Sep 14.

Department of Genetics and Biochemistry, Clemson University, Clemson, South Carolina, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0045041PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3443200PMC
February 2013

Chestnut resistance to the blight disease: insights from transcriptome analysis.

BMC Plant Biol 2012 Mar 19;12:38. Epub 2012 Mar 19.

The School of Forest Resources, and The Huck Institutes of the Life Sciences, Pennsylvania State University, 326 Forest Resources Building, University Park, PA 16802, USA.

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http://dx.doi.org/10.1186/1471-2229-12-38DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3376029PMC
March 2012

Tripal: a construction toolkit for online genome databases.

Database (Oxford) 2011 29;2011:bar044. Epub 2011 Sep 29.

Department of Horticulture and Landscape Architecture, Washington State University, Pullman, WA 99164, USA.

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http://dx.doi.org/10.1093/database/bar044DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3263599PMC
January 2012

A genetically anchored physical framework for Theobroma cacao cv. Matina 1-6.

BMC Genomics 2011 Aug 16;12:413. Epub 2011 Aug 16.

Subtropical Horticulture Research Station, USDA-ARS, 13601 Old Culter Road, Miami, FL 33158, USA.

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http://dx.doi.org/10.1186/1471-2164-12-413DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3173454PMC
August 2011

Gene coexpression network alignment and conservation of gene modules between two grass species: maize and rice.

Plant Physiol 2011 Jul 23;156(3):1244-56. Epub 2011 May 23.

Plant and Environmental Sciences, Clemson University, Clemson, South Carolina 29634, USA.

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http://dx.doi.org/10.1104/pp.111.173047DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3135956PMC
July 2011

The association of multiple interacting genes with specific phenotypes in rice using gene coexpression networks.

Plant Physiol 2010 Sep 28;154(1):13-24. Epub 2010 Jul 28.

Plant and Environmental Sciences, Clemson University, Clemson, South Carolina 29634, USA.

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http://dx.doi.org/10.1104/pp.110.159459DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2938148PMC
September 2010