1. Biblio

Biblio

Found 79 results
Author Title [ Type(Desc)] Year
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Journal Article
J. Ni, Pujar, A., Youens-Clark, K., Yap, I., Jaiswal, P., Tecle, I., Tung, C. - W., Ren, L., Spooner, W., Wei, X., Avraham, S., Ware, D., Stein, L., and McCouch, S., “Gramene QTL database: development, content and applications.”, Database : the journal of biological databases and curation, vol. 2009, p. bap005, 2009.
J. Azevedo, Courtois, F., Hakimi, M. - A., Demarsy, E., Lagrange, T., Alcaraz, J. - P., Jaiswal, P., Maréchal-Drouard, L., and Lerbs-Mache, S., “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, vol. 105, pp. 9123-8, 2008.
S. Naithani, Gupta, P., Preece, J., Garg, P., Fraser, V., Padgitt-Cobb, L. K., Martin, M., Vining, K., and Jaiswal, P., “Involving community in genes and pathway curation.”, Database : the journal of biological databases and curation, vol. 2019, 2019.
M. K. Monaco, Sen, T. Z., Dharmawardhana, P. D., Ren, L., Schaeffer, M., Naithani, S., Amarasinghe, V., Thomason, J., Harper, L., Gardiner, J., Cannon, E. K. S., Lawrence, C. J., Ware, D., and Jaiswal, P., “Maize Metabolic Network Construction and Transcriptome Analysis”, The Plant Genome, vol. 6, pp. 1-12, 2013.
R. Barker, Kruse, C. P. S., Johnson, C., Saravia-Butler, A., Fogle, H., Chang, H. - S., Trane, R. Møller, Kinscherf, N., Villacampa, A., Manzano, A., Herranz, R., Davin, L. B., Lewis, N. G., Perera, I., Wolverton, C., Gupta, P., Jaiswal, P., Reinsch, S. S., Wyatt, S., and Gilroy, S., “Meta-analysis of the space flight and microgravity response of the Arabidopsis plant transcriptome.”, NPJ Microgravity, vol. 9, no. 1, p. 21, 2023.
P. Vangay, Burgin, J., Johnston, A., Beck, K. L., Berrios, D. C., Blumberg, K., Canon, S., Chain, P., Chandonia, J. - M., Christianson, D., Costes, S. V., Damerow, J., Duncan, W. D., Dundore-Arias, J. Pablo, Fagnan, K., Galazka, J. M., Gibbons, S. M., Hays, D., Hervey, J., Hu, B., Hurwitz, B. L., Jaiswal, P., Joachimiak, M. P., Kinkel, L., Ladau, J., Martin, S. L., McCue, L. Ann, Miller, K., Mouncey, N., Mungall, C., Pafilis, E., Reddy, T. B. K., Richardson, L., Roux, S., Schriml, L. M., Shaffer, J. P., Sundaramurthi, J. Chandrabos, Thompson, L. R., Timme, R. E., Zheng, J., Wood-Charlson, E. M., and Eloe-Fadrosh, E. A., “Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities.”, mSystems, vol. 6, no. 1, 2021.
T. A. Beardslee, Roy-Chowdhury, S., Jaiswal, P., Buhot, L., Lerbs-Mache, S., Stern, D. B., and Allison, L. A., “A nucleus-encoded maize protein with sigma factor activity accumulates in mitochondria and chloroplasts.”, The Plant journal : for cell and molecular biology, vol. 31, pp. 199-209, 2002.
R. L. Walls, Athreya, B., Cooper, L., Elser, J., Gandolfo, M. A., Jaiswal, P., Mungall, C. J., Preece, J., Rensing, S., Smith, B., and Stevenson, D. W., “Ontologies as integrative tools for plant science.”, American journal of botany, vol. 99, pp. 1-13, 2012.
A. Oellrich, Walls, R. L., Cannon, E. K. S., Cannon, S. B., Cooper, L., Gardiner, J., Gkoutos, G. V., Harper, L., He, M., Hoehndorf, R., Jaiswal, P., Kalberer, S. R., Lloyd, J. P., Meinke, D., Menda, N., Moore, L., Nelson, R. T., Pujar, A., Lawrence, C. J., and Huala, E., “An ontology approach to comparative phenomics in plants.”, Plant methods, vol. 11, p. 10, 2015.
S. Naithani and Jaiswal, P., “Pathway Analysis and Omics Data Visualization Using Pathway Genome Databases: FragariaCyc, a Case Study.”, Methods in molecular biology (Clifton, N.J.), vol. 1533, pp. 241-256, 2017.
L. Cooper, Walls, R. L., Elser, J., Gandolfo, M. A., Stevenson, D. W., Smith, B., Preece, J., Athreya, B., Mungall, C. J., Rensing, S., Hiss, M., Lang, D., Reski, R., Berardini, T. Z., Li, D., Huala, E., Schaeffer, M., Menda, N., Arnaud, E., Shrestha, R., Yamazaki, Y., and Jaiswal, P., “The Plant Ontology As A Tool For Comparative Plant Anatomy And Genomic Analyses.”, Plant & Cell Physiology, 2012.
S. Avraham, Tung, C. - W., Ilic, K., Jaiswal, P., Kellogg, E. A., McCouch, S., Pujar, A., Reiser, L., Rhee, S. Y., Sachs, M. M., Schaeffer, M., Stein, L., Stevens, P., Vincent, L., Zapata, F., and Ware, D., “The Plant Ontology Database: a community resource for plant structure and developmental stages controlled vocabulary and annotations.”, Nucleic acids research, vol. 36, pp. D449-54, 2008.
R. L. Walls, Cooper, L., Elser, J., Gandolfo, M. Alejandra, Mungall, C. J., Smith, B., Stevenson, D. W., and Jaiswal, P., “The Plant Ontology Facilitates Comparisons of Plant Development Stages Across Species.”, Frontiers in plant science, vol. 10, p. 631, 2019.
P. Jaiswal, Avraham, S., Ilic, K., Kellogg, E. A., McCouch, S., Pujar, A., Reiser, L., Rhee, S. Y., Sachs, M. M., Schaeffer, M., Stein, L., Stevens, P., Vincent, L., Ware, D., and Zapata, F., “Plant Ontology (PO): a Controlled Vocabulary of Plant Structures and Growth Stages.”, Comparative and functional genomics, vol. 6, pp. 388-97, 2005.
S. Naithani, Preece, J., D’Eustachio, P., Gupta, P., Amarasinghe, V., Dharmawardhana, P. D., Wu, G., Fabregat, A., Elser, J. L., Weiser, J., Keays, M., Fuentes, A. Munoz- Pome, Petryszak, R., Stein, L. D., Ware, D., and Jaiswal, P., “Plant Reactome: a resource for plant pathways and comparative analysis.”, Nucleic acids research, vol. 45, pp. D1029-D1039, 2018.
P. Gupta, Naithani, S., Preece, J., Kim, S., Cheng, T., D'Eustachio, P., Elser, J., Bolton, E. E., and Jaiswal, P., “Plant Reactome and PubChem: The Plant Pathway and (Bio)Chemical Entity Knowledgebases.”, Methods Mol Biol, vol. 2443, pp. 511-525, 2022.
K. Ilic, Kellogg, E. A., Jaiswal, P., Zapata, F., Stevens, P. F., Vincent, L. P., Avraham, S., Reiser, L., Pujar, A., Sachs, M. M., Whitman, N. T., McCouch, S. R., Schaeffer, M. L., Ware, D. H., Stein, L. D., and Rhee, S. Y., “The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant.”, Plant physiology, vol. 143, pp. 587-99, 2007.
L. Cooper, Meier, A., Laporte, M. - A., Elser, J. L., Mungall, C., Sinn, B. T., Cavaliere, D., Carbon, S., Dunn, N. A., Smith, B., Qu, B., Preece, J., Zhang, E., Todorovic, S., Gkoutos, G., Doonan, J. H., Stevenson, D. W., Arnaud, E., and Jaiswal, P., “The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics.”, Nucleic acids research, vol. 46, pp. D1168-D1180, 2018.
H. Wang, Liu, S., Dai, X., Yang, Y., Luo, Y., Gao, Y., Liu, X., Wei, W., Wang, H., Xu, X., Reddy, A. S. N., Jaiswal, P., Li, W., Liu, B., and Gu, L., “PSDX: A Comprehensive Multi-Omics Association Database of With a Focus on the Secondary Growth in Response to Stresses.”, Front Plant Sci, vol. 12, p. 655565, 2021.
S. Smita, Lenka, S. Keshari, Katiyar, A., Jaiswal, P., Preece, J., and Bansal, K. Chander, “QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice.”, Database : the journal of biological databases and curation, vol. 2011, p. bar037, 2011.
R. C. Graebner, Wise, M., Cuesta-Marcos, A., Geniza, M., Blake, T., Blake, V. C., Butler, J., Chao, S., Hole, D. J., Horsley, R., Jaiswal, P., Obert, D., Smith, K. P., Ullrich, S., and Hayes, P. M., “Quantitative Trait Loci Associated with the Tocochromanol (Vitamin E) Pathway in Barley.”, PloS one, vol. 10, p. e0133767, 2015.
R. C. Graebner, Wise, M., Cuesta-Marcos, A., Geniza, M., Blake, T. K., Blake, V. C., Butler, J., Chao, S., Hole, D. J., Horsley, R., Jaiswal, P., Obert, D. E., Smith, K. P., Ullrich, S., and Hayes, P. M., “Quantitative Trait Loci Associated with the Tocochromanol (Vitamin E) Pathway in Barley”, PLOS ONE, vol. 10, no. 7, p. e0133767, 2015.
S. E. Fox, Preece, J., Kimbrel, J. A., Marchini, G. L., Sage, A., Youens-Clark, K., Cruzan, M. B., and Jaiswal, P., “SEQUENCING AND DE NOVO TRANSCRIPTOME ASSEMBLY OF BRACHYPODIUM SYLVATICUM (POACEAE )”, Applications in Plant Sciences, vol. 1, 2013.
M. Geniza and Jaiswal, P., “Tools for building de novo transcriptome assembly”, Current Plant Biology, vol. 11-12, pp. 41 - 45, 2017.
S. Naithani, Geniza, M., and Jaiswal, P., “Variant Effect Prediction Analysis Using Resources Available at Gramene Database.”, Methods in molecular biology (Clifton, N.J.), vol. 1533, pp. 279-297, 2017.