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Multivariable association discovery in population-scale meta-omics studies

Author

Listed:
  • Himel Mallick
  • Ali Rahnavard
  • Lauren J McIver
  • Siyuan Ma
  • Yancong Zhang
  • Long H Nguyen
  • Timothy L Tickle
  • George Weingart
  • Boyu Ren
  • Emma H Schwager
  • Suvo Chatterjee
  • Kelsey N Thompson
  • Jeremy E Wilkinson
  • Ayshwarya Subramanian
  • Yiren Lu
  • Levi Waldron
  • Joseph N Paulson
  • Eric A Franzosa
  • Hector Corrada Bravo
  • Curtis Huttenhower

Abstract

No abstract is available for this item.

Suggested Citation

  • Himel Mallick & Ali Rahnavard & Lauren J McIver & Siyuan Ma & Yancong Zhang & Long H Nguyen & Timothy L Tickle & George Weingart & Boyu Ren & Emma H Schwager & Suvo Chatterjee & Kelsey N Thompson & Je, 2021. "Multivariable association discovery in population-scale meta-omics studies," PLOS Computational Biology, Public Library of Science, vol. 17(11), pages 1-27, November.
    • Handle: RePEc:plo:pcbi00:1009442
    DOI: 10.1371/journal.pcbi.1009442
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    Cited by:

    1. Ruairi C. Robertson & Thaddeus J. Edens & Lynnea Carr & Kuda Mutasa & Ethan K. Gough & Ceri Evans & Hyun Min Geum & Iman Baharmand & Sandeep K. Gill & Robert Ntozini & Laura E. Smith & Bernard Chasekw, 2023. "The gut microbiome and early-life growth in a population with high prevalence of stunting," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    2. Carolina Alves Costa Silva & Gianmarco Piccinno & Déborah Suissa & Mélanie Bourgin & Gerty Schreibelt & Sylvère Durand & Roxanne Birebent & Marine Fidelle & Cissé Sow & Fanny Aprahamian & Paolo Manghi, 2024. "Influence of microbiota-associated metabolic reprogramming on clinical outcome in patients with melanoma from the randomized adjuvant dendritic cell-based MIND-DC trial," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    3. Bei Huang & Steven W. H. Chau & Yaping Liu & Joey W. Y. Chan & Jing Wang & Suk Ling Ma & Jihui Zhang & Paul K. S. Chan & Yun Kit Yeoh & Zigui Chen & Li Zhou & Sunny Hei Wong & Vincent C. T. Mok & Ka F, 2023. "Gut microbiome dysbiosis across early Parkinson’s disease, REM sleep behavior disorder and their first-degree relatives," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    4. Zhirui Cao & Dejun Fan & Yang Sun & Ziyu Huang & Yue Li & Runping Su & Feng Zhang & Qing Li & Hongju Yang & Fen Zhang & Yinglei Miao & Ping Lan & Xiaojian Wu & Tao Zuo, 2024. "The gut ileal mucosal virome is disturbed in patients with Crohn’s disease and exacerbates intestinal inflammation in mice," Nature Communications, Nature, vol. 15(1), pages 1-22, December.
    5. Paula Istvan & Einar Birkeland & Ekaterina Avershina & Ane S. Kværner & Vahid Bemanian & Barbara Pardini & Sonia Tarallo & Willem M. Vos & Torbjørn Rognes & Paula Berstad & Trine B. Rounge, 2024. "Exploring the gut DNA virome in fecal immunochemical test stool samples reveals associations with lifestyle in a large population-based study," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    6. Jean-Sebastien Gounot & Minghao Chia & Denis Bertrand & Woei-Yuh Saw & Aarthi Ravikrishnan & Adrian Low & Yichen Ding & Amanda Hui Qi Ng & Linda Wei Lin Tan & Yik-Ying Teo & Henning Seedorf & Niranjan, 2022. "Genome-centric analysis of short and long read metagenomes reveals uncharacterized microbiome diversity in Southeast Asians," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    7. Tomás Clive Barker-Tejeda & Elisa Zubeldia-Varela & Andrea Macías-Camero & Lola Alonso & Isabel Adoración Martín-Antoniano & María Fernanda Rey-Stolle & Leticia Mera-Berriatua & Raphaëlle Bazire & Pau, 2024. "Comparative characterization of the infant gut microbiome and their maternal lineage by a multi-omics approach," Nature Communications, Nature, vol. 15(1), pages 1-21, December.
    8. Andrea Quagliariello & Alessandra Modi & Gabriel Innocenti & Valentina Zaro & Cecilia Conati Barbaro & Annamaria Ronchitelli & Francesco Boschin & Claudio Cavazzuti & Elena Dellù & Francesca Radina & , 2022. "Ancient oral microbiomes support gradual Neolithic dietary shifts towards agriculture," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    9. Bo Tang & Li Tang & Shengpeng Li & Shuang Liu & Jialin He & Pan Li & Sumin Wang & Min Yang & Longhui Zhang & Yuanyuan Lei & Dianji Tu & Xuefeng Tang & Hua Hu & Qin Ouyang & Xia Chen & Shiming Yang, 2023. "Gut microbiota alters host bile acid metabolism to contribute to intrahepatic cholestasis of pregnancy," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    10. Estela Rosell-Mases & Alba Santiago & Marta Corral-Pujol & Francisca Yáñez & Encarna Varela & Leire Egia-Mendikute & Berta Arpa & Catalina Cosovanu & Anaïs Panosa & Gerard Serrano-Gómez & Conchi Mora , 2023. "Mutual modulation of gut microbiota and the immune system in type 1 diabetes models," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
    11. Lingling Wang & Haobin Yao & Daniel C. Morgan & Kam Shing Lau & Suet Yi Leung & Joshua W. K. Ho & Wai K. Leung, 2023. "Altered human gut virome in patients undergoing antibiotics therapy for Helicobacter pylori," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    12. Courtney Hoskinson & Darlene L. Y. Dai & Kate L. Bel & Allan B. Becker & Theo J. Moraes & Piushkumar J. Mandhane & B. Brett Finlay & Elinor Simons & Anita L. Kozyrskyj & Meghan B. Azad & Padmaja Subba, 2023. "Delayed gut microbiota maturation in the first year of life is a hallmark of pediatric allergic disease," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    13. Shuqin Zeng & Alexandre Almeida & Shiping Li & Junjie Ying & Hua Wang & Yi Qu & R. Paul Ross & Catherine Stanton & Zhemin Zhou & Xiaoyu Niu & Dezhi Mu & Shaopu Wang, 2024. "A metagenomic catalog of the early-life human gut virome," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    14. M. Büttner & J. Ostner & C. L. Müller & F. J. Theis & B. Schubert, 2021. "scCODA is a Bayesian model for compositional single-cell data analysis," Nature Communications, Nature, vol. 12(1), pages 1-10, December.
    15. Karen D. Corbin & Elvis A. Carnero & Blake Dirks & Daria Igudesman & Fanchao Yi & Andrew Marcus & Taylor L. Davis & Richard E. Pratley & Bruce E. Rittmann & Rosa Krajmalnik-Brown & Steven R. Smith, 2023. "Host-diet-gut microbiome interactions influence human energy balance: a randomized clinical trial," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    16. Dena Ennis & Shimrit Shmorak & Evelyn Jantscher-Krenn & Moran Yassour, 2024. "Longitudinal quantification of Bifidobacterium longum subsp. infantis reveals late colonization in the infant gut independent of maternal milk HMO composition," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    17. Seong Beom An & Bo-Gie Yang & Gyeonghui Jang & Do-Yeon Kim & Jiyoung Kim & Sung-Man Oh & Nahyun Oh & Sanghee Lee & Ji-Yeong Moon & Jeong-Ah Kim & Ji-Hyun Kim & Yoo-Jeong Song & Hye-Won Hyun & Jisoo Ki, 2022. "Combined IgE neutralization and Bifidobacterium longum supplementation reduces the allergic response in models of food allergy," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    18. Manish Boolchandani & Kevin S. Blake & Drake H. Tilley & Miguel M. Cabada & Drew J. Schwartz & Sanket Patel & Maria Luisa Morales & Rina Meza & Giselle Soto & Sandra D. Isidean & Chad K. Porter & Mark, 2022. "Impact of international travel and diarrhea on gut microbiome and resistome dynamics," Nature Communications, Nature, vol. 13(1), pages 1-19, December.

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