Biblio | College of Agricultural Sciences

Found 20 results

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Journal Article

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.

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.

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.

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.

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.

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.

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.

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.

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.

K. Youens-Clark, Buckler, E., Casstevens, T., Chen, C., Declerck, G., Derwent, P., Dharmawardhana, P., Jaiswal, P., Kersey, P., Karthikeyan, A. S., Lu, J., McCouch, S. R., Ren, L., Spooner, W., Stein, J. C., Thomason, J., Wei, S., and Ware, D., “Gramene database in 2010: updates and extensions.”, Nucleic acids research, vol. 39, pp. D1085-94, 2011.

P. Jaiswal, “Gramene database: a hub for comparative plant genomics.”, Methods in molecular biology (Clifton, N.J.), vol. 678, pp. 247-75, 2011.

D. H. Ware, Jaiswal, P., Ni, J., Yap, I. V., Pan, X., Clark, K. Y., Teytelman, L., Schmidt, S. C., Zhao, W., Chang, K., Cartinhour, S., Stein, L. D., and McCouch, S. R., “Gramene, a tool for grass genomics.”, Plant physiology, vol. 130, pp. 1606-13, 2002.

D. Ware, Jaiswal, P., Ni, J., Pan, X., Chang, K., Clark, K., Teytelman, L., Schmidt, S., Zhao, W., Cartinhour, S., McCouch, S., and Stein, L., “Gramene: a resource for comparative grass genomics.”, Nucleic acids research, vol. 30, pp. 103-5, 2002.

C. Liang, Jaiswal, P., Hebbard, C., Avraham, S., Buckler, E. S., Casstevens, T., Hurwitz, B., McCouch, S., Ni, J., Pujar, A., Ravenscroft, D., Ren, L., Spooner, W., Tecle, I., Thomason, J., Tung, C. - W., Wei, X., Yap, I., Youens-Clark, K., Ware, D., and Stein, L., “Gramene: a growing plant comparative genomics resource.”, Nucleic acids research, vol. 36, pp. D947-53, 2008.

P. Jaiswal, Ni, J., Yap, I., Ware, D., Spooner, W., Youens-Clark, K., Ren, L., Liang, C., Zhao, W., Ratnapu, K., Faga, B., Canaran, P., Fogleman, M., Hebbard, C., Avraham, S., Schmidt, S., Casstevens, T. M., Buckler, E. S., Stein, L., and McCouch, S., “Gramene: a bird’s eye view of cereal genomes.”, Nucleic acids research, vol. 34, pp. D717-23, 2006.

V. Shulaev, Sargent, D. J., Crowhurst, R. N., Mockler, T. C., Folkerts, O., Delcher, A. L., Jaiswal, P., Mockaitis, K., Liston, A., Mane, S. P., Burns, P., Davis, T. M., Slovin, J. P., Bassil, N., Hellens, R. P., Evans, C., Harkins, T., Kodira, C., Desany, B., Crasta, O. R., Jensen, R. V., Allan, A. C., Michael, T. P., Setubal, J. Carlos, Celton, J. - M., D Rees, J. G., Williams, K. P., Holt, S. H., Rojas, J. Jairo Ruiz, Chatterjee, M., Liu, B., Silva, H., Meisel, L., Adato, A., Filichkin, S. A., Troggio, M., Viola, R., Ashman, T. - L., Wang, H., Dharmawardhana, P., Elser, J., Raja, R., Priest, H. D., Bryant, D. W., Fox, S. E., Givan, S. A., Wilhelm, L. J., Naithani, S., Christoffels, A., Salama, D. Y., Carter, J., Girona, E. Lopez, Zdepski, A., Wang, W., Kerstetter, R. A., Schwab, W., Korban, S. S., Davik, J., Monfort, A., Denoyes-Rothan, B., Arus, P., Mittler, R., Flinn, B., Aharoni, A., Bennetzen, J. L., Salzberg, S. L., Dickerman, A. W., Velasco, R., Borodovsky, M., Veilleux, R. E., and Folta, K. M., “The genome of woodland strawberry(Fragaria vesca).”, Nature genetics, vol. 43, pp. 109-16, 2011.

“The Gene Ontology in 2010: extensions and refinements.”, Nucleic acids research, vol. 38, pp. D331-5, 2010.

V. V. Peremyslov, Mockler, T. C., Filichkin, S. A., Fox, S. E., Jaiswal, P., Makarova, K. S., Koonin, E. V., and Dolja, V. V., “Expression, splicing, and evolution of the myosin gene family in plants.”, Plant physiology, vol. 155, pp. 1191-204, 2011.

Y. Yamazaki and Jaiswal, P., “Biological ontologies in rice databases. An introduction to the activities in Gramene and Oryzabase.”, Plant & cell physiology, vol. 46, pp. 63-8, 2005.

L. Harper, Campbell, J., Cannon, E. K. S., Jung, S., Poelchau, M., Walls, R., Andorf, C., Arnaud, E., Berardini, T. Z., Birkett, C., Cannon, S., Carson, J., Condon, B., Cooper, L., Dunn, N., Elsik, C. G., Farmer, A., Ficklin, S. P., Grant, D., Grau, E., Herndon, N., Hu, Z. - L., Humann, J., Jaiswal, P., Jonquet, C., Laporte, M. - A., Larmande, P., Lazo, G., McCarthy, F., Menda, N., Mungall, C. J., Munoz-Torres, M. C., Naithani, S., Nelson, R., Nesdill, D., Park, C., Reecy, J., Reiser, L., Sanderson, L. - A., Sen, T. Z., Staton, M., Subramaniam, S., Tello-Ruiz, M. Karey, Unda, V., Unni, D., Wang, L., Ware, D., Wegrzyn, J., Williams, J., Woodhouse, M., Yu, J., and Main, D., “AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture.”, Database : the journal of biological databases and curation, vol. 2018, 2018.