Probabilistic analysis of the frequencies of amino acid pairs within characterized protein sequences

Por Shen, Shiyi, Kai, Bo, Ruan, Jishou, Torin Huzil, J., Carpenter, Eric, Tuszynski, Jack A.
Publicado no Physica A (2006)

Peptidomics of Circular Cysteine-Rich Plant Peptides: Analysis of the Diversity of Cyclotides from Viola tricolor by Transcriptome and Proteome Mining

Por Hellinger, Roland, Koehbach, Johannes, Soltis, Douglas E., Carpenter, Eric J., Wong, Gane Ka-Shu, Gruber, Christian W.
Publicado no J Proteome Res (2015)

Impact of sequencing depth and technology on de novo RNA-Seq assembly

Por Patterson, Jordan, Carpenter, Eric J., Zhu, Zhenzhen, An, Dan, Liang, Xinming, Geng, Chunyu, Drmanac, Radoje, Wong, Gane Ka-Shu
Publicado no BMC Genomics (2019)

The Origin and Evolution of the Plant Cell Surface: Algal Integrin-Associated Proteins and a New Family of Integrin-Like Cytoskeleton-ECM Linker Proteins

Por Becker, Burkhard, Doan, Jean Michel, Wustman, Brandon, Carpenter, Eric J., Chen, Li, Zhang, Yong, Wong, Gane K.-S., Melkonian, Michael
Publicado no Genome Biol Evol (2015)

Functional and topological diversity of LOV domain photoreceptors

Por Glantz, Spencer T., Carpenter, Eric J., Melkonian, Michael, Gardner, Kevin H., Boyden, Edward S., Wong, Gane Ka-Shu, Chow, Brian Y.
Publicado no Proc Natl Acad Sci U S A (2016)

Gamma-Retrovirus Integration Marks Cell Type-Specific Cancer Genes: A Novel Profiling Tool in Cancer Genomics

Por Gilroy, Kathryn L., Terry, Anne, Naseer, Asif, de Ridder, Jeroen, Allahyar, Amin, Wang, Weiwei, Carpenter, Eric, Mason, Andrew, Wong, Gane K-S., Cameron, Ewan R., Kilbey, Anna, Neil, James C.
Publicado no PLoS One (2016)

Cyclotide Discovery in Gentianales Revisited—Identification and Characterization of Cyclic Cystine-Knot Peptides and Their Phylogenetic Distribution in Rubiaceae Plants

Por Koehbach, Johannes, Attah, Alfred F., Berger, Andreas, Hellinger, Roland, Kutchan, Toni M., Carpenter, Eric J., Rolf, Megan, Sonibare, Mubo A., Moody, Jones O., Ka-Shu Wong, Gane, Dessein, Steven, Greger, Harald, Gruber, Christian W.
Publicado em 2013

Identification of Hepatotropic Viruses from Plasma Using Deep Sequencing: A Next Generation Diagnostic Tool

Por Law, John, Jovel, Juan, Patterson, Jordan, Ford, Glenn, O’keefe, Sandra, Wang, Weiwei, Meng, Bo, Song, Deyong, Zhang, Yong, Tian, Zhijian, Wasilenko, Shawn T., Rahbari, Mandana, Mitchell, Troy, Jordan, Tracy, Carpenter, Eric, Mason, Andrew L., Wong, Gane Ka-Shu
Publicado em 2013

Dissecting Molecular Evolution in the Highly Diverse Plant Clade Caryophyllales Using Transcriptome Sequencing

Por Yang, Ya, Moore, Michael J., Brockington, Samuel F., Soltis, Douglas E., Wong, Gane Ka-Shu, Carpenter, Eric J., Zhang, Yong, Chen, Li, Yan, Zhixiang, Xie, Yinlong, Sage, Rowan F., Covshoff, Sarah, Hibberd, Julian M., Nelson, Matthew N., Smith, Stephen A.
Publicado no Mol Biol Evol (2015)

Multiple Polyploidy Events in the Early Radiation of Nodulating and Nonnodulating Legumes

Por Cannon, Steven B., McKain, Michael R., Harkess, Alex, Nelson, Matthew N., Dash, Sudhansu, Deyholos, Michael K., Peng, Yanhui, Joyce, Blake, Stewart, Charles N., Rolf, Megan, Kutchan, Toni, Tan, Xuemei, Chen, Cui, Zhang, Yong, Carpenter, Eric, Wong, Gane Ka-Shu, Doyle, Jeff J., Leebens-Mack, Jim
Publicado no Mol Biol Evol (2015)

Metagenomic Analysis of Microbiome in Colon Tissue from Subjects with Inflammatory Bowel Diseases Reveals Interplay of Viruses and Bacteria

Por Wang, Weiwei, Jovel, Juan, Halloran, Brendan, Wine, Eytan, Patterson, Jordan, Ford, Glenn, O'Keefe, Sandra, Meng, Bo, Song, Deyong, Zhang, Yong, Tian, Zhijian, Wasilenko, Shawn T., Rahbari, Mandana, Reza, Salman, Mitchell, Troy, Jordan, Tracy, Carpenter, Eric, Madsen, Karen, Fedorak, Richard, Dielemann, Levinus A., Ka-Shu Wong, Gane, Mason, Andrew L.
Publicado no Inflamm Bowel Dis (2015)

Access to RNA-sequencing data from 1,173 plant species: The 1000 Plant transcriptomes initiative (1KP)

Por Carpenter, Eric J, Matasci, Naim, Ayyampalayam, Saravanaraj, Wu, Shuangxiu, Sun, Jing, Yu, Jun, Jimenez Vieira, Fabio Rocha, Bowler, Chris, Dorrell, Richard G, Gitzendanner, Matthew A, Li, Ling, Du, Wensi, K. Ullrich, Kristian, Wickett, Norman J, Barkmann, Todd J, Barker, Michael S, Leebens-Mack, James H, Wong, Gane Ka-Shu
Publicado no Gigascience (2019)

Independent Optical Excitation of Distinct Neural Populations

Por Klapoetke, Nathan C, Murata, Yasunobu, Kim, Sung Soo, Pulver, Stefan R., Birdsey-Benson, Amanda, Cho, Yong Ku, Morimoto, Tania K, Chuong, Amy S, Carpenter, Eric J, Tian, Zhijian, Wang, Jun, Xie, Yinlong, Yan, Zhixiang, Zhang, Yong, Chow, Brian Y, Surek, Barbara, Melkonian, Michael, Jayaraman, Vivek, Constantine-Paton, Martha, Wong, Gane Ka-Shu, Boyden, Edward S
Publicado em 2014

Diversity of ABC transporter genes across the plant kingdom and their potential utility in biotechnology

Por Lane, Thomas S., Rempe, Caroline S., Davitt, Jack, Staton, Margaret E., Peng, Yanhui, Soltis, Douglas Edward, Melkonian, Michael, Deyholos, Michael, Leebens-Mack, James H., Chase, Mark, Rothfels, Carl J., Stevenson, Dennis, Graham, Sean W., Yu, Jun, Liu, Tao, Pires, J. Chris, Edger, Patrick P., Zhang, Yong, Xie, Yinlong, Zhu, Ying, Carpenter, Eric, Wong, Gane Ka-Shu, Stewart, C. Neal
Publicado no BMC Biotechnol (2016)

Insights into the Evolution of Hydroxyproline-Rich Glycoproteins from 1000 Plant Transcriptomes

Por Johnson, Kim L., Cassin, Andrew M., Lonsdale, Andrew, Wong, Gane Ka-Shu, Soltis, Douglas E., Miles, Nicholas W., Melkonian, Michael, Melkonian, Barbara, Deyholos, Michael K., Leebens-Mack, James, Rothfels, Carl J., Stevenson, Dennis W., Graham, Sean W., Wang, Xumin, Wu, Shuangxiu, Pires, J. Chris, Edger, Patrick P., Carpenter, Eric J., Bacic, Antony, Doblin, Monika S., Schultz, Carolyn J.
Publicado no Plant Physiol (2017)

A genome triplication associated with early diversification of the core eudicots

Por Jiao, Yuannian, Leebens-Mack, Jim, Ayyampalayam, Saravanaraj, Bowers, John E, McKain, Michael R, McNeal, Joel, Rolf, Megan, Ruzicka, Daniel R, Wafula, Eric, Wickett, Norman J, Wu, Xiaolei, Zhang, Yong, Wang, Jun, Zhang, Yeting, Carpenter, Eric J, Deyholos, Michael K, Kutchan, Toni M, Chanderbali, Andre S, Soltis, Pamela S, Stevenson, Dennis W, McCombie, Richard, Pires, J Chris, Wong, Gane Ka-Shu, Soltis, Douglas E, dePamphilis, Claude W
Publicado em 2012

Evaluating Methods for Isolating Total RNA and Predicting the Success of Sequencing Phylogenetically Diverse Plant Transcriptomes

Por Johnson, Marc T. J., Carpenter, Eric J., Tian, Zhijian, Bruskiewich, Richard, Burris, Jason N., Carrigan, Charlotte T., Chase, Mark W., Clarke, Neil D., Covshoff, Sarah, dePamphilis, Claude W., Edger, Patrick P., Goh, Falicia, Graham, Sean, Greiner, Stephan, Hibberd, Julian M., Jordon-Thaden, Ingrid, Kutchan, Toni M., Leebens-Mack, James, Melkonian, Michael, Miles, Nicholas, Myburg, Henrietta, Patterson, Jordan, Pires, J. Chris, Ralph, Paula, Rolf, Megan, Sage, Rowan F., Soltis, Douglas, Soltis, Pamela, Stevenson, Dennis, Stewart, C. Neal, Surek, Barbara, Thomsen, Christina J. M., Villarreal, Juan Carlos, Wu, Xiaolei, Zhang, Yong, Deyholos, Michael K., Wong, Gane Ka-Shu
Publicado em 2012

Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns

Por Li, Fay-Wei, Villarreal, Juan Carlos, Kelly, Steven, Rothfels, Carl J., Melkonian, Michael, Frangedakis, Eftychios, Ruhsam, Markus, Sigel, Erin M., Der, Joshua P., Pittermann, Jarmila, Burge, Dylan O., Pokorny, Lisa, Larsson, Anders, Chen, Tao, Weststrand, Stina, Thomas, Philip, Carpenter, Eric, Zhang, Yong, Tian, Zhijian, Chen, Li, Yan, Zhixiang, Zhu, Ying, Sun, Xiao, Wang, Jun, Stevenson, Dennis W., Crandall-Stotler, Barbara J., Shaw, A. Jonathan, Deyholos, Michael K., Soltis, Douglas E., Graham, Sean W., Windham, Michael D., Langdale, Jane A., Wong, Gane Ka-Shu, Mathews, Sarah, Pryer, Kathleen M.
Publicado em 2014

Phylotranscriptomic analysis of the origin and early diversification of land plants

Por Wickett, Norman J., Mirarab, Siavash, Nguyen, Nam, Warnow, Tandy, Carpenter, Eric, Matasci, Naim, Ayyampalayam, Saravanaraj, Barker, Michael S., Burleigh, J. Gordon, Gitzendanner, Matthew A., Ruhfel, Brad R., Wafula, Eric, Der, Joshua P., Graham, Sean W., Mathews, Sarah, Melkonian, Michael, Soltis, Douglas E., Soltis, Pamela S., Miles, Nicholas W., Rothfels, Carl J., Pokorny, Lisa, Shaw, A. Jonathan, DeGironimo, Lisa, Stevenson, Dennis W., Surek, Barbara, Villarreal, Juan Carlos, Roure, Béatrice, Philippe, Hervé, dePamphilis, Claude W., Chen, Tao, Deyholos, Michael K., Baucom, Regina S., Kutchan, Toni M., Augustin, Megan M., Wang, Jun, Zhang, Yong, Tian, Zhijian, Yan, Zhixiang, Wu, Xiaolei, Sun, Xiao, Wong, Gane Ka-Shu, Leebens-Mack, James
Publicado no Proc Natl Acad Sci U S A (2014)

Data access for the 1,000 Plants (1KP) project

Por Matasci, Naim, Hung, Ling-Hong, Yan, Zhixiang, Carpenter, Eric J, Wickett, Norman J, Mirarab, Siavash, Nguyen, Nam, Warnow, Tandy, Ayyampalayam, Saravanaraj, Barker, Michael, Burleigh, J Gordon, Gitzendanner, Matthew A, Wafula, Eric, Der, Joshua P, dePamphilis, Claude W, Roure, Béatrice, Philippe, Hervé, Ruhfel, Brad R, Miles, Nicholas W, Graham, Sean W, Mathews, Sarah, Surek, Barbara, Melkonian, Michael, Soltis, Douglas E, Soltis, Pamela S, Rothfels, Carl, Pokorny, Lisa, Shaw, Jonathan A, DeGironimo, Lisa, Stevenson, Dennis W, Villarreal, Juan Carlos, Chen, Tao, Kutchan, Toni M, Rolf, Megan, Baucom, Regina S, Deyholos, Michael K, Samudrala, Ram, Tian, Zhijian, Wu, Xiaolei, Sun, Xiao, Zhang, Yong, Wang, Jun, Leebens-Mack, Jim, Wong, Gane Ka-Shu
Publicado no Gigascience (2014)