1. Biblio

Biblio

Found 79 results
Author Title Type [ Year(Desc)]
Filters: Author is Jaiswal, Pankaj  [Clear All Filters]
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., Y Tang, A., 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, pp. D1133-40, 2016.
M. Karey Tello-Ruiz, Stein, J., Wei, S., Youens-Clark, K., Jaiswal, P., and Ware, D., “Gramene: A Resource for Comparative Analysis of Plants Genomes and Pathways.”, in Methods in molecular biology (Clifton, N.J.), vol. 1374, 2016, pp. 141-63.
P. Gupta, Naithani, S., Tello-Ruiz, M. Karey, Chougule, K., D’Eustachio, P., Fabregat, A., Jiao, Y., Keays, M., Lee, Y. Koung, 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.
L. Cooper and Jaiswal, P., “The Plant Ontology: A Tool for Plant Genomics.”, in Methods in molecular biology (Clifton, N.J.), vol. 1374, 2016, pp. 89-114.
P. Jaiswal and Usadel, B., “Plant Pathway Databases.”, in Methods in molecular biology (Clifton, N.J.), vol. 1374, 2016, pp. 71-87.
2017
B. Qu, Kumar, P., Zhang, E., Jaiswal, P., Cooper, L., Elser, J., and Zhang, Y., “Interactive Design and Visualization of N-ary Relationships”, in SIGGRAPH Asia 2017 Symposium on Visualization, New York, NY, USA, 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.
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.
2018
S. A. Filichkin, Hamilton, M., Dharmawardhana, P. D., Singh, S. K., Sullivan, C., Ben-Hur, A., Reddy, A. S. N., and Jaiswal, P., “Abiotic Stresses Modulate Landscape of Poplar Transcriptome via Alternative Splicing, Differential Intron Retention, and Isoform Ratio Switching.”, Frontiers in plant science, vol. 9, p. 5, 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. 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.
I. Papatheodorou, Fonseca, N. A., Keays, M., Y Tang, A., Barrera, E., Bazant, W., Burke, M., Füllgrabe, A., Fuentes, A. Muñoz- Pom, George, N., Huerta, L., Koskinen, S., Mohammed, S., Geniza, M., Preece, J., Jaiswal, P., Jarnuczak, A. F., Huber, W., Stegle, O., Vizcaino, J. Antonio, Brazma, A., and Petryszak, R., “Expression Atlas: gene and protein expression across multiple studies and organisms.”, Nucleic acids research, vol. 46, pp. D246-D251, 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. Koung, 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., Fuentes, A. Munoz- Pome, 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, 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., 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.
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.
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.
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.
2021
S. Naithani, Dikeman, D., Garg, P., Al-Bader, N., and Jaiswal, P., “Beyond gene ontology (GO): using biocuration approach to improve the gene nomenclature and functional annotation of rice S-domain kinase subfamily.”, PeerJ, vol. 9, p. e11052, 2021.
P. Gupta, Geniza, M., Naithani, S., Phillips, J. L., Haq, E., and Jaiswal, P., “Chia () Gene Expression Atlas Elucidates Dynamic Spatio-Temporal Changes Associated With Plant Growth and Development.”, Front Plant Sci, vol. 12, p. 667678, 2021.
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., “Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities".”, mSystems, vol. 6, no. 3, 2021.
C. Warman, Sullivan, C. M., Preece, J., Buchanan, M. E., Vejlupkova, Z., Jaiswal, P., and Fowler, J. E., “A cost-effective maize ear phenotyping platform enables rapid categorization and quantification of kernels.”, Plant J, vol. 106, no. 2, pp. 566-579, 2021.
L. K. Padgitt-Cobb, Kingan, S. B., Wells, J., Elser, J., Kronmiller, B., Moore, D., Concepcion, G., Peluso, P., Rank, D., Jaiswal, P., Henning, J., and Hendrix, D. A., “A draft phased assembly of the diploid Cascade hop (Humulus lupulus) genome.”, Plant Genome, vol. 14, no. 1, p. e20072, 2021.
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.
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.