Robert J Schmitz (R J Schmitz)

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 67

Top Topics

Dna Methylation

High Throughput Sequencing

Top Venues

bioRxiv : the preprint server for biology

This page only lists publications with an associated author ORCID identifier.

Publications

Yinwen Zhang, Hosung Jang, Ziliang Luo, Yin-Xin Dong, Yangyang Xu, Yamini Kantamneni, Robert J Schmitz
Dynamic evolution of the heterochromatin sensing histone demethylase IBM1. PLoS genetics 20 (7) (2024)
Haidong Yan, John P Mendieta, Xuan Zhang, Alexandre P Marand, Yan Liang, Ziliang Luo, Thomas Roulé, Doris Wagner, Xiaoyu Tu, Yonghong Wang, Silin Zhong, Susan R Wessler, Robert J Schmitz
Evolution of cell-type-specific accessible chromatin regions and the cis -regulatory elements that drive lineage-specific innovation. bioRxiv : the preprint server for biology (2024)
Haidong Yan, John P Mendieta, Xuan Zhang, Alexandre P Marand, Yan Liang, Ziliang Luo, Mark A A Minow, Thomas Roulé, Doris Wagner, Xiaoyu Tu, Yonghong Wang, Silin Zhong, Susan R Wessler, Robert J Schmitz
Evolution of plant cell-type-specific cis -regulatory elements. bioRxiv : the preprint server for biology (2024)
John Pablo Mendieta, Xiaoyu Tu, Daiquan Jiang, Haidong Yan, Xuan Zhang, Alexandre P Marand, Silin Zhong, Robert J Schmitz
Investigating the cis- Regulatory Basis of C 3 and C 4 Photosynthesis in Grasses at Single-Cell Resolution. bioRxiv : the preprint server for biology (2024)
Yinwen Zhang, Hosung Jang, Ziliang Luo, Yin-Xin Dong, Yangyang Xu, Yamini Kantamneni, Robert J Schmitz
Dynamic evolution of the heterochromatin sensing histone demethylase IBM1. PLoS genetics 20 (7) (2024)
Haidong Yan, John P Mendieta, Xuan Zhang, Alexandre P Marand, Yan Liang, Ziliang Luo, Mark A A Minow, Thomas Roulé, Doris Wagner, Xiaoyu Tu, Yonghong Wang, Silin Zhong, Susan R Wessler, Robert J Schmitz
Evolution of plant cell-type-specific cis -regulatory elements. bioRxiv : the preprint server for biology (2024)
Bayley R McDonald, Colette L Picard, Ian M Brabb, Marina I Savenkova, Robert J Schmitz, Steven E Jacobsen, Sascha H C Duttke
Enhancers associated with unstable RNAs are rare in plants. Nature plants 10 (8) (2024)
Xuan Zhang, Alexandre P Marand, Haidong Yan, Robert J Schmitz
scifi-ATAC-seq: massive-scale single-cell chromatin accessibility sequencing using combinatorial fluidic indexing. Genome biology 25 (1) (2024)
Shengchen Shan, Matthew A Gitzendanner, J Lucas Boatwright, Jonathan P Spoelhof, Christina L Ethridge, Lexiang Ji, Xiaoxian Liu, Pamela S Soltis, Robert J Schmitz, Douglas Edward Soltis
Genome-wide DNA methylation dynamics following recent polyploidy in the allotetraploid Tragopogon miscellus (Asteraceae). The New phytologist (2024)
Xuan Zhang, Alexandre P Marand, Haidong Yan, Robert J Schmitz
scifi-ATAC-seq: massive-scale single-cell chromatin accessibility sequencing using combinatorial fluidic indexing. Genome biology 25 (1) (2024)
Bayley R McDonald, Colette L Picard, Ian M Brabb, Marina I Savenkova, Robert J Schmitz, Steven E Jacobsen, Sascha H C Duttke
Enhancers associated with unstable RNAs are rare in plants. Nature plants 10 (8) (2024)
Yinwen Zhang, Hosung Jang, Ziliang Luo, Yin-Xin Dong, Yangyang Xu, Yamini Kantamneni, Robert J Schmitz
Dynamic evolution of the heterochromatin sensing histone demethylase IBM1. PLoS genetics 20 (7) (2024)
John Pablo Mendieta, Xiaoyu Tu, Haidong Yan, Xuan Zhang, Alexandre P Marand, Silin Zhong, Robert J Schmitz
Investigating the cis-Regulatory Basis of C3 and C4 Photosynthesis in Grasses at Single-Cell Resolution. bioRxiv : the preprint server for biology (2024)
John Pablo Mendieta, Xiaoyu Tu, Daiquan Jiang, Haidong Yan, Xuan Zhang, Alexandre P Marand, Silin Zhong, Robert J Schmitz
Investigating the cis -Regulatory Basis of C 3 and C 4 Photosynthesis in Grasses at Single-Cell Resolution. bioRxiv : the preprint server for biology (2024)
Bayley R McDonald, Colette L Picard, Ian M Brabb, Marina I Savenkova, Robert J Schmitz, Steven E Jacobsen, Sascha H C Duttke
Enhancers associated with unstable RNAs are rare in plants. Nature plants (2024)
Xuan Zhang, Alexandre P Marand, Haidong Yan, Robert J Schmitz
scifi-ATAC-seq: massive-scale single-cell chromatin accessibility sequencing using combinatorial fluidic indexing. Genome biology 25 (1) (2024)
Shengchen Shan, Matthew A Gitzendanner, J Lucas Boatwright, Jonathan P Spoelhof, Christina L Ethridge, Lexiang Ji, Xiaoxian Liu, Pamela S Soltis, Robert J Schmitz, Douglas Edward Soltis
Genome-wide DNA methylation dynamics following recent polyploidy in the allotetraploid Tragopogon miscellus (Asteraceae). The New phytologist 242 (3) (2024)
Yinwen Zhang, Hosung Jang, Ziliang Luo, Yin-Xin Dong, Yangyang Xu, Yamini Kantamneni, Robert J Schmitz
Dynamic evolution of the heterochromatin sensing histone demethylase IBM1. PLoS genetics 20 (7) (2024)
Bayley R McDonald, Colette L Picard, Ian M Brabb, Marina I Savenkova, Robert J Schmitz, Steven E Jacobsen, Sascha H C Duttke
Enhancers associated with unstable RNAs are rare in plants. Nature plants 10 (8) (2024)
Yinwen Zhang, Hosung Jang, Ziliang Luo, Yin-Xin Dong, Yangyang Xu, Yamini Kantamneni, Robert J Schmitz
Dynamic evolution of the heterochromatin sensing histone demethylase IBM1. PLoS genetics 20 (7) (2024)
Bayley R McDonald, Colette L Picard, Ian M Brabb, Marina I Savenkova, Robert J Schmitz, Steven E Jacobsen, Sascha H C Duttke
Enhancers associated with unstable RNAs are rare in plants. Nature plants (2024)
Shengchen Shan, Matthew A Gitzendanner, J Lucas Boatwright, Jonathan P Spoelhof, Christina L Ethridge, Lexiang Ji, Xiaoxian Liu, Pamela S Soltis, Robert J Schmitz, Douglas Edward Soltis
Genome-wide DNA methylation dynamics following recent polyploidy in the allotetraploid Tragopogon miscellus (Asteraceae). The New phytologist 242 (3) (2024)
Xuan Zhang, Alexandre P Marand, Haidong Yan, Robert J Schmitz
scifi-ATAC-seq: massive-scale single-cell chromatin accessibility sequencing using combinatorial fluidic indexing. Genome biology 25 (1) (2024)
Xuan Zhang, Alexandre P Marand, Haidong Yan, Robert J Schmitz
scifi-ATAC-seq: massive-scale single-cell chromatin accessibility sequencing using combinatorial fluidic indexing. Genome biology 25 (1) (2024)
Xuan Zhang, Alexandre P Marand, Haidong Yan, Robert J Schmitz
scifi-ATAC-seq: massive-scale single-cell chromatin accessibility sequencing using combinatorial fluidic indexing. Genome biology 25 (1) (2024)
John Pablo Mendieta, Xiaoyu Tu, Haidong Yan, Xuan Zhang, Alexandre P Marand, Silin Zhong, Robert J Schmitz
Investigating the cis-Regulatory Basis of C3 and C4 Photosynthesis in Grasses at Single-Cell Resolution. bioRxiv : the preprint server for biology (2024)
John Pablo Mendieta, Xiaoyu Tu, Daiquan Jiang, Haidong Yan, Xuan Zhang, Alexandre P Marand, Silin Zhong, Robert J Schmitz
Investigating the cis -Regulatory Basis of C 3 and C 4 Photosynthesis in Grasses at Single-Cell Resolution. bioRxiv : the preprint server for biology (2024)
John Pablo Mendieta, Xiaoyu Tu, Daiquan Jiang, Haidong Yan, Xuan Zhang, Alexandre P Marand, Silin Zhong, Robert J Schmitz
Investigating the cis -Regulatory Basis of C 3 and C 4 Photosynthesis in Grasses at Single-Cell Resolution. bioRxiv : the preprint server for biology (2024)
Ran Zhou, Jerry W Jenkins, Yibing Zeng, Shengqiang Shu, Hosung Jang, Scott A Harding, Melissa Williams, Christopher Plott, Kerrie W Barry, Maxim Koriabine, Mojgan Amirebrahimi, Jayson Talag, Shanmugam Rajasekar, Jerry W Jenkins, Robert J Schmitz, R Kelly Dawe, Jeremy Schmutz, Chung-Jui Tsai
Haplotype-resolved genome assembly of Populus tremula × P. alba reveals aspen-specific megabase satellite DNA. The Plant journal : for cell and molecular biology (2023)
John Pablo Mendieta, Ankush Sangra, Haidong Yan, Mark A A Minow, Robert J Schmitz
Exploring Plant Cis-Regulatory Elements at Single-Cell Resolution: Overcoming Biological and Computational Challenges to Advance Plant Research. The Plant journal : for cell and molecular biology (2023)
Iryna Ivasyk, Leonora Olivos-Cisneros, Stephany Valdés-Rodríguez, Marie Droual, Hosung Jang, Robert J Schmitz, Daniel J C Kronauer
DNMT1 mutant ants develop normally but have disrupted oogenesis. Nature communications 14 (1) (2023)
N Yao, Z Zhang, Lei Yu, Rashmi R Hazarika, C Yu, Hosung Jang, Lisa M Smith, Jurriaan Ton, Liang Liu, John J Stachowicz, Thorsten B H Reusch, Robert J Schmitz, Frank Johannes
An evolutionary epigenetic clock in plants. Science (New York, N.Y.) 381 (6665) (2023)
Andrew Murray, John Pablo Mendieta, Chris Vollmers, Robert J Schmitz
Simple and accurate transcriptional start site identification using Smar2C2 and examination of conserved promoter features. The Plant journal : for cell and molecular biology 112 (2) (2022)
D Blaine Marchant, Guang Chen, Shengguan Cai, Fei Chen, Peter Schafran, Jerry W Jenkins, Shengqiang Shu, Christopher Plott, Jenell Webber, John T Lovell, Guifen He, Laura Sandor, Melissa Williams, Shanmugam Rajasekar, Adam Healey, Kerrie Barry, Yinwen Zhang, Emily Sessa, Rijan R Dhakal, Paul G Wolf, Alex Harkess, Fay-Wei Li, Clemens Rössner, Annette Becker, Lydia Gramzow, Dawei Xue, Yuhuan Wu, Tao Tong, Yuanyuan Wang, Fei Dai, Shuijin Hua, Hua Wang, Shengchun Xu, Fei Xu, Honglang Duan, Günter Theißen, Michael R McKain, Zheng Li, Michael T W McKibben, Michael S Barker, Robert J Schmitz, Dennis W Stevenson, Cecilia Zumajo-Cardona, Barbara A Ambrose, James H Leebens-Mack, Jerry W Jenkins, Jeremy Schmutz, Pamela S Soltis, Douglas Edward Soltis, Zhong-Hua Chen
Dynamic genome evolution in a model fern. Nature plants 8 (9) (2022)
Rashmi R Hazarika, Michele Serra, Zhilin Zhang, Yinwen Zhang, Robert J Schmitz, Frank Johannes
Molecular properties of epimutation hotspots. Nature plants 8 (2) (2022)
Jaclyn M Noshay, Zhikai Liang, Peng Zhou, Peter A Crisp, Alexandre P Marand, Candice N Hirsch, Robert J Schmitz, Springer M Nathan
Stability of DNA methylation and chromatin accessibility in structurally diverse maize genomes. G3 (Bethesda, Md.) 11 (8) (2022)
William P Bewg, Scott A Harding, Nancy L Engle, Brajesh N Vaidya, Ran Zhou, Jacob Reeves, Thomas W Horn, Nirmal Joshee, Jerry W Jenkins, Shengqiang Shu, Kerrie W Barry, Yuko Yoshinaga, Jerry W Jenkins, Robert J Schmitz, Jeremy Schmutz, Timothy J Tschaplinski, Chung-Jui Tsai
Multiplex knockout of trichome-regulating MYB duplicates in hybrid poplar using a single gRNA. Plant physiology 189 (2) (2022)
Robert J Schmitz, Erich Grotewold, Maike Stam
Cis-regulatory sequences in plants: Their importance, discovery, and future challenges. The Plant cell 34 (2) (2022)
John Pablo Mendieta, Alexandre P Marand, William A Ricci, Xuan Zhang, Robert J Schmitz
Leveraging histone modifications to improve genome annotations. G3 (Bethesda, Md.) 11 (10) (2021)
William T Jordan, Seth Currie, Robert J Schmitz
Multiplex genome editing in Arabidopsis thaliana using Mb3Cas12a. Plant direct 5 (9) (2021)
Liesbeth Minnoye, Georgi K Marinov, Thomas Krausgruber, Lixia Pan, Alexandre P Marand, Stefano Secchia, William J Greenleaf, Eileen E M Furlong, Keji Zhao, Robert J Schmitz, Christoph Bock, Stein Aerts
Chromatin accessibility profiling methods. Nature reviews. Methods primers 1 (2021)
Matthew B Hufford, Arun S Seetharam, Margaret R Woodhouse, Kapeel M Chougule, Shujun Ou, Jianing Liu, William A Ricci, Tingting Guo, Andrew Olson, Yinjie Qiu, Rafael Della Coletta, Silas B Tittes, Asher I Hudson, Alexandre P Marand, Sharon Wei, Zhenyuan Lu, Bo Wang, Marcela Karey Tello-Ruiz, Rebecca D Piri, Na Wang, Dong Won Kim, Yibing Zeng, Christine H O'Connor, Xianran Li, Amanda M Gilbert, Erin L Baggs, Ksenia V Krasileva, John L Portwood, Ethalinda K S Cannon, Carson M Andorf, Nancy Manchanda, Samantha J Snodgrass, David E Hufnagel, Qiuhan Jiang, Sarah Pedersen, Michael L Syring, David A Kudrna, Victor Llaca, Kevin Fengler, Robert J Schmitz, Jeffrey Ross-Ibarra, Jianming Yu, Jonathan I Gent, Candice N Hirsch, Doreen H Ware, R Kelly Dawe
De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes. Science (New York, N.Y.) 373 (6555) (2021)
Liesbeth Minnoye, Georgi K Marinov, Thomas Krausgruber, Lixia Pan, Alexandre P Marand, Stefano Secchia, William J Greenleaf, Eileen E M Furlong, Keji Zhao, Robert J Schmitz, Christoph Bock, Stein Aerts
Chromatin accessibility profiling methods. Nature reviews. Methods primers 1 (2021)
Liesbeth Minnoye, Georgi K Marinov, Thomas Krausgruber, Lixia Pan, Alexandre P Marand, Stefano Secchia, William J Greenleaf, Eileen E M Furlong, Keji Zhao, Robert J Schmitz, Christoph Bock, Stein Aerts
Chromatin accessibility profiling methods. Nature reviews. Methods primers 1 (2021)
Joshua T Washington, Katelyn R Cavender, Ashley U Amukamara, Elizabeth C McKinney, Robert J Schmitz, Patricia J Moore
The essential role of Dnmt1 in gametogenesis in the large milkweed bug Oncopeltus fasciatus. eLife 10 (2021)
Yinwen Zhang, Hosung Jang, Rui Xiao, Ioanna Kakoulidou, Robert S Piecyk, Frank Johannes, Robert J Schmitz
Heterochromatin is a quantitative trait associated with spontaneous epiallele formation. Nature communications 12 (1) (2021)
Liesbeth Minnoye, Georgi K Marinov, Thomas Krausgruber, Lixia Pan, Alexandre P Marand, Stefano Secchia, William J Greenleaf, Eileen E M Furlong, Keji Zhao, Robert J Schmitz, Christoph Bock, Stein Aerts
Chromatin accessibility profiling methods. Nature reviews. Methods primers 1 (2021)
Masayuki Kamei, Abigail J Courtney, Aileen R Ferraro, Yael Bar-Peled, Fangzhou Zhao, Christina L Ethridge, Kathleen Lail, Mojgan Amirebrahimi, Anna Lipzen, Vivian Ng, Igor V Grigoriev, Robert J Schmitz, Yi Liu, Zachary A Lewis
IMITATION SWITCH is required for normal chromatin structure and gene repression in PRC2 target domains. Proceedings of the National Academy of Sciences of the United States of America 118 (4) (2021)
Nicholas J Provart, Siobhán M Brady, Geraint Parry, Robert J Schmitz, Christine Queitsch, Dario Bonetta, Jamie Waese, Korbinian Schneeberger, Ann E Loraine
Anno genominis XX: 20 years of Arabidopsis genomics. The Plant cell 33 (4) (2021)
Peter A Crisp, Alexandre P Marand, Jaclyn M Noshay, Peng Zhou, Zefu Lu, Robert J Schmitz, Springer M Nathan
Stable unmethylated DNA demarcates expressed genes and their cis-regulatory space in plant genomes. Proceedings of the National Academy of Sciences of the United States of America 117 (38) (2020)
Rudo Kieft, Yang Zhang, Alexandre P Marand, Jose Dagoberto Moran, Robert Bridger, Lance Wells, Robert J Schmitz, Robert Sabatini
Identification of a novel base J binding protein complex involved in RNA polymerase II transcription termination in trypanosomes. PLoS genetics 16 (2) (2020)
Brigitte T Hofmeister, Johanna Denkena, Maria Colomé-Tatché, Yadollah Shahryary, Rashmi Hazarika, Jane Grimwood, Sujan Mamidi, Jerry Jenkins, Paul P Grabowski, Avinash Sreedasyam, Shengqiang Shu, Kerrie Barry, Kathleen Lail, Catherine Adam, Anna Lipzen, Rotem Sorek, Dave Kudrna, Jayson Talag, Rod Wing, David W Hall, Daniel Jacobsen, Gerald A Tuskan, Jeremy Schmutz, Frank Johannes, Robert J Schmitz
A genome assembly and the somatic genetic and epigenetic mutation rate in a wild long-lived perennial Populus trichocarpa. Genome biology 21 (1) (2020)
Corrinne E Grover, Mengqiao Pan, Daojun Yuan, Mark A Arick, Guanjing Hu, Logan Brase, David M Stelly, Zefu Lu, Robert J Schmitz, Daniel G Peterson, Jonathan F Wendel, Joshua A Udall
The Gossypium longicalyx Genome as a Resource for Cotton Breeding and Evolution. G3 (Bethesda, Md.) 10 (5) (2020)
Yinwen Zhang, Jered M Wendte, Lexiang Ji, Robert J Schmitz
Natural variation in DNA methylation homeostasis and the emergence of epialleles. Proceedings of the National Academy of Sciences of the United States of America 117 (9) (2020)
Adam J Bewick, Yinwen Zhang, Jered M Wendte, Lexiang Ji, Robert J Schmitz
Evolutionary and Experimental Loss of Gene Body Methylation and Its Consequence to Gene Expression. G3 (Bethesda, Md.) 9 (8) (2019)
Mark Zander, Björn Christopher Willige, Yupeng He, Thu A Nguyen, Amber E Langford, Ramlah Nehring, Elizabeth Howell, Robert McGrath, Anna Bartlett, Rosa Castanon, Joseph R Nery, Huaming Chen, Zhuzhu Zhang, Florian Jupe, Anna Stepanova, Robert J Schmitz, Mathew G Lewsey, Joanne Chory, Joseph R Ecker
Epigenetic silencing of a multifunctional plant stress regulator. eLife 8 (2019)
Joseph D Dekker, Gisele V Baracho, Zilu Zhu, Gregory C Ippolito, Robert J Schmitz, Robert C Rickert, Haley O Tucker
Loss of the FOXP1 Transcription Factor Leads to Deregulation of B Lymphocyte Development and Function at Multiple Stages. ImmunoHorizons 3 (10) (2019)
Jaclyn M Noshay, Sarah N Anderson, Peng Zhou, Lexiang Ji, William Ricci, Zefu Lu, Michelle C Stitzer, Peter A Crisp, Candice N Hirsch, Xiaoyu Zhang, Robert J Schmitz, Springer M Nathan
Monitoring the interplay between transposable element families and DNA methylation in maize. PLoS genetics 15 (9) (2019)
Cristiana T Argueso, Sarah M Assmann, Kenneth D Birnbaum, Sixue Chen, José R Dinneny, Colleen J Doherty, Andrea L Eveland, Joanna Friesner, Vanessa R Greenlee, Julie A Law, Amy Marshall-Colón, Grace Alex Mason, Ruby O'Lexy, Scott C Peck, Robert J Schmitz, Liang Song, David B Stern, Marguerite J Varagona, Justin W Walley, Cranos M Williams
Directions for research and training in plant omics: Big Questions and Big Data. Plant direct 3 (4) (2019)
Yezhang Ding, Katherine M Murphy, Elly Poretsky, Sibongile Mafu, Bing Yang, Si Nian Char, Shawn A Christensen, Evan Saldivar, Mengxi Wu, Qiang Wang, Lexiang Ji, Robert J Schmitz, Karl A Kremling, Edward S Buckler, Zhouxin Shen, Steven P Briggs, Jörg Bohlmann, Andrew Sher, Gabriel Castro-Falcon, Chambers C Hughes, Alisa Huffaker, Philipp Zerbe, Eric A Schmelz
Multiple genes recruited from hormone pathways partition maize diterpenoid defences. Nature plants 5 (10) (2019)
Adam J Bewick, Brigitte T Hofmeister, Rob A Powers, Stephen J Mondo, Igor V Grigoriev, Timothy Y James, Jason E Stajich, Robert J Schmitz
Diversity of cytosine methylation across the fungal tree of life. Nature ecology & evolution 3 (3) (2019)
Lexiang Ji, Sandra Marisa Mathioni, Sarah Johnson, Donna Tucker, Adam J Bewick, Kyung Do Kim, Josquin Daron, R Keith Slotkin, Scott A Jackson, Wayne Allen Parrott, Blake C Meyers, Robert J Schmitz
Genome-Wide Reinforcement of DNA Methylation Occurs during Somatic Embryogenesis in Soybean. The Plant cell 31 (10) (2019)
Zefu Lu, Alexandre P Marand, William A Ricci, Christina L Ethridge, Xiaoyu Zhang, Robert J Schmitz
The prevalence, evolution and chromatin signatures of plant regulatory elements. Nature plants 5 (12) (2019)
Jered M Wendte, Yinwen Zhang, Lexiang Ji, Xiuling Shi, Rashmi R Hazarika, Yadollah Shahryary, Frank Johannes, Robert J Schmitz
Epimutations are associated with CHROMOMETHYLASE 3-induced de novo DNA methylation. eLife 8 (2019)
Byung Ha Lee, Zachary T Weber, Melina Zourelidou, Brigitte T Hofmeister, Robert J Schmitz, Claus Schwechheimer, Anna A Dobritsa
Arabidopsis Protein Kinase D6PKL3 Is Involved in the Formation of Distinct Plasma Membrane Aperture Domains on the Pollen Surface. The Plant cell 30 (9) (2018)
Frank Johannes, Robert J Schmitz
Spontaneous epimutations in plants. The New phytologist 221 (3) (2018)
Timothy R Fallon, Sarah E Lower, Ching-Ho Chang, Manabu Bessho-Uehara, Gavin J Martin, Adam J Bewick, Megan Behringer, Humberto J Debat, Isaac Wong, John C Day, Anton Suvorov, Christian J Silva, Kathrin F Stanger-Hall, David W Hall, Robert J Schmitz, David Ralph Nelson, Sara M Lewis, Shuji Shigenobu, Seth M Bybee, Amanda M Larracuente, Yuichi Oba, Jing-Ke Weng
Firefly genomes illuminate parallel origins of bioluminescence in beetles. eLife 7 (2018)