Assessing technical performance in differential gene expression experiments with external spike-in RNA control ratio mixtures. Nature communications. 2014;5:5125. doi:10.1038/ncomms6125.
Understanding disease mechanisms with models of signaling pathway activities. BMC systems biology. 2014;8:121. doi:10.1186/s12918-014-0121-3.
Development, Characterization and Experimental Validation of a Cultivated Sunflower (Helianthus annuus L.) Gene Expression Oligonucleotide Microarray. PloS one. 2012;7:e45899. doi:10.1371/journal.pone.0045899.
Expression profiling shows differential molecular pathways and provides potential new diagnostic biomarkers for colorectal serrated adenocarcinoma. International journal of cancer. Journal international du cancer. 2012. doi:10.1002/ijc.27674.
Identification of yeast genes that confer resistance to chitosan oligosaccharide (COS) using chemogenomics. BMC genomics. 2012;13:267. doi:10.1186/1471-2164-13-267.
Microarray analysis of Etrog citron (Citrus medica L.) reveals changes in chloroplast, cell wall, peroxidase and symporter activities in response to viroid infection. Molecular plant pathology. 2012. doi:10.1111/j.1364-3703.2012.00794.x.
Qualimap: evaluating next-generation sequencing alignment data. Bioinformatics (Oxford, England). 2012;28:2678-9. doi:10.1093/bioinformatics/bts503.
Transcriptome profiling of the intoxication response of Tenebrio molitor larvae to Bacillus thuringiensis Cry3Aa protoxin. PloS one. 2012;7:e34624. doi:10.1371/journal.pone.0034624.
Transdifferentiation of MALME-3M and MCF-7 Cells toward Adipocyte-like Cells is Dependent on Clathrin-mediated Endocytosis. SpringerPlus. 2012;1:44. doi:10.1186/2193-1801-1-44.
ARSyN: a method for the identification and removal of systematic noise in multifactorial time course microarray experiments. Biostatistics (Oxford, England). 2011.
. B2G-FAR, a species centered GO annotation repository. Bioinformatics (Oxford, England). 2011;27:919-924.
Fortunella margarita Transcriptional Reprogramming Triggered by Xanthomonas citri subsp. citri. BMC plant biology. 2011;11:159.
. Histone modifications and expression of DAM6 gene in peach are modulated during bud dormancy release in a cultivar-dependent manner. The New phytologist. 2011. doi:10.1111/j.1469-8137.2011.03863.x.
. Modeling human endometrial decidualization from the interaction between proteome and secretome. The Journal of clinical endocrinology and metabolism. 2011;96:706-16.
Paintomics: a web based tool for the joint visualization of transcriptomics and metabolomics data. Bioinformatics (Oxford, England). 2011;27:137-9.
. Profiling the venom gland transcriptomes of Costa Rican snakes by 454 pyrosequencing. BMC genomics. 2011;12:259.
Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling. Nucleic Acids Research. 2010;38:W210-W213. Featured in NAR. Available at: http://nar.oxfordjournals.org/content/38/suppl_2/W210.full.
Initial genomics of the human nucleolus. PLoS genetics. 2010;6:e1000889. doi:10.1371/journal.pgen.1000889.
SIMAP–a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters. Nucleic acids research. 2010;38:D223-6.