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Kenny Q. Ye, Ph.D.

Calculated based on number of publications stored in Pure and citations from Scopus
Calculated based on number of publications stored in Pure and citations from Scopus
Calculated based on number of publications stored in Pure and citations from Scopus
1996 …2023

Research activity per year

Search results

  • 2019

    The effect of fear of falling on prefrontal cortex activation and efficiency during walking in older adults

    Holtzer, R., Kraut, R., Izzetoglu, M. & Ye, K., Feb 15 2019, In: GeroScience. 41, 1, p. 89-100 12 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    31 Scopus citations

  • The nutritional environment determines which and how intestinal stem cells contribute to homeostasis and tumorigenesis

    Li, W., Zimmerman, S. E., Peregrina, K., Houston, M., Mayoral, J., Zhang, J., Maqbool, S., Zhang, Z., Cai, Y., Ye, K. & Augenlicht, L. H., Aug 22 2019, In: Carcinogenesis. 40, 8, p. 937-946 10 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    20 Scopus citations

  • Ultra-High-Frequency Reprogramming of Individual Long-Term Hematopoietic Stem Cells Yields Low Somatic Variant Induced Pluripotent Stem Cells

    Wang, K., Guzman, A. K., Yan, Z., Zhang, S., Hu, M. Y., Hamaneh, M. B., Yu, Y. K., Tolu, S., Zhang, J., Kanavy, H. E., Ye, K., Bartholdy, B. & Bouhassira, E. E., Mar 5 2019, In: Cell Reports. 26, 10, p. 2580-2592.e7

    Research output: Contribution to journal › Article › peer-review

    Open Access
    14 Scopus citations

  • Ventricular Arterial Coupling: A Novel Echocardiographic Risk Factor for Disease Progression in Pediatric Dilated Cardiomyopathy

    Capone, C. A., Lamour, J. M., Lorenzo, J., Tria, B., Ye, K., Hsu, D. T. & Mahgerefteh, J., 2019, In: Pediatric Cardiology. 40, p. 330-338 9 p.

    Research output: Contribution to journal › Article › peer-review

    4 Scopus citations
  • 2018

    Adjustment for covariates using summary statistics of genome-wide association studies

    Wang, T., Xue, X., Xie, X., Ye, K., Zhu, X. & Elston, R. C., Dec 2018, In: Genetic Epidemiology. 42, 8, p. 812-825 14 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    5 Scopus citations

  • Computational Analysis of Neonatal Mouse Ultrasonic Vocalization

    Ó Broin, P., Beckert, M. V., Takahashi, T., Izumi, T., Ye, K., Kang, G., Pouso, P., Topolski, M., Pena, J. L. & Hiroi, N., Jun 1 2018, In: Current protocols in mouse biology. 8, 2, p. e46

    Research output: Contribution to journal › Article › peer-review

    Open Access
    7 Scopus citations

  • Copy number elevation of 22q11.2 genes arrests the developmental maturation of working memory capacity and adult hippocampal neurogenesis

    Boku, S., Izumi, T., Abe, S., Takahashi, T., Nishi, A., Nomaru, H., Naka, Y., Kang, G., Nagashima, M., Hishimoto, A., Enomoto, S., Duran-Torres, G., Tanigaki, K., Zhang, J., Ye, K., Kato, S., Männistö, P. T., Kobayashi, K. & Hiroi, N., Apr 1 2018, In: Molecular Psychiatry. 23, 4, p. 985-992 8 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    17 Scopus citations

  • Correction to: Association between lifestyle, menstrual/reproductive history, and histological factors and risk of breast cancer in women biopsied for benign breast disease (Breast Cancer Research and Treatment, (2017), 165, 3, (623-631), 10.1007/s10549-017-4347-9)

    Arthur, R., Wang, Y., Ye, K., Glass, A. G., Ginsberg, M., Loudig, O. & Rohan, T., Jul 1 2018, In: Breast Cancer Research and Treatment. 170, 1, p. 203 1 p.

    Research output: Contribution to journal › Comment/debate › peer-review

    Open Access

  • Detecting, quantifying, and discriminating the mechanism of mosaic chromosomal aneuploidies using MAD-seq

    Kong, Y., Berko, E. R., Marcketta, A., Maqbool, S. B., Simões-Pires, C. A., Kronn, D. F., Ye, K. Q., Suzuki, M., Auton, A. & Greally, J. M., Jul 2018, In: Genome research. 28, 7, p. 1039-1052 14 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    3 Scopus citations

  • Evaluation of Hair Density in Different Ethnicities in a Healthy American Population Using Quantitative Trichoscopic Analysis

    Birnbaum, M. R., McLellan, B. N., Shapiro, J., Ye, K. & Reid, S. D., Oct 1 2018, In: Skin Appendage Disorders. 4, 4, p. 304-307 4 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    18 Scopus citations

  • Improved Dose-Response Relationship of (+)-Discodermolide-Taxol Hybrid Congeners

    Nadaradjane, C., Yang, C. P. H., Rodriguez-Gabin, A., Ye, K., Sugasawa, K., Atasoylu, O., Smith, A. B., Horwitz, S. B. & McDaid, H. M., Mar 23 2018, In: Journal of Natural Products. 81, 3, p. 607-615 9 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    4 Scopus citations

  • MicroRNA expression in benign breast tissue and risk of subsequent invasive breast cancer

    Rohan, T., Ye, K., Wang, Y., Glass, A. G., Ginsberg, M. & Loudig, O., Feb 2018, In: PloS one. 13, 2, e0191814.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    8 Scopus citations

  • Near-term decrease in brain volume following mild traumatic injury is detectible in the context of preinjury volumetric stability: Neurobiologic insights from analysis of historical imaging examinations

    Goldman-Yassen, A. E., Chen, K. X., Edasery, D., Hsu, K., Ye, K. & Lipton, M. L., Oct 1 2018, In: American Journal of Neuroradiology. 39, 10, p. 1821-1826 6 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    2 Scopus citations
  • 2017

    Association between lifestyle, menstrual/reproductive history, and histological factors and risk of breast cancer in women biopsied for benign breast disease

    Arthur, R., Wang, Y., Ye, K., Glass, A. G., Ginsberg, M., Loudig, O. & Rohan, T., Oct 1 2017, In: Breast Cancer Research and Treatment. 165, 3, p. 623-631 9 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    26 Scopus citations

  • Evaluation and adaptation of a laboratory-based cDNA library preparation protocol for retrospective sequencing of archived microRNAs from up to 35-year-old clinical FFPE specimens

    Loudig, O., Wang, T., Ye, K., Lin, J., Wang, Y., Ramnauth, A., Liu, C., Stark, A., Chitale, D., Greenlee, R., Multerer, D., Honda, S., Daida, Y., Feigelson, H. S., Glass, A., Couch, F. J., Rohan, T. & Ben-Dov, I. Z., Mar 14 2017, In: International Journal of Molecular Sciences. 18, 3, 627.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    13 Scopus citations

  • Measuring shared variants in cohorts of discordant siblings with applications to autism

    Ye, K., Iossifov, I., Levy, D., Yamrom, B., Buja, A., Krieger, A. M. & Wigler, M., Jul 3 2017, In: Proceedings of the National Academy of Sciences of the United States of America. 114, 27, p. 7073-7076 4 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    7 Scopus citations
  • 2016

    Molecular Histochemistry Identifies Peptidomic Organization and Reorganization Along Striatal Projection Units

    Hishimoto, A., Nomaru, H., Ye, K., Nishi, A., Lim, J., Aguilan, J. T., Nieves, E., Kang, G., Angeletti, R. H. & Hiroi, N., Mar 1 2016, In: Biological Psychiatry. 79, 5, p. 415-420 6 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    5 Scopus citations

  • Structure and function of neonatal social communication in a genetic mouse model of autism

    Takahashi, T., Okabe, S., Broin, P., Nishi, A., Ye, K., Beckert, M. V., Izumi, T., Machida, A., Kang, G., Abe, S., Pena, J. L., Golden, A., Kikusui, T. & Hiroi, N., Sep 1 2016, In: Molecular Psychiatry. 21, 9, p. 1208-1214 7 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    61 Scopus citations

  • The Cervicovaginal Microbiota and Its Associations with Human Papillomavirus Detection in HIV-Infected and HIV-Uninfected Women

    Reimers, L. L., Mehta, S. D., Massad, L. S., Burk, R. D., Xie, X., Ravel, J., Cohen, M. H., Palefsky, J. M., Weber, K. M., Xue, X., Anastos, K., Minkoff, H., Atrio, J., D'Souza, G., Ye, Q., Colie, C., Zolnik, C. P., Spear, G. T. & Strickler, H. D., Nov 1 2016, In: Journal of Infectious Diseases. 214, 9, p. 1361-1369 9 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    48 Scopus citations
  • 2015

    A global reference for human genetic variation

    Auton, A., Abecasis, G. R., Altshuler, D. M., Durbin, R. M., Bentley, D. R., Chakravarti, A., Clark, A. G., Donnelly, P., Eichler, E. E., Flicek, P., Gabriel, S. B., Gibbs, R. A., Green, E. D., Hurles, M. E., Knoppers, B. M., Korbel, J. O., Lander, E. S., Lee, C., Lehrach, H., Mardis, E. R., & 457 othersMarth, G. T., McVean, G. A., Nickerson, D. A., Schmidt, J. P., Sherry, S. T., Wang, J., Wilson, R. K., Boerwinkle, E., Doddapaneni, H., Han, Y., Korchina, V., Kovar, C., Lee, S., Muzny, D., Reid, J. G., Zhu, Y., Chang, Y., Feng, Q., Fang, X., Guo, X., Jian, M., Jiang, H., Jin, X., Lan, T., Li, G., Li, J., Li, Y., Liu, S., Liu, X., Lu, Y., Ma, X., Tang, M., Wang, B., Wang, G., Wu, H., Wu, R., Xu, X., Yin, Y., Zhang, D., Zhang, W., Zhao, J., Zhao, M., Zheng, X., Gupta, N., Gharani, N., Toji, L. H., Gerry, N. P., Resch, A. M., Barker, J., Clarke, L., Gil, L., Hunt, S. E., Kelman, G., Kulesha, E., Leinonen, R., McLaren, W. M., Radhakrishnan, R., Roa, A., Smirnov, D., Smith, R. E., Streeter, I., Thormann, A., Toneva, I., Vaughan, B., Zheng-Bradley, X., Grocock, R., Humphray, S., James, T., Kingsbury, Z., Sudbrak, R., Albrecht, M. W., Amstislavskiy, V. S., Borodina, T. A., Lienhard, M., Mertes, F., Sultan, M., Timmermann, B., Yaspo, M. L., Fulton, L., Ananiev, V., Belaia, Z., Beloslyudtsev, D., Bouk, N., Chen, C., Church, D., Cohen, R., Cook, C., Garner, J., Hefferon, T., Kimelman, M., Liu, C., Lopez, J., Meric, P., O'Sullivan, C., Ostapchuk, Y., Phan, L., Ponomarov, S., Schneider, V., Shekhtman, E., Sirotkin, K., Slotta, D., Zhang, H., Balasubramaniam, S., Burton, J., Danecek, P., Keane, T. M., Kolb-Kokocinski, A., McCarthy, S., Stalker, J., Quail, M., Davies, C. J., Gollub, J., Webster, T., Wong, B., Zhan, Y., Campbell, C. L., Kong, Y., Marcketta, A., Yu, F., Antunes, L., Bainbridge, M., Sabo, A., Huang, Z., Coin, L. J. M., Fang, L., Li, Q., Li, Z., Lin, H., Liu, B., Luo, R., Shao, H., Xie, Y., Ye, C., Yu, C., Zhang, F., Zheng, H., Zhu, H., Alkan, C., Dal, E., Kahveci, F., Garrison, E. P., Kural, D., Lee, W. P., Leong, W. F., Stromberg, M., Ward, A. N., Wu, J., Zhang, M., Daly, M. J., DePristo, M. A., Handsaker, R. E., Banks, E., Bhatia, G., Del Angel, G., Genovese, G., Li, H., Kashin, S., McCarroll, S. A., Nemesh, J. C., Poplin, R. E., Yoon, S. C., Lihm, J., Makarov, V., Gottipati, S., Keinan, A., Rodriguez-Flores, J. L., Rausch, T., Fritz, M. H., Stütz, A. M., Beal, K., Datta, A., Herrero, J., Ritchie, G. R. S., Zerbino, D., Sabeti, P. C., Shlyakhter, I., Schaffner, S. F., Vitti, J., Cooper, D. N., Ball, E. V., Stenson, P. D., Barnes, B., Bauer, M., Cheetham, R. K., Cox, A., Eberle, M., Kahn, S., Murray, L., Peden, J., Shaw, R., Kenny, E. E., Batzer, M. A., Konkel, M. K., Walker, J. A., MacArthur, D. G., Lek, M., Herwig, R., Ding, L., Koboldt, D. C., Larson, D., Ye, K., Gravel, S., Swaroop, A., Chew, E., Lappalainen, T., Erlich, Y., Gymrek, M., Willems, T. F., Simpson, J. T., Shriver, M. D., Rosenfeld, J. A., Bustamante, C. D., Montgomery, S. B., De La Vega, F. M., Byrnes, J. K., Carroll, A. W., DeGorter, M. K., Lacroute, P., Maples, B. K., Martin, A. R., Moreno-Estrada, A., Shringarpure, S. S., Zakharia, F., Halperin, E., Baran, Y., Cerveira, E., Hwang, J., Malhotra, A., Plewczynski, D., Radew, K., Romanovitch, M., Zhang, C., Hyland, F. C. L., Craig, D. W., Christoforides, A., Homer, N., Izatt, T., Kurdoglu, A. A., Sinari, S. A., Squire, K., Xiao, C., Sebat, J., Antaki, D., Gujral, M., Noor, A., Ye, K., Burchard, E. G., Hernandez, R. D., Gignoux, C. R., Haussler, D., Katzman, S. J., Kent, W. J., Howie, B., Ruiz-Linares, A., Dermitzakis, E. T., Devine, S. E., Kang, H. M., Kidd, J. M., Blackwell, T., Caron, S., Chen, W., Emery, S., Fritsche, L., Fuchsberger, C., Jun, G., Li, B., Lyons, R., Scheller, C., Sidore, C., Song, S., Sliwerska, E., Taliun, D., Tan, A., Welch, R., Wing, M. K., Zhan, X., Awadalla, P., Hodgkinson, A., Li, Y., Shi, X., Quitadamo, A., Lunter, G., Marchini, J. L., Myers, S., Churchhouse, C., Delaneau, O., Gupta-Hinch, A., Kretzschmar, W., Iqbal, Z., Mathieson, I., Menelaou, A., Rimmer, A., Xifara, D. K., Oleksyk, T. K., Fu, Y., Liu, X., Xiong, M., Jorde, L., Witherspoon, D., Xing, J., Browning, B. L., Browning, S. R., Hormozdiari, F., Sudmant, P. H., Khurana, E., Tyler-Smith, C., Albers, C. A., Ayub, Q., Chen, Y., Colonna, V., Jostins, L., Walter, K., Xue, Y., Gerstein, M. B., Abyzov, A., Balasubramanian, S., Chen, J., Clarke, D., Fu, Y., Harmanci, A. O., Jin, M., Lee, D., Liu, J., Mu, X. J., Zhang, J., Zhang, Y., Hartl, C., Shakir, K., Degenhardt, J., Meiers, S., Raeder, B., Casale, F. P., Stegle, O., Lameijer, E. W., Hall, I., Bafna, V., Michaelson, J., Gardner, E. J., Mills, R. E., Dayama, G., Chen, K., Fan, X., Chong, Z., Chen, T., Chaisson, M. J., Huddleston, J., Malig, M., Nelson, B. J., Parrish, N. F., Blackburne, B., Lindsay, S. J., Ning, Z., Zhang, Y., Lam, H., Sisu, C., Challis, D., Evani, U. S., Lu, J., Nagaswamy, U., Yu, J., Li, W., Habegger, L., Yu, H., Cunningham, F., Dunham, I., Lage, K., Jespersen, J. B., Horn, H., Kim, D., Desalle, R., Narechania, A., Sayres, M. A. W., Mendez, F. L., Poznik, G. D., Underhill, P. A., Mittelman, D., Banerjee, R., Cerezo, M., Fitzgerald, T. W., Louzada, S., Massaia, A., Yang, F., Kalra, D., Hale, W., Dan, X., Barnes, K. C., Beiswanger, C., Cai, H., Cao, H., Henn, B., Jones, D., Kaye, J. S., Kent, A., Kerasidou, A., Mathias, R., Ossorio, P. N., Parker, M., Rotimi, C. N., Royal, C. D., Sandoval, K., Su, Y., Tian, Z., Tishkoff, S., Via, M., Wang, Y., Yang, H., Yang, L., Zhu, J., Bodmer, W., Bedoya, G., Cai, Z., Gao, Y., Chu, J., Peltonen, L., Garcia-Montero, A., Orfao, A., Dutil, J., Martinez-Cruzado, J. C., Mathias, R. A., Hennis, A., Watson, H., McKenzie, C., Qadri, F., LaRocque, R., Deng, X., Asogun, D., Folarin, O., Happi, C., Omoniwa, O., Stremlau, M., Tariyal, R., Jallow, M., Joof, F. S., Corrah, T., Rockett, K., Kwiatkowski, D., Kooner, J., Hien, T. T., Dunstan, S. J., ThuyHang, N., Fonnie, R., Garry, R., Kanneh, L., Moses, L., Schieffelin, J., Grant, D. S., Gallo, C., Poletti, G., Saleheen, D., Rasheed, A., Brooks, L. D., Felsenfeld, A. L., McEwen, J. E., Vaydylevich, Y., Duncanson, A., Dunn, M. & Schloss, J. A., Sep 30 2015, In: Nature. 526, 7571, p. 68-74 7 p.

    Research output: Contribution to journal › Review article › peer-review

    Open Access
    10166 Scopus citations

  • Bayesian detection of embryonic gene expression onset in C. elegans

    Hu, J., Zhao, Z., Yalamanchili, H. K., Wang, J., Ye, K. & Fan, X., Jun 1 2015, In: Annals of Applied Statistics. 9, 2, p. 950-968 19 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    6 Scopus citations

  • Low load for disruptive mutations in autism genes and their biased transmission

    Iossifov, I., Levy, D., Allen, J., Ye, K., Ronemus, M., Lee, Y. H., Yamrom, B. & Wigler, M., Oct 13 2015, In: Proceedings of the National Academy of Sciences of the United States of America. 112, 41, p. E5600-E5607

    Research output: Contribution to journal › Article › peer-review

    Open Access
    105 Scopus citations
  • 2014

    Integrating sequence and array data to create an improved 1000 Genomes Project haplotype reference panel

    Delaneau, O., Marchini, J., McVeanh, G. A., Donnelly, P., Lunter, G., Myers, S., Gupta-Hinch, A., Iqbal, Z., Mathieson, I., Rimmer, A., Xifara, D. K., Kerasidou, A., Churchhouse, C., Altshuler, D. M., Gabriel, S. B., Lander, E. S., Gupta, N., Daly, M. J., DePristo, M. A., Banks, E., & 362 othersBhatia, G., Carneiro, M. O., Del Angel, G., Genovese, G., Handsaker, R. E., Hartl, C., McCarroll, S. A., Nemesh, J. C., Poplin, R. E., Schaffner, S. F., Shakir, K., Sabeti, P. C., Grossman, S. R., Tabrizi, S., Tariyal, R., Li, H., Reich, D., Durbin, R. M., Hurles, M. E., Balasubramaniam, S., Burton, J., Danecek, P., Keane, T. M., Kolb-Kokocinski, A., McCarthy, S., Stalker, J., Quail, M., Ayub, Q., Chen, Y., Coffey, A. J., Colonna, V., Huang, N., Jostins, L., Scally, A., Walter, K., Xue, Y., Zhang, Y., Blackburne, B., Lindsay, S. J., Ning, Z., Frankish, A., Harrow, J., Chris, T. S., Abecasis, G. R., Kang, H. M., Anderson, P., Blackwell, T., Busonero, F., Fuchsberger, C., Jun, G., Maschio, A., Porcu, E., Sidore, C., Tan, A., Trost, M. K., Bentley, D. R., Grocock, R., Humphray, S., James, T., Kingsbury, Z., Bauer, M., Cheetham, R. K., Cox, T., Eberle, M., Murray, L., Shaw, R., Chakravarti, A., Clark, A. G., Keinan, A., Rodriguez-Flores, J. L., De LaVega, F. M., Degenhardt, J., Eichler, E. E., Flicek, P., Clarke, L., Leinonen, R., Smith, R. E., Zheng-Bradley, X., Beal, K., Cunningham, F., Herrero, J., McLaren, W. M., Ritchie, G. R. S., Barker, J., Kelman, G., Kulesha, E., Radhakrishnan, R., Roa, A., Smirnov, D., Streeter, I., Toneva, I., Gibbs, R. A., Dinh, H., Kovar, C., Lee, S., Lewis, L., Muzny, D., Reid, J., Wang, M., Yu, F., Bainbridge, M., Challis, D., Evani, U. S., Lu, J., Nagaswamy, U., Sabo, A., Wang, Y., Yu, J., Fowler, G., Hale, W., Kalra, D., Green, E. D., Knoppers, B. M., Korbel, J. O., Rausch, T., Sttz, A. M., Lee, C., Griffin, L., Hsieh, C. H., Mills, R. E., Von Grotthuss, M., Zhang, C., Shi, X., Lehrach, H., Sudbrak, R., Amstislavskiy, V. S., Lienhard, M., Mertes, F., Sultan, M., Timmermann, B., Yaspo, M. L., Herwig, S. R., Mardis, E. R., Wilson, R. K., Fulton, L., Fulton, R., Weinstock, G. M., Chinwalla, A., Ding, L., Dooling, D., Koboldt, D. C., McLellan, M. D., Wallis, J. W., Wendl, M. C., Zhang, Q., Marth, G. T., Garrison, E. P., Kural, D., Lee, W. P., Leong, W. F., Ward, A. N., Wu, J., Zhang, M., Nickerson, D. A., Alkan, C., Hormozdiari, F., Ko, A., Sudmant, P. H., Schmidt, J. P., Davies, C. J., Gollub, J., Webster, T., Wong, B., Zhan, Y., Sherry, S. T., Xiao, C., Church, D., Ananiev, V., Belaia, Z., Beloslyudtsev, D., Bouk, N., Chen, C., Cohen, R., Cook, C., Garner, J., Hefferon, T., Kimelman, M., Liu, C., Lopez, J., Meric, P., Ostapchuk, Y., Phan, L., Ponomarov, S., Schneider, V., Shekhtman, E., Sirotkin, K., Slotta, D., Zhang, H., Wang, J., Fang, X., Guo, X., Jian, M., Jiang, H., Jin, X., Li, G., Li, J., Li, Y., Liu, X., Lu, Y., Ma, X., Tai, S., Tang, M., Wang, B., Wang, G., Wu, H., Wu, R., Yin, Y., Zhang, W., Zhao, J., Zhao, M., Zheng, X., Lachlan, H., Fang, L., Li, Q., Li, Z., Lin, H., Liu, B., Luo, R., Shao, H., Wang, B., Xie, Y., Ye, C., Yu, C., Zheng, H., Zhu, H., Cai, H., Cao, H., Su, Y., Tian, Z., Yang, H., Yang, L., Zhu, J., Cai, Z., Wang, J., Albrecht, M. W., Borodina, T. A., Auton, A., Yoon, S. C., Lihm, J., Makarov, V., Jin, H., Kim, W., Kim, K. C., Gottipati, S., Jones, D., Cooper, D. N., Ball, E. V., Stenson, P. D., Barnes, B., Kahn, S., Ye, K., Batzer, M. A., Konkel, M. K., Walker, J. A., MacArthur, D. G., Lek, M., Shriver, M. D., Bustamante, C. D., Gravel, S., Kenny, E. E., Kidd, J. M., Lacroute, P., Maples, B. K., Moreno-Estrada, A., Zakharia, F., Henn, B., Sandoval, K., Byrnes, J. K., Halperin, E., Baran, Y., Craig, D. W., Christoforides, A., Izatt, T., Kurdoglu, A. A., Sinari, S. A., Homer, N., Squire, K., Sebat, J., Bafna, V., Ye, K., Burchard, E. G., Hernandez, R. D., Gignoux, C. R., Haussler, D., Katzman, S. J., Kent, W. J., Howie, B., Ruiz-Linares, A., Dermitzakis, E. T., Lappalainen, T., Devine, S. E., Liu, X., Maroo, A., Tallon, L. J., Rosenfeld, J. A., Michelson, L. P., Angius, A., Cucca, F., Sanna, S., Bigham, A., Jones, C., Reinier, F., Li, Y., Lyons, R., Schlessinger, D., Awadalla, P., Hodgkinson, A., Oleksyk, T. K., Martinez-Cruzado, J. C., Fu, Y., Liu, X., Xiong, M., Jorde, L., Witherspoon, D., Xing, J., Browning, B. L., Hajirasouliha, I., Chen, K., Albers, C. A., Gerstein, M. B., Abyzov, A., Chen, J., Fu, Y., Habegger, L., Harmanci, A. O., Mu, X. J., Sisu, C., Balasubramanian, S., Jin, M., Khurana, E., Clarke, D., Michaelson, J. J., OSullivan, C., Barnes, K. C., Gharani, N., Toji, L. H., Gerry, N., Kaye, J. S., Kent, A., Mathias, R., Ossorio, P. N., Parker, M., Rotimi, C. N., Royal, C. D., Tishkoff, S., Via, M., Bodmer, W., Bedoya, G., Yang, G., You, C. J., Garcia-Montero, A., Orfao, A., Dutil, J., Brooks, L. D., Felsenfeld, A. L., McEwen, J. E., Clemm, N. C., Guyer, M. S., Peterson, J. L., Duncanson, A., Dunn, M. & Peltonen, L., Jun 13 2014, In: Nature communications. 5, 3934.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    280 Scopus citations

  • The contribution of de novo coding mutations to autism spectrum disorder

    Iossifov, I., O'Roak, B. J., Sanders, S. J., Ronemus, M., Krumm, N., Levy, D., Stessman, H. A., Witherspoon, K. T., Vives, L., Patterson, K. E., Smith, J. D., Paeper, B., Nickerson, D. A., Dea, J., Dong, S., Gonzalez, L. E., Mandell, J. D., Mane, S. M., Murtha, M. T., Sullivan, C. A., & 27 othersWalker, M. F., Waqar, Z., Wei, L., Willsey, A. J., Yamrom, B., Lee, Y. H., Grabowska, E., Dalkic, E., Wang, Z., Marks, S., Andrews, P., Leotta, A., Kendall, J., Hakker, I., Rosenbaum, J., Ma, B., Rodgers, L., Troge, J., Narzisi, G., Yoon, S., Schatz, M. C., Ye, K., McCombie, W. R., Shendure, J., Eichler, E. E., State, M. W. & Wigler, M., Nov 13 2014, In: Nature. 515, 7526, p. 216-221 6 p.

    Research output: Contribution to journal › Article › peer-review

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    1729 Scopus citations
  • 2013

    Common genetic variants regulating ADD3 gene expression alter biliary atresia risk

    Cheng, G., Tang, C. S. M., Wong, E. H. M., Cheng, W. W. C., So, M. T., Miao, X., Zhang, R., Cui, L., Liu, X., Ngan, E. S. W., Lui, V. C. H., Chung, P. H. Y., Chan, I. H. Y., Liu, J., Zhong, W., Xia, H., Yu, J., Qiu, X., Wu, X. Z., Wang, B., & 13 othersDong, X., Tou, J., Huang, L., Yi, B., Ren, H., Chan, E. K. W., Ye, K., O'Reilly, P. F., Wong, K. K. Y., Sham, P. C., Cherny, S. S., Tam, P. K. H. & Garcia-Barceló, M. M., Dec 2013, In: Journal of Hepatology. 59, 6, p. 1285-1291 7 p.

    Research output: Contribution to journal › Article › peer-review

    67 Scopus citations
  • 2012

    An integrated map of genetic variation from 1,092 human genomes

    Altshuler, D. M., Durbin, R. M., Abecasis, G. R., Bentley, D. R., Chakravarti, A., Clark, A. G., Donnelly, P., Eichler, E. E., Flicek, P., Gabriel, S. B., Gibbs, R. A., Green, E. D., Hurles, M. E., Knoppers, B. M., Korbel, J. O., Lander, E. S., Lee, C., Lehrach, H., Mardis, E. R., Marth, G. T., & 371 othersMcVean, G. A., Nickerson, D. A., Schmidt, J. P., Sherry, S. T., Wang, J., Wilson, R. K., Dinh, H., Kovar, C., Lee, S., Lewis, L., Muzny, D., Reid, J., Wang, M., Fang, X., Guo, X., Jian, M., Jiang, H., Jin, X., Li, G., Li, J., Li, Y., Li, Z., Liu, X., Lu, Y., Ma, X., Su, Z., Tai, S., Tang, M., Wang, B., Wang, G., Wu, H., Wu, R., Yin, Y., Zhang, W., Zhao, J., Zhao, M., Zheng, X., Zhou, Y., Gupta, N., Clarke, L., Leinonen, R., Smith, R. E., Zheng-Bradley, X., Grocock, R., Humphray, S., James, T., Kingsbury, Z., Sudbrak, R., Albrecht, M. W., Amstislavskiy, V. S., Borodina, T. A., Lienhard, M., Mertes, F., Sultan, M., Timmermann, B., Yaspo, M. L., Fulton, L., Fulton, R., Weinstock, G. M., Balasubramaniam, S., Burton, J., Danecek, P., Keane, T. M., Kolb-Kokocinski, A., McCarthy, S., Stalker, J., Quail, M., Davies, C. J., Gollub, J., Webster, T., Wong, B., Zhan, Y., Auton, A., Yu, F., Bainbridge, M., Challis, D., Evani, U. S., Lu, J., Nagaswamy, U., Sabo, A., Wang, Y., Yu, J., Coin, L. J. M., Fang, L., Li, Q., Li, Z., Lin, H., Liu, B., Luo, R., Qin, N., Shao, H., Wang, B., Xie, Y., Ye, C., Yu, C., Zhang, F., Zheng, H., Zhu, H., Garrison, E. P., Kural, D., Lee, W. P., Fung Leong, W., Ward, A. N., Wu, J., Zhang, M., Griffin, L., Hsieh, C. H., Mills, R. E., Shi, X., Von Grotthuss, M., Zhang, C., Daly, M. J., Depristo, M. A., Banks, E., Bhatia, G., Carneiro, M. O., Del Angel, G., Genovese, G., Handsaker, R. E., Hartl, C., McCarroll, S. A., Nemesh, J. C., Poplin, R. E., Schaffner, S. F., Shakir, K., Yoon, S. C., Lihm, J., Makarov, V., Jin, H., Kim, W., Cheol Kim, K., Rausch, T., Beal, K., Cunningham, F., Herrero, J., McLaren, W. 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P., Min Kang, H., Anderson, P., Angius, A., Bigham, A., Blackwell, T., Busonero, F., Cucca, F., Fuchsberger, C., Jones, C., Jun, G., Li, Y., Lyons, R., Maschio, A., Porcu, E., Reinier, F., Sanna, S., Schlessinger, D., Sidore, C., Tan, A., Kate Trost, M., Awadalla, P., Hodgkinson, A., Lunter, G., Marchini, J. L., Myers, S., Churchhouse, C., Delaneau, O., Gupta-Hinch, A., Iqbal, Z., Mathieson, I., Rimmer, A., Xifara, D. K., Oleksyk, T. K., Fu, Y., Liu, X., Xiong, M., Jorde, L., Witherspoon, D., Xing, J., Browning, B. L., Alkan, C., Hajirasouliha, I., Hormozdiari, F., Ko, A., Sudmant, P. H., Chen, K., Chinwalla, A., Ding, L., Dooling, D., Koboldt, D. C., McLellan, M. D., Wallis, J. W., Wendl, M. C., Zhang, Q., Tyler-Smith, C., Albers, C. A., Ayub, Q., Chen, Y., Coffey, A. J., Colonna, V., Huang, N., Jostins, L., Li, H., Scally, A., Walter, K., Xue, Y., Zhang, Y., Gerstein, M. B., Abyzov, A., Balasubramanian, S., Chen, J., Clarke, D., Fu, Y., Habegger, L., Harmanci, A. 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Z., Yang, G., Jia You, C., Peltonen, L., Garcia-Montero, A., Orfao, A., Dutil, J., Martinez-Cruzado, J. C., Brooks, L. D., Felsenfeld, A. L., McEwen, J. E., Clemm, N. C., Duncanson, A., Dunn, M., Guyer, M. S., Peterson, J. L. & Lacroute, P., Nov 1 2012, In: Nature. 491, 7422, p. 56-65 10 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    5950 Scopus citations

  • De Novo Gene Disruptions in Children on the Autistic Spectrum

    Iossifov, I., Ronemus, M., Levy, D., Wang, Z., Hakker, I., Rosenbaum, J., Yamrom, B., Lee, Y. H., Narzisi, G., Leotta, A., Kendall, J., Grabowska, E., Ma, B., Marks, S., Rodgers, L., Stepansky, A., Troge, J., Andrews, P., Bekritsky, M., Pradhan, K., & 15 othersGhiban, E., Kramer, M., Parla, J., Demeter, R., Fulton, L. L., Fulton, R. S., Magrini, V. J., Ye, K., Darnell, J. C., Darnell, R. B., Mardis, E. R., Wilson, R. K., Schatz, M. C., McCombie, R. W. & Wigler, M., Apr 26 2012, In: Neuron. 74, 2, p. 285-299 15 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    1114 Scopus citations

  • Design and statistical analysis of pooled next generation sequencing for rare variants

    Wang, T., Lin, C. Y., Zhang, Y., Wen, R. & Ye, K., 2012, In: Journal of Probability and Statistics. 524724.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    4 Scopus citations

  • Distinguishing between longevity and buffered-deleterious genotypes for exceptional human longevity: The case of the MTP gene

    Huffman, D. M., Deelen, J., Ye, K., Bergman, A., Slagboom, E. P., Barzilai, N. & Atzmon, G., Nov 2012, In: Journals of Gerontology - Series A Biological Sciences and Medical Sciences. 67, 11, p. 1153-1160 8 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    24 Scopus citations

  • Effective DNA/RNA co-extraction for analysis of microRNAs, mRNAs, and genomic DNA from formalin-fixed paraffin-embedded specimens

    Kotorashvili, A., Ramnauth, A., Liu, C., Lin, J., Ye, K., Kim, R., Hazan, R., Rohan, T., Fineberg, S. & Loudig, O., Apr 13 2012, In: PloS one. 7, 4, e34683.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    54 Scopus citations

  • Gene Size Matters

    Mirina, A., Atzmon, G., Ye, K. & Bergman, A., Nov 9 2012, In: PloS one. 7, 11, e49093.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    17 Scopus citations

  • Genotype copy number variations using Gaussian mixture models: Theory and algorithms

    Lin, C. Y., Lo, Y. & Ye, K. Q., Sep 2012, In: Statistical Applications in Genetics and Molecular Biology. 11, 5, 5.

    Research output: Contribution to journal › Article › peer-review

    2 Scopus citations

  • Reducing system noise in copy number data using principal components of self-self hybridizations

    Lee, Y. H., Ronemus, M., Kendall, J., Lakshmi, B., Leotta, A., Levy, D., Esposito, D., Grubor, V., Ye, K., Wigler, M. & Yamroma, B., Jan 17 2012, In: Proceedings of the National Academy of Sciences of the United States of America. 109, 3, p. E103-E110

    Research output: Contribution to journal › Article › peer-review

    Open Access
    5 Scopus citations
  • 2011

    Detecting multiple causal rare variants in exome sequence data

    Ye, K. Q. & Engelman, C. D., 2011, In: Genetic Epidemiology. 35, SUPPL. 1, p. S18-S21

    Research output: Contribution to journal › Article › peer-review

    Open Access
    4 Scopus citations

  • Estimating allele frequency from next-generation sequencing of pooled mitochondrial DNA samples

    Wang, T., Pradhan, K., Ye, K., Wong, L. J. & Rohan, T. E., 2011, In: Frontiers in Genetics. 2, AUG, Article 51.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    10 Scopus citations

  • Mapping copy number variation by population-scale genome sequencing

    Mills, R. E., Walter, K., Stewart, C., Handsaker, R. E., Chen, K., Alkan, C., Abyzov, A., Yoon, S. C., Ye, K., Cheetham, R. K., Chinwalla, A., Conrad, D. F., Fu, Y., Grubert, F., Hajirasouliha, I., Hormozdiari, F., Iakoucheva, L. M., Iqbal, Z., Kang, S., Kidd, J. M., & 352 othersKonkel, M. K., Korn, J., Khurana, E., Kural, D., Lam, H. Y. K., Leng, J., Li, R., Li, Y., Lin, C. Y., Luo, R., Mu, X. J., Nemesh, J., Peckham, H. E., Rausch, T., Scally, A., Shi, X., Stromberg, M. P., Sütz, A. M., Urban, A. E., Walker, J. A., Wu, J., Zhang, Y., Zhang, Z. D., Batzer, M. A., Ding, L., Marth, G. T., McVean, G., Sebat, J., Snyder, M., Wang, J., Ye, K., Eichler, E. E., Gerstein, M. B., Hurles, M. E., Lee, C., McCarroll, S. A., Korbel, J. O., Collins, F. S., Altshuler, D. L., Durbin, R. M., Abecasis, G. R., Bentley, D. R., Chakravarti, A., Clark, A. G., De La Vega, F. M., Donnelly, P., Egholm, M., Flicek, P., Gabriel, S. B., Gibbs, R. A., Knoppers, B. M., Lander, E. S., Lehrach, H., Mardis, E. R., Nickerson, D. A., Peltonen, L., Schafer, A. J., Sherry, S. T., Wilson, R. K., Deiros, D., Metzker, M., Muzny, D., Reid, J., Wheeler, D., Li, J., Jian, M., Li, G., Liang, H., Tian, G., Wang, B., Wang, W., Yang, H., Zhang, X., Zheng, H., Ambrogio, L., Bloom, T., Cibulskis, K., Fennell, T. J., Jaffe, D. B., Shefler, E., Sougnez, C. L., Gormley, N., Humphray, S., Kingsbury, Z., Koko-Gonzales, P., Stone, J., McKernan, K. J., Costa, G. L., Ichikawa, J. K., Lee, C. C., Sudbrak, R., Borodina, T. A., Dahl, A., Davydov, A. N., Marquardt, P., Mertes, F., Nietfeld, W., Rosenstiel, P., Schreiber, S., Soldatov, A. V., Timmermann, B., Tolzmann, M., Affourtit, J., Ashworth, D., Attiya, S., Bachorski, M., Buglione, E., Burke, A., Caprio, A., Celone, C., Clark, S., Conners, D., Desany, B., Gu, L., Guccione, L., Kao, K., Kebbel, A., Knowlton, J., Labrecque, M., McDade, L., Mealmaker, C., Minderman, M., Nawrocki, A., Niazi, F., Pareja, K., Ramenani, R., Riches, D., Song, W., Turcotte, C., Wang, S., Dooling, D., Fulton, L., Fulton, R., Weinstock, G., Burton, J., Carter, D. M., Churcher, C., Coffey, A., Cox, A., Palotie, A., Quail, M., Skelly, T., Stalker, J., Swerdlow, H. P., Turner, D., De Witte, A., Giles, S., Bainbridge, M., Challis, D., Sabo, A., Yu, F., Yu, J., Fang, X., Guo, X., Tai, S., Wu, H., Zheng, X., Zhou, Y., Garrison, E. P., Huang, W., Indap, A., Lee, W. P., Leong, W. F., Quinlan, A. R., Ward, A. N., Daly, M. J., DePristo, M. A., Ball, A. D., Banks, E., Browning, B. L., Garimella, K. V., Grossman, S. R., Hanna, M., Hartl, C., Kernytsky, A. M., Korn, J. M., Li, H., Maguire, J. R., McKenna, A., Nemesh, J. C., Philippakis, A. A., Poplin, R. E., Price, A., Rivas, M. A., Sabeti, P. C., Schaffner, S. F., Shlyakhter, I. A., Cooper, D. N., Ball, E. V., Mort, M., Phillips, A. D., Stenson, P. D., Makarov, V., Bustamante, C. D., Boyko, A., Degenhardt, J., Gravel, S., Gutenkunst, R. N., Kaganovich, M., Keinan, A., Lacroute, P., Ma, X., Reynolds, A., Clarke, L., Cunningham, F., Herrero, J., Keenen, S., Kulesha, E., Leinonen, R., McLaren, W. M., Radhakrishnan, R., Smith, R. E., Zalunin, V., Zheng-Bradley, X., Stütz, A. M., Bauer, M., Cox, T., Eberle, M., James, T., Kahn, S., Murray, L., Hyland, F. C., Manning, J. M., McLaughlin, S. F., Sakarya, O., Sun, Y. A., Tsung, E. F., Albrecht, M. W., Amstislavskiy, V. S., Herwig, R., Parkhomchuk, D. V., Agarwala, R., Khouri, H., Morgulis, A. O., Paschall, J. E., Phan, L. D., Rotmistrovsky, K. E., Sanders, R. D., Shumway, M. F., Xiao, C., Auton, A., Lunter, G., Marchini, J. L., Moutsianas, L., Myers, S., Tumian, A., Knight, J., Winer, R., Craig, D. W., Beckstrom-Sternberg, S. M., Christoforides, A., Kurdoglu, A. A., Pearson, J. V., Sinari, S. A., Tembe, W. D., Haussler, D., Hinrichs, A. S., Katzman, S. J., Kern, A., Kuhn, R. M., Przeworski, M., Hernandez, R. D., Howie, B., Kelley, J. L., Melton, S. C., Anderson, P., Blackwell, T., Chen, W., Cookson, W. O., Ding, J., Kang, H. M., Lathrop, M., Liang, L., Moffatt, M. F., Scheet, P., Sidore, C., Zhan, X., Zöllner, S., Awadalla, P., Casals, F., Idaghdour, Y., Keebler, J., Stone, E. A., Zilversmit, M., Jorde, L., Xing, J., Aksay, G., Sahinalp, S. C., Sudmant, P. H., Koboldt, D. C., McLellan, M. D., Wallis, J. W., Wendl, M. C., Zhang, Q., Albers, C. A., Ayub, Q., Balasubramaniam, S., Barrett, J. C., Chen, Y., Danecek, P., Dermitzakis, E. T., Hu, M., Huang, N., Jin, H., Jostins, L., Keane, T. M., Le, S. Q., Lindsay, S., Long, Q., MacArthur, D. G., Montgomery, S. B., Parts, L., Tyler-Smith, C., Balasubramanian, S., Bjornson, R., Du, J., Habegger, L., Haraksingh, R., Jee, J., Lam, H. Y., Jeng, J., Zhang, Z., Bank, E., Yoon, S., Kidd, J., Coafra, C., Dinh, H., Kovar, C., Lee, S., Nazareth, L., Wilkinson, J., Khouri, H. M., Scott, C., Gharani, N., Kaye, J. S., Kent, A., Li, T., McGuire, A. L., Ossorio, P. N., Rotimi, C. N., Su, Y., Toji, L. H., Brooks, L. D., Felsenfeld, A. L., McEwen, J. E., Abdallah, A., Juenger, C. R., Clemm, N. C., Duncanson, A., Green, E. D., Guyer, M. S. & Peterson, J. L., Feb 3 2011, In: Nature. 470, 7332, p. 59-65 7 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    856 Scopus citations

  • Rare De Novo and Transmitted Copy-Number Variation in Autistic Spectrum Disorders

    Levy, D., Ronemus, M., Yamrom, B., Lee, Y. H., Leotta, A., Kendall, J., Marks, S., Lakshmi, B., Pai, D., Ye, K., Buja, A., Krieger, A., Yoon, S., Troge, J., Rodgers, L., Iossifov, I. & Wigler, M., Jun 9 2011, In: Neuron. 70, 5, p. 886-897 12 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    551 Scopus citations
  • 2010

    A map of human genome variation from population-scale sequencing

    Altshuler, D. L., Durbin, R. M., Abecasis, G. R., Bentley, D. R., Chakravarti, A., Clark, A. G., Collins, F. S., De La Vega, F. M., Donnelly, P., Egholm, M., Flicek, P., Gabriel, S. B., Gibbs, R. A., Knoppers, B. M., Lander, E. S., Lehrach, H., Mardis, E. R., McVean, G. A., Nickerson, D. A., Peltonen, L., & 348 othersSchafer, A. J., Sherry, S. T., Wang, J., Wilson, R. K., Deiros, D., Metzker, M., Muzny, D., Reid, J., Wheeler, D., Wang, S. J., Li, J., Jian, M., Li, G., Li, R., Liang, H., Tian, G., Wang, B., Wang, J., Wang, W., Yang, H., Zhang, X., Zheng, H., Ambrogio, L., Bloom, T., Cibulskis, K., Fennell, T. J., Jaffe, D. B., Shefler, E., Sougnez, C. L., Bentley, I. D. R., Gormley, N., Humphray, S., Kingsbury, Z., Koko-Gonzales, P., Stone, J., Mc Kernan, K. J., Costa, G. L., Ichikawa, J. K., Lee, C. C., Sudbrak, R., Borodina, T. A., Dahl, A., Davydov, A. N., Marquardt, P., Mertes, F., Nietfeld, W., Rosenstiel, P., Schreiber, S., Soldatov, A. V., Timmermann, B., Tolzmann, M., Affourtit, J., Ashworth, D., Attiya, S., Bachorski, M., Buglione, E., Burke, A., Caprio, A., Celone, C., Clark, S., Conners, D., Desany, B., Gu, L., Guccione, L., Kao, K., Kebbel, A., Knowlton, J., Labrecque, M., McDade, L., Mealmaker, C., Minderman, M., Nawrocki, A., Niazi, F., Pareja, K., Ramenani, R., Riches, D., Song, W., Turcotte, C., Wang, S., Dooling, D., Fulton, L., Fulton, R., Weinstock, G., Burton, J., Carter, D. M., Churcher, C., Coffey, A., Cox, A., Palotie, A., Quail, M., Skelly, T., Stalker, J., Swerdlow, H. P., Turner, D., De Witte, A., Giles, S., Bainbridge, M., Challis, D., Sabo, A., Yu, F., Yu, J., Fang, X., Guo, X., Li, Y., Luo, R., Tai, S., Wu, H., Zheng, H., Zheng, X., Zhou, Y., Marth, G. T., Garrison, E. P., Huang, W., Indap, A., Kural, D., Lee, W. P., Leong, W. F., Quinlan, A. R., Stewart, C., Stromberg, M. P., Ward, A. N., Wu, J., Lee, C., Mills, R. E., Shi, X., Daly, M. J., DePristo, M. A., Ball, A. D., Banks, E., Browning, B. 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R., Clemm, N. C., Duncanson, A., Green, E. D., Guyer, M. S. & Peterson, J. L., Oct 28 2010, In: Nature. 467, 7319, p. 1061-1073 13 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    6188 Scopus citations

  • Genome-wide analysis of DNA binding and transcriptional regulation by the mammalian Doublesex homolog DMRT1 in the juvenile testis

    Murphy, M. W., Sarver, A. L., Rice, D., Hatzi, K., Ye, K., Melnick, A., Heckert, L. L., Zarkower, D. & Bardwell, V. J., Jul 27 2010, In: Proceedings of the National Academy of Sciences of the United States of America. 107, 30, p. 13360-13365 6 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    81 Scopus citations

  • Resequencing of pooled DNA for detecting disease associations with rare variants

    Wang, T., Lin, C. Y., Rohan, T. E. & Ye, K., Jul 2010, In: Genetic Epidemiology. 34, 5, p. 492-501 10 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    21 Scopus citations
  • 2009

    A partial least-square approach for modeling gene-gene and gene-environment interactions when multiple markers are genotyped

    Wang, T., Ho, G., Ye, K., Strickler, H. & Elston, R. C., 2009, In: Genetic Epidemiology. 33, 1, p. 6-15 10 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    39 Scopus citations

  • High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing

    Hodges, E., Smith, A. D., Kendall, J., Xuan, Z., Ravi, K., Rooks, M., Zhang, M. Q., Ye, K., Bhattacharjee, A., Brizuela, L., McCombie, W. R., Wigler, M., Hannon, G. J. & Hicks, J. B., Sep 2009, In: Genome research. 19, 9, p. 1593-1605 13 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    187 Scopus citations

  • Model-robust supersaturated and partially supersaturated designs

    Jones, B. A., Li, W., Nachtsheim, C. J. & Ye, K. Q., Jan 2009, In: Journal of Statistical Planning and Inference. 139, 1, p. 45-53 9 p.

    Research output: Contribution to journal › Article › peer-review

    18 Scopus citations

  • Sensitive and accurate detection of copy number variants using read depth of coverage

    Yoon, S., Xuan, Z., Makarov, V., Ye, K. & Sebat, J., Sep 2009, In: Genome research. 19, 9, p. 1586-1592 7 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    462 Scopus citations

  • The BCL6 transcriptional program features repression of multiple oncogenes in primary B cells and is deregulated in DLBCL

    Ci, W., Polo, J. M., Cerchietti, L., Shaknovich, R., Wang, L., Shao, N. Y., Ye, K., Farinha, P., Horsman, D. E., Gascoyne, R. D., Elemento, O. & Melnick, A., 2009, In: Blood. 113, 22, p. 5536-5548 13 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    185 Scopus citations
  • 2008

    An integrative genomic and epigenomic approach for the study of transcriptional regulation

    Figueroa, M. E., Reimers, M., Thompson, R. F., Ye, K., Li, Y., Selzer, R. R., Fridriksson, J., Paietta, E., Wiernik, P., Green, R. D., Greally, J. M. & Melnick, A., Mar 26 2008, In: PloS one. 3, 3, e1882.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    77 Scopus citations

  • Computing power and sample size for case-control association studies with copy number polymorphism: Application of mixture-based likelihood ratio test

    Kim, W., Gordon, D., Sebat, J., Ye, K. Q. & Finch, S. J., Oct 22 2008, In: PloS one. 3, 10, e3475.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    13 Scopus citations

  • Meta-analysis of microarray studies reveals a novel hematopoietic progenitor cell signature and demonstrates feasibility of inter-platform data integration

    Sohal, D., Yeatts, A., Ye, K., Pellagatti, A., Zhou, L., Pahanish, P., Mo, Y., Bhagat, T., Mariadason, J., Boultwood, J., Melnick, A., Greally, J. & Verma, A., Aug 13 2008, In: PloS one. 3, 8, e2965.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    22 Scopus citations
  • 2007

    A unified genetic theory for sporadic and inherited autism

    Zhao, X., Leotta, A., Kustanovich, V., Lajonchere, C., Geschwind, D. H., Law, K., Law, P., Qiu, S., Lord, C., Sebat, J., Ye, K. & Wigler, M., Jul 31 2007, In: Proceedings of the National Academy of Sciences of the United States of America. 104, 31, p. 12831-12836 6 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    251 Scopus citations

  • Buffering mechanisms in aging: A systems approach toward uncovering the genetic component of aging

    Bergman, A., Atzmon, G., Ye, K., MacCarthy, T. & Barzilai, N., Aug 2007, In: PLoS Computational Biology. 3, 8, p. 1648-1656 9 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    102 Scopus citations