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Research Output

Article

Adaptive randomized dimension reduction on massive data

Darnell, G., Georgiev, S., Mukherjee, S. & Engelhardt, B. E., Nov 1 2017, In : Journal of Machine Learning Research. 18

Research output: Contribution to journalArticle

5 Scopus citations

Analysis of population structure: A unifying framework and novel methods based on sparse factor analysis

Engelhardt Martin, B. & Stephens, M., Sep 1 2010, In : PLoS genetics. 6, 9, e1001117.

Research output: Contribution to journalArticle

79 Scopus citations

A statin-dependent QTL for GATM expression is associated with statin-induced myopathy

Mangravite, L. M., Engelhardt Martin, B., Medina, M. W., Smith, J. D., Brown, C. D., Chasman, D. I., Mecham, B. H., Howie, B., Shim, H., Naidoo, D., Feng, Q., Rieder, M. J., Chen, Y. D. I., Rotter, J. I., Ridker, P. M., Hopewell, J. C., Parish, S., Armitage, J., Collins, R., Wilke, R. A. & 3 others, Nickerson, D. A., Stephens, M. & Krauss, R. M., Sep 3 2013, In : Nature. 502, 7471, p. 377-380 4 p.

Research output: Contribution to journalArticle

133 Scopus citations

Bayesian group factor analysis with structured sparsity

Zhao, S., Gao, C., Mukherjee, S. & Engelhardt Martin, B., Apr 1 2016, In : Journal of Machine Learning Research. 17, p. 1-47 47 p.

Research output: Contribution to journalArticle

11 Scopus citations

Bayesian nonparametric discovery of isoforms and individual specific quantification

Aguiar, D., Cheng, L. F., Dumitrascu, B., Mordelet, F., Pai, A. A. & Engelhardt Martin, B., Dec 1 2018, In : Nature communications. 9, 1, 1681.

Research output: Contribution to journalArticle

2 Scopus citations

Clustering gene expression time series data using an infinite Gaussian process mixture model

McDowell, I. C., Manandhar, D., Vockley, C. M., Schmid, A. K., Reddy, T. E. & Engelhardt Martin, B., Jan 2018, In : PLoS computational biology. 14, 1, e1005896.

Research output: Contribution to journalArticle

12 Scopus citations

Co-expression networks reveal the tissue-specific regulation of transcription and splicing

Saha, A., Kim, Y., Gewirtz, A. D. H., Jo, B., Gao, C., McDowell, I. C., Engelhardt Martin, B. & Battle, A., Jan 1 2017, In : Genome Research. 27, 11, p. 1843-1858 16 p.

Research output: Contribution to journalArticle

44 Scopus citations

Context Specific and Differential Gene Co-expression Networks via Bayesian Biclustering

Gao, C., McDowell, I. C., Zhao, S., Brown, C. D. & Engelhardt Martin, B., Jul 2016, In : PLoS computational biology. 12, 7, e1004791.

Research output: Contribution to journalArticle

21 Scopus citations

Detecting differential growth of microbial populations with Gaussian process regression

Tonner, P. D., Darnell, C. L., Engelhardt Martin, B. & Schmid, A. K., Feb 2017, In : Genome Research. 27, 2, p. 320-333 14 p.

Research output: Contribution to journalArticle

16 Scopus citations

Dynamic landscape and regulation of RNA editing in mammals

GTEx Consortium, Oct 11 2017, In : Nature. 550, 7675, p. 249-254 6 p.

Research output: Contribution to journalArticle

133 Scopus citations

Expandable factor analysis

Srivastava, S., Engelhardt Martin, B. & Dunson, D. B., Sep 1 2017, In : Biometrika. 104, 3, p. 649-663 15 p.

Research output: Contribution to journalArticle

3 Scopus citations

Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics

Barbeira, A. N., Dickinson, S. P., Bonazzola, R., Zheng, J., Wheeler, H. E., Torres, J. M., Torstenson, E. S., Shah, K. P., Garcia, T., Edwards, T. L., Stahl, E. A., Huckins, L. M., Aguet, F., Ardlie, K. G., Cummings, B. B., Gelfand, E. T., Getz, G., Hadley, K., Handsaker, R. E., Huang, K. H. & 225 others, Kashin, S., Karczewski, K. J., Lek, M., Li, X., MacArthur, D. G., Nedzel, J. L., Nguyen, D. T., Noble, M. S., Segrè, A. V., Trowbridge, C. A., Tukiainen, T., Abell, N. S., Balliu, B., Barshir, R., Basha, O., Battle, A., Bogu, G. K., Brown, A., Brown, C. D., Castel, S. E., Chen, L. S., Chiang, C., Conrad, D. F., Damani, F. N., Davis, J. R., Delaneau, O., Dermitzakis, E. T., Engelhardt Martin, B., Eskin, E., Ferreira, P. G., Frésard, L., Gamazon, E. R., Garrido-Martín, D., Gewirtz, A. D. H., Gliner, G., Gloudemans, M. J., Guigo, R., Hall, I. M., Han, B., He, Y., Hormozdiari, F., Howald, C., Jo, B., Kang, E. Y., Kim, Y., Kim-Hellmuth, S., Lappalainen, T., Li, G., Li, X., Liu, B., Mangul, S., McCarthy, M. I., McDowell, I. C., Mohammadi, P., Monlong, J., Montgomery, S. B., Muñoz-Aguirre, M., Ndungu, A. W., Nobel, A. B., Oliva, M., Ongen, H., Palowitch, J. J., Panousis, N., Papasaikas, P., Park, Y. S., Parsana, P., Payne, A. J., Peterson, C. B., Quan, J., Reverter, F., Sabatti, C., Saha, A., Sammeth, M., Scott, A. J., Shabalin, A. A., Sodaei, R., Stephens, M., Stranger, B. E., Strober, B. J., Sul, J. H., Tsang, E. K., Urbut, S., Van De Bunt, M., Wang, G., Wen, X., Wright, F. A., Xi, H. S., Yeger-Lotem, E., Zappala, Z., Zaugg, J. B., Zhou, Y. H., Akey, J., Bates, D., Chan, J., Claussnitzer, M., Demanelis, K., Diegel, M., Doherty, J. A., Feinberg, A. P., Fernando, M. S., Halow, J., Hansen, K. D., Haugen, E., Hickey, P. F., Hou, L., Jasmine, F., Jian, R., Jiang, L., Johnson, A., Kaul, R., Kellis, M., Kibriya, M. G., Lee, K., Li, J. B., Li, Q., Lin, J., Lin, S., Linder, S., Linke, C., Liu, Y., Maurano, M. T., Molinie, B., Nelson, J., Neri, F. J., Park, Y., Pierce, B. L., Rinaldi, N. J., Rizzardi, L. F., Sandstrom, R., Skol, A., Smith, K. S., Snyder, M. P., Stamatoyannopoulos, J., Tang, H., Wang, L., Wang, M., Van Wittenberghe, N., Wu, F., Zhang, R., Nierras, C. R., Branton, P. A., Carithers, L. J., Guan, P., Moore, H. M., Rao, A., Vaught, J. B., Gould, S. E., Lockart, N. C., Martin, C., Struewing, J. P., Volpi, S., Addington, A. M., Koester, S. E., Little, A. R., Brigham, L. E., Hasz, R., Hunter, M., Johns, C., Johnson, M., Kopen, G., Leinweber, W. F., Lonsdale, J. T., McDonald, A., Mestichelli, B., Myer, K., Roe, B., Salvatore, M., Shad, S., Thomas, J. A., Walters, G., Washington, M., Wheeler, J., Bridge, J., Foster, B. A., Gillard, B. M., Karasik, E., Kumar, R., Miklos, M., Moser, M. T., Jewell, S. D., Montroy, R. G., Rohrer, D. C., Valley, D. R., Davis, D. A., Mash, D. C., Undale, A. H., Smith, A. M., Tabor, D. E., Roche, N. V., McLean, J. A., Vatanian, N., Robinson, K. L., Sobin, L., Barcus, M. E., Valentino, K. M., Qi, L., Hunter, S., Hariharan, P., Singh, S., Um, K. S., Matose, T., Tomaszewski, M. M., Barker, L. K., Mosavel, M., Siminoff, L. A., Traino, H. M., Flicek, P., Juettemann, T., Ruffier, M., Sheppard, D., Taylor, K., Trevanion, S. J., Zerbino, D. R., Craft, B., Goldman, M., Haeussler, M., Kent, W. J., Lee, C. M., Paten, B., Rosenbloom, K. R., Vivian, J., Zhu, J., Nicolae, D. L., Cox, N. J. & Im, H. K., Dec 1 2018, In : Nature communications. 9, 1, 1825.

Research output: Contribution to journalArticle

95 Scopus citations

Factored planning

Amir, E. & Engelhardt Martin, B., Dec 1 2003, In : IJCAI International Joint Conference on Artificial Intelligence. p. 929-935 7 p.

Research output: Contribution to journalArticle

65 Scopus citations

Fast Moment Estimation for Generalized Latent Dirichlet Models

Zhao, S., Engelhardt Martin, B., Mukherjee, S. & Dunson, D. B., Oct 2 2018, In : Journal of the American Statistical Association. 113, 524, p. 1528-1540 13 p.

Research output: Contribution to journalArticle

Genetic effects on gene expression across human tissues

GTEx Consortium, Oct 11 2017, In : Nature. 550, 7675, p. 204-213 10 p.

Research output: Contribution to journalArticle

813 Scopus citations

Genetic variation associated with euphorigenic effects of d-amphetamine is associated with diminished risk for schizophrenia and attention deficit hyperactivity disorder

Hart, A. B., Gamazon, E. R., Engelhardt Martin, B., Sklar, P., Kähler, A. K., Hultman, C. M., Sullivan, P. F., Neale, B. M., Faraone, S. V., De Wit, H., Cox, N. J. & Palmer, A. A., Apr 22 2014, In : Proceedings of the National Academy of Sciences of the United States of America. 111, 16, p. 5968-5973 6 p.

Research output: Contribution to journalArticle

10 Scopus citations

Genome-scale phylogenetic function annotation of large and diverse protein families

Engelhardt Martin, B., Jordan, M. I., Srouji, J. R. & Brenner, S. E., Nov 1 2011, In : Genome Research. 21, 11, p. 1969-1980 12 p.

Research output: Contribution to journalArticle

39 Scopus citations

Genome-Wide Association Study of d-Amphetamine Response in Healthy Volunteers Identifies Putative Associations, Including Cadherin 13 (CDH13)

Hart, A. B., Engelhardt Martin, B., Wardle, M. C., Sokoloff, G., Stephens, M., de Wit, H. & Palmer, A. A., Aug 28 2012, In : PloS one. 7, 8, e42646.

Research output: Contribution to journalArticle

53 Scopus citations

Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding

McDowell, I. C., Barrera, A., D’Ippolito, A. M., Vockley, C. M., Hong, L. K., Leichter, S. M., Bartelt, L. C., Majoros, W. H., Song, L., Safi, A., Koçak, D. D., Gersbach, C. A., Hartemink, A. J., Crawford, G. E., Engelhardt, B. E. & Reddy, T. E., Sep 2018, In : Genome Research. 28, 9, p. 1272-1284 13 p.

Research output: Contribution to journalArticle

9 Scopus citations

GPCR-specific autoantibody signatures are associated with physiological and pathological immune homeostasis

Cabral-Marques, O., Marques, A., Giil, L. M., De Vito, R., Rademacher, J., Günther, J., Lange, T., Humrich, J. Y., Klapa, S., Schinke, S., Schimke, L. F., Marschner, G., Pitann, S., Adler, S., Dechend, R., Müller, D. N., Braicu, I., Sehouli, J., Schulze-Forster, K., Trippel, T. & 16 others, Scheibenbogen, C., Staff, A., Mertens, P. R., Löbel, M., Mastroianni, J., Plattfaut, C., Gieseler, F., Dragun, D., Engelhardt Martin, B., Fernandez-Cabezudo, M. J., Ochs, H. D., al-Ramadi, B. K., Lamprecht, P., Mueller, A., Heidecke, H. & Riemekasten, G., Dec 1 2018, In : Nature communications. 9, 1, 5224.

Research output: Contribution to journalArticle

17 Scopus citations

Improving genetic diagnosis in Mendelian disease with transcriptome sequencing

Genotype-Tissue Expression Consortium, National Institutes of Health (NIH) Common Fund, iospecimen Collection Source Site-National Disease Research Interchange, Biospecimen Collection Source Site-Roswell Park Cancer Institute, Biospecimen Core Resource-Van Andel Research Institute, Brain Bank Repository-University of Miami, Leidos Biomedical Project Management, Ethical, Legal, and Social Implications Study, Genome Browser Data Integration, and Visualization-European Bioinformatics Institute, Genome Browser Data Integration and Visualization-Genomics Institute, University of California, Santa Cruz:, LDACC-Analysis Working Group (AWG), Funded Statistical Methods groups-AWG, Enhancing GTEx funded Group, NIH/NHGRI, NIH/NCI, NIH/NIMH, NIH/NIDA & Other members of the AWG, Apr 19 2017, In : Science Translational Medicine. 9, 386, eaal5209.

Research output: Contribution to journalArticle

168 Scopus citations

Integrative Modeling of eQTLs and Cis-Regulatory Elements Suggests Mechanisms Underlying Cell Type Specificity of eQTLs

Brown, C. D., Mangravite, L. M. & Engelhardt Martin, B., Aug 1 2013, In : PLoS genetics. 9, 8, e1003649.

Research output: Contribution to journalArticle

80 Scopus citations

Landscape of X chromosome inactivation across human tissues

GTEx Consortium, Oct 11 2017, In : Nature. 550, 7675, p. 244-248 5 p.

Research output: Contribution to journalArticle

139 Scopus citations

Mangravite et al. reply

Mangravite, L. M., Engelhardt Martin, B., Stephens, M. & Krauss, R. M., Oct 2 2014, In : Nature. 513, 7518, p. E3

Research output: Contribution to journalArticle

4 Scopus citations

Measuring the predictability of life outcomes with a scientific mass collaboration

Salganik, M. J., Lundberg, I., Kindel, A. T., Ahearn, C. E., Al-Ghoneim, K., Almaatouq, A., Altschul, D. M., Brand, J. E., Carnegie, N. B., Compton, R. J., Datta, D., Davidson, T., Filippova, A., Gilroy, C., Goode, B. J., Jahani, E., Kashyap, R., Kirchner, A., McKay, S., Morgan, A. C. & 92 others, Pentland, A., Polimis, K., Raes, L., Rigobon, D. E., Roberts, C. V., Stanescu, D. M., Suhara, Y., Usmani, A., Wang, E. H., Adem, M., Alhajri, A., AlShebli, B., Amin, R., Amos, R. B., Argyle, L. P., Baer-Bositis, L., Büchi, M., Chung, B. R., Eggert, W., Faletto, G., Fan, Z., Freese, J., Gadgil, T., Gagné, J., Gao, Y., Halpern-Manners, A., Hashim, S. P., Hausen, S., He, G., Higuera, K., Hogan, B., Horwitz, I. M., Hummel, L. M., Jain, N., Jin, K., Jurgens, D., Kaminski, P., Karapetyan, A., Kim, E. H., Leizman, B., Liu, N., Möser, M., Mack, A. E., Mahajan, M., Mandell, N., Marahrens, H., Mercado-Garcia, D., Mocz, V., Mueller-Gastell, K., Musse, A., Niu, Q., Nowak, W., Omidvar, H., Or, A., Ouyang, K., Pinto, K. M., Porter, E., Porter, K. E., Qian, C., Rauf, T., Sargsyan, A., Schaffner, T., Schnabel, L., Schonfeld, B., Sender, B., Tang, J. D., Tsurkov, E., van Loon, A., Varol, O., Wang, J., Wang, F., Weissman, S., Whitaker, K., Wolters, M. K., Woon, W. L., Wang, X., Wang, Z., Wu, J., Wu, C., Yang, K., Yin, J., Zhao, B., Zhu, C., Brooks-Gunn, J., Engelhardt, B. E., Hardt, M., Knox, D., Levy, K., Narayanan, A., Stewart, B. M., Watts, D. J. & McLanahan, S., Apr 14 2020, In : Proceedings of the National Academy of Sciences of the United States of America. 117, 15, p. 8398-8403 6 p.

Research output: Contribution to journalArticle

Open Access
3 Scopus citations

Meta-analysis of Genome-Wide Association Studies for Extraversion: Findings from the Genetics of Personality Consortium

van den Berg, S. M., de Moor, M. H. M., Verweij, K. J. H., Krueger, R. F., Luciano, M., Arias Vasquez, A., Matteson, L. K., Derringer, J., Esko, T., Amin, N., Gordon, S. D., Hansell, N. K., Hart, A. B., Seppälä, I., Huffman, J. E., Konte, B., Lahti, J., Lee, M., Miller, M., Nutile, T. & 102 others, Tanaka, T., Teumer, A., Viktorin, A., Wedenoja, J., Abdellaoui, A., Abecasis, G. R., Adkins, D. E., Agrawal, A., Allik, J., Appel, K., Bigdeli, T. B., Busonero, F., Campbell, H., Costa, P. T., Smith, G. D., Davies, G., de Wit, H., Ding, J., Engelhardt Martin, B., Eriksson, J. G., Fedko, I. O., Ferrucci, L., Franke, B., Giegling, I., Grucza, R., Hartmann, A. M., Heath, A. C., Heinonen, K., Henders, A. K., Homuth, G., Hottenga, J. J., Iacono, W. G., Janzing, J., Jokela, M., Karlsson, R., Kemp, J. P., Kirkpatrick, M. G., Latvala, A., Lehtimäki, T., Liewald, D. C., Madden, P. A. F., Magri, C., Magnusson, P. K. E., Marten, J., Maschio, A., Mbarek, H., Medland, S. E., Mihailov, E., Milaneschi, Y., Montgomery, G. W., Nauck, M., Nivard, M. G., Ouwens, K. G., Palotie, A., Pettersson, E., Polasek, O., Qian, Y., Pulkki-Råback, L., Raitakari, O. T., Realo, A., Rose, R. J., Ruggiero, D., Schmidt, C. O., Slutske, W. S., Sorice, R., Starr, J. M., St Pourcain, B., Sutin, A. R., Timpson, N. J., Trochet, H., Vermeulen, S., Vuoksimaa, E., Widen, E., Wouda, J., Wright, M. J., Zgaga, L., Generation Scotland, S., Porteous, D., Minelli, A., Palmer, A. A., Rujescu, D., Ciullo, M., Hayward, C., Rudan, I., Metspalu, A., Kaprio, J., Deary, I. J., Räikkönen, K., Wilson, J. F., Keltikangas-Järvinen, L., Bierut, L. J., Hettema, J. M., Grabe, H. J., Penninx, B. W. J. H., van Duijn, C. M., Evans, D. M., Schlessinger, D., Pedersen, N. L., Terracciano, A., McGue, M., Martin, N. G. & Boomsma, D. I., Mar 1 2016, In : Behavior Genetics. 46, 2, p. 170-182 13 p.

Research output: Contribution to journalArticle

50 Scopus citations

Meta-analysis of genome-wide association studies for neuroticism, and the polygenic association with major depressive disorder

De Moor, M. H. M., Van Den Berg, S. M., Verweij, K. J. H., Krueger, R. F., Luciano, M., Arias Vasquez, A., Matteson, L. K., Derringer, J., Esko, T., Amin, N., Gordon, S. D., Hansell, N. K., Hart, A. B., Seppälä, I., Huffman, J. E., Konte, B., Lahti, J., Lee, M., Miller, M., Nutile, T. & 98 others, Tanaka, T., Teumer, A., Viktorin, A., Wedenoja, J., Abecasis, G. R., Adkins, D. E., Agrawal, A., Allik, J., Appel, K., Bigdeli, T. B., Busonero, F., Campbell, H., Costa, P. T., Davey Smith, G., Davies, G., De Wit, H., Ding, J., Engelhardt Martin, B., Eriksson, J. G., Fedko, I. O., Ferrucci, L., Franke, B., Giegling, I., Grucza, R., Hartmann, A. M., Heath, A. C., Heinonen, K., Henders, A. K., Homuth, G., Hottenga, J. J., Iacono, W. G., Janzing, J., Jokela, M., Karlsson, R., Kemp, J. P., Kirkpatrick, M. G., Latvala, A., Lehtimäki, T., Liewald, D. C., Madden, P. A. F., Magri, C., Magnusson, P. K. E., Marten, J., Maschio, A., Medland, S. E., Mihailov, E., Milaneschi, Y., Montgomery, G. W., Nauck, M., Ouwens, K. G., Palotie, A., Pettersson, E., Polasek, O., Qian, Y., Pulkki-Råback, L., Raitakari, O. T., Realo, A., Rose, R. J., Ruggiero, D., Schmidt, C. O., Slutske, W. S., Sorice, R., Starr, J. M., St Pourcain, B., Sutin, A. R., Timpson, N. J., Trochet, H., Vermeulen, S., Vuoksimaa, E., Widen, E., Wouda, J., Wright, M. J., Zgaga, L., Porteous, D., Minelli, A., Palmer, A. A., Rujescu, D., Ciullo, M., Hayward, C., Rudan, I., Metspalu, A., Kaprio, J., Deary, I. J., Räikkönen, K., Wilson, J. F., Keltikangas-Järvinen, L., Bierut, L. J., Hettema, J. M., Grabe, H. J., Van Duijn, C. M., Evans, D. M., Schlessinger, D., Pedersen, N. L., Terracciano, A., McGue, M., Penninx, B. W. J. H., Martin, N. G. & Boomsma, D. I., Jul 1 2015, In : JAMA Psychiatry. 72, 7, p. 642-650 9 p.

Research output: Contribution to journalArticle

135 Scopus citations

Molecular function prediction for a family exhibiting evolutionary tendencies toward substrate specificity swapping: Recurrence of tyrosine aminotransferase activity in the Iα subfamily

Muratore, K. E., Engelhardt, B. E., Srouji, J. R., Jordan, M. I., Brenner, S. E. & Kirsch, J. F., Sep 1 2013, In : Proteins: Structure, Function and Bioinformatics. 81, 9, p. 1593-1609 17 p.

Research output: Contribution to journalArticle

5 Scopus citations

NetNMF-SC: Leveraging gene-gene interactions for imputation and dimensionality reduction in single-cell expression analysis

Elyanow, R., Dumitrascu, B., Engelhardt, B. E. & Raphael, B. J., Jan 1 2020, In : Genome Research. 30, 2, p. 195-204 10 p.

Research output: Contribution to journalArticle

Open Access
5 Scopus citations

Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements

Zhang, W., Spector, T. D., Deloukas, P., Bell, J. T. & Engelhardt Martin, B., Jan 24 2015, In : Genome biology. 16, 1, 14.

Research output: Contribution to journalArticle

66 Scopus citations

Protein Molecular Function Prediction by Bayesian Phylogenomics

Engelhardt Martin, B., Jordan, M. I., Muratore, K. E. & Brersfser, S. E., 2005, In : PLoS computational biology. 1, 5, p. 432-445 14 p.

Research output: Contribution to journalArticle

128 Scopus citations

Sparse multi-output Gaussian processes for online medical time series prediction

Cheng, L. F., Dumitrascu, B., Darnell, G., Chivers, C., Draugelis, M., Li, K. & Engelhardt, B. E., Jul 8 2020, In : BMC Medical Informatics and Decision Making. 20, 1, 152.

Research output: Contribution to journalArticle

Open Access

Stability selection for regression-based models of transcription factor-DNA binding specificity

Mordelet, F., Horton, J., Hartemink, A. J., Engelhardt Martin, B. & Gordân, R., Jul 1 2013, In : Bioinformatics. 29, 13, p. i117-i125

Research output: Contribution to journalArticle

28 Scopus citations

Statistical tests for detecting variance effects in quantitative trait studies

Dumitrascu, B., Darnell, G., Ayroles, J. F. & Engelhardt Martin, B., Jan 15 2019, In : Bioinformatics. 35, 2, p. 200-210 11 p.

Research output: Contribution to journalArticle

4 Scopus citations

The impact of rare variation on gene expression across tissues

GTEx Consortium, Oct 11 2017, In : Nature. 550, 7675, p. 239-243 5 p.

Research output: Contribution to journalArticle

60 Scopus citations

Understanding mechanisms underlying human gene expression variation with RNA sequencing

Pickrell, J. K., Marioni, J. C., Pai, A. A., Degner, J. F., Engelhardt, B. E., Nkadori, E., Veyrieras, J. B., Stephens, M., Gilad, Y. & Pritchard, J. K., Apr 1 2010, In : Nature. 464, 7289, p. 768-772 5 p.

Research output: Contribution to journalArticle

837 Scopus citations
Conference article

PG-TS: Improved Thompson sampling for logistic contextual bandits

Dumitrascu, B., Feng, K. & Engelhardt Martin, B., Jan 1 2018, In : Advances in Neural Information Processing Systems. 2018-December, p. 4624-4633 10 p.

Research output: Contribution to journalConference article

Phylogenetic molecular function annotation

Engelhardt, B. E., Jordan, M. I., Repo, S. T. & Brenner, S. E., Jan 1 2009, In : Journal of Physics: Conference Series. 180, 1, 012024.

Research output: Contribution to journalConference article

9 Scopus citations
Conference contribution

A graphical model for predicting protein molecular function

Engelhardt Martin, B., Jordan, M. I. & Brenner, S. E., Oct 6 2006, ICML 2006 - Proceedings of the 23rd International Conference on Machine Learning. p. 297-304 8 p. (ICML 2006 - Proceedings of the 23rd International Conference on Machine Learning; vol. 2006).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

8 Scopus citations

A graphical model for predicting protein molecular function

Engelhardt, B. E., Jordan, M. I. & Brenner, S. E., Dec 1 2006, ACM International Conference Proceeding Series - Proceedings of the 23rd International Conference on Machine Learning, ICML 2006. p. 297-304 8 p. (ACM International Conference Proceeding Series; vol. 148).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2 Scopus citations

Defining admissible rewards for high-confidence policy evaluation in batch reinforcement learning

Prasad, N., Engelhardt, B. & Doshi-Velez, F., Feb 4 2020, ACM CHIL 2020 - Proceedings of the 2020 ACM Conference on Health, Inference, and Learning. Association for Computing Machinery, Inc, p. 1-9 9 p. (ACM CHIL 2020 - Proceedings of the 2020 ACM Conference on Health, Inference, and Learning).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Open Access

Hierarchical compound poisson factorization

Basbug, M. E. & Engelhardt, B. E., Jan 1 2016, 33rd International Conference on Machine Learning, ICML 2016. Weinberger, K. Q. & Balcan, M. F. (eds.). International Machine Learning Society (IMLS), p. 2665-2674 10 p. (33rd International Conference on Machine Learning, ICML 2016; vol. 4).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

3 Scopus citations
Paper

A reinforcement learning approach to weaning of mechanical ventilation in intensive care units

Prasad, N., Cheng, L. F., Chivers, C., Draugelis, M. & Engelhardt, B. E., Jan 1 2017.

Research output: Contribution to conferencePaper

17 Scopus citations

Dynamic collaborative filtering with compound poisson factorization

Jerfel, G., Basbug, M. E. & Engelhardt, B. E., Jan 1 2017.

Research output: Contribution to conferencePaper

5 Scopus citations

Dynamic collaborative filtering with compound poisson factorization

Jerfel, G., Basbug, M. E. & Engelhardt Martin, B., Jan 1 2017.

Research output: Contribution to conferencePaper

End-to-end training of deep probabilistic CCA on paired biomedical observations

Gundersen, G., Dumitrascu, B., Ash, J. T. & Engelhardt, B. E., Jan 1 2019.

Research output: Contribution to conferencePaper

End-to-end training of deep probabilistic CCA on paired biomedical observations

Gundersen, G., Dumitrascu, B., Ash, J. T. & Engelhardt, B. E., Jan 1 2019.

Research output: Contribution to conferencePaper

Review article

Computational approaches to fMRI analysis

Cohen, J. D., Daw, N. D., Engelhardt Martin, B., Hasson, U., Li, K., Niv, Y., Norman, K. A., Pillow, J. W., Ramadge, P. J., Turk-Browne, N. & Willke, T. L., Feb 23 2017, In : Nature neuroscience. 20, 3, p. 304-313 10 p.

Research output: Contribution to journalReview article

63 Scopus citations
Short survey

Diving deeper to predict noncoding sequence function

Engelhardt Martin, B. & Brown, C. D., Sep 29 2015, In : Nature Methods. 12, 10, p. 925-926 2 p.

Research output: Contribution to journalShort survey

4 Scopus citations