Hey S, Baldauf J, Opitz N, Lithio A, Pasha A, Provart N, Nettleton D, Hochholdinger F. (2017). Complexity and specificity of the maize (Zea mays L.) root hair transcriptome. Journal of Experimental Botany. (eFP Maize Root view).

Herrbach V, Chirinos X, Rengel D, Agbevenou K, Vincent R, Pateyron S, Huguet S, Balzergue S, Pasha A, Provart N, Gough C, Bensmihen S (2017). Nod factors potentiate auxin signaling for transcriptional regulation and lateral root formation in Medicago truncatula. Journal of Experimental Botany 68(3): 569-583. (Medicago CSV).

Kagale S, Nixon J, Khedikar Y, Pasha A, Provart NJ, Clarke WE, Bollina V, Robinson SJ, Coutu C, Hegedus DD, Sharpe AG, Parkin IA (2016). The developmental transcriptome atlas of the biofuel crop Camelina sativa. The Plant Journal 88(5):879-894. (Camelina eFP Browser).

Austin RS, Hiu S, Waese J, Ierullo M, Pasha A, Wang TT, Fan J, Foong C, Breit R, Desveaux D, Moses A, Provart NJ (2016). New BAR tools for mining expression data and exploring Cis-elements in Arabidopsis thaliana. The Plant Journal 8(3):490-504. (Cistome and Expression Angler).

Waese J, Pasha A, Wang TT, van Weringh A, Guttman DS, Provart NJ (2016). Gene Slider: sequence logo interactive data-visualization for education and research. Bioinformatics 32(23):3670-3672. (Gene Slider).

Patel RV, Hamanishi ET, Provart NJ (2016). A Human" eFP" Browser for Generating Gene Expression Anatograms. PloS one 11(3): e0150982. (Human eFP Browser).

Provart NJ, Alonso J, Assmann SM, Bergmann D, Brady SM, Brkljacic J, Browse J, Chapple C, Colot V, Cutler S, Dangl J, Ehrhardt D, Friesner JD, Frommer WB, Grotewold E, Meyerowitz E, Nemhauser J, Nordborg M, Pikaard C, Shanklin J, Somerville C, Stitt M, Torii KU, Waese J, Wagner D, McCourt P (2016). 50 years of Arabidopsis research: highlights and future directions. New Phylologist 209: 921-944. (Arabidopsis Citation Network Viewer).

Righetti K, Vu JL, Pelletier S, Vu BL, Glaab E, Lalanne D, Pasha A, Patel RV, Provart NJ, Verdier J, Leprince O, Buitink J (2015). Inference of Longevity-Related Genes from a Robust Coexpression Network of Seed Maturation Identifies Regulators Linking Seed Storability to Biotic Defense-Related Pathways. Plant Cell 27(10): 2692-708. (Medicago eFP Browser - Seed View).

Wang L, Czedik-Eysenberg A, Mertz RA, Si Y, Tohge T, Nunes-Nesi A, Dedow LK, Bryant D, Zhou W, Xu J, Weissmann S, Studer A, Li P, Zhang C, LaRue T, Shao Y, Sun Q, Patel RV, Turgeon R, Zhu X, Provart NJ, Mockler T, Fernie AR, Stitt M, Peng L, Brutnell TP (2013). Exploring the mechanism of C4 photosynthetic differentiation through a unified comparative analysis of maize and rice leaf transcriptomes. Nature Biotechnology 32: 1158-1165. (Maize eFP Browser - Maize and Rice Leaf Gradients View).

Champigny MJ, Sung WWL, Catana V, Salwan R, Summers PS, Dudley SA, Provart NJ, Cameron RK, Golding GB, Weretilnyk EA (2013). RNA-Seq effectively monitors gene expression in Eutrema salsugineum plants growing in an extreme natural habitat and in controlled growth cabinet conditions. BMC Genomics 14:578. (E. salsugineum eFP Browser).

Tran F, Penniket C, Patel RV, Provart NJ, Laroche A, Rowland O, Robert L (2013). Developmental transcriptional profiling reveals key regulators of Triticeae reproductive development. The Plant Journal 74:971-988. (Triticale eFP Browser).

Ho C-L, Wu Y, Shen H-B, Provart NJ, Geisler M (2012). A predicted protein interactome for rice. Rice. 5:15. (Rice Interactions Viewer).

Chatfield SP, Capron R, Severino A, Penttila P, Alfred S, Nahal H, Provart NJ (2012). Incipient stem cell niche conversion in tissue culture: Using a systems approach to probe early events in WUSCHEL-dependent conversion of lateral root primordia into shoot meristems. The Plant Journal. 73:798-813. (Arabidopsis eFP Browser - Regeneration View).

Patel RV, Nahal HK, Breit R, Chen Y, Provart NJ (2012). BAR Expressolog identification: expression profile ranking of “orthologous” genes in plant species. The Plant Journal 71:1038–1050. (Expressolog Tree Viewer). Get it!

Austin RA, Vidaurre D, Stamatiou G, Breit R, Provart NJ, Bonetta D, Zhang J, Fung P, Gong Y, Wang PW, McCourt P, Guttman DS (2011). Application of next-generation mapping to identify genes involved in cell wall synthesis in Arabidopsis. The Plant Journal 67:715-725. (Next Generation Mapping).

Bassel GW, Lan H, Glaab E, Gibbs DJ, Gerjets T, Krasnogor N, Bonner AJ, Holdsworth MJ, Provart NJ (2011). A genome-wide network model capturing seed germination reveals coordinated regulation of plant cellular phase transitions. Proceedings of the National Academy of Sciences of the U.S.A. 108:9709-9714. (SeedNet).

Dean G, Cao Y, Xiang D, Provart NJ, Ramsay L, Ahad A, White R, Selvaraj G, Datla R, Haughn G (2011). Analysis of gene expression patterns during seed coat development in Arabidopsis. Molecular Plant 4:1074-1092. (Arabidopsis Seed Coat eFP Browser).

Fucile G, DiBiase D, Nahal H, La G, Khodabandeh S, Chen Y, Easley K, Christendat D, Kelley L, Provart NJ (2011). ePlant and the 3D Data Display Initiative: Integrative Systems Biology on the World Wide Web. PLoS ONE 6: e15237. (Original ePlant).

Li P, Ponnala L, Gandotra N, Wang L, Si Y, Tausta L, Kebrom T, Provart N, Patel R, Myers C, Reidel E, Turgeon R, Liu P, Sun Q, Nelson T, Brutnell T (2010). The developmental dynamics of the maize leaf transcriptome. Nature Genetics 42: 1060-1067. (Maize eFP Browser - iPlant View).

Wilkins O, Waldron L, Nahal H, Provart NJ, Campbell MM (2009). Genotype and time of day shape the Populus drought response. The Plant Journal 60: 703-715. (Poplar eFP Browser - Poplar Treatment View).

Wilkins O, Nahal H, Foong J, Provart NJ, Campbell MM (2009). Expansion and Diversification of the Populus R2R3-MYB Family of Transcription Factors. Plant Physiology 149(2), 981-993. ​ (Poplar eFP Browser - Poplar Developmental Series View).

Bassel GW, Fung P, Chow TF, Foong JA, Provart NJ, Cutler SR (2008). Elucidating the germination transcriptional program using small molecules. Plant Physiology 147: 143-155. (Arabidopsis eFP Browser - Seed View).

Winter D, Vinegar B, Ammar R, Nahal H, Wilson GV, Provart N (2007). An 'Electronic Fluorescent Pictograph' Browser for Exploring and Analyzing Large-Scale Biological Data Sets. PLoS ONE 2(8) : e718. (Arabidopsis eFP Browser, Cell eFP Browser, Mouse eFP Browser). * use Google Scholar with the keywords efpWeb.cgi -Winter to obtain number of URL citations.

Geisler-Lee J, O'Toole N, Ammar R, Provart NJ, Millar AH, and Geisler M (2007). A Predicted Interactome for Arabidopsis thaliana. Plant Physiology 145:317–329. (Arabidopsis Interactions Viewer).

Taylor J, Provart NJ (2006). CapsID: A Web-based Tool for Developing Parsimonious Sets of CAPS Markers for Genotyping. BMC Genetics 7:27. (CapsID).

Toufighi K, Brady S, Austin R, Ly E, Provart NJ (2005). The Bio-Analytic Resource: e-Northerns, Expression Angling, and Promoter Analyses. The Plant Journal 43: 153-163. (original Bio-Analytic Resource paper describing e-Northern tool, Expression Angler, and Promomer).

Ilic K, Berleth T, Provart NJ (2004). BlastDigester - a web-based program for efficient CAPS marker design. TRENDS in Genetics 20(7):280-283. (BlastDigester).

Provart N, Zhu T (2003). A Browser-based Functional Classification SuperViewer for Arabidopsis Genomics. Currents in Computational Molecular Biology 2003:271-272. (Classification SuperViewer).