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Barbara Elizabeth Engelhardt - Publications

Affiliations: 
Biostatistics & Bioinformatics Duke University, Durham, NC 
 Computer Science Princeton University, Princeton, NJ 
Area:
Machine learning, Bayesian statistics, statistical genetics, computational biology, quantitative genetics.
Website:
http://www.genome.duke.edu/directory/faculty/engelhardt/
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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
2020 Oliva M, Muñoz-Aguirre M, Kim-Hellmuth S, Wucher V, Gewirtz ADH, Cotter DJ, Parsana P, Kasela S, Balliu B, Viñuela A, Castel SE, Mohammadi P, Aguet F, Zou Y, Khramtsova EA, ... ... Engelhardt BE, et al. The impact of sex on gene expression across human tissues. Science (New York, N.Y.). 369. PMID 32913072 DOI: 10.1126/Science.Aba3066  0.507
2020 Salganik MJ, Lundberg I, Kindel AT, Ahearn CE, Al-Ghoneim K, Almaatouq A, Altschul DM, Brand JE, Carnegie NB, Compton RJ, Datta D, Davidson T, Filippova A, Gilroy C, Goode BJ, ... ... Engelhardt BE, et al. Measuring the predictability of life outcomes with a scientific mass collaboration. Proceedings of the National Academy of Sciences of the United States of America. PMID 32229555 DOI: 10.1073/Pnas.1915006117  0.307
2020 Elyanow R, Dumitrascu B, Engelhardt BE, Raphael BJ. netNMF-sc: leveraging gene-gene interactions for imputation and dimensionality reduction in single-cell expression analysis. Genome Research. PMID 31992614 DOI: 10.1101/Gr.251603.119  0.317
2018 Dumitrascu B, Darnell G, Ayroles J, Engelhardt BE. Statistical tests for detecting variance effects in quantitative trait studies. Bioinformatics (Oxford, England). PMID 29982387 DOI: 10.1093/Bioinformatics/Bty565  0.346
2018 Aguiar D, Cheng LF, Dumitrascu B, Mordelet F, Pai AA, Engelhardt BE. Bayesian nonparametric discovery of isoforms and individual specific quantification. Nature Communications. 9: 1681. PMID 29703885 DOI: 10.1038/S41467-018-03402-W  0.352
2018 McDowell IC, Manandhar D, Vockley CM, Schmid AK, Reddy TE, Engelhardt BE. Clustering gene expression time series data using an infinite Gaussian process mixture model. Plos Computational Biology. 14: e1005896. PMID 29337990 DOI: 10.1371/Journal.Pcbi.1005896  0.302
2017 Srivastava S, Engelhardt BE, Dunson DB. Expandable factor analysis. Biometrika. 104: 649-663. PMID 29430037 DOI: 10.1093/Biomet/Asx030  0.303
2017 ... ... Engelhardt BE, et al. Genetic effects on gene expression across human tissues. Nature. 550: 204-213. PMID 29022597 DOI: 10.1038/Nature24277  0.357
2017 Saha A, Kim Y, Gewirtz ADH, Jo B, Gao C, McDowell IC, Engelhardt BE, Battle A. Co-expression networks reveal the tissue-specific regulation of transcription and splicing. Genome Research. PMID 29021288 DOI: 10.1101/Gr.216721.116  0.31
2016 Tonner PD, Darnell CL, Engelhardt BE, Schmid AK. Detecting differential growth of microbial populations with Gaussian process regression. Genome Research. PMID 27864351 DOI: 10.1101/Gr.210286.116  0.306
2016 Gao C, McDowell IC, Zhao S, Brown CD, Engelhardt BE. Context Specific and Differential Gene Co-expression Networks via Bayesian Biclustering. Plos Computational Biology. 12: e1004791. PMID 27467526 DOI: 10.1371/Journal.Pcbi.1004791  0.334
2015 Engelhardt BE, Brown CD. Diving deeper to predict noncoding sequence function. Nature Methods. 12: 925-6. PMID 26418766 DOI: 10.1038/Nmeth.3604  0.33
2015 van den Berg SM, de Moor MH, Verweij KJ, Krueger RF, Luciano M, Arias Vasquez A, Matteson LK, Derringer J, Esko T, Amin N, Gordon SD, Hansell NK, Hart AB, Seppälä I, Huffman JE, ... ... Engelhardt BE, et al. Meta-analysis of Genome-Wide Association Studies for Extraversion: Findings from the Genetics of Personality Consortium. Behavior Genetics. PMID 26362575 DOI: 10.1007/S10519-015-9735-5  0.369
2015 Mimno D, Blei DM, Engelhardt BE. Posterior predictive checks to quantify lack-of-fit in admixture models of latent population structure. Proceedings of the National Academy of Sciences of the United States of America. 112: E3441-50. PMID 26071445 DOI: 10.1073/Pnas.1412301112  0.595
2015 Mimno D, Blei DM, Engelhardt BE. Posterior predictive checks to quantify lack-of-fit in admixture models of latent population structure Proceedings of the National Academy of Sciences of the United States of America. 112: E3441-E3450. DOI: 10.1073/pnas.1412301112  0.544
2014 Mangravite LM, Engelhardt BE, Stephens M, Krauss RM. Mangravite et al. reply. Nature. 513: E3. PMID 25230670 DOI: 10.1038/Nature13630  0.453
2013 Mangravite LM, Engelhardt BE, Medina MW, Smith JD, Brown CD, Chasman DI, Mecham BH, Howie B, Shim H, Naidoo D, Feng Q, Rieder MJ, Chen YD, Rotter JI, Ridker PM, et al. A statin-dependent QTL for GATM expression is associated with statin-induced myopathy. Nature. 502: 377-80. PMID 23995691 DOI: 10.1038/Nature12508  0.502
2013 Brown CD, Mangravite LM, Engelhardt BE. Integrative Modeling of eQTLs and Cis-Regulatory Elements Suggests Mechanisms Underlying Cell Type Specificity of eQTLs Plos Genetics. 9. PMID 23935528 DOI: 10.1371/Journal.Pgen.1003649  0.372
2013 Muratore KE, Engelhardt BE, Srouji JR, Jordan MI, Brenner SE, Kirsch JF. Molecular function prediction for a family exhibiting evolutionary tendencies toward substrate specificity swapping: recurrence of tyrosine aminotransferase activity in the Iα subfamily. Proteins. 81: 1593-609. PMID 23671031 DOI: 10.1002/Prot.24318  0.497
2012 Hart AB, Engelhardt BE, Wardle MC, Sokoloff G, Stephens M, de Wit H, Palmer AA. Genome-wide association study of d-amphetamine response in healthy volunteers identifies putative associations, including cadherin 13 (CDH13). Plos One. 7: e42646. PMID 22952603 DOI: 10.1371/Journal.Pone.0042646  0.501
2011 Engelhardt BE, Jordan MI, Srouji JR, Brenner SE. Genome-scale phylogenetic function annotation of large and diverse protein families. Genome Research. 21: 1969-80. PMID 21784873 DOI: 10.1101/Gr.104687.109  0.532
2010 Engelhardt BE, Stephens M. Analysis of population structure: a unifying framework and novel methods based on sparse factor analysis. Plos Genetics. 6: e1001117. PMID 20862358 DOI: 10.1371/Journal.Pgen.1001117  0.523
2010 Pickrell JK, Marioni JC, Pai AA, Degner JF, Engelhardt BE, Nkadori E, Veyrieras JB, Stephens M, Gilad Y, Pritchard JK. Understanding mechanisms underlying human gene expression variation with RNA sequencing. Nature. 464: 768-72. PMID 20220758 DOI: 10.1038/Nature08872  0.526
2009 Engelhardt BE, Jordan MI, Repo ST, Brenner SE. Phylogenetic molecular function annotation. Journal of Physics. Conference Series. 180: 12024. PMID 20664722 DOI: 10.1088/1742-6596/180/1/012024  0.474
2006 Engelhardt BE, Jordan MI, Brenner SE. A graphical model for predicting protein molecular function Acm International Conference Proceeding Series. 148: 297-304. DOI: 10.1145/1143844.1143882  0.459
2005 Engelhardt BE, Jordan MI, Muratore KE, Brenner SE. Protein molecular function prediction by Bayesian phylogenomics. Plos Computational Biology. 1: e45. PMID 16217548 DOI: 10.1371/Journal.Pcbi.0010045  0.531
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