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2016. A pathway-centric view of spatial proximity in the 3D nucleome across cell lines. Scientific Reports. 6:39279.
2016. A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity. npj Biofilms and Microbiomes. 2:16004.
2016. Positive and strongly relaxed purifying selection drive the evolution of repeats in proteins. Nature Communications. 7:13570.
2016. Systems-Wide Prediction of Enzyme Promiscuity Reveals a New Underground Alternative Route for Pyridoxal 5'-Phosphate Production in E. coli.. PLoS Comput Biol. 12(1):e1004705.
2016. System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.. Cell Syst. 2(3):172-84.
2016. Transcriptome Remodeling in Trypanosoma cruzi and Human Cells during Intracellular Infection.. PLoS Pathog. 12(4):e1005511.
2015. Algorithms in Bioinformatics: 15th International Workshop, WABI 2015. Lecture Notes in Bioinformatics. :328.
2015. Bayesian integration of genetics and epigenetics detects causal regulatory SNPs underlying expression variability. Nature Communications. 6:8555.
2015. Chromatin and genomic determinants of alternative splicing. BCB '15 Proceedings of the 6th ACM Conference on Bioinformatics, Computational Biology and Health Informatics .
2015. Computational challenges in microbiome research. 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).
2015. Diversion of aspartate in ASS1-deficient tumours fosters de novo pyrimidine synthesis. Nature. 527(7578):379-383.
2015. Drugs that reverse disease transcriptomic signatures are more effective in a mouse model of dyslipidemia.. Mol Syst Biol. 11(3):791.
2015. The effects of telomere shortening on cancer cells: a network model of proteomic and microRNA analysis.. Genomics. 105(1):5-16.
2015. Encyclopedia of MetagenomicsHuman Microbiome, Assembly and Analysis Software, Project. :243-246.
2015. Epiviz: a view inside the design of an integrated visual analysis software for genomics. BMC Bioinformatics. 16(Suppl 11):S4.
2015. Essential Genes in the Core Genome of the Human Pathogen Streptococcus pyogenes.. Sci Rep. 5:9838.
2015. Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm.. BMC Bioinformatics. 16:218.
2015. Evolutionarily conserved network properties of intrinsically disordered proteins.. PLoS One. 10(5):e0126729.
2015. Evolutionary Conservation of Bacterial Essential Metabolic Genes across All Bacterial Culture Media. PLOS ONE. 10(4):e0123785.
2015. Fumarate induces redox-dependent senescence by modifying glutathione metabolism.. Nat Commun. 6:6001.
2015. Gene Expression Signatures Based on Variability can Robustly Predict Tumor Progression and Prognosis.. Cancer Inform. 14:71-81.