Hector Corrada Bravo - Publications

Computer Science University of Maryland, College Park, College Park, MD 
Bioinformatics and Computational Biology,Data Science

26 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
2017 Hicks SC, Okrah K, Paulson JN, Quackenbush J, Irizarry RA, Bravo HC. Smooth quantile normalization. Biostatistics (Oxford, England). PMID 29036413 DOI: 10.1093/Biostatistics/Kxx028  0.68
2016 Sharmin M, Bravo HC, Hannenhalli S. Heterogeneity of transcription factor binding specificity models within and across cell lines. Genome Research. PMID 27311443 DOI: 10.1101/Gr.199166.115  0.68
2016 Pop M, Paulson JN, Chakraborty S, Astrovskaya I, Lindsay BR, Li S, Bravo HC, Harro C, Parkhill J, Walker AW, Walker RI, Sack DA, Stine OC. Individual-specific changes in the human gut microbiota after challenge with enterotoxigenic Escherichia coli and subsequent ciprofloxacin treatment. Bmc Genomics. 17: 440. PMID 27277524 DOI: 10.1186/S12864-016-2777-0  0.68
2015 Sharmin M, Bravo HC, Hannenhalli S. Distinct genomic and epigenomic features demarcate hypomethylated blocks in colon cancer. Bmc Cancer. 16: 88. PMID 26868017 DOI: 10.1186/S12885-016-2128-1  0.68
2015 Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, et al. Orchestrating high-throughput genomic analysis with Bioconductor. Nature Methods. 12: 115-21. PMID 25633503 DOI: 10.1038/Nmeth.3252  0.68
2014 Timp W, Bravo HC, McDonald OG, Goggins M, Umbricht C, Zeiger M, Feinberg AP, Irizarry RA. Large hypomethylated blocks as a universal defining epigenetic alteration in human solid tumors. Genome Medicine. 6: 61. PMID 25191524 DOI: 10.1186/S13073-014-0061-Y  0.68
2014 Pop M, Walker AW, Paulson J, Lindsay B, Antonio M, Hossain MA, Oundo J, Tamboura B, Mai V, Astrovskaya I, Corrada Bravo H, Rance R, Stares M, Levine MM, Panchalingam S, et al. Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition. Genome Biology. 15: R76. PMID 24995464 DOI: 10.1186/Gb-2014-15-6-R76  0.68
2014 Paulson JN, Bravo HC, Pop M. Reply to: "a fair comparison". Nature Methods. 11: 359-60. PMID 24681718 DOI: 10.1038/Nmeth.2898  0.68
2014 Alemu EY, Carl JW, Corrada Bravo H, Hannenhalli S. Determinants of expression variability. Nucleic Acids Research. 42: 3503-14. PMID 24435799 DOI: 10.1093/Nar/Gkt1364  0.68
2013 Paulson JN, Stine OC, Bravo HC, Pop M. Differential abundance analysis for microbial marker-gene surveys. Nature Methods. 10: 1200-2. PMID 24076764 DOI: 10.1038/Nmeth.2658  0.68
2013 Boca SM, Bravo HC, Caffo B, Leek JT, Parmigiani G. A decision-theory approach to interpretable set analysis for high-dimensional data. Biometrics. 69: 614-23. PMID 23909925 DOI: 10.1111/Biom.12060  0.68
2013 He X, Chatterjee R, John S, Bravo H, Sathyanarayana BK, Biddie SC, FitzGerald PC, Stamatoyannopoulos JA, Hager GL, Vinson C. Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding. Bmc Genomics. 14: 428. PMID 23805837 DOI: 10.1186/1471-2164-14-428  0.68
2013 Nickerson ML, Im KM, Misner KJ, Tan W, Lou H, Gold B, Wells DW, Bravo HC, Fredrikson KM, Harkins TT, Milos P, Zbar B, Linehan WM, Yeager M, Andresson T, et al. Somatic alterations contributing to metastasis of a castration-resistant prostate cancer. Human Mutation. 34: 1231-41. PMID 23636849 DOI: 10.1002/Humu.22346  0.68
2012 Bravo HC, Pihur V, McCall M, Irizarry RA, Leek JT. Gene expression anti-profiles as a basis for accurate universal cancer signatures. Bmc Bioinformatics. 13: 272. PMID 23088656 DOI: 10.1186/1471-2105-13-272  0.68
2012 Shi W, Wahba G, Irizarry RA, Bravo HC, Wright SJ. The partitioned LASSO-patternsearch algorithm with application to gene expression data. Bmc Bioinformatics. 13: 98. PMID 22587526 DOI: 10.1186/1471-2105-13-98  0.68
2011 Niranjan TS, Adamczyk A, Bravo HC, Taub MA, Wheelan SJ, Irizarry R, Wang T. Effective detection of rare variants in pooled DNA samples using Cross-pool tailcurve analysis. Genome Biology. 12: R93. PMID 21955804 DOI: 10.1186/Gb-2011-12-9-R93  0.68
2011 Hansen KD, Timp W, Bravo HC, Sabunciyan S, Langmead B, McDonald OG, Wen B, Wu H, Liu Y, Diep D, Briem E, Zhang K, Irizarry RA, Feinberg AP. Increased methylation variation in epigenetic domains across cancer types. Nature Genetics. 43: 768-75. PMID 21706001 DOI: 10.1038/Ng.865  0.68
2011 Rivas A, Boahene KD, Bravo HC, Tan M, Tamargo RJ, Francis HW. A model for early prediction of facial nerve recovery after vestibular schwannoma surgery. Otology & Neurotology : Official Publication of the American Otological Society, American Neurotology Society [and] European Academy of Otology and Neurotology. 32: 826-33. PMID 21527865 DOI: 10.1097/Mao.0B013E31821B0Afd  0.68
2011 Shan L, Yang HC, Rabi SA, Bravo HC, Shroff NS, Irizarry RA, Zhang H, Margolick JB, Siliciano JD, Siliciano RF. Influence of host gene transcription level and orientation on HIV-1 latency in a primary-cell model. Journal of Virology. 85: 5384-93. PMID 21430059 DOI: 10.1128/Jvi.02536-10  0.68
2010 Leek JT, Scharpf RB, Bravo HC, Simcha D, Langmead B, Johnson WE, Geman D, Baggerly K, Irizarry RA. Tackling the widespread and critical impact of batch effects in high-throughput data. Nature Reviews. Genetics. 11: 733-9. PMID 20838408 DOI: 10.1038/Nrg2825  0.68
2010 Wu H, Irizarry RA, Bravo HC. Intensity normalization improves color calling in SOLiD sequencing. Nature Methods. 7: 336-7. PMID 20431543 DOI: 10.1038/Nmeth0510-336  0.68
2010 Bravo HC, Irizarry RA. Model-based quality assessment and base-calling for second-generation sequencing data. Biometrics. 66: 665-74. PMID 19912177 DOI: 10.1111/J.1541-0420.2009.01353.X  0.68
2009 Bravo HC, Wright S, Eng KH, Keles S, Wahba G. Estimating Tree-Structured Covariance Matrices via Mixed-Integer Programming. Journal of Machine Learning Research : Jmlr. 5: 41-48. PMID 22081761  0.68
2009 Eng KH, Bravo HC, KeleÅŸ S. A phylogenetic mixture model for the evolution of gene expression. Molecular Biology and Evolution. 26: 2363-72. PMID 19602540 DOI: 10.1093/Molbev/Msp149  0.36
2009 Bravo HC, Lee KE, Klein BE, Klein R, Iyengar SK, Wahba G. Examining the relative influence of familial, genetic, and environmental covariate information in flexible risk models. Proceedings of the National Academy of Sciences of the United States of America. 106: 8128-33. PMID 19420224 DOI: 10.1073/Pnas.0902906106  0.68
2007 Bravo HC, Ramakrishnan R. Optimizing mpf queries: Decision support and probabilistic inference Proceedings of the Acm Sigmod International Conference On Management of Data. 701-712. DOI: 10.1145/1247480.1247558  0.68
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