Jaiswal Lab

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Biblio

Found 17 results

Filters: Author is Naithani, Sushma [Clear All Filters]

2019

K. L. Howe, Contreras-Moreira, B., De Silva, N., Maslen, G., Akanni, W., Allen, J., Alvarez-Jarreta, J., Barba, M., Bolser, D. M., Cambell, L., Carbajo, M., Chakiachvili, M., Christensen, M., Cummins, C., Cuzick, A., Davis, P., Fexova, S., Gall, A., George, N., Gil, L., Gupta, P., Hammond-Kosack, K. E., Haskell, E., Hunt, S. E., Jaiswal, P., Janacek, S. H., Kersey, P. J., Langridge, N., Maheswari, U., Maurel, T., McDowall, M. D., Moore, B., Muffato, M., Naamati, G., Naithani, S., Olson, A., Papatheodorou, I., Patricio, M., Paulini, M., Pedro, H., Perry, E., Preece, J., Rosello, M., Russell, M., Sitnik, V., Staines, D. M., Stein, J., Tello-Ruiz, M. K., Trevanion, S. J., Urban, M., Wei, S., Ware, D., Williams, G., Yates, A. D., and Flicek, P., “Ensembl Genomes 2020-enabling non-vertebrate genomic research.”, Nucleic acids research, 2019.

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.

2018

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. K., 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.

M. K. Tello-Ruiz, Naithani, S., Stein, J. C., Gupta, P., Campbell, M., Olson, A., Wei, S., Preece, J., Geniza, M. J., Jiao, Y., Lee, Y. K., Wang, B., Mulvaney, J., Chougule, K., Elser, J., Al-Bader, N., Kumari, S., Thomason, J., Kumar, V., Bolser, D. M., Naamati, G., Tapanari, E., Fonseca, N., Huerta, L., Iqbal, H., Keays, M., Munoz-Pomer Fuentes, A., Tang, A., Fabregat, A., D'Eustachio, P., Weiser, J., Stein, L. D., Petryszak, R., Papatheodorou, I., Kersey, P. J., Lockhart, P., Taylor, C., Jaiswal, P., and Ware, D., “Gramene 2018: unifying comparative genomics and pathway resources for plant research.”, Nucleic acids research, vol. 46, no. D1, pp. D1181-D1189, 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., Munoz-Pomer Fuentes, A., 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, no. D1, pp. D1029-D1039, 2018.

2017

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.

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.

2016

S. Naithani, Partipilo, C. M., Raja, R., Elser, J. L., and Jaiswal, P., “FragariaCyc: A Metabolic Pathway Database for Woodland Strawberry Fragaria vesca.”, Frontiers in plant science, vol. 7, p. 242, 2016.

M. K. Tello-Ruiz, Stein, J., Wei, S., Preece, J., Olson, A., Naithani, S., Amarasinghe, V., Dharmawardhana, P., Jiao, Y., Mulvaney, J., Kumari, S., Chougule, K., Elser, J., Wang, B., Thomason, J., Bolser, D. M., Kerhornou, A., Walts, B., Fonseca, N. A., Huerta, L., Keays, M., Tang, A. Y., Parkinson, H., Fabregat, A., McKay, S., Weiser, J., D'Eustachio, P., Stein, L., Petryszak, R., Kersey, P. J., Jaiswal, P., and Ware, D., “Gramene 2016: comparative plant genomics and pathway resources.”, Nucleic acids research, vol. 44, no. D1, pp. D1133-40, 2016.

P. Gupta, Naithani, S., Tello-Ruiz, M. K., Chougule, K., D'Eustachio, P., Fabregat, A., Jiao, Y., Keays, M., Lee, Y. K., Kumari, S., Mulvaney, J., Olson, A., Preece, J., Stein, J., Wei, S., Weiser, J., Huerta, L., Petryszak, R., Kersey, P., Stein, L. D., Ware, D., and Jaiswal, P., “Gramene Database: Navigating Plant Comparative Genomics Resources.”, Current plant biology, vol. 7-8, pp. 10-15, 2016.

2014

S. E. Fox, Geniza, M., Hanumappa, M., Naithani, S., Sullivan, C. M., Preece, J., Tiwari, V. I. K., Elser, J., Leonard, J. M., Sage, A., Gresham, C., Kerhornou, A., Bolser, D., McCarthy, F., Kersey, P., Lazo, G. R., and Jaiswal, P., “De Novo Transcriptome Assembly and Analyses of Gene Expression during Photomorphogenesis in Diploid Wheat Triticum monococcum.”, PLoS ONE, vol. 9, no. 5, 2014.

K. J. Vining, Romanel, E., Jones, R. C., Klocko, A., Alves-Ferreira, M., Hefer, C. A., Amarasinghe, V., Dharmawardhana, P., Naithani, S., Ranik, M., Wesley-Smith, J., Solomon, L., Jaiswal, P., Myburg, A. A., and Strauss, S. H., “The floral transcriptome of Eucalyptus grandis.”, The New phytologist, 2014.

A. A. Myburg, Grattapaglia, D., Tuskan, G. A., Hellsten, U., Hayes, R. D., Grimwood, J., Jenkins, J., Lindquist, E., Tice, H., Bauer, D., Goodstein, D. M., Dubchak, I., Poliakov, A., Mizrachi, E., Kullan, A. R. K., Hussey, S. G., Pinard, D., van der Merwe, K., Singh, P., van Jaarsveld, I., Silva-Junior, O. B., Togawa, R. C., Pappas, M. R., Faria, D. A., Sansaloni, C. P., Petroli, C. D., Yang, X., Ranjan, P., Tschaplinski, T. J., Ye, C. - Y., Li, T., Sterck, L., Vanneste, K., Murat, F., Soler, M., Clemente, H. S., Saidi, N., Cassan-Wang, H., Dunand, C., Hefer, C. A., Bornberg-Bauer, E., Kersting, A. R., Vining, K., Amarasinghe, V., Ranik, M., Naithani, S., Elser, J., Boyd, A. E., Liston, A., Spatafora, J. W., Dharmwardhana, P., Raja, R., Sullivan, C., Romanel, E., Alves-Ferreira, M., Külheim, C., Foley, W., Carocha, V., Paiva, J., Kudrna, D., Brommonschenkel, S. H., Pasquali, G., Byrne, M., Rigault, P., Tibbits, J., Spokevicius, A., Jones, R. C., Steane, D. A., Vaillancourt, R. E., Potts, B. M., Joubert, F., Barry, K., Pappas, G. J., Strauss, S. H., Jaiswal, P., Grima-Pettenati, J., Salse, J., Van de Peer, Y., Rokhsar, D. S., and Schmutz, J., “The genome of Eucalyptus grandis.”, Nature, vol. 510, no. 7505, pp. 356-62, 2014.

M. K. Monaco, Stein, J., Naithani, S., Wei, S., Dharmawardhana, P., Kumari, S., Amarasinghe, V., Youens-Clark, K., Thomason, J., Preece, J., Pasternak, S., Olson, A., Jiao, Y., Lu, Z., Bolser, D., Kerhornou, A., Staines, D., Walts, B., Wu, G., D'Eustachio, P., Haw, R., Croft, D., Kersey, P. J., Stein, L., Jaiswal, P., and Ware, D., “Gramene 2013: comparative plant genomics resources.”, Nucleic acids research, vol. 42, no. Database issue, pp. D1193-9, 2014.

S. Naithani, Raja, R., Waddell, E. N., Elser, J., Gouthu, S., Deluc, L. G., and Jaiswal, P., “VitisCyc: a metabolic pathway knowledgebase for grapevine (Vitis vinifera).”, Frontiers in plant science, vol. 5, p. 644, 2014.

2013

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, no. 1, pp. 1-12, 2013.

2011

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. C., Celton, J. - M., Rees, J. D. G., Williams, K. P., Holt, S. H., Ruiz Rojas, J. J., 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., Lopez Girona, E., 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, no. 2, pp. 109-16, 2011.