Publications

Publications:

[1]  Eugenio Marco, Wouter Meuleman, Jialiang Huang, Kimberly Glass, Luca Pinello, Jianrong Wang, Manolis Kellis and Guo-Cheng Yuan. Multi-scale chromatin state annotation using a hierarchical hidden Markov model. 2017 Nature Communications 8:15011.


[2] Jianrong Wang, Cristina Vicente-Garcia, Davide Seruggia, Eduardo Molto, Ana Fernandez-Minan, Ana Neto, Elbert Lee, Jose Luis Gomez-Skarmeta, Lluis Montoliu, Victoria V. Lunyak and I. King Jordan. MIR retrotransposon sequences provide insulators to the human genome. 2015 Proc Natl Acad Sci USA 112(32):E4428-4437.


[3] Roadmap Epigenomics Consortium et al. Integrative analysis of 111 reference human epigenomes. 2015 Nature 518:317-330. (Integrative Analysis Lead Author)


[4] Jianrong Wang, Victoria V. Lunyak and I. King Jordan. Chromatin signature discovery via histone modification profile alignments. 2012 Nucleic Acids Research 40(21):10642-10656. 


[5] Jianrong Wang, Victoria V. Lunyak and I. King Jordan. Genome-wide prediction and analysis of human chromatin boundary elements. 2012 Nucleic Acids Research 40(2):511-529, (Cover Story). 


[6] Sean Lam-Vien Nguyen, Jacob William Greenberg, Hao Wang, Benjamin William Collaer, Jianrong Wang, Margaret Green Petroff. Visualizing murine placental extracellular vesicle data with tidyNano: a computational framework for analyzing and visualizing nanoparticle data in R. 2019 PLOS ONE (accepted).


[7] Feng Shao, Jianrong Wang, Hongen Xu, Zuogang Peng. FishTEDB: a collective database of transposable elements identified in the complete genomes of fish. 2018 Database Vol 2018 1-9. 


[8] Evan A. Clayton, Lu Wang, Lavanya Rishishwar, Jianrong Wang, John F. McDonald and I. King Jordan. Patterns of transposable element expression and insertion in cancer. 2016 Frontiers in Molecular Biosciences 3:76.


[9] Daudi Jjingo, Andrew B. Conley, Jianrong Wang, Leonardo Marino-Ramirez, Victoria V. Lunyak and I. King Jordan. Mammalian-wide interspersed repeat (MIR)-derived enhancers and the regulation of human gene expression. 2014 Mobile DNA 5:14.


[10] Jianrong Wang, Victoria V. Lunyak and I. King Jordan. BroadPeak: a novel algorithm for identifying broad peaks in diffuse ChIP-seq datasets. 2013 Bioinformatics 29(4):492-493.


[11] Daudi Jjingo, Jianrong Wang, Andrew B. Conley, Victoria V. Lunyak and I. King Jordan. Compound cis-regulatory elements with both boundary and enhancer sequences in the human genome. 2013 Bioinformatics 29(24):3109-3112.


[12] Ke Xu, Jianrong Wang, Navin Elango and Soojin V. Yi. The evolution of lineage-specific clusters of single nucleotide substitutions in the human genome. 2013 Molecular Phylogenetics and Evolution 69(1):276-285.


[13] Aswathy Sebastian, Lavanya Rishishwar, Jianrong Wang, Karen F. Bernard, Andrew B. Conley, Nael A. McCarty and I. King Jordan. Origin and evolution of the cystic fibrosis transmembrane regulator protein R domain. 2013 Gene 523(2):137-146.


[14] Benjamin J. Blackwell, Mary F. Lopez, Jianrong Wang, Bryan Krastins, David Sarracino, James R. Tollervey, Marek Dobke, I. King Jordan and Victoria V. Lunyak. Protein interactions with piALU RNA indicates putative participation of retroRNA in the cell cycle, DNA repair and chromatin assembly. 2012 Mobile Genetic Elements 2(1):26-35.


[15] Jianrong Wang*, Glenn J. Geesman*, Sirkka Liisa Hostikka, Michelle Atallah, Benjamin Blackwell et al. Inhibition of activated pericentromeric SINE/Alu repeat transcription in senescent human adult stem cells reinstates self-renewal. 2011 Cell Cycle 10(17):3016-3030. 


[16] Jianrong Wang, Ahsan Huda, Victoria V. Lunyak and I. King Jordan. A Gibbs sampling strategy applied to the mapping of ambiguous short-sequence tags. 2010 Bioinformatics 26(20):2501-2508. 


[17] Jianrong Wang, Nathan J. Bowen, Leonardo Marino-Ramirez and I. King Jordan. A c-Myc regulatory subnetwork from human transposable element sequences. 2009 Molecular Biosystems 5(12):1831-1839.