Margaret Anne Taub

Associate Scientist

20062020

Research output per year

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Article
2020

Whole genome sequencing of orofacial cleft trios from the Gabriella Miller Kids First Pediatric Research Consortium identifies a new locus on chromosome 21

Mukhopadhyay, N., Bishop, M., Mortillo, M., Chopra, P., Hetmanski, J. B., Taub, M. A., Moreno, L. M., Valencia-Ramirez, L. C., Restrepo, C., Wehby, G. L., Hecht, J. T., Deleyiannis, F., Butali, A., Weinberg, S. M., Beaty, T. H., Murray, J. C., Leslie, E. J., Feingold, E. & Marazita, M. L., Feb 1 2020, In : Human genetics. 139, 2, p. 215-226 12 p.

Research output: Contribution to journalArticle

Open Access
2019
Open Access

Inferring disease risk genes from sequencing data in multiplex pedigrees through sharing of rare variants

Bureau, A., Begum, F., Taub, M. A., Hetmanski, J. B., Parker, M. M., Albacha-Hejazi, H., Scott, A. F., Murray, J. C., Marazita, M. L., Bailey-Wilson, J. E., Beaty, T. H. & Ruczinski, I., Feb 1 2019, In : Genetic epidemiology. 43, 1, p. 37-49 13 p.

Research output: Contribution to journalArticle

Multi-Ancestry Genome-Wide Association Study of Spontaneous Clearance of Hepatitis C Virus

Vergara, C., Thio, C. L., Johnson, E., Kral, A. H., O'Brien, T. R., Goedert, J. J., Mangia, A., Piazzolla, V., Mehta, S. H., Kirk, G. D., Kim, A. Y., Lauer, G. M., Chung, R. T., Cox, A. L., Peters, M. G., Khakoo, S. I., Alric, L., Cramp, M. E., Donfield, S. M., Edlin, B. R. & 10 others, Busch, M. P., Alexander, G., Rosen, H. R., Murphy, E. L., Latanich, R., Wojcik, G. L., Taub, M. A., Valencia, A., Thomas, D. L. & Duggal, P., Apr 2019, In : Gastroenterology. 156, 5, p. 1496-1507.e7

Research output: Contribution to journalArticle

Open Access

Replicated methylation changes associated with eczema herpeticum and allergic response

Boorgula, M. P., Taub, M. A., Rafaels, N., Daya, M., Campbell, M., Chavan, S., Shetty, A., Cheadle, C., Barkataki, S., Fan, J., David, G., Beaty, T. H., Ruczinski, I., Hanifin, J., Schneider, L. C., Gallo, R. L., Paller, A. S., Beck, L. A., Leung, D. Y., Mathias, R. A. & 1 others, Barnes, K. C., Aug 23 2019, In : Clinical Epigenetics. 11, 1, 122.

Research output: Contribution to journalArticle

Open Access

Using GitHub Classroom To Teach Statistics

Fiksel, J., Jager, L. R., Hardin, J. S. & Taub, M. A., Jan 1 2019, In : Journal of Statistics Education.

Research output: Contribution to journalArticle

Open Access

Whole Genome Sequencing Identifies CRISPLD2 as a Lung Function Gene in Children With Asthma

National Heart, Lung, and Blood Institute Trans-Omics for Precision Medicine (TOPMed) Consortium, Dec 2019, In : CHEST. 156, 6, p. 1068-1079 12 p.

Research output: Contribution to journalArticle

2018

Deep-coverage whole genome sequences and blood lipids among 16,324 individuals

NHLBI TOPMed Lipids Working Group, Dec 1 2018, In : Nature communications. 9, 1, 3391.

Research output: Contribution to journalArticle

Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries

Zekavat, S. M., Ruotsalainen, S., Handsaker, R. E., Alver, M., Bloom, J., Poterba, T., Seed, C., Ernst, J., Chaffin, M., Engreitz, J., Peloso, G. M., Manichaikul, A., Yang, C., Ryan, K. A., Fu, M., Johnson, W. C., Tsai, M., Budoff, M., Ramachandran, V. S., Cupples, L. A. & 323 others, Rotter, J. I., Rich, S. S., Post, W., Mitchell, B. D., Correa, A., Metspalu, A., Wilson, J. G., Salomaa, V., Kellis, M., Daly, M. J., Neale, B. M., McCarroll, S., Surakka, I., Esko, T., Ganna, A., Ripatti, S., Kathiresan, S., Natarajan, P., Abe, N., Abecasis, G., Albert, C., Allred, N. P., Almasy, L., Alonso, A., Ament, S., Anderson, P., Anugu, P., Applebaum-Bowden, D., Arking, D., Arnett, D. K., Ashley-Koch, A., Aslibekyan, S., Assimes, T., Auer, P., Avramopoulos, D., Barnard, J., Barnes, K., Barr, R. G., Barron-Casella, E., Beaty, T., Becker, D., Becker, L., Beer, R., Begum, F., Beitelshees, A., Benjamin, E., Bezerra, M., Bielak, L., Bis, J., Blackwell, T., Blangero, J., Boerwinkle, E., Borecki, I., Bowler, R., Brody, J., Broeckel, U., Broome, J., Bunting, K., Burchard, E., Cardwell, J., Carty, C., Casaburi, R., Casella, J., Chang, C., Chasman, D., Chavan, S., Chen, B. J., Chen, W. M., Chen, Y. D. I., Cho, M., Choi, S. H., Chuang, L. M., Chung, M., Cornell, E., Crandall, C., Crapo, J., Curran, J., Curtis, J., Custer, B., Damcott, C., Darbar, D., Das, S., David, S., Davis, C., Daya, M., Andrade, M. D., Debaun, M., Deka, R., Demeo, D., Devine, S., Do, R., Duan, Q., Duggirala, R., Durda, P., Dutcher, S., Eaton, C., Ekunwe, L., Ellinor, P., Emery, L., Farber, C., Farnam, L., Fingerlin, T., Flickinger, M., Fornage, M., Franceschini, N., Fullerton, S. M., Fulton, L., Gabriel, S., Gan, W., Gao, Y., Gass, M., Gelb, B., Geng, X., Germer, S., Gignoux, C., Gladwin, M., Glahn, D., Gogarten, S., Gong, D. W., Goring, H., Gu, C. C., Guan, Y., Guo, X., Haessler, J., Hall, M., Harris, D., Hawley, N., He, J., Heavner, B., Heckbert, S., Hernandez, R., Herrington, D., Hersh, C., Hidalgo, B., Hixson, J., Hokanson, J., Hong, E., Hoth, K., Hsiung, C., Huston, H., Hwu, C. M., Irvin, M. R., Jackson, R., Jain, D., Jaquish, C., Jhun, M. A., Johnsen, J., Johnson, A., Johnston, R., Jones, K., Kang, H. M., Kaplan, R., Kardia, S., Kaufman, L., Kelly, S., Kenny, E., Kessler, M., Khan, A., Kinney, G., Konkle, B., Kooperberg, C., Kramer, H., Krauter, S., Lange, C., Lange, E., Lange, L., Laurie, C., Laurie, C., Leboff, M., Lee, S. S., Lee, W. J., Lefaive, J., Levine, D., Levy, D., Lewis, J., Li, Y., Lin, H., Lin, K. H., Liu, S., Liu, Y., Loos, R., Lubitz, S., Lunetta, K., Luo, J., Mahaney, M., Make, B., Manson, J. A., Margolin, L., Martin, L., Mathai, S., Mathias, R., McArdle, P., McDonald, M. L., McFarland, S., McGarvey, S., Mei, H., Meyers, D. A., Mikulla, J., Min, N., Minear, M., Minster, R. L., Montasser, M. E., Musani, S., Mwasongwe, S., Mychaleckyj, J. C., Nadkarni, G., Naik, R., Nekhai, S., Nickerson, D., North, K., O'connell, J., O'connor, T., Ochs-Balcom, H., Pankow, J., Papanicolaou, G., Parker, M., Parsa, A., Penchev, S., Peralta, J. M., Perez, M., Perry, J., Peters, U., Peyser, P., Phillips, L., Phillips, S., Pollin, T., Becker, J. P., Boorgula, M. P., Preuss, M., Prokopenko, D., Psaty, B., Qasba, P., Qiao, D., Qin, Z., Rafaels, N., Raffield, L., Rao, D. C., Rasmussen-Torvik, L., Ratan, A., Redline, S., Reed, R., Regan, E., Reiner, A., Rice, K., Roden, D., Roselli, C., Ruczinski, I., Russell, P., Ruuska, S., Sakornsakolpat, P., Salimi, S., Salzberg, S., Sandow, K., Sankaran, V., Scheller, C., Schmidt, E., Schwander, K., Schwartz, D., Sciurba, F., Seidman, C., Sheehan, V., Shetty, A., Shetty, A., Sheu, W. H. H., Shoemaker, M. B., Silver, B., Silverman, E., Smith, J., Smith, J., Smith, N., Smith, T., Smoller, S., Snively, B., Sofer, T., Sotoodehnia, N., Stilp, A., Streeten, E., Sung, Y. J., Sylvia, J., Szpiro, A., Sztalryd, C., Taliun, D., Tang, H., Taub, M., Taylor, K., Taylor, S., Telen, M., Thornton, T. A., Tinker, L., Tirschwell, D., Tiwari, H., Tracy, R., Vaidya, D., Vandehaar, P., Vrieze, S., Walker, T., Wallace, R., Walts, A., Wan, E., Wang, F. F., Watson, K., Weeks, D. E., Weir, B., Weiss, S., Weng, L. C., Willer, C., Williams, K., Williams, L. K., Wilson, C., Wong, Q., Xu, H., Yanek, L., Yang, I., Yang, R., Zaghloul, N., Zhang, Y., Zhao, S. X., Zhao, W., Zheng, X., Zhi, D., Zhou, X., Zody, M. & Zoellner, S., Dec 1 2018, In : Nature communications. 9, 1, 2606.

Research output: Contribution to journalArticle

Targeted deep sequencing of the PEAR1 locus for platelet aggregation in European and African American families

Keramati, A. R., Yanek, L., Iyer, K., Taub, M. A., Ruczinski, I., Becker, D. M., Becker, L., Faraday, N. & Mathias, R., Mar 18 2018, (Accepted/In press) In : Platelets. p. 1-7 7 p.

Research output: Contribution to journalArticle

2017

Analysis of sequence data to identify potential risk variants for oral clefts in multiplex families

Holzinger, E. R., Li, Q., Parker, M. M., Hetmanski, J. B., Marazita, M. L., Mangold, E., Ludwig, K. U., Taub, M. A., Begum, F., Murray, J. C., Albacha-Hejazi, H., Alqosayer, K., Al-Souki, G., Albasha Hejazi, A., Scott, A. F., Beaty, T. H. & Bailey-Wilson, J. E., Jan 1 2017, In : Molecular Genetics and Genomic Medicine. 5, 5, p. 570-579 10 p.

Research output: Contribution to journalArticle

Evidence for SNP-SNP interaction identified through targeted sequencing of cleft case-parent trios

Xiao, Y., Taub, M. A., Ruczinski, I., Begum, F., Hetmanski, J. B., Schwender, H., Leslie, E. J., Koboldt, D. C., Murray, J. C., Marazita, M. L. & Beaty, T. H., Apr 1 2017, In : Genetic epidemiology. 41, 3, p. 244-250 7 p.

Research output: Contribution to journalArticle

Identifying Genetic Sources of Phenotypic Heterogeneity in Orofacial Clefts by Targeted Sequencing

Carlson, J. C., Taub, M. A., Feingold, E., Beaty, T. H., Murray, J. C., Marazita, M. L. & Leslie, E. J., Jul 17 2017, In : Birth Defects Research. 109, 13, p. 1030-1038 9 p.

Research output: Contribution to journalArticle

Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome

Consortia CAAPA Consortium, Jan 1 2017, In : Scientific reports. 7, 46398.

Research output: Contribution to journalArticle

Using genotype array data to compare multi- and single-sample variant calls and improve variant call sets from deep coverage whole-genome sequencing data

Shringarpure, S. S., Mathias, R., Hernandez, R. D., O'Connor, T. D., Szpiech, Z. A., Torres, R., De La Vega, F. M., Bustamante, C. D., Barnes, K. C. & Taub, M. A., Apr 15 2017, In : Bioinformatics. 33, 8, p. 1147-1153 7 p.

Research output: Contribution to journalArticle

2016

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

Mathias, R. A., Taub, M. A., Gignoux, C. R., Fu, W., Musharoff, S., O'Connor, T. D., Vergara, C., Torgerson, D. G., Pino-Yanes, M., Shringarpure, S. S., Huang, L., Rafaels, N., Boorgula, M. P., Johnston, H. R., Ortega, V. E., Levin, A. M., Song, W., Torres, R., Padhukasahasram, B., Eng, C. & 42 others, Mejia-Mejia, D. A., Ferguson, T., Qin, Z. S., Scott, A. F., Yazdanbakhsh, M., Wilson, J. G., Marrugo, J., Lange, L. A., Kumar, R., Avila, P. C., Williams, L. K., Watson, H., Ware, L. B., Olopade, C., Olopade, O., Oliveira, R., Ober, C., Nicolae, D. L., Meyers, D., Mayorga, A., Knight-Madden, J., Hartert, T., Hansel, N. N., Foreman, M. G., Ford, J. G., Faruque, M. U., Dunston, G. M., Caraballo, L., Burchard, E. G., Bleecker, E., Araujo, M. I., Herrera-Paz, E. F., Gietzen, K., Grus, W. E., Bamshad, M., Bustamante, C. D., Kenny, E. E., Hernandez, R. D., Beaty, T. H., Ruczinski, I., Akey, J. & Barnes, K. C., Oct 11 2016, In : Nature communications. 7, 12522.

Research output: Contribution to journalArticle

Association of DNA methylation differences with schizophrenia in an epigenome-wide association study

Montano, C., Taub, M. A., Jaffe, A., Briem, E., Feinberg, J. I., Trygvadottir, R., Idrizi, A., Runarsson, A., Berndsen, B., Gur, R. C., Moore, T. M., Perry, R. T., Fugman, D., Sabunciyan, S., Yolken, R. H., Hyde, T., Kleinman, J., Sobell, J. L., Pato, C. N., Pato, M. T. & 7 others, Go, R. C., Nimgaonkar, V., Weinberger, D., Braff, D., Gur, R. E., Fallin, D. D. & Feinberg, A. P., May 1 2016, In : JAMA Psychiatry. 73, 5, p. 506-514 9 p.

Research output: Contribution to journalArticle

Challenges and disparities in the application of personalized genomic medicine to populations with African ancestry

Kessler, M. D., Yerges-Armstrong, L., Taub, M. A., Shetty, A. C., Maloney, K., Jeng, L. J. B., Ruczinski, I., Levin, A. M., Williams, L. K., Beaty, T. L., Mathias, R., Barnes, K. C. & O'Connor, T. D., Oct 11 2016, In : Nature Communications. 7, 12521.

Research output: Contribution to journalArticle

High-specificity bioinformatics framework for epigenomic profiling of discordant twins reveals specific and shared markers for ACPA and ACPA-positive rheumatoid arthritis

Gomez-Cabrero, D., Almgren, M., Sjöholm, L. K., Hensvold, A. H., Ringh, M. V., Tryggvadottir, R., Kere, J., Scheynius, A., Acevedo, N., Reinius, L., Taub, M. A., Montano, C., Aryee, M. J., Feinberg, J. I., Feinberg, A. P., Tegnér, J., Klareskog, L., Catrina, A. I. & Ekström, T. J., Nov 22 2016, In : Genome Medicine. 8, 1, 124.

Research output: Contribution to journalArticle

Identification of Rare Variants in ATP8B4 as a Risk Factor for Systemic Sclerosis by Whole-Exome Sequencing

Gao, L., Emond, M. J., Louie, T., Cheadle, C., Berger, A. E., Rafaels, N., Vergara, C., Kim, Y., Taub, M. A., Ruczinski, I., Mathai, S. C., Rich, S. S., Nickerson, D. A., Hummers, L. K., Bamshad, M. J., Hassoun, P. M., Mathias, R. A. & Barnes, K. C., Jan 1 2016, In : Arthritis and Rheumatology. 68, 1, p. 191-200 10 p.

Research output: Contribution to journalArticle

2015

Identification of functional variants for cleft lip with or without cleft palate in or near PAX7, FGFR2, and NOG by targeted sequencing of GWAS loci

Leslie, E. J., Taub, M. A., Liu, H., Steinberg, K. M., Koboldt, D. C., Zhang, Q., Carlson, J. C., Hetmanski, J. B., Wang, H., Larson, D. E., Fulton, R. S., Kousa, Y. A., Fakhouri, W. D., Naji, A., Ruczinski, I., Begum, F., Parker, M. M., Busch, T., Standley, J., Rigdon, J. & 14 others, Hecht, J. T., Scott, A. F., Wehby, G. L., Christensen, K., Czeizel, A. E., Deleyiannis, F. W. B., Schutte, B. C., Wilson, R. K., Cornell, R. A., Lidral, A. C., Weinstock, G. M., Beaty, T. H., Marazita, M. L. & Murray, J. C., Mar 5 2015, In : American journal of human genetics. 96, 3, p. 397-411 15 p.

Research output: Contribution to journalArticle

2014

Analytic power and sample size calculation for the genotypic transmission/disequilibrium test in case-parent trio studies

Neumann, C., Taub, M. A., Younkin, S. G., Beaty, T. H., Ruczinski, I. & Schwender, H., Nov 1 2014, In : Biometrical Journal. 56, 6, p. 1076-1092 17 p.

Research output: Contribution to journalArticle

Detecting Disease Variants in Case-Parent Trio Studies Using the Bioconductor Software Package trio

Schwender, H., Li, Q., Neumann, C., Taub, M. A., Younkin, S. G., Berger, P., Scharpf, R. B., Beaty, T. H. & Ruczinski, I., Sep 1 2014, In : Genetic epidemiology. 38, 6, p. 516-522 7 p.

Research output: Contribution to journalArticle

Evidence of gene-environment interaction for two genes on chromosome 4 and environmental tobacco smoke in controlling the risk of nonsyndromic cleft palate

Wu, T., Schwender, H., Ruczinski, I., Murray, J. C., Marazita, M. L., Munger, R. G., Hetmanski, J. B., Parker, M. M., Wang, P., Murray, T., Taub, M., Li, S., Redett, R. J., Fallin, M. D., Liang, K. Y., Wu-Chou, Y. H., Chong, S. S., Yeow, V., Ye, X., Wang, H. & 7 others, Huang, S., Jabs, E. W., Shi, B., Wilcox, A. J., Jee, S. H., Scott, A. F. & Beaty, T. H., Feb 6 2014, In : PloS one. 9, 2, e88088.

Research output: Contribution to journalArticle

Whole Exome sequencing of distant relatives in multiplex families implicates rare variants in candidate genes for oral clefts

Bureau, A., Parker, M. M., Ruczinski, I., Taub, M. A., Marazita, M. L., Murray, J. C., Mangold, E., Noethen, M. M., Ludwig, K. U., Hetmanski, J. B., Bailey-Wilson, J. E., Cropp, C. D., Li, Q., Szymczak, S., Albacha-Hejazi, H., Alqosayer, K., Leigh Field, L., Wu-Chou, Y. H., Doheny, K. F., Ling, H. & 2 others, Scott, A. F. & Beaty, T. H., Jul 2014, In : Genetics. 197, 3, p. 1039-1044 6 p.

Research output: Contribution to journalArticle

2013

Confirming genes influencing risk to cleft lip with/without cleft palate in a case-parent trio study

Beaty, T. H., Taub, M. A., Scott, A. F., Murray, J. C., Marazita, M. L., Schwender, H., Parker, M. M., Hetmanski, J. B., Balakrishnan, P., Mansilla, M. A., Mangold, E., Ludwig, K. U., Noethen, M. M., Rubini, M., Elcioglu, N. & Ruczinski, I., Jul 1 2013, In : Human genetics. 132, 7, p. 771-781 11 p.

Research output: Contribution to journalArticle

Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis

Liu, Y., Aryee, M. J., Padyukov, L., Fallin, M. D., Hesselberg, E., Runarsson, A., Reinius, L., Acevedo, N., Taub, M., Ronninger, M., Shchetynsky, K., Scheynius, A., Kere, J., Alfredsson, L., Klareskog, L., Ekström, T. J. & Feinberg, A. P., Feb 1 2013, In : Nature biotechnology. 31, 2, p. 142-147 6 p.

Research output: Contribution to journalArticle

Measuring cell-type specific differential methylation in human brain tissue

Montaño, C. M., Irizarry, R. A., Kaufmann, W. E., Talbot, K., Gur, R. E., Feinberg, A. P. & Taub, M. A., Aug 30 2013, In : Genome biology. 14, 8, R94.

Research output: Contribution to journalArticle

On multi-marker tests for association in case-control studies

Taub, M. A., Schwender, H. R., Younkin, S. G., Louis, T. A. & Ruczinski, I., Dec 1 2013, In : Frontiers in Genetics. 4, DEC, 00252.

Research output: Contribution to journalArticle

2012

A statistical approach to selecting and confirming validation targets in -omics experiments

Leek, J. T., Taub, M. A. & Rasgon, J. L., Jun 27 2012, In : BMC Bioinformatics. 13, 1, 150.

Research output: Contribution to journalArticle

Examining markers in 8q24 to explain differences in evidence for association with cleft lip with/without cleft palate between Asians and Europeans

Murray, T., Taub, M. A., Ruczinski, I., Scott, A. F., Hetmanski, J. B., Schwender, H., Patel, P., Zhang, T. X., Munger, R. G., Wilcox, A. J., Ye, X., Wang, H., Wu, T., Wu-Chou, Y. H., Shi, B., Jee, S. H., Chong, S., Yeow, V., Murray, J. C., Marazita, M. L. & 1 others, Beaty, T. H., May 1 2012, In : Genetic epidemiology. 36, 4, p. 392-399 8 p.

Research output: Contribution to journalArticle

Rapid Testing of SNPs and Gene-Environment Interactions in Case-Parent Trio Data Based on Exact Analytic Parameter Estimation

Schwender, H., Taub, M. A., Beaty, T. H., Marazita, M. L. & Ruczinski, I., Sep 1 2012, In : Biometrics. 68, 3, p. 766-773 8 p.

Research output: Contribution to journalArticle

2011

Effective detection of rare variants in pooled DNA samples using Cross-pool tailcurve analysis

Niranjan, T. S., Adamczyk, A., Bravo, H. C., Taub, M. A., Wheelan, S. J., Irizarry, R. & Wang, T., Sep 28 2011, In : Genome biology. 12, 9, R93.

Research output: Contribution to journalArticle

2010

Overcoming bias and systematic errors in next generation sequencing data

Taub, M. A., Corrada Bravo, H. & Irizarry, R. A., Dec 1 2010, In : Genome Medicine. 2, 12, 87.

Research output: Contribution to journalArticle

2008

Genome-wide screen for asthma in Puerto Ricans: Evidence for association with 5q23 region

Choudhry, S., Taub, M., Mei, R., Rodriguez-Santana, J., Rodriguez-Cintron, W., Shriver, M. D., Ziv, E., Risch, N. J. & Burchard, E. G., Jun 1 2008, In : Human genetics. 123, 5, p. 455-468 14 p.

Research output: Contribution to journalArticle

2006

A whole genome long-range haplotype (WGLRH) test for detecting imprints of positive selection in human populations

Zhang, C., Bailey, D. K., Awad, T., Liu, G., Xing, G., Cao, M., Valmeekam, V., Retief, J., Matsuzaki, H., Taub, M., Seielstad, M. & Kennedy, G. C., Sep 1 2006, In : Bioinformatics. 22, 17, p. 2122-2128 7 p.

Research output: Contribution to journalArticle