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Work published with BioMed Central, Chemistry Central and SpringerOpen by researchers at University of Texas San Antonio UTSA

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	1.	Proceedings A genome-wide cis-regulatory element discovery method based on promoter sequences and gene co-expression networks Zhen Gao, Ruizhe Zhao, Jianhua Ruan BMC Genomics 2013, 14(Suppl 1):S4 (21 January 2013) Abstract \| Full text \| PDF \| PubMed
	2.	Research Decomposing Kenyan socio-economic inequalities in skilled birth attendance and measles immunization Carine Van Malderen, Irene Ogali, Anne Khasakhala, Stephen N Muchiri, Corey Sparks, Herman Van Oyen, Niko Speybroeck International Journal for Equity in Health 2013, 12:3 (7 January 2013) Abstract \| Full text \| PDF \| PubMed
	3.	Research A Bayesian decision fusion approach for microRNA target prediction Dong Yue, Maozu Guo, Yidong Chen, Yufei Huang BMC Genomics 2012, 13(Suppl 8):S13 (17 December 2012) Abstract \| Full text \| PDF \| PubMed
	4.	Research Mathematical modeling of left ventricular dimensional changes in mice during aging Tianyi Yang, Ying Chiao, Yunji Wang, Andrew Voorhees, Hai-Chao Han, Merry L Lindsey, Yu-Fang Jin BMC Systems Biology 2012, 6(Suppl 3):S10 (17 December 2012) Abstract \| Full text \| PDF \| PubMed
	5.	Research Module-based subnetwork alignments reveal novel transcriptional regulators in malaria parasite Plasmodium falciparum Hong Cai, Changjin Hong, Jianying Gu, Timothy G Lilburn, Rui Kuang, Yufeng Wang BMC Systems Biology 2012, 6(Suppl 3):S5 (17 December 2012) Abstract \| Full text \| PDF \| PubMed
	6.	Introduction Advances in systems biology: computational algorithms and applications Yufei Huang, Zhongming Zhao, Hua Xu, Yu Shyr, Bing Zhang BMC Systems Biology 2012, 6(Suppl 3):S1 (17 December 2012) Abstract \| Full text \| PDF \| PubMed
	7.	Introduction Genomics in 2012: challenges and opportunities in the next generation sequencing era Zhongming Zhao, Yufei Huang, Bing Zhang, Yu Shyr, Hua Xu BMC Genomics 2012, 13(Suppl 8):S1 (17 December 2012) Abstract \| Full text \| PDF \| PubMed
	8.	Research article Depletion of neutrophils in a protective model of pulmonary cryptococcosis results in increased IL-17A production by gamma/delta T cells Karen L Wozniak, Jay K Kolls, Floyd L Wormley BMC Immunology 2012, 13:65 (7 December 2012) Abstract \| Full text \| PDF \| PubMed
	9.	Nano Express Morphological, compositional, structural, and optical properties of Si-nc embedded in SiOx films J. Alberto Luna López, J. Carrillo López, D. E. Vazquez Valerdi, G. Garcia Salgado, A. Ponce Pedraza, T. Diaz Becerril, F. J. Flores Gracia Nanoscale Research Letters 2012, 7:604 (30 October 2012) Abstract \| Provisional PDF \| PubMed
	10.	Research Mathematical modeling and stability analysis of macrophage activation in left ventricular remodeling post-myocardial infarction Yunji Wang, Tianyi Yang, Yonggang Ma, Ganesh V Halade, Jianqiu Zhang, Merry L Lindsey, Yu-Fang Jin BMC Genomics 2012, 13(Suppl 6):S21 (26 October 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	11.	Research A nonparametric Bayesian approach for clustering bisulfate-based DNA methylation profiles Lin Zhang, Jia Meng, Hui Liu, Yufei Huang BMC Genomics 2012, 13(Suppl 6):S20 (26 October 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	12.	Research A Steiner tree-based method for biomarker discovery and classification in breast cancer metastasis Md Jamiul Jahid, Jianhua Ruan BMC Genomics 2012, 13(Suppl 6):S8 (26 October 2012) Abstract \| Full text \| PDF \| PubMed
	13.	Introduction Selected articles from the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2011) Ranadip Pal, Yufei Huang, Yidong Chen BMC Genomics 2012, 13(Suppl 6):S1 (26 October 2012) Full text \| PDF \| PubMed \| Cited on BioMed Central
	14.	Poster presentation Modeling the effects of molecular crowding on cerebellar long term depression Horace Deans, Fidel Santamaria BMC Neuroscience 2012, 13(Suppl 1):P47 (16 July 2012) Full text \| PDF
	15.	Poster presentation Variability of inter-syllable gaps challenges the branched-chain model of sequence production in Bengalese finches Kristofer E Bouchard, Anand S Kulkarni, Michael S Brainard, Todd W Troyer BMC Neuroscience 2012, 13(Suppl 1):P19 (16 July 2012) Full text \| PDF
	16.	Poster presentation Spike threshold dynamics reshape the phase response curve and increase the degree of synchronization among neurons coupled by excitatory synapses Michael A Farries, Charles J Wilson BMC Neuroscience 2012, 13(Suppl 1):P12 (16 July 2012) Full text \| PDF
	17.	Research Transcriptome analysis of the ependymal barrier during murine neurocysticercosis Pramod Mishra, Judy M Teale Journal of Neuroinflammation 2012, 9:141 (25 June 2012) Abstract \| Full text \| PDF \| PubMed
	18.	Proceedings Genome plasticity and systems evolution in Streptomyces Zhan Zhou, Jianying Gu, Yong-Quan Li, Yufeng Wang BMC Bioinformatics 2012, 13(Suppl 10):S8 (25 June 2012) Abstract \| Full text \| PDF \| PubMed
	19.	Research article Protease-associated cellular networks in malaria parasite Plasmodium falciparum Timothy G Lilburn, Hong Cai, Zhan Zhou, Yufeng Wang BMC Genomics 2011, 12(Suppl 5):S9 (23 December 2011) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	20.	Research article Bayesian parameter estimation for nonlinear modelling of biological pathways Omid Ghasemi, Merry L Lindsey, Tianyi Yang, Nguyen Nguyen, Yufei Huang, Yu-Fang Jin BMC Systems Biology 2011, 5(Suppl 3):S9 (23 December 2011) Abstract \| Full text \| PDF
	21.	Research Loss of the bloom syndrome helicase increases DNA ligase 4-independent genome rearrangements and tumorigenesis in aging Drosophila Ana Garcia, Robert N Salomon, Alice Witsell, Justine Liepkalns, R Brent Calder, Moonsook Lee, Martha Lundell, Jan Vijg, Mitch McVey Genome Biology 2011, 12:R121 (19 December 2011) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Drosophila blm mutants show an increase in genome rearrangements which, surprisingly, are independent of DNA ligase 4
	22.	Proceedings Systematic identification of functional modules and cis-regulatory elements in Arabidopsis thaliana Jianhua Ruan, Joseph Perez, Brian Hernandez, Chengwei Lei, Garry Sunter, Valerie M Sponsel BMC Bioinformatics 2011, 12(Suppl 12):S2 (24 November 2011) Abstract \| Full text \| PDF \| PubMed
	23.	Methodology article SCFIA: a statistical corresponding feature identification algorithm for LC/MS Jian Cui, Xuepo Ma, Long Chen, Jianqiu Zhang BMC Bioinformatics 2011, 12:439 (11 November 2011) Abstract \| Full text \| PDF \| PubMed
	24.	Research article Biofilm and planktonic pneumococci demonstrate disparate immunoreactivity to human convalescent sera Carlos J Sanchez, Brady J Hurtgen, Anel Lizcano, Pooja Shivshankar, Garry T Cole, Carlos J Orihuela BMC Microbiology 2011, 11:245 (2 November 2011) Abstract \| Full text \| PDF \| PubMed
	25.	Research Comparative genomics of the pathogenic ciliate Ichthyophthirius multifiliis, its free-living relatives and a host species provide insights into adoption of a parasitic lifestyle and prospects for disease control Robert S Coyne, Linda Hannick, Dhanasekaran Shanmugam, Jessica B Hostetler, Daniel Brami, Vinita S Joardar, Justin Johnson, Diana Radune, Irtisha Singh, Jonathan H Badger, Ujjwal Kumar, Milton Saier, Yufeng Wang, Hong Cai, Jianying Gu, Michael W Mather, Akhil B Vaidya, David E Wilkes, Vidyalakshmi Rajagopalan, David J Asai, Chad G Pearson, Robert C Findly, Harry W Dickerson, Martin Wu, Cindy Martens, Yves Van de Peer, David S Roos, Donna M Cassidy-Hanley, Theodore G Clark Genome Biology 2011, 12:R100 (17 October 2011) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The genome of the pathogenic ciliate Ichthyophthirius multifiliis, which causes white spot disease in fish, is presented