Andrew P Feinberg

Professor

1975 …2021

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  • 2021

    Converging genetic and epigenetic drivers of paediatric acute lymphoblastic leukaemia identified by an information-theoretic analysis

    Koldobskiy, M. A., Jenkinson, G., Abante, J., Rodriguez DiBlasi, V. A., Zhou, W., Pujadas, E., Idrizi, A., Tryggvadottir, R., Callahan, C., Bonifant, C. L., Rabin, K. R., Brown, P. A., Ji, H., Goutsias, J. & Feinberg, A. P., Apr 2021, In: Nature biomedical engineering. 5, 4, p. 360-376 17 p.

    Research output: Contribution to journalArticlepeer-review

  • Human brain region-specific variably methylated regions are enriched for heritability of distinct neuropsychiatric traits

    GTEx Consortium, Dec 2021, In: Genome biology. 22, 1, 116.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • 2020

    A Dysregulated DNA Methylation Landscape Linked to Gene Expression in MLL-Rearranged AML

    Koldobskiy, M. A., Abante, J., Jenkinson, G., Pujadas, E., Tetens, A., Zhao, F., Tryggvadottir, R., Idrizi, A., Reinisch, A., Majeti, R., Goutsias, J. & Feinberg, A. P., Aug 2 2020, In: Epigenetics. 15, 8, p. 841-858 18 p.

    Research output: Contribution to journalArticlepeer-review

  • A Quantitative Proteome Map of the Human Body

    GTEx Consortium, Oct 1 2020, In: Cell. 183, 1, p. 269-283.e19

    Research output: Contribution to journalArticlepeer-review

  • A vast resource of allelic expression data spanning human tissues

    Castel, S. E., Aguet, F., Mohammadi, P., Aguet, F., Anand, S., Ardlie, K. G., Gabriel, S., Getz, G. A., Graubert, A., Hadley, K., Handsaker, R. E., Huang, K. H., Kashin, S., Li, X., MacArthur, D. G., Meier, S. R., Nedzel, J. L., Nguyen, D. T., Segrè, A. V., Todres, E. & 183 others, Aguet, F., Anand, S., Ardlie, K. G., Balliu, B., Barbeira, A. N., Battle, A., Bonazzola, R., Brown, A., Brown, C. D., Castel, S. E., Conrad, D. F., Cotter, D. J., Cox, N., Das, S., De Goede, O. M., Dermitzakis, E. T., Einson, J., Engelhardt, B. E., Eskin, E., Eulalio, T. Y., Ferraro, N. M., Flynn, E. D., Fresard, L., Gamazon, E. R., Garrido-Martín, D., Gay, N. R., Getz, G. A., Gloudemans, M. J., Graubert, A., Guigó, R., Hadley, K., Hame, A. R., Handsaker, R. E., He, Y., Hoffman, P. J., Hormozdiari, F., Hou, L., Huang, K. H., Im, H. K., Jo, B., Kasela, S., Kashin, S., Kellis, M., Kim-Hellmuth, S., Kwong, A., Lappalainen, T., Li, X., Li, X., Liang, Y., MacArthur, D. G., Mangul, S., Meier, S. R., Mohammadi, P., Montgomery, S. B., Muñoz-Aguirre, M., Nachun, D. C., Nedzel, J. L., Nguyen, D. T., Nobel, A. B., Oliva, M., Park, Y. S., Park, Y., Parsana, P., Rao, A. S., Reverter, F., Rouhana, J. M., Sabatti, C., Saha, A., Segrè, A. V., Skol, A. D., Stephens, M., Stranger, B. E., Strober, B. J., Teran, N. A., Todres, E., Viñuela, A., Wang, G., Wen, X., Wright, F., Wucher, V., Zou, Y., Ferreira, P. G., Li, G., Melé, M., Yeger-Lotem, E., Barcus, M. E., Bradbury, D., Krubit, T., McLean, J. A., Qi, L., Robinson, K., Roche, N. V., Smith, A. M., Sobin, L., Tabor, D. E., Undale, A., Bridge, J., Brigham, L. E., Foster, B. A., Gillard, B. M., Hasz, R., Hunter, M., Johns, C., Johnson, M., Karasik, E., Kopen, G., Leinweber, W. F., McDonald, A., Moser, M. T., Myer, K., Ramsey, K. D., Roe, B., Shad, S., Thomas, J. A., Walters, G., Washington, M., Wheeler, J., Jewell, S. D., Rohrer, D. C., Valley, D. R., Davis, D. A., Mash, D. C., Barcus, M. E., Branton, P. A., Sobin, L., Barker, L. K., Gardiner, H. M., Mosavel, M., Siminoff, L. A., Flicek, P., Haeussler, M., Juettemann, T., Kent, W. J., Lee, C. M., Powell, C. C., Rosenbloom, K. R., Ruffier, M., Sheppard, D., Taylor, K., Trevanion, S. J., Zerbino, D. R., Abell, N. S., Akey, J., Chen, L., Demanelis, K., Doherty, J. A., Feinberg, A. P., Hansen, K. D., Hickey, P. F., Hou, L., Jasmine, F., Jiang, L., Kaul, R., Kellis, M., Kibriya, M. G., Li, J. B., Li, Q., Lin, S., Linder, S. E., Montgomery, S. B., Oliva, M., Park, Y., Pierce, B. L., Rizzardi, L. F., Skol, A. D., Smith, K. S., Snyder, M., Stamatoyannopoulos, J., Stranger, B. E., Tang, H., Wang, M., Branton, P. A., Carithers, L. J., Guan, P., Koester, S. E., Little, A. R., Moore, H. M., Nierras, C. R., Rao, A. K., Vaught, J. B., Volpi, S., Ardlie, K. G. & Lappalainen, T., Sep 11 2020, In: Genome biology. 21, 1, 234.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Cell type–specific genetic regulation of gene expression across human tissues

    GTEx Consortium, Sep 2020, In: Science. 369, 6509, eaaz8528.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Detection of haplotype-dependent allele-specific DNA methylation in WGBS data

    Abante, J., Fang, Y., Feinberg, A. P. & Goutsias, J., Dec 1 2020, In: Nature communications. 11, 1, 5238.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Independent Methylome-Wide Association Studies of Schizophrenia Detect Consistent Case-Control Differences

    Chan, R. F., Shabalin, A. A., Montano, C., Hannon, E., Hultman, C. M., Fallin, M. D., Feinberg, A. P., Mill, J., Van Den Oord, E. J. C. G. & Aberg, K. A., Mar 1 2020, In: Schizophrenia bulletin. 46, 2, p. 319-327 9 p.

    Research output: Contribution to journalArticlepeer-review

  • The GTEx Consortium atlas of genetic regulatory effects across human tissues

    The GTEx Consortium, Sep 2020, In: Science. 369, 6509, p. 1318-1330 13 p.

    Research output: Contribution to journalArticlepeer-review

  • The impact of sex on gene expression across human tissues

    The GTEx Consortium, Sep 2020, In: Science. 369, 6509, eaba3066.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Transcriptomic signatures across human tissues identify functional rare genetic variation

    TOPMed Lipids Working Group & GTEx Consortium, Sep 11 2020, In: Science. 369, 6509, eaaz5900.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • 2019

    Analyzing whole genome bisulfite sequencing data from highly divergent genotypes

    Wulfridge, P., Langmead, B., Feinberg, A. P. & Hansen, K. D., Nov 4 2019, In: Nucleic acids research. 47, 19, p. e117

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Blood Leukocyte DNA Methylation Predicts Risk of Future Myocardial Infarction and Coronary Heart Disease

    Agha, G., Mendelson, M. M., Ward-Caviness, C. K., Joehanes, R., Huan, T. X., Gondalia, R., Salfati, E., Brody, J. A., Fiorito, G., Bressler, J., Chen, B. H., Ligthart, S., Guarrera, S., Colicino, E., Just, A. C., Wahl, S., Gieger, C., Vandiver, A. R., Tanaka, T., Hernandez, D. G. & 37 others, Pilling, L. C., Singleton, A. B., Sacerdote, C., Krogh, V., Panico, S., Tumino, R., Li, Y., Zhang, G., Stewart, J. D., Floyd, J. S., Wiggins, K. L., Rotter, J. I., Multhaup, M., Bakulski, K., Horvath, S., Tsao, P. S., Absher, D. M., Vokonas, P., Hirschhorn, J., Fallin, M. D., Liu, C., Bandinelli, S., Boerwinkle, E., Dehghan, A., Schwartz, J. D., Psaty, B. M., Feinberg, A. P., Hou, L., Ferrucci, L., Sotoodehnia, N., Matullo, G., Peters, A., Fornage, M., Assimes, T. L., Whitsel, E. A., Levy, D. & Baccarelli, A. A., Aug 20 2019, In: Circulation. 140, 8, p. 645-657 13 p.

    Research output: Contribution to journalArticlepeer-review

  • Epigenetic marks of prenatal air pollution exposure found in multiple tissues relevant for child health

    Ladd-Acosta, C., Feinberg, J. I., Brown, S. C., Lurmann, F. W., Croen, L. A., Hertz-Picciotto, I., Newschaffer, C. J., Feinberg, A. P., Fallin, M. D. & Volk, H. E., May 2019, In: Environment international. 126, p. 363-376 14 p.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Meta-analysis of epigenome-wide association studies in neonates reveals widespread differential DNA methylation associated with birthweight

    Küpers, L. K., Monnereau, C., Sharp, G. C., Yousefi, P., Salas, L. A., Ghantous, A., Page, C. M., Reese, S. E., Wilcox, A. J., Czamara, D., Starling, A. P., Novoloaca, A., Lent, S., Roy, R., Hoyo, C., Breton, C. V., Allard, C., Just, A. C., Bakulski, K. M., Holloway, J. W. & 107 others, Everson, T. M., Xu, C. J., Huang, R. C., van der Plaat, D. A., Wielscher, M., Merid, S. K., Ullemar, V., Rezwan, F. I., Lahti, J., van Dongen, J., Langie, S. A. S., Richardson, T. G., Magnus, M. C., Nohr, E. A., Xu, Z., Duijts, L., Zhao, S., Zhang, W., Plusquin, M., DeMeo, D. L., Solomon, O., Heimovaara, J. H., Jima, D. D., Gao, L., Bustamante, M., Perron, P., Wright, R. O., Hertz-Picciotto, I., Zhang, H., Karagas, M. R., Gehring, U., Marsit, C. J., Beilin, L. J., Vonk, J. M., Jarvelin, M. R., Bergström, A., Örtqvist, A. K., Ewart, S., Villa, P. M., Moore, S. E., Willemsen, G., Standaert, A. R. L., Håberg, S. E., Sørensen, T. I. A., Taylor, J. A., Räikkönen, K., Yang, I. V., Kechris, K., Nawrot, T. S., Silver, M. J., Gong, Y. Y., Richiardi, L., Kogevinas, M., Litonjua, A. A., Eskenazi, B., Huen, K., Mbarek, H., Maguire, R. L., Dwyer, T., Vrijheid, M., Bouchard, L., Baccarelli, A. A., Croen, L. A., Karmaus, W., Anderson, D., de Vries, M., Sebert, S., Kere, J., Karlsson, R., Arshad, S. H., Hämäläinen, E., Routledge, M. N., Boomsma, D. I., Feinberg, A. P., Newschaffer, C. J., Govarts, E., Moisse, M., Fallin, M. D., Melén, E., Prentice, A. M., Kajantie, E., Almqvist, C., Oken, E., Dabelea, D., Boezen, H. M., Melton, P. E., Wright, R. J., Koppelman, G. H., Trevisi, L., Hivert, M. F., Sunyer, J., Munthe-Kaas, M. C., Murphy, S. K., Corpeleijn, E., Wiemels, J., Holland, N., Herceg, Z., Binder, E. B., Davey Smith, G., Jaddoe, V. W. V., Lie, R. T., Nystad, W., London, S. J., Lawlor, D. A., Relton, C. L., Snieder, H. & Felix, J. F., Dec 1 2019, In: Nature communications. 10, 1, 1893.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Neuronal brain-region-specific DNA methylation and chromatin accessibility are associated with neuropsychiatric trait heritability

    Rizzardi, L. F., Hickey, P. F., Rodriguez DiBlasi, V., Tryggvadóttir, R., Callahan, C. M., Idrizi, A., Hansen, K. D. & Feinberg, A. P., Feb 1 2019, In: Nature neuroscience. 22, 2, p. 307-316 10 p.

    Research output: Contribution to journalArticlepeer-review

  • Ranking genomic features using an information-theoretic measure of epigenetic discordance

    Jenkinson, G., Abante, J., Koldobskiy, M. A., Feinberg, A. P. & Goutsias, J., Apr 8 2019, In: BMC Bioinformatics. 20, 1, 175.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • The NASA twins study: A multidimensional analysis of a year-long human spaceflight

    Garrett-Bakelman, F. E., Darshi, M., Green, S. J., Gur, R. C., Lin, L., Macias, B. R., McKenna, M. J., Meydan, C., Mishra, T., Nasrini, J., Piening, B. D., Rizzardi, L. F., Sharma, K., Siamwala, J. H., Taylor, L., Vitaterna, M. H., Afkarian, M., Afshinnekoo, E., Ahadi, S., Ambati, A. & 62 others, Arya, M., Bezdan, D., Callahan, C. M., Chen, S., Choi, A. M. K., Chlipala, G. E., Contrepois, K., Covington, M., Crucian, B. E., De Vivo, I., Dinges, D. F., Ebert, D. J., Feinberg, J. I., Gandara, J. A., George, K. A., Goutsias, J., Grills, G. S., Hargens, A. R., Heer, M., Hillary, R. P., Hoofnagle, A. N., Hook, V. Y. H., Jenkinson, G., Jiang, P., Keshavarzian, A., Laurie, S. S., Lee-McMullen, B., Lumpkins, S. B., MacKay, M., Maienschein-Cline, M. G., Melnick, A. M., Moore, T. M., Nakahira, K., Patel, H. H., Pietrzyk, R., Rao, V., Saito, R., Salins, D. N., Schilling, J. M., Sears, D. D., Sheridan, C. K., Stenger, M. B., Tryggvadottir, R., Urban, A. E., Vaisar, T., Van Espen, B., Zhang, J., Ziegler, M. G., Zwart, S. R., Charles, J. B., Kundrot, C. E., Scott, G. B. I., Bailey, S. M., Basner, M., Feinberg, A. P., Lee, S. M. C., Mason, C. E., Mignot, E., Rana, B. K., Smith, S. M., Snyder, M. P. & Turek, F. W., 2019, In: Science. 364, 6436, eaau8650.

    Research output: Contribution to journalArticlepeer-review

  • 2018

    A Loss of Epigenetic Control Can Promote Cell Death through Reversing the Balance of Pathways in a Signaling Network

    Vanaja, K. G., Timp, W., Feinberg, A. P. & Levchenko, A., Oct 4 2018, In: Molecular cell. 72, 1, p. 60-70.e3

    Research output: Contribution to journalArticlepeer-review

  • An information-theoretic approach to the modeling and analysis of whole-genome bisulfite sequencing data

    Jenkinson, G., Abante, J., Feinberg, A. P. & Goutsias, J., Mar 7 2018, In: BMC Bioinformatics. 19, 1, 87.

    Research output: Contribution to journalArticlepeer-review

  • Arioc: GPU-accelerated alignment of short bisulfite-treated reads

    Wilton, R., Li, X., Feinberg, A. P. & Szalay, A. S., Aug 1 2018, In: Bioinformatics. 34, 15, p. 2673-2675 3 p.

    Research output: Contribution to journalArticlepeer-review

  • Case-control meta-analysis of blood DNA methylation and autism spectrum disorder

    Andrews, S. V., Sheppard, B., Windham, G. C., Schieve, L. A., Schendel, D. E., Croen, L. A., Chopra, P., Alisch, R. S., Newschaffer, C. J., Warren, S. T., Feinberg, A. P., Fallin, M. D. & Ladd-Acosta, C., Jun 28 2018, In: Molecular Autism. 9, 1, 40.

    Research output: Contribution to journalArticlepeer-review

  • DNA methylation as a mediator of HLA-DRB1 15:01 and a protective variant in multiple sclerosis

    Kular, L., Liu, Y., Ruhrmann, S., Zheleznyakova, G., Marabita, F., Gomez-Cabrero, D., James, T., Ewing, E., Lindén, M., Górnikiewicz, B., Aeinehband, S., Stridh, P., Link, J., Andlauer, T. F. M., Gasperi, C., Wiendl, H., Zipp, F., Gold, R., Tackenberg, B., Weber, F. & 28 others, Hemmer, B., Strauch, K., Heilmann-Heimbach, S., Rawal, R., Schminke, U., Schmidt, C. O., Kacprowski, T., Franke, A., Laudes, M., Dilthey, A. T., Celius, E. G., Søndergaard, H. B., Tegnér, J., Harbo, H. F., Oturai, A. B., Olafsson, S., Eggertsson, H. P., Halldorsson, B. V., Hjaltason, H., Olafsson, E., Jonsdottir, I., Stefansson, K., Olsson, T., Piehl, F., Ekström, T. J., Kockum, I., Feinberg, A. P. & Jagodic, M., Dec 1 2018, In: Nature communications. 9, 1, 2397.

    Research output: Contribution to journalArticlepeer-review

  • 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, B. E., 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. M., 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 journalArticlepeer-review

  • Improving metabolic health through precision dietetics in mice

    Barrington, W. T., Wulfridge, P., Wells, A. E., Rojas, C. M., Howe, S. Y. F., Perry, A., Hua, K., Pellizzon, M. A., Hansen, K. D., Voy, B. H., Bennett, B. J., Pomp, D., Feinberg, A. P. & Threadgill, D. W., Jan 2018, In: Genetics. 208, 1, p. 399-417 19 p.

    Research output: Contribution to journalArticlepeer-review

  • 2017

    Association of Body Mass Index with DNA Methylation and Gene Expression in Blood Cells and Relations to Cardiometabolic Disease: A Mendelian Randomization Approach

    Mendelson, M. M., Marioni, R. E., Joehanes, R., Liu, C., Hedman, Å. K., Aslibekyan, S., Demerath, E. W., Guan, W., Zhi, D., Yao, C., Huan, T., Willinger, C., Chen, B., Courchesne, P., Multhaup, M., Irvin, M. R., Cohain, A., Schadt, E. E., Grove, M. L., Bressler, J. & 29 others, North, K., Sundström, J., Gustafsson, S., Shah, S., McRae, A. F., Harris, S. E., Gibson, J., Redmond, P., Corley, J., Murphy, L., Starr, J. M., Kleinbrink, E., Lipovich, L., Visscher, P. M., Wray, N. R., Krauss, R. M., Fallin, D., Feinberg, A., Absher, D. M., Fornage, M., Pankow, J. S., Lind, L., Fox, C., Ingelsson, E., Arnett, D. K., Boerwinkle, E., Liang, L., Levy, D. & Deary, I. J., Jan 2017, In: PLoS medicine. 14, 1, e1002215.

    Research output: Contribution to journalArticlepeer-review

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

    The GTEx Consortium, 2017, In: Genome research. 27, 11, p. 1843-1858 16 p.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Cross-tissue integration of genetic and epigenetic data offers insight into autism spectrum disorder

    Andrews, S. V., Ellis, S. E., Bakulski, K. M., Sheppard, B., Croen, L. A., Hertz-Picciotto, I., Newschaffer, C. J., Feinberg, A. P., Arking, D. E., Ladd-Acosta, C. & Fallin, M. D., Dec 1 2017, In: Nature communications. 8, 1, 1011.

    Research output: Contribution to journalArticlepeer-review

  • DNA methylation mediates genotype and smoking interaction in the development of anti-citrullinated peptide antibody-positive rheumatoid arthritis

    Meng, W., Zhu, Z., Jiang, X., Too, C. L., Uebe, S., Jagodic, M., Kockum, I., Murad, S., Ferrucci, L., Alfredsson, L., Zou, H., Klareskog, L., Feinberg, A. P., Ekström, T. J., Padyukov, L. & Liu, Y., Mar 29 2017, In: Arthritis Research and Therapy. 19, 1, 71.

    Research output: Contribution to journalArticlepeer-review

  • 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 journalArticlepeer-review

  • Epigenomic reprogramming during pancreatic cancer progression links anabolic glucose metabolism to distant metastasis

    McDonald, O. G., Li, X., Saunders, T., Tryggvadottir, R., Mentch, S. J., Warmoes, M. O., Word, A. E., Carrer, A., Salz, T. H., Natsume, S., Stauffer, K. M., Makohon-Moore, A., Zhong, Y., Wu, H., Wellen, K. E., Locasale, J. W., Iacobuzio-Donahue, C. A. & Feinberg, A. P., Mar 1 2017, In: Nature genetics. 49, 3, p. 367-376 10 p.

    Research output: Contribution to journalArticlepeer-review

  • 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 journalArticlepeer-review

  • Identifying cis-mediators for trans-eQTLs across many human tissues using genomic mediation analysis

    The GTEx Consortium, Nov 2017, In: Genome research. 27, 11, p. 1859-1871 13 p.

    Research output: Contribution to journalArticlepeer-review

    Open Access
  • Improving genetic diagnosis in Mendelian disease with transcriptome sequencing

    Other members of the AWG, 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, Apr 19 2017, In: Science translational medicine. 9, 386, eaal5209.

    Research output: Contribution to journalArticlepeer-review

  • 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 journalArticlepeer-review

  • Potential energy landscapes identify the information-theoretic nature of the epigenome

    Jenkinson, G., Pujadas, E., Goutsias, J. & Feinberg, A. P., May 1 2017, In: Nature genetics. 49, 5, p. 719-729 11 p.

    Research output: Contribution to journalArticlepeer-review

  • Smoking induces DNA methylation changes in Multiple Sclerosis patients with exposure-response relationship

    Marabita, F., Almgren, M., Sjöholm, L. K., Kular, L., Liu, Y., James, T., Kiss, N. B., Feinberg, A. P., Olsson, T., Kockum, I., Alfredsson, L., Ekström, T. J. & Jagodic, M., Dec 1 2017, In: Scientific reports. 7, 1, 14589.

    Research output: Contribution to journalArticlepeer-review

  • 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 journalArticlepeer-review

  • 2016

    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. M., Kleinman, J. E., Sobell, J. L., Pato, C. N., Pato, M. T. & 7 others, Go, R. C., Nimgaonkar, V., Weinberger, D. R., Braff, D., Gur, R. E., Fallin, M. D. & Feinberg, A. P., May 2016, In: JAMA psychiatry. 73, 5, p. 506-514 9 p.

    Research output: Contribution to journalArticlepeer-review

  • DNA methylation-based measures of biological age: Meta-analysis predicting time to death

    Chen, B. H., Marioni, R. E., Colicino, E., Peters, M. J., Ward-Caviness, C. K., Tsai, P. C., Roetker, N. S., Just, A. C., Demerath, E. W., Guan, W., Bressler, J., Fornage, M., Studenski, S., Vandiver, A. R., Moore, A. Z., Tanaka, T., Kiel, D. P., Liang, L., Vokonas, P., Schwartz, J. & 46 others, Lunetta, K. L., Murabito, J. M., Bandinelli, S., Hernandez, D. G., Melzer, D., Nalls, M., Pilling, L. C., Price, T. R., Singleton, A. B., Gieger, C., Holle, R., Kretschmer, A., Kronenberg, F., Kunze, S., Linseisen, J., Meisinger, C., Rathmann, W., Waldenberger, M., Visscher, P. M., Shah, S., Wray, N. R., McRae, A. F., Franco, O. H., Hofman, A., Uitterlinden, A. G., Absher, D., Assimes, T., Levine, M. E., Lu, A. T., Tsao, P. S., Hou, L., Manson, J. A. E., Carty, C. L., LaCroix, A. Z., Reiner, A. P., Spector, T. D., Feinberg, A. P., Levy, D., Baccarelli, A., Meurs, J. V., Bell, J. T., Peters, A., Deary, I. J., Pankow, J. S., Ferrucci, L. & Horvath, S., 2016, In: Aging. 8, 9, p. 1844-1865 22 p.

    Research output: Contribution to journalArticlepeer-review

  • DNA Methylation in Newborns and Maternal Smoking in Pregnancy: Genome-wide Consortium Meta-analysis

    Joubert, B. R., Felix, J. F., Yousefi, P., Bakulski, K. M., Just, A. C., Breton, C., Reese, S. E., Markunas, C. A., Richmond, R. C., Xu, C. J., Küpers, L. K., Oh, S. S., Hoyo, C., Gruzieva, O., Söderhäll, C., Salas, L. A., Baïz, N., Zhang, H., Lepeule, J., Ruiz, C. & 86 others, Ligthart, S., Wang, T., Taylor, J. A., Duijts, L., Sharp, G. C., Jankipersadsing, S. A., Nilsen, R. M., Vaez, A., Fallin, M. D., Hu, D., Litonjua, A. A., Fuemmeler, B. F., Huen, K., Kere, J., Kull, I., Munthe-Kaas, M. C., Gehring, U., Bustamante, M., Saurel-Coubizolles, M. J., Quraishi, B. M., Ren, J., Tost, J., Gonzalez, J. R., Peters, M. J., Håberg, S. E., Xu, Z., Van Meurs, J. B., Gaunt, T. R., Kerkhof, M., Corpeleijn, E., Feinberg, A. P., Eng, C., Baccarelli, A. A., Benjamin Neelon, S. E., Bradman, A., Merid, S. K., Bergström, A., Herceg, Z., Hernandez-Vargas, H., Brunekreef, B., Pinart, M., Heude, B., Ewart, S., Yao, J., Lemonnier, N., Franco, O. H., Wu, M. C., Hofman, A., McArdle, W., Van Der Vlies, P., Falahi, F., Gillman, M. W., Barcellos, L. F., Kumar, A., Wickman, M., Guerra, S., Charles, M. A., Holloway, J., Auffray, C., Tiemeier, H. W., Smith, G. D., Postma, D., Hivert, M. F., Eskenazi, B., Vrijheid, M., Arshad, H., Antó, J. M., Dehghan, A., Karmaus, W., Annesi-Maesano, I., Sunyer, J., Ghantous, A., Pershagen, G., Holland, N., Murphy, S. K., Demeo, D. L., Burchard, E. G., Ladd-Acosta, C., Snieder, H., Nystad, W., Koppelman, G. H., Relton, C. L., Jaddoe, V. W. V., Wilcox, A., Melén, E. & London, S. J., Apr 7 2016, In: American journal of human genetics. 98, 4, p. 680-696 17 p.

    Research output: Contribution to journalArticlepeer-review

  • DNA methylation of cord blood cell types: Applications for mixed cell birth studies

    Bakulski, K. M., Feinberg, J. I., Andrews, S. V., Yang, J., Brown, S., L. McKenney, S., Witter, F., Walston, J., Feinberg, A. P. & Fallin, M. D., May 3 2016, In: Epigenetics. 11, 5, p. 354-362 9 p.

    Research output: Contribution to journalArticlepeer-review

  • DNA methylation signatures of chronic low-grade inflammation are associated with complex diseases

    Ligthart, S., Marzi, C., Aslibekyan, S., Mendelson, M. M., Conneely, K. N., Tanaka, T., Colicino, E., Waite, L. L., Joehanes, R., Guan, W., Brody, J. A., Elks, C., Marioni, R., Jhun, M. A., Agha, G., Bressler, J., Ward-Caviness, C. K., Chen, B. H., Huan, T., Bakulski, K. & 67 others, Salfati, E. L., Fiorito, G., Wahl, S., Schramm, K., Sha, J., Hernandez, D. G., Just, A. C., Smith, J. A., Sotoodehnia, N., Pilling, L. C., Pankow, J. S., Tsao, P. S., Liu, C., Zhao, W., Guarrera, S., Michopoulos, V. J., Smith, A. K., Peters, M. J., Melzer, D., Vokonas, P., Fornage, M., Prokisch, H., Bis, J. C., Chu, A. Y., Herder, C., Grallert, H., Yao, C., Shah, S., McRae, A. F., Lin, H., Horvath, S., Fallin, D., Hofman, A., Wareham, N. J., Wiggins, K. L., Feinberg, A. P., Starr, J. M., Visscher, P. M., Murabito, J. M., Kardia, S. L. R., Absher, D. M., Binder, E. B., Singleton, A. B., Bandinelli, S., Peters, A., Waldenberger, M., Matullo, G., Schwartz, J. D., Demerath, E. W., Uitterlinden, A. G., Meurs, J. B. J., Franco, O. H., Chen, Y. D. I., Levy, D., Turner, S. T., Deary, I. J., Ressler, K. J., Dupuis, J., Ferrucci, L., Ong, K. K., Assimes, T. L., Boerwinkle, E., Koenig, W., Arnett, D. K., Baccarelli, A. A., Benjamin, E. J. & Dehghan, A., Dec 12 2016, In: Genome biology. 17, 1, 255.

    Research output: Contribution to journalArticlepeer-review

  • Evaluation of techniques for performing cellular isolation and preservation during microgravity conditions

    Rizzardi, L. F., Kunz, H., Rubins, K., Chouker, A., Quiriarte, H., Sams, C., Crucian, B. E. & Feinberg, A. P., Jan 7 2016, In: npj Microgravity. 2, 16025.

    Research output: Contribution to journalArticlepeer-review

  • "Gap hunting" to characterize clustered probe signals in Illumina methylation array data

    Andrews, S. V., Ladd-Acosta, C., Feinberg, A. P., Hansen, K. D. & Fallin, M. D., Dec 7 2016, In: Epigenetics and Chromatin. 9, 1, p. 1-21 21 p.

    Research output: Contribution to journalArticlepeer-review

  • 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 journalArticlepeer-review

  • Nanopore sequencing in microgravity

    McIntyre, A. B. R., Rizzardi, L., Yu, A. M., Alexander, N., Rosen, G. L., Botkin, D. J., Stahl, S. E., John, K. K., Castro-Wallace, S. L., McGrath, K., Burton, A. S., Feinberg, A. P. & Mason, C. E., Jan 7 2016, In: npj Microgravity. 2, 16035.

    Research output: Contribution to journalArticlepeer-review

  • Presence of an epigenetic signature of prenatal cigarette smoke exposure in childhood

    Ladd-Acosta, C., Shu, C., Lee, B. K., Gidaya, N., Singer, A., Schieve, L. A., Schendel, D. E., Jones, N., Daniels, J. L., Windham, G. C., Newschaffer, C. J., Croen, L. A., Feinberg, A. P. & Daniele Fallin, M., Jan 1 2016, In: Environmental research. 144, p. 139-148 10 p.

    Research output: Contribution to journalArticlepeer-review

  • Whole-genome analysis of the methylome and hydroxymethylome in normal and malignant lung and liver

    Li, X., Liu, Y., Salz, T., Hansen, K. D. & Feinberg, A., Dec 2016, In: Genome research. 26, 12, p. 1730-1741 12 p.

    Research output: Contribution to journalArticlepeer-review

  • 2015

    A comparison of non-integrating reprogramming methods

    Schlaeger, T. M., Daheron, L., Brickler, T. R., Entwisle, S., Chan, K., Cianci, A., DeVine, A., Ettenger, A., Fitzgerald, K., Godfrey, M., Gupta, D., McPherson, J., Malwadkar, P., Gupta, M., Bell, B., Doi, A., Jung, N., Li, X., Lynes, M. S., Brookes, E. & 9 others, Cherry, A. B. C., Demirbas, D., Tsankov, A. M., Zon, L. I., Rubin, L. L., Feinberg, A. P., Meissner, A., Cowan, C. A. & Daley, G. Q., Jan 1 2015, In: Nature biotechnology. 33, 1, p. 58-63 6 p.

    Research output: Contribution to journalArticlepeer-review