2015

Filichkin, S. A., Cumbie, J. S., Dharmawardhana, P., Jaiswal, P., Chang, J. H., Palusa, S. G., et al. (2015). Environmental stresses modulate abundance and timing of alternatively spliced circadian transcripts in Arabidopsis. Molecular Plant, 8(2), 207-27. https://doi.org/10.1016/j.molp.2014.10.011 (Original work published 2015 Feb C.E.)

2014

Monaco, M. K., Stein, J., Naithani, S., Wei, S., Dharmawardhana, P., Kumari, S., et al. (2014). Gramene 2013: comparative plant genomics resources. Nucleic Acids Research, 42(Database issue), D1193-9. https://doi.org/10.1093/nar/gkt1110 (Original work published 2014 Jan C.E.)
Myburg, A. A., Grattapaglia, D., Tuskan, G. A., Hellsten, U., Hayes, R. D., Grimwood, J., et al. (2014). The genome of Eucalyptus grandis. Nature, 510(7505), 356-62. https://doi.org/10.1038/nature13308 (Original work published 2014 Jun 19 C.E.)
Fox, S. E., Geniza, M., Hanumappa, M., Naithani, S., Sullivan, C. M., Preece, J., et al. (2014). De Novo Transcriptome Assembly and Analyses of Gene Expression during Photomorphogenesis in Diploid Wheat Triticum monococcum. Plos One, 9(5). https://doi.org/10.1371/journal.pone.0096855 (Original work published 2014)
Lingutla, N., Preece, J., Todorovic, S., Cooper, L., Moore, L., & Jaiswal, P. (2014). AISO: Annotation of Image Segments with Ontologies. Journal Of Biomedical Semantics, 5, 50. https://doi.org/10.1186/2041-1480-5-50
Naithani, S., Raja, R., Waddell, E. N., Elser, J., Gouthu, S., Deluc, L. G., & Jaiswal, P. (2014). VitisCyc: a metabolic pathway knowledgebase for grapevine (Vitis vinifera). Frontiers In Plant Science, 5, 644. https://doi.org/10.3389/fpls.2014.00644 (Original work published 2014)
Schaeffer, S., Harper, A., Raja, R., Jaiswal, P., & Dhingra, A. (2014). Comparative analysis of predicted plastid-targeted proteomes of sequenced higher plant genomes. Plos One, 9(11), e112870. https://doi.org/10.1371/journal.pone.0112870 (Original work published 2014)
Vining, K. J., Romanel, E., Jones, R. C., Klocko, A., Alves-Ferreira, M., Hefer, C. A., et al. (2014). The floral transcriptome of Eucalyptus grandis. The New Phytologist. https://doi.org/10.1111/nph.13077 (Original work published 2014 Oct 29 C.E.)

2013

Fox, S. E., Preece, J., Kimbrel, J. A., Marchini, G. L., Sage, A., Youens-Clark, K., et al. (2013). SEQUENCING AND DE NOVO TRANSCRIPTOME ASSEMBLY OF BRACHYPODIUM SYLVATICUM (POACEAE ). Applications In Plant Sciences, 1(3). https://doi.org/10.3732/apps.1200011 (Original work published 2013)
Monaco, M. K., Sen, T. Z., Dharmawardhana, P. D., Ren, L., Schaeffer, M., Naithani, S., et al. (2013). Maize Metabolic Network Construction and Transcriptome Analysis. The Plant Genome, 6(1), 1-12. https://doi.org/10.3835/plantgenome2012.09.0025 (Original work published 2013)
Hanumappa, M., Preece, J., Elser, J., Nemeth, D., Bono, G., Wu, K., & Jaiswal, P. (2013). WikiPathways for plants: a community pathway curation portal and a case study in rice and arabidopsis seed development networks. Rice, 6. https://doi.org/10.1186/1939-8433-6-14 (Original work published 2013)
Dharmawardhana, P., Ren, L., Amarasinghe, V., Monaco, M., Thomason, J., Ravenscroft, D., et al. (2013). A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress. Rice, 6. https://doi.org/10.1186/1939-8433-6-15 (Original work published 2013)
Bushley, K. E., Raja, R., Jaiswal, P., Cumbie, J. S., Nonogaki, M., Boyd, A. E., et al. (2013). The Genome of Tolypocladium inflatum: Evolution, Organization, and Expression of the Cyclosporin Biosynthetic Gene Cluster. Plos Genetics, 9(6). https://doi.org/10.1371/journal.pgen.1003496 (Original work published 2013)
Amarasinghe, V., Dharmawardhana, P. D., Jaiswal, P., Gupta, P. K., & Varshney, R. K. (2013). Functional Annotation of Plant Genomes. In Cereal genomics II (p. 155). https://doi.org/10.1007/978-94-007-6401-9_7

2012

Consortium, T. I. A. I. (2012). Taking the Next Step: Building an Arabidopsis Information Portal. The Plant Cell, 24(6), 2248-2256. https://doi.org/10.1105/tpc.112.100669 (Original work published 2012 Jun C.E.)
Group, R. W. R. K. Y. W. (2012). Nomenclature report on rice WRKY's - Conflict regarding gene names and its solution. Rice, 5, 3. https://doi.org/10.1186/1939-8433-5-3
Lens, F., Cooper, L., Gandolfo, M. A., Groover, A., Jaiswal, P., Lachenbruch, B., et al. (2012). An extension of the Plant Ontology project supporting wood anatomy and development research. Iawa Journal, 33(2), 5. Retrieved de http://www.fs.fed.us/psw/publications/groover/psw_2012_groover001_lens.pdf
Walls, R. L., Athreya, B., Cooper, L., Elser, J., Gandolfo, M. A., Jaiswal, P., et al. (2012). Ontologies as integrative tools for plant science. American Journal Of Botany, 99(8), 1-13. https://doi.org/10.3732/ajb.1200222 (Original work published 2012 Jul 30 C.E.)
Cooper, L., Walls, R. L., Elser, J., Gandolfo, M. A., Stevenson, D. W., Smith, B., et al. (2012). The Plant Ontology As A Tool For Comparative Plant Anatomy And Genomic Analyses. Plant & Cell Physiology. https://doi.org/10.1093/pcp/pcs163 (Original work published 2012 Dec 5 C.E.)

2011

Peremyslov, V., Mockler, T. C., Filichkin, S. A., Fox, S. E., Jaiswal, P., Makarova, K. S., et al. (2011). Expression, splicing, and evolution of the myosin gene family in plants. Plant Physiology, 155(3), 1191-204. (Original work published 2011 Mar C.E.)
Shulaev, V., Sargent, D. J., Crowhurst, R. N., Mockler, T. C., Folkerts, O., Delcher, A. L., et al. (2011). The genome of woodland strawberry(Fragaria vesca). Nature Genetics, 43(2), 109-16. (Original work published 2011 Feb C.E.)
Jaiswal, P. (2011). Gramene database: a hub for comparative plant genomics. Methods In Molecular Biology (Clifton, N.j.), 678, 247-75. (Original work published 2011)
Filichkin, S. A., Breton, G., Priest, H. D., Dharmawardhana, P., Jaiswal, P., Fox, S. E., et al. (2011). Global profiling of rice and poplar transcriptomes highlights key conserved circadian-controlled pathways and cis-regulatory modules. Plos One, 6(6), e16907. (Original work published 2011)
Youens-Clark, K., Buckler, E., Casstevens, T., Chen, C., Declerck, G., Derwent, P., et al. (2011). Gramene database in 2010: updates and extensions. Nucleic Acids Research, 39(Database issue), D1085-94. (Original work published 2011 Jan C.E.)
Smita, S., Lenka, S. K., Katiyar, A., Jaiswal, P., Preece, J., & Bansal, K. C. (2011). QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice. Database : The Journal Of Biological Databases And Curation, 2011, bar037. https://doi.org/10.1093/database/bar037 (Original work published 2011)

2010

Consortium, G. O. (2010). The Gene Ontology in 2010: extensions and refinements. Nucleic Acids Research, 38(Database issue), D331-5. (Original work published 2010 Jan C.E.)

2009

Ni, J., Pujar, A., Youens-Clark, K., Yap, I., Jaiswal, P., Tecle, I., et al. (2009). Gramene QTL database: development, content and applications. Database : The Journal Of Biological Databases And Curation, 2009, bap005. (Original work published 2009)

2008

Azevedo, J., Courtois, F., Hakimi, M. -A., Demarsy, E., Lagrange, T., Alcaraz, J. -P., et al. (2008). Intraplastidial trafficking of a phage-type RNA polymerase is mediated by a thylakoid RING-H2 protein. Proceedings Of The National Academy Of Sciences Of The United States Of America, 105(26), 9123-8. (Original work published 2008 Jul 1 C.E.)
Bruskiewich, R., Senger, M., Davenport, G., Ruiz, M., Rouard, M., Hazekamp, T., et al. (2008). The generation challenge programme platform: semantic standards and workbench for crop science. International Journal Of Plant Genomics, 2008, 369601. (Original work published 2008)
Liang, C., Jaiswal, P., Hebbard, C., Avraham, S., Buckler, E. S., Casstevens, T., et al. (2008). Gramene: a growing plant comparative genomics resource. Nucleic Acids Research, 36(Database issue), D947-53. (Original work published 2008 Jan C.E.)
Avraham, S., Tung, C. -W., Ilic, K., Jaiswal, P., Kellogg, E. A., McCouch, S., et al. (2008). The Plant Ontology Database: a community resource for plant structure and developmental stages controlled vocabulary and annotations. Nucleic Acids Research, 36(Database issue), D449-54. (Original work published 2008 Jan C.E.)

2007

Ilic, K., Kellogg, E. A., Jaiswal, P., Zapata, F., Stevens, P. F., Vincent, L. P., et al. (2007). The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant. Plant Physiology, 143(2), 587-99. (Original work published 2007 Feb C.E.)

2006

Jaiswal, P., Ni, J., Yap, I., Ware, D., Spooner, W., Youens-Clark, K., et al. (2006). Gramene: a bird's eye view of cereal genomes. Nucleic Acids Research, 34(Database issue), D717-23. (Original work published 2006 Jan 1 C.E.)
Pujar, A., Jaiswal, P., Kellogg, E. A., Ilic, K., Vincent, L., Avraham, S., et al. (2006). Whole-plant growth stage ontology for angiosperms and its application in plant biology. Plant Physiology, 142(2), 414-28. (Original work published 2006 Oct C.E.)

2005

Yamazaki, Y., & Jaiswal, P. (2005). Biological ontologies in rice databases. An introduction to the activities in Gramene and Oryzabase. Plant & Cell Physiology, 46(1), 63-8. (Original work published 2005 Jan C.E.)
Jaiswal, P., Avraham, S., Ilic, K., Kellogg, E. A., McCouch, S., Pujar, A., et al. (2005). Plant Ontology (PO): a Controlled Vocabulary of Plant Structures and Growth Stages. Comparative And Functional Genomics, 6(7-8), 388-97. (Original work published 2005)

2002

Ware, D., Jaiswal, P., Ni, J., Pan, X., Chang, K., Clark, K., et al. (2002). Gramene: a resource for comparative grass genomics. Nucleic Acids Research, 30(1), 103-5. (Original work published 2002 Jan 1 C.E.)
Jaiswal, P., Ware, D., Ni, J., Chang, K., Zhao, W., Schmidt, S., et al. (2002). Gramene: development and integration of trait and gene ontologies for rice. Comparative And Functional Genomics, 3(2), 132-6. (Original work published 2002)
Ware, D. H., Jaiswal, P., Ni, J., Yap, I., Pan, X., Clark, K. Y., et al. (2002). Gramene, a tool for grass genomics. Plant Physiology, 130(4), 1606-13. (Original work published 2002 Dec C.E.)
Beardslee, T. A., Roy-Chowdhury, S., Jaiswal, P., Buhot, L., Lerbs-Mache, S., Stern, D. B., & Allison, L. A. (2002). A nucleus-encoded maize protein with sigma factor activity accumulates in mitochondria and chloroplasts. The Plant Journal : For Cell And Molecular Biology, 31(2), 199-209. (Original work published 2002 Jul C.E.)