Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019
ABSTRACT Accurate predictions across multiple fields of microbiome research have far-reaching benefits to society, but there are few widely accepted quantitative tools to make accurate predictions about microbial communities and their functions. More discussion is needed about the current state of m...
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American Society for Microbiology
2019
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oai:doaj.org-article:f89f7f61b38542e4b9a86726ff2d57ee2021-12-02T19:46:18ZCurrent State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 201910.1128/mSystems.00392-192379-5077https://doaj.org/article/f89f7f61b38542e4b9a86726ff2d57ee2019-10-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSystems.00392-19https://doaj.org/toc/2379-5077ABSTRACT Accurate predictions across multiple fields of microbiome research have far-reaching benefits to society, but there are few widely accepted quantitative tools to make accurate predictions about microbial communities and their functions. More discussion is needed about the current state of microbiome analysis and the tools required to overcome the hurdles preventing development and implementation of predictive analyses. We summarize the ideas generated by participants of the Mid-Atlantic Microbiome Meet-up in January 2019. While it was clear from the presentations that most fields have advanced beyond simple associative and descriptive analyses, most fields lack essential elements needed for the development and application of accurate microbiome predictions. Participants stressed the need for standardization, reproducibility, and accessibility of quantitative tools as key to advancing predictions in microbiome analysis. We highlight hurdles that participants identified and propose directions for future efforts that will advance the use of prediction in microbiome research.Eric SakowskiGherman UritskiyRachel CooperMaya GomesMichael R. McLarenJacquelyn S. MeiselRebecca L. MickolC. David MintzEmmanuel F. MongodinMihai PopMohammad Arifur RahmanAlvaro SanchezWinston TimpJeseth Delgado VelaCarly Muletz WolzJoseph P. ZackularJessica ChopykSeth CommichauxMeghan DavisDouglas DluzenSukirth M. GanesanMuyideen HarunaDan NaskoMary J. ReganSaul SarriaNidhi ShahBrook StacyDylan TaylorJocelyne DiRuggieroSarah P. PreheimAmerican Society for Microbiologyarticlemicrobiomebioinformaticsmetagenomicspredictionmachine learningconceptual modelsMicrobiologyQR1-502ENmSystems, Vol 4, Iss 5 (2019) |
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microbiome bioinformatics metagenomics prediction machine learning conceptual models Microbiology QR1-502 |
| spellingShingle |
microbiome bioinformatics metagenomics prediction machine learning conceptual models Microbiology QR1-502 Eric Sakowski Gherman Uritskiy Rachel Cooper Maya Gomes Michael R. McLaren Jacquelyn S. Meisel Rebecca L. Mickol C. David Mintz Emmanuel F. Mongodin Mihai Pop Mohammad Arifur Rahman Alvaro Sanchez Winston Timp Jeseth Delgado Vela Carly Muletz Wolz Joseph P. Zackular Jessica Chopyk Seth Commichaux Meghan Davis Douglas Dluzen Sukirth M. Ganesan Muyideen Haruna Dan Nasko Mary J. Regan Saul Sarria Nidhi Shah Brook Stacy Dylan Taylor Jocelyne DiRuggiero Sarah P. Preheim Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019 |
| description |
ABSTRACT Accurate predictions across multiple fields of microbiome research have far-reaching benefits to society, but there are few widely accepted quantitative tools to make accurate predictions about microbial communities and their functions. More discussion is needed about the current state of microbiome analysis and the tools required to overcome the hurdles preventing development and implementation of predictive analyses. We summarize the ideas generated by participants of the Mid-Atlantic Microbiome Meet-up in January 2019. While it was clear from the presentations that most fields have advanced beyond simple associative and descriptive analyses, most fields lack essential elements needed for the development and application of accurate microbiome predictions. Participants stressed the need for standardization, reproducibility, and accessibility of quantitative tools as key to advancing predictions in microbiome analysis. We highlight hurdles that participants identified and propose directions for future efforts that will advance the use of prediction in microbiome research. |
| format |
article |
| author |
Eric Sakowski Gherman Uritskiy Rachel Cooper Maya Gomes Michael R. McLaren Jacquelyn S. Meisel Rebecca L. Mickol C. David Mintz Emmanuel F. Mongodin Mihai Pop Mohammad Arifur Rahman Alvaro Sanchez Winston Timp Jeseth Delgado Vela Carly Muletz Wolz Joseph P. Zackular Jessica Chopyk Seth Commichaux Meghan Davis Douglas Dluzen Sukirth M. Ganesan Muyideen Haruna Dan Nasko Mary J. Regan Saul Sarria Nidhi Shah Brook Stacy Dylan Taylor Jocelyne DiRuggiero Sarah P. Preheim |
| author_facet |
Eric Sakowski Gherman Uritskiy Rachel Cooper Maya Gomes Michael R. McLaren Jacquelyn S. Meisel Rebecca L. Mickol C. David Mintz Emmanuel F. Mongodin Mihai Pop Mohammad Arifur Rahman Alvaro Sanchez Winston Timp Jeseth Delgado Vela Carly Muletz Wolz Joseph P. Zackular Jessica Chopyk Seth Commichaux Meghan Davis Douglas Dluzen Sukirth M. Ganesan Muyideen Haruna Dan Nasko Mary J. Regan Saul Sarria Nidhi Shah Brook Stacy Dylan Taylor Jocelyne DiRuggiero Sarah P. Preheim |
| author_sort |
Eric Sakowski |
| title |
Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019 |
| title_short |
Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019 |
| title_full |
Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019 |
| title_fullStr |
Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019 |
| title_full_unstemmed |
Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019 |
| title_sort |
current state of and future opportunities for prediction in microbiome research: report from the mid-atlantic microbiome meet-up in baltimore on 9 january 2019 |
| publisher |
American Society for Microbiology |
| publishDate |
2019 |
| url |
https://doaj.org/article/f89f7f61b38542e4b9a86726ff2d57ee |
| work_keys_str_mv |
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1718376061659512832 |