Yike Shen, Ph.D.

Yike Shen, Ph.D.

Assistant Professor

Presentations

Presenter highlighted in bold

Conference Presentations

2023

  1. Yike Shen, Arce Domingo-Relloso, Allison Kupsco, Marianthi-Anna Kioumourtzoglou, Karin Haack, Maria Tellez-Plaza, Jason G. Umans, Amanda M. Fretts, Ying Zhang, Peter F. Schnatz, Ramon Casanova, Lisa Warsinger Martin, JoAnn E. Manson, Shelley A. Cole, Haotian Wu, Eric A.Whitsel, Andrea A. Baccarelli, Ana Navas-Acien, Feng Gao. AESurv: autoencoder survival analysis assists accurate early prediction of coronary heart disease. International Society for Environmental Epidemiology North American Chapter annual meeting – ISEE NAC 2023. Corvallis, OR, June 19-23. (oral presentation)
  2. Yike Shen, Tessa R. Bloomquist, Abigail Rauso, Feng Gao, Virginie Gillet, Fion K. Lau, Jean Philippe Bellenger, Allison Kupsco, Larissa Takser, Andrea A. Baccarelli. Evaluation of the effect of bacterial RNA quality on shotgun metatranscriptome sequencing quality. American Society of Microbiology (ASM) Microbe 2023 annual meeting. Houston, TX, June 15-19. (poster presentation)

  3. Yike Shen, Wei Zhang, Ercheng Zhao, Andrea A. Baccarelli, Feng Gao. 2023. Pesticide exposure assessment and chemical ecotoxicity prediction using machine learning models. Society of Toxicology 62nd annual meeting (SOT 2023). Nashville, TN, March 20-23 (platform oral presentation).

    2022

  4. Yike Shen, Feng Gao, Arce Domingo-Relloso, Allison Kupsco, Marianthi-Anna Kioumourtzoglou, Karin Haack, Maria Tellez-Plaza, Jason G. Umans, Amanda M. Fretts, Ying Zhang, Shelley A. Cole, Haotian Wu, Andrea A. Baccarelli, Ana Navas-Acien. 2022. AESur: autoencoder survival analysis assists accurate early prediction of coronary heart disease in the Strong Heart Study. International Society for Environmental Epidemiology annual meeting – ISEE2022. Athens, Greece, September 18-21 (e-poster presentation).
  5. Yike Shen, Marianthi-Anna Kioumourtzoglou, Haotian Wu, Apron Spiro 3rd, Pantel Vokonas, Ana Navas-Acien, Andrea A. Baccarelli AA, Feng Gao. Cohort Network: a knowledge graph towards open science and knowledge-driven discovery for cohort studies. 2022. NIEHS Environmental Health Sciences Core Centers (EHSCC) Annual Meeting. New York, NY, July 14 (poster presentation).
  6. Yike Shen, Feng Gao, Arce Domingo-Relloso, Allison Kupsco, Marianthi-Anna Kioumourtzoglou, Karin Haack, Maria Tellez-Plaza, Jason G. Umans, Amanda M. Fretts, Ying Zhang, Shelley A. Cole, Haotian Wu, Andrea A. Baccarelli, Ana Navas-Acien. 2022. DeepEWAS assists early intervention of coronary heart disease. 8th New York City Epidemiology Forum. New York, NY, May 23 (poster presentation).
  7. Yike Shen, Feng Gao, Wei Zhang, Andrea A. Baccarelli. 2022. Predicting Chemical Ecotoxicity by Learning Latent Space Chemical Representations. American Chemical Society National Meeting Spring 2022. San Diego, CA, March 20-24 (oral presentation).

    2021

  8. Yike Shen, Hannah E. Laue, Martha J. Shrubsole, Haotian Wu, Tessa R. Bloomquist, Annie Larouche, Kankan Zhao, Feng Gao, Amélie Boivin, Diddier Prada, Darel J. Hunting, Virginie Gillet, Larissa Takser, Andrea A. Baccarelli. 2021. Association of childhood and maternal metal exposure with children gut microbiome in a Canadian gestation cohort. International Society for Environmental Epidemiology annual meeting – ISEE2021. New York, NY. August 24 (virtual spotlight oral presentation).
  9. Yike Shen, Hannah E. Laue, Martha J. Shrubsole, Haotian Wu, Tessa R. Bloomquist, Annie Larouche, Kankan Zhao, Feng Gao, Amélie Boivin, Diddier Prada, Darel J. Hunting, Virginie Gillet, Larissa Takser, Andrea A. Baccarelli. 2021. Association of childhood and maternal metal exposure with children gut microbiome in a Canadian gestation cohort. American Society of Microbiology Conference – ASM World Microbe Forum, June 21 (e-poster presentation).

    2020

  10. Yike Shen, Elliot T. Ryser, Hui Li, Wei Zhang. 2020. Bacterial Community Assembly and Antibiotic Resistance Genes in the Lettuce-Soil System upon Exposure to Anthropogenic Antibiotics. American Society of Microbiology Conference – ASM Microbe 2020. Chicago, IL, June 18, 2020 (e-poster presentation).

    2019

  11. Yike Shen, Elliot T. Ryser, Hui Li, Wei Zhang. 2019. Uptake and Accumulation of Antibiotics and Associated Impact on Bacterial Microbiome and Salmonella Survival in Lettuce. ASA -CSSA-SSSA International Annual Meeting. San Antonio, TX, November12 (oral presentation).
  12. Yike Shen, Joseph Hamm, Feng Gao, Wei Zhang. 2019. Machine learning and statistical models to predict customers’ buy and pay preferences for labeled products. Environmental Science and Policy Research Symposium 2019. East Lansing, MI, Oct 28 (oral presentation).
  13. Yike Shen, Elliot Ryser, Hui Li, Wei Zhang. 2019. Understanding Salmonella Survival and Microbiome Changes in Lettuce Production under Antibiotic Stress. US-China Environment and Sustainability Forum at the University of Michigan. Ann Arbor, MI, October 2 (poster presentation).
  14. Yike Shen, Elliot T. Ryser, Hui Li, Wei Zhang. 2019. Antibiotic resistance genes, microbiomes and Salmonella survival in lettuce exposed to antibiotics via soil surface irrigation. American Chemical Society National Meeting #257. San Diego, CA, August 25-29 (oral presentation).

    2018

  15. Yike Shen, Robert D. Stedtfeld, Xueping Guo, Gemini D. Bhalsod, Sangho Jeon, James M. Tiedje, Hui Li, and Wei Zhang. 2018. Pharmaceutical Exposure Changed Bacterial Community and Antibiotic Resistance Gene Profiles in Surface- and Overhead-Irrigated Greenhouse Lettuce. American Chemical Society National Meeting #256. Boston, MA, August 19-23 (oral presentation).

    2017

  16. Yike Shen, Gemini D. Bhalsod, Xueping Guo, Sangho Jeon, Tiffany Stedtfeld, Robert D. Stedtfeld, James M. Tiedje, Hui Li, and Wei Zhang. 2017. Antibiotic Stress Changed Microbial Community and Distribution of Antibiotic Resistance Genes in Surface and Overhead Irrigated Greenhouse Lettuce. 4th International Symposium on the Environmental Dimension of Antibiotic Resistance. East Lansing, MI, August 13-17 (poster presentation).
  17. Yike Shen, Gemini D. Bhalsod, Xueping Guo, Luxi Yang, Sangho Jeon, Robert D. Stedtfeld, James M. Tiedje, Hui Li, and Wei Zhang. 2017. Distribution of antibiotic resistance genes in surface and overhead irrigated greenhouse lettuce. American Society for Microbiology Conference - Innovative Microbial Ecology for Mitigation of Antibiotic Resistance and Bacterial Diseases. Crystal City, VA, March 22-25 (oral presentation).

Invited Oral Presentations

2023

  1. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. December 13, 2023. Invited by Icahn School of Medicine at Mount Sinai, New York, NY, United States (Grand Rounds seminar).
  2. Yike Shen. Academic Interviewing and Negotiation, 2022-2023 cycle. October 10, 2023. Invited by Columbia University, New York, NY, United States (virtual seminar).
  3. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. September 13, 2023. Invited by Baylor University, Waco, TX, United States.
  4. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. February 7, 2023. Invited by University of California, Riverside, Riverside, CA, United States.
  5. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. January 27, 2023. Invited by University of Texas at Arlington, Arlington, TX, United States.

    2022

  6. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. November 18, 2022. Invited by Texas A&M University, College Station, TX, United States.
  7. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. October 24, 2022. Invited by University of Kentucky, Lexington, KY, United States.
  8. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. October 15, 2022. Invited by Westlake University, Hangzhou, Zhejiang, China (virtual seminar).
  9. Yike Shen. Harnessing high dimensional exposure and omics data in environmental health sciences. September 15, 2022. Invited by Journal of Eco-Environment & Health. Nanjing, Jiangsu, China (virtual webinar). Over 2000 audiences listened to the webinar.
  10. Yike Shen. High dimensional exposures, multi-omics, and machine learning in environmental health. September 13, 2022. Invited by Columbia University P30 Center – The NIEHS Center for Environmental Health and Justice in Northern Manhattan, New York, NY, United States (virtual seminar).
  11. Yike Shen. Navigating Ph.D. July 26, 2022. Invited by Aarhus University, Denmark (virtual seminar).
  12. Yike Shen. Harnessing High Dimensional Exposure and Omics Data in Environmental Health Sciences. February 21, 2022. Department of Environmental Health Sciences, Columbia University, New York, NY, United States.

    2021

  13. Yike Shen. Deep Learning based Network Analysis in the Normative Aging Study. December 10, 2021. Invited by Columbia University Data Science and Health Initiative, New York, NY, United States (virtual seminar).
  14. Yike Shen. GESTE Microbiome. June 22, 2021. Invited by Département de Pédiatrie, Université de Sherbrooke, Quebec, Canada (virtual seminar).

    2017-2020

  15. Yike Shen. Antibiotic Resistance in Vegetable Production and Consumer Preferences. April 1, 2020. Invited by Michigan State University, East Lansing, MI, United States.
  16. Yike Shen. Antibiotic Resistance in Vegetable Production and Consumer Preferences. February 18, 2020. Invited by Columbia University, New York, NY, United States.
  17. Yike Shen. Assessing Antibiotics, Antibiotic Resistance Genes and Microbiome in Lettuce and Food Safety Related Consumer Preference. (Invited and presented in-person in six institutions)
    Invited Westlake University, Hangzhou, Zhejiang, China. January 17, 2020; Invited by Institute of Nuclear-Agricultural Science, Zhejiang University, Hangzhou, Zhejiang, China. January 16, 2020; Invited by College of Environmental Science and Engineering, Nankai University, Tianjin, China. January 14, 2020; Invited by Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China. January 13, 2020; Invited by Institute of Soil-Water Resource and Environment, Zhejiang University, Hangzhou, Zhejiang, China. January 6, 2020; Invited by the International Youth Scholars Forum of Zhejiang A&F University, Zhejiang A&F University, Hangzhou, Zhejiang, China. December 28, 2019.
  18. Yike Shen. The T concept of research in Environmental Dimension of Antimicrobial Resistance – Perspectives from an interdisciplinary Environmental Scientist in training. December 25, 2017. Invited by Institute of Soil-Water Resource and Environment, Zhejiang University, Hangzhou, Zhejiang, China.

Forum Panelist

  1. Public Health in the Next Decade: Discussion with the incoming Dean of Harvard University Chan School of Public Health. Panelist: Drs. Andrea Baccarelli (Columbia University), Yike Shen (UT Arlington), Xinlei Wang (UT Arlington), Yang Xie (UT Southwestern Medical Center), Elizabeth Merwin (UT Arlington), Yue Liao (UT Arlington). University of Texas at Arlington, Arlington, TX, October 20, 2023. Dr. Shen is the event host.