Analyses of methylomes of upland and lowland switchgrass (Panicum virgatum) ecotypes using MeDIP-seq and BS-seq

by Mollee Dworkin, Shaojun Xie, Malay Saha, Jyothi Thimmapuram, Venu (Kal) Kalavacharla
Published 2017-11-01

Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype

by Sahar Abdelrazek, Sulbha Choudhari, Jyothi Thimmapuram, Philipp Simon, Micaela Colley, Tesfaye Mengiste, Lori Hoagland
Published 2020-08-01

The origin and biosynthesis of the naphthalenoid moiety of juglone in black walnut

by Rachel M. McCoy, Sagar M. Utturkar, Joseph W. Crook, Jyothi Thimmapuram, Joshua R. Widhalm
Published 2018-11-01

A Study of Alterations in DNA Epigenetic Modifications (5mC and 5hmC) and Gene Expression Influenced by Simulated Microgravity in Human Lymphoblastoid Cells.

by Basudev Chowdhury, Arun Seetharam, Zhiping Wang, Yunlong Liu, Amy C Lossie, Jyothi Thimmapuram, Joseph Irudayaraj
Published 2016-01-01

Genome-wide identification of histone methylation (H3K9me2) and acetylation (H4K12ac) marks in two ecotypes of switchgrass (Panicum virgatum L.)

by Vasudevan Ayyappan, Venkateswara R. Sripathi, Venu ( Kal) Kalavacharla, Malay C. Saha, Jyothi Thimmapuram, Ketaki P. Bhide, Elizabeth Fiedler
Published 2019-08-01

RNA sequencing identifies transcriptional changes in the rabbit larynx in response to low humidity challenge

by Taylor W. Bailey, Andrea Pires dos Santos, Naila Cannes do Nascimento, Shaojun Xie, Jyothi Thimmapuram, M. Preeti Sivasankar, Abigail Cox
Published 2020-12-01

Analysis of 16S rRNA amplicon sequencing options on the Roche/454 next-generation titanium sequencing platform.

by Hideyuki Tamaki, Chris L Wright, Xiangzhen Li, Qiaoyan Lin, Chiachi Hwang, Shiping Wang, Jyothi Thimmapuram, Yoichi Kamagata, Wen-Tso Liu
Published 2011-01-01

Investigation of the Transcriptome of Prairie Cord Grass, a New Cellulosic Biomass Crop

by Kristene Gedye, Jose Gonzalez-Hernandez, Yuguang Ban, Xijin Ge, Jyothi Thimmapuram, Fengjie Sun, Chris Wright, Shahjahan Ali, Arvid Boe, Vance Owens
Published 2010-09-01

Transcriptome sequencing of the blind subterranean mole rat, Spalax galili: utility and potential for the discovery of novel evolutionary patterns.

by Assaf Malik, Abraham Korol, Sariel Hübner, Alvaro G Hernandez, Jyothi Thimmapuram, Shahjahan Ali, Fabian Glaser, Arnon Paz, Aaron Avivi, Mark Band
Published 2011-01-01

Coordination of MicroRNAs, PhasiRNAs, and NB-LRR Genes in Response to a Plant Pathogen: Insights from Analyses of a Set of Soybean Rps Gene Near-Isogenic Lines

by Meixia Zhao, Chunmei Cai, Jixian Zhai, Feng Lin, Linghong Li, Jacob Shreve, Jyothi Thimmapuram, Teresa J. Hughes, Blake C. Meyers, Jianxin Ma
Published 2015-03-01

Genome-Wide Profiling of Histone Modifications (H3K9me2 and H4K12ac) and Gene Expression in Rust (Uromyces appendiculatus) Inoculated Common Bean (Phaseolus vulgaris L.).

by Vasudevan Ayyappan, Venu Kalavacharla, Jyothi Thimmapuram, Ketaki P Bhide, Venkateswara R Sripathi, Tomasz G Smolinski, Muthusamy Manoharan, Yaqoob Thurston, Antonette Todd, Bruce Kingham
Published 2015-01-01

Ten simple rules for providing effective bioinformatics research support.

by Judit Kumuthini, Michael Chimenti, Sven Nahnsen, Alexander Peltzer, Rebone Meraba, Ross McFadyen, Gordon Wells, Deanne Taylor, Mark Maienschein-Cline, Jian-Liang Li, Jyothi Thimmapuram, Radha Murthy-Karuturi, Lyndon Zass
Published 2020-03-01

Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development

by Bryan W. Penning, Tânia M. Shiga, John F. Klimek, Philip J. SanMiguel, Jacob Shreve, Jyothi Thimmapuram, Robert W. Sykes, Mark F. Davis, Maureen C. McCann, Nicholas C. Carpita
Published 2019-10-01

Diversity and strain specificity of plant cell wall degrading enzymes revealed by the draft genome of Ruminococcus flavefaciens FD-1.

by Margret E Berg Miller, Dionysios A Antonopoulos, Marco T Rincon, Mark Band, Albert Bari, Tatsiana Akraiko, Alvaro Hernandez, Jyothi Thimmapuram, Bernard Henrissat, Pedro M Coutinho, Ilya Borovok, Sadanari Jindou, Raphael Lamed, Harry J Flint, Edward A Bayer, Bryan A White
Published 2009-08-01

Comparative Analysis and Functional Annotation of a Large Expressed Sequence Tag Collection of Apple

by Ksenija Gasic, Delkin O. Gonzalez, Jyothi Thimmapuram, Lei Liu, Mickael Malnoy, George Gong, Yuepeng Han, Lila O. Vodkin, Herb S. Aldwinckle, Natalie J. Carroll, Kathryn S. Orvis, Peter Goldsbrough, Sandra Clifton, Deana Pape, Lucinda Fulton, John Martin, Brenda Theising, Michael E. Wisniewski, Gennaro Fazio, Frank A. Feltus, Schuyler S. Korban
Published 2009-03-01

Cross-site comparison of ribosomal depletion kits for Illumina RNAseq library construction

by Zachary T. Herbert, Jamie P. Kershner, Vincent L. Butty, Jyothi Thimmapuram, Sulbha Choudhari, Yuriy O. Alekseyev, Jun Fan, Jessica W. Podnar, Edward Wilcox, Jenny Gipson, Allison Gillaspy, Kristen Jepsen, Sandra Splinter BonDurant, Krystalynne Morris, Maura Berkeley, Ashley LeClerc, Stephen D. Simpson, Gary Sommerville, Leslie Grimmett, Marie Adams, Stuart S. Levine
Published 2018-03-01

Genomic insights into the Ixodes scapularis tick vector of Lyme disease

by Monika Gulia-Nuss, Andrew B. Nuss, Jason M. Meyer, Daniel E. Sonenshine, R. Michael Roe, Robert M. Waterhouse, David B. Sattelle, José de la Fuente, Jose M. Ribeiro, Karine Megy, Jyothi Thimmapuram, Jason R. Miller, Brian P. Walenz, Sergey Koren, Jessica B. Hostetler, Mathangi Thiagarajan, Vinita S. Joardar, Linda I. Hannick, Shelby Bidwell, Martin P. Hammond, Sarah Young, Qiandong Zeng, Jenica L. Abrudan, Francisca C. Almeida, Nieves Ayllón, Ketaki Bhide, Brooke W. Bissinger, Elena Bonzon-Kulichenko, Steven D. Buckingham, Daniel R. Caffrey, Melissa J. Caimano, Vincent Croset, Timothy Driscoll, Don Gilbert, Joseph J. Gillespie, Gloria I. Giraldo-Calderón, Jeffrey M. Grabowski, David Jiang, Sayed M. S. Khalil, Donghun Kim, Katherine M. Kocan, Juraj Koči, Richard J. Kuhn, Timothy J. Kurtti, Kristin Lees, Emma G. Lang, Ryan C. Kennedy, Hyeogsun Kwon, Rushika Perera, Yumin Qi, Justin D. Radolf, Joyce M. Sakamoto, Alejandro Sánchez-Gracia, Maiara S. Severo, Neal Silverman, Ladislav Šimo, Marta Tojo, Cristian Tornador, Janice P. Van Zee, Jesús Vázquez, Filipe G. Vieira, Margarita Villar, Adam R. Wespiser, Yunlong Yang, Jiwei Zhu, Peter Arensburger, Patricia V. Pietrantonio, Stephen C. Barker, Renfu Shao, Evgeny M. Zdobnov, Frank Hauser, Cornelis J. P. Grimmelikhuijzen, Yoonseong Park, Julio Rozas, Richard Benton, Joao H. F. Pedra, David R. Nelson, Maria F. Unger, Jose M. C. Tubio, Zhijian Tu, Hugh M. Robertson, Martin Shumway, Granger Sutton, Jennifer R. Wortman, Daniel Lawson, Stephen K. Wikel, Vishvanath M. Nene, Claire M. Fraser, Frank H. Collins, Bruce Birren, Karen E. Nelson, Elisabet Caler, Catherine A. Hill
Published 2016-02-01