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Sara Ballouz - Publications

Affiliations: 
Victor Chang Cardiac Research Institute, Darlinghurst, New South Wales, Australia 
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23 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Lee J, Shah M, Ballouz S, Crow M, Gillis J. CoCoCoNet: conserved and comparative co-expression across a diverse set of species. Nucleic Acids Research. PMID 32392296 DOI: 10.1093/Nar/Gkaa348  0.466
2019 Ballouz S, Dobin A, Gillis JA. Is it time to change the reference genome? Genome Biology. 20: 159. PMID 31399121 DOI: 10.1186/S13059-019-1774-4  0.31
2019 Crow M, Lim N, Ballouz S, Pavlidis P, Gillis J. Predictability of human differential gene expression. Proceedings of the National Academy of Sciences of the United States of America. PMID 30846554 DOI: 10.1073/Pnas.1802973116  0.464
2018 Ballouz S, Dobin A, Gingeras TR, Gillis J. The fractured landscape of RNA-seq alignment: the default in our STARs. Nucleic Acids Research. 46: 5125-5138. PMID 29718481 DOI: 10.1093/Nar/Gky325  0.358
2018 Crow M, Paul A, Ballouz S, Huang ZJ, Gillis J. Characterizing the replicability of cell types defined by single cell RNA-sequencing data using MetaNeighbor. Nature Communications. 9: 884. PMID 29491377 DOI: 10.1038/S41467-018-03282-0  0.393
2017 Ballouz S, Gillis J. Strength of functional signature correlates with effect size in autism. Genome Medicine. 9: 64. PMID 28687074 DOI: 10.1186/S13073-017-0455-8  0.369
2017 Ballouz S, Pavlidis P, Gillis J. Using predictive specificity to determine when gene set analysis is biologically meaningful. Nucleic Acids Research. 45: e20. PMID 28204549 DOI: 10.1093/Nar/Gkw957  0.479
2016 Ballouz S, Weber M, Pavlidis P, Gillis J. EGAD: ultra-fast functional analysis of gene networks. Bioinformatics (Oxford, England). PMID 27993773 DOI: 10.1093/Bioinformatics/Btw695  0.458
2016 O'Meara MJ, Ballouz S, Shoichet BK, Gillis J. Ligand Similarity Complements Sequence, Physical Interaction, and Co-Expression for Gene Function Prediction. Plos One. 11: e0160098. PMID 27467773 DOI: 10.1371/Journal.Pone.0160098  0.442
2016 Crow M, Paul A, Ballouz S, Huang ZJ, Gillis J. Exploiting single-cell expression to characterize co-expression replicability. Genome Biology. 17: 101. PMID 27165153 DOI: 10.1186/S13059-016-0964-6  0.464
2016 Ballouz S, Gillis J. AuPairWise: A Method to Estimate RNA-Seq Replicability through Co-expression. Plos Computational Biology. 12: e1004868. PMID 27082953 DOI: 10.1371/Journal.Pcbi.1004868  0.401
2016 Verleyen W, Ballouz S, Gillis J. Positive and negative forms of replicability in gene network analysis. Bioinformatics (Oxford, England). 32: 1065-73. PMID 26668004 DOI: 10.1093/Bioinformatics/Btv734  0.449
2015 Grover MP, Ballouz S, Mohanasundaram KA, George RA, Goscinski A, Crowley TM, Sherman CD, Wouters MA. Novel therapeutics for coronary artery disease from genome-wide association study data. Bmc Medical Genomics. 8: S1. PMID 26044129 DOI: 10.1186/1755-8794-8-S2-S1  0.459
2015 Ballouz S, Verleyen W, Gillis J. Guidance for RNA-seq co-expression network construction and analysis: safety in numbers. Bioinformatics (Oxford, England). PMID 25717192 DOI: 10.1093/Bioinformatics/Btv118  0.387
2015 Verleyen W, Ballouz S, Gillis J. Measuring the wisdom of the crowds in network-based gene function inference. Bioinformatics (Oxford, England). 31: 745-52. PMID 25359890 DOI: 10.1093/Bioinformatics/Btu715  0.386
2014 Grover MP, Ballouz S, Mohanasundaram KA, George RA, Sherman CD, Crowley TM, Wouters MA. Identification of novel therapeutics for complex diseases from genome-wide association data. Bmc Medical Genomics. 7: S8. PMID 25077696 DOI: 10.1186/1755-8794-7-S1-S8  0.435
2014 Ballouz S, Liu JY, Oti M, Gaeta B, Fatkin D, Bahlo M, Wouters MA. Candidate disease gene prediction using Gentrepid: application to a genome-wide association study on coronary artery disease. Molecular Genetics & Genomic Medicine. 2: 44-57. PMID 24498628 DOI: 10.1002/Mgg3.40  0.485
2014 Gillis J, Ballouz S, Pavlidis P. Bias tradeoffs in the creation and analysis of protein-protein interaction networks. Journal of Proteomics. 100: 44-54. PMID 24480284 DOI: 10.1016/J.Jprot.2014.01.020  0.367
2013 Ballouz S, Liu JY, George RA, Bains N, Liu A, Oti M, Gaeta B, Fatkin D, Wouters MA. Gentrepid V2.0: a web server for candidate disease gene prediction. Bmc Bioinformatics. 14: 249. PMID 23947436 DOI: 10.1186/1471-2105-14-249  0.481
2011 Ballouz S, Liu JY, Oti M, Gaeta B, Fatkin D, Bahlo M, Wouters MA. Analysis of genome-wide association study data using the protein knowledge base. Bmc Genetics. 12: 98. PMID 22077927 DOI: 10.1186/1471-2156-12-98  0.502
2011 Oti M, Ballouz S, Wouters MA. Web tools for the prioritization of candidate disease genes. Methods in Molecular Biology (Clifton, N.J.). 760: 189-206. PMID 21779998 DOI: 10.1007/978-1-61779-176-5_12  0.424
2010 Ballouz S, Francis AR, Lan R, Tanaka MM. Conditions for the evolution of gene clusters in bacterial genomes. Plos Computational Biology. 6: e1000672. PMID 20168992 DOI: 10.1371/Journal.Pcbi.1000672  0.367
2009 Teber ET, Liu JY, Ballouz S, Fatkin D, Wouters MA. Comparison of automated candidate gene prediction systems using genes implicated in type 2 diabetes by genome-wide association studies. Bmc Bioinformatics. 10: S69. PMID 19208173 DOI: 10.1186/1471-2105-10-S1-S69  0.474
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