Browse by CSHL Author

Grosjean, Nicolas, Zhang, Lifang, Kumaran, Desigan, Xie, Meng, Fahey, Audrey, Santiago, Kassandra, Hu, Fangle, Regulski, Michael, Blaby, Ian K, Ware, Doreen, Blaby-Haas, Crysten E (October 2024) Functional diversification within the heme-binding split-barrel family. Journal of Biological Chemistry. p. 107888. ISSN 0021-9258 (Public Dataset)

Gladman, Nicholas, Kumari, Sunita, Fahey, Audrey, Regulski, Michael, Ware, Doreen (September 2024) GRAS Family Transcription Factor Binding Behaviors in Sorghum bicolor, Oyrza, and Maize. bioRxiv. ISSN 2692-8205 (Public Dataset) (Submitted)

Wang, Bo, Chougule, Kapeel, Jiao, Yinping, Olson, Andrew, Kumar, Vivek, Gladman, Nicholas, Huang, Jian, Llaca, Victor, Fengler, Kevin, Wei, Xuehong, Wang, Liya, Wang, Xiaofei, Regulski, Michael, Drenkow, Jorg, Gingeras, Thomas, Hayes, Chad, Armstrong, J Scott, Huang, Yinghua, Xin, Zhanguo, Ware, Doreen (September 2024) High-quality chromosome scale genome assemblies of two important Sorghum inbred lines, Tx2783 and RTx436. NAR Genomics and Bioinformatics, 6 (3). lqae097. ISSN 2631-9268 (Public Dataset)

Zhang, Lifang, Braynen, Janeen, Fahey, Audrey, Chopra, Kriti, Cifani, Paolo, Tadesse, Dimiru, Regulski, Michael, Hu, Fangle, van Dam, Hubertus JJ, Xie, Meng, Ware, Doreen, Blaby-Haas, Crysten E (2023) Two related families of metal transferases, ZNG1 and ZNG2, are involved in acclimation to poor Zn nutrition in Arabidopsis. Frontiers in Plant Science, 14. p. 1237722. ISSN 1664-462X

Gladman, Nicholas, Hufnagel, Barbara, Regulski, Michael, Liu, Zhigang, Wang, Xiaofei, Chougule, Kapeel, Kochian, Leon, Magalhães, Jurandir, Ware, Doreen (May 2022) Sorghum root epigenetic landscape during limiting phosphorus conditions. Plant Direct, 6 (5). e393. ISSN 2475-4455

Wang, L., Lu, Z., Regulski, M., Jiao, Y., Chen, J., Ware, D., Xin, Z. (August 2020) BSAseq: an interactive and integrated web-based workflow for identification of causal mutations in bulked F2 populations. Bioinformatics. ISSN 1367-4803

Wang, L., Lu, Z., Delabastide, M., Van Buren, P., Wang, X., Ghiban, C., Regulski, M., Drenkow, J., Xu, X., Ortiz-Ramirez, C., Marco, C.F., Goodwin, S., Dobin, A., Birnbaum, K. D., Jackson, D. P., Martienssen, R. A., McCombie, W. R., Micklos, D. A., Schatz, M. C., Ware, D. H., Gingeras, T. R. (March 2020) Management, Analyses, and Distribution of the MaizeCODE Data on the Cloud. Frontiers in Plant Science, 11 (289). ISSN 1664-462X (Public Dataset)

Wang, B., Tseng, E., Baybayan, P., Eng, K., Regulski, M., Jiao, Y., Wang, L., Olson, A., Chougule, K., Buren, P. V., Ware, D. (February 2020) Variant phasing and haplotypic expression from long-read sequencing in maize. Commun Biol, 3 (1). p. 78. ISSN 2399-3642 (Public Dataset)

Wang, Liya, Lu, Zhenyuan, delaBastide, Melissa, Van Buren, Peter, Wang, Xiaofei, Ghiban, Cornel, Regulski, Michael, Drenkow, Jorg, Xu, Xiaosa, Ortiz-Ramirez, Carlos, Fernandez-Marco, Cristina, Goodwin, Sara, Dobin, Alexander, Birnbaum, Kenneth, Jackson, David, Martienssen, Robert, McCombie, William, Micklos, David, Schatz, Michael, Ware, Doreen, Gingeras, Thomas (November 2019) Management, Analyses, and Distribution of the MaizeCODE Data on the Cloud. BioRxiv. (Unpublished)

Gold, D. A., Katsuki, T., Li, Y., Yan, X., Regulski, M., Ibberson, D., Holstein, T., Steele, R. E., Jacobs, D. K., Greenspan, R. J. (December 2018) The genome of the jellyfish Aurelia and the evolution of animal complexity. Nat Ecol Evol, 3 (1). pp. 96-104. ISSN 2397-334x

Wang, B., Regulski, M., Tseng, E., Olson, A., Goodwin, S., McCombie, W. R., Ware, D. (June 2018) A comparative transcriptional landscape of maize and sorghum obtained by single-molecule sequencing. Genome Res, 28 (6). pp. 921-932. ISSN 1088-9051

Jiao, Y., Lee, Y. K., Gladman, N., Chopra, R., Christensen, S. A., Regulski, M., Burow, G., Hayes, C., Burke, J., Ware, D., Xin, Z. (February 2018) MSD1 regulates pedicellate spikelet fertility in sorghum through the jasmonic acid pathway. Nat Commun, 9 (1). p. 822. ISSN 2041-1723

Jiao, Y., Peluso, P., Shi, J., Liang, T., Stitzer, M. C., Wang, B., Campbell, M. S., Stein, J. C., Wei, X., Chin, C. S., Guill, K., Regulski, M., Kumari, S., Olson, A., Gent, J., Schneider, K. L., Wolfgruber, T. K., May, M. R., Springer, N. M., Antoniou, E., McCombie, W. R., Presting, G. G., McMullen, M., Ross-Ibarra, J., Dawe, R. K., Hastie, A., Rank, D. R., Ware, D. (June 2017) Improved maize reference genome with single-molecule technologies. Nature, 546 (7659). pp. 524-527. ISSN 0028-0836 (Public Dataset)

Wang, B., Tseng, E., Regulski, M., Clark, T. A., Hon, T., Jiao, Y., Lu, Z., Olson, A., Stein, J. C., Ware, D. (June 2016) Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing. Nat Commun, 7. p. 11708. ISSN 2041-1723 (Electronic)2041-1723 (Linking)

Thiebaut, F., Rojas, C. A., Grativol, C., Motta, M. R., Vieira, T., Regulski, M., Martienssen, R. A., Farinelli, L., Hemerly, A. S., Ferreira, P. C. G. (September 2014) Genome-wide identification of microRNA and siRNA responsive to endophytic beneficial diazotrophic bacteria in maize. BMC Genomics, 15. p. 766. ISSN 1471-2164

Olson, A., Klein, R. R., Dugas, D. V., Lu, Z. Y., Regulski, M., Klein, P. E., Ware, D. (July 2014) Expanding and Vetting Sorghum bicolor Gene Annotations through Transcriptome and Methylome Sequencing. Plant Genome, 7 (2). p. 20. ISSN 1940-3372

Grativol, C., Regulski, M., Bertalan, M., McCombie, W. R., da Silva, F. R., Zerlotini Neto, A., Vicentini, R., Farinelli, L., Hemerly, A. S., Martienssen, R. A., Ferreira, P. C. G. (July 2014) Sugarcane genome sequencing by methylation filtration provides tools for genomic research in the genus Saccharum. Plant Journal, 79 (1). pp. 162-172. ISSN 09607412

Creasey, K. M., Zhai, J., Borges, F., Van Ex, F., Regulski, M., Meyers, B. C., Martienssen, R. A. (March 2014) miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis. Nature, 508 (7496). pp. 411-415. ISSN 0028-0836

Regulski, M., Lu, Z., Kendall, J., Donoghue, M. T., Reinders, J., Llaca, V., Deschamps, S., Smith, A., Levy, D., McCombie, W. R., Tingey, S., Rafalski, A., Hicks, J., Ware, D., Martienssen, R. (June 2013) The maize methylome influences mRNA splice sites and reveals widespread paramutation-like switches guided by small RNA. Genome Research, 23 (10). pp. 1651-1662. ISSN 10889051 (ISSN)

Chen, G., Li, W., Zhang, Q. S. , Regulski, M. R., Sinha, N., Barditch, J., Tully, T. , Krainer, A. R., Zhang, M. Q., Dubnau, J. T. (February 2008) Identification of Synaptic Targets of Drosophila Pumilio. PLoS Computational Biology, 4 (2). e1000026. ISSN 1553734X

Ray, S. S., Tejero, J., Wang, Z. Q., Dutta, T., Bhattacharjee, A., Regulski, M. R., Tully, T., Ghosh, S., Stuehr, D. J. (October 2007) Oxygenase Domain of Drosophila melanogaster Nitric Oxide Synthase: Unique Kinetic Parameters Enable a More Efficient NO Release. Biochemistry, 46 (42). pp. 11857-11864. ISSN 0006-2960 (Print)

Ray, S. S., Sengupta, R., Tiso, M., Haque, M. M., Sahoo, R., Konas, D. W., Aulak, K., Regulski, M. R., Tully, T., Stuehr, D. J., Ghosh, S. (October 2007) Reductase Domain of Drosophila melanogaster Nitric-Oxide Synthase: Redox Transformations, Regulation, and Similarity to Mammalian Homologues. Biochemistry, 46 (42). pp. 11865-11873. ISSN 0006-2960 (Print)

McGettigan, J., McLennan, R. K. J., Broderick, K. E., Kean, L., Allan, A. K., Cabrero, P., Regulski, M. R., Pollock, V. P., Gould, G. W., Davies, S. A., Dow, J. A. T. (July 2005) Insect renal tubules constitute a cell-autonomous immune system that protects the organism against bacterial infection. Insect Biochemistry and Molecular Biology, 35 (7). pp. 741-754. ISSN 0965-1748

Regulski, M., Stasiv, Y., Tully, T., Enikolopov, G. (October 2004) Essential function of nitric oxide synthase in Drosophila. Current Biology, 14 (20). R881-R882. ISSN 0960-9822

Stasiv, Y., Kuzin, B., Regulski, M., Tully, T., Enikolopov, G. (August 2004) Regulation of multimers via truncated isoforms: a novel mechanism to control nitric-oxide signaling. Genes Dev, 18 (15). pp. 1812-23. ISSN 0890-9369 (Print)

Chiang, A. S., Blum, A., Barditch, J., Chen, Y. H., Chiu, S. L., Regulski, M., Armstrong, J. D., Tully, T., Dubnau, J. T. (February 2004) radish encodes a phospholipase-A2 and defines a neural circuit involved in anesthesia-resistant memory. Current Biology, 14 (4). pp. 263-272. ISSN 0960-9822

Broderick, K. E., MacPherson, M. R., Regulski, M., Tully, T., Dow, J. A. T., Davies, S. A. (November 2003) Interactions between epithelial nitric oxide signaling and phosphodiesterase activity in Drosophila. American Journal of Physiology-Cell Physiology, 285 (5). C1207-C1218. ISSN 0363-6143

Sengupta, R., Sahoo, R., Mukherjee, S., Regulski, M., Tully, T., Stuehr, D. J., Ghosh, S. (June 2003) Characterization of Drosophila nitric oxide synthase: a biochemical study. Biochemical and Biophysical Research Communications, 306 (2). pp. 590-597. ISSN 0006-291X

Stasiv, Y., Regulski, M., Kuzin, B., Tully, T., Enikolopov, G. (November 2001) The Drosophila nitric-oxide synthase gene (dNOS) encodes a family of proteins that can modulate NOS activity by acting as dominant negative regulators. Journal of Biological Chemistry, 276 (45). pp. 42241-42251. ISSN 0021-9258

Regulski, M., Enikolopov, G., Tully, T. (September 2001) NO signaling in the adult Drosophila melanogaster brain. Journal of Neurochemistry, 78. p. 90. ISSN 0022-3042

Kuzin, B., Regulski, M., Stasiv, Y., Scheinker, V., Tully, T., Enikolopov, G. (April 2000) Nitric oxide interacts with the retinoblastoma pathway to control eye development in Drosophila. Current Biology, 10 (8). pp. 459-462. ISSN 0960-9822

Tully, T., Bolwig, G., Christensen, J., Connolly, J., DeZazzo, J., Dubnau, J. T. , Jones, C., Pinto, S., Regulski, M., Svedberg, F., Velinzon, K. (1996) Genetic dissection of memory in Drosophila. J Physiol Paris, 90 (5-6). p. 383.

Regulski, M., Tully, T. (September 1995) Molecular and biochemical characterization of dNOS: a Drosophila Ca2+/calmodulin-dependent nitric oxide synthase. Proc Natl Acad Sci U S A, 92 (20). pp. 9072-6. ISSN 0027-8424 (Print)