Analysis of compositions of microbiomes with bias correction

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Cited by:

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2. Huang Lin & Merete Eggesbø & Shyamal Das Peddada, 2022. "Linear and nonlinear correlation estimators unveil undescribed taxa interactions in microbiome data," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
3. Estelle E. Clerc & Jean-Baptiste Raina & Johannes M. Keegstra & Zachary Landry & Sammy Pontrelli & Uria Alcolombri & Bennett S. Lambert & Valerio Anelli & Flora Vincent & Marta Masdeu-Navarro & Andrea, 2023. "Strong chemotaxis by marine bacteria towards polysaccharides is enhanced by the abundant organosulfur compound DMSP," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
4. Smitha Sukumar & Fang Wang & Carra A. Simpson & Cali E. Willet & Tracy Chew & Toby E. Hughes & Michelle R. Bockmann & Rosemarie Sadsad & F. Elizabeth Martin & Henry W. Lydecker & Gina V. Browne & Kyli, 2023. "Development of the oral resistome during the first decade of life," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
5. Georges P. Schmartz & Jacqueline Rehner & Miriam J. Schuff & Leidy-Alejandra G. Molano & Sören L. Becker & Marcin Krawczyk & Azat Tagirdzhanov & Alexey Gurevich & Richard Francke & Rolf Müller & Veren, 2024. "Exploring microbial diversity and biosynthetic potential in zoo and wildlife animal microbiomes," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
6. Andrew Baldi & Sabine Braat & Mohammed Imrul Hasan & Cavan Bennett & Marilou Barrios & Naomi Jones & Gemma Moir-Meyer & Imadh Abdul Azeez & Stephen Wilcox & Mohammad Saiful Alam Bhuiyan & Ricardo Atai, 2024. "Community use of oral antibiotics transiently reprofiles the intestinal microbiome in young Bangladeshi children," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
7. George F. Hoeferlin & Sarah E. Grabinski & Lindsey N. Druschel & Jonathan L. Duncan & Grace Burkhart & Gwendolyn R. Weagraff & Alice H. Lee & Christopher Hong & Meera Bambroo & Hannah Olivares & Tejas, 2025. "Bacteria invade the brain following intracortical microelectrode implantation, inducing gut-brain axis disruption and contributing to reduced microelectrode performance," Nature Communications, Nature, vol. 16(1), pages 1-27, December.
8. Aarthi Ravikrishnan & Indrik Wijaya & Eileen Png & Kern Rei Chng & Eliza Xin Pei Ho & Amanda Hui Qi Ng & Ahmad Nazri Mohamed Naim & Jean-Sebastien Gounot & Shou Ping Guan & Jasinda Lee Hanqing & Lihua, 2024. "Gut metagenomes of Asian octogenarians reveal metabolic potential expansion and distinct microbial species associated with aging phenotypes," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
9. Patrick A. Jonge & Koen Wortelboer & Torsten P. M. Scheithauer & Bert-Jan H. Born & Aeilko H. Zwinderman & Franklin L. Nobrega & Bas E. Dutilh & Max Nieuwdorp & Hilde Herrema, 2022. "Gut virome profiling identifies a widespread bacteriophage family associated with metabolic syndrome," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
10. 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.
11. 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.
12. Fahad Paryani & Ji-Sun Kwon & Christopher W. Ng & Kelly Jakubiak & Nacoya Madden & Kenneth Ofori & Alice Tang & Hong Lu & Shengnan Xia & Juncheng Li & Aayushi Mahajan & Shawn M. Davidson & Anna O. Bas, 2024. "Multi-omic analysis of Huntington’s disease reveals a compensatory astrocyte state," Nature Communications, Nature, vol. 15(1), pages 1-22, December.
13. Harry Pickering & Joanna Schaenman & Hoang Van Phan & Cole Maguire & Alexandra Tsitsiklis & Nadine Rouphael & Nelson Iván Agudelo Higuita & Mark A. Atkinson & Scott Brakenridge & Monica Fung & William, 2025. "Host-microbe multiomic profiling identifies distinct COVID-19 immune dysregulation in solid organ transplant recipients," Nature Communications, Nature, vol. 16(1), pages 1-16, December.
14. Osama Al-Dalahmah & Michael G. Argenziano & Adithya Kannan & Aayushi Mahajan & Julia Furnari & Fahad Paryani & Deborah Boyett & Akshay Save & Nelson Humala & Fatima Khan & Juncheng Li & Hong Lu & Yu S, 2023. "Re-convolving the compositional landscape of primary and recurrent glioblastoma reveals prognostic and targetable tissue states," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
15. Barbara B. Warner & Bruce A. Rosa & I. Malick Ndao & Phillip I. Tarr & J. Philip Miller & Sarah K. England & Joan L. Luby & Cynthia E. Rogers & Carla Hall-Moore & Renay E. Bryant & Jacqueline D. Wang , 2023. "Social and psychological adversity are associated with distinct mother and infant gut microbiome variations," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
16. Koen Wortelboer & Patrick A. Jonge & Torsten P. M. Scheithauer & Ilias Attaye & E. Marleen Kemper & Max Nieuwdorp & Hilde Herrema, 2023. "Phage-microbe dynamics after sterile faecal filtrate transplantation in individuals with metabolic syndrome: a double-blind, randomised, placebo-controlled clinical trial assessing efficacy and safety," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
17. Bryan P. Brown & Colin Feng & Ramla F. Tanko & Shameem Z. Jaumdally & Rubina Bunjun & Smritee Dabee & Anna-Ursula Happel & Melanie Gasper & Donald D. Nyangahu & Maricianah Onono & Gonasagrie Nair & Th, 2023. "Copper intrauterine device increases vaginal concentrations of inflammatory anaerobes and depletes lactobacilli compared to hormonal options in a randomized trial," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
18. Andrew Baldi & Sabine Braat & Mohammed Imrul Hasan & Cavan Bennett & Marilou Barrios & Naomi Jones & Imadh Abdul Azeez & Stephen Wilcox & Pradip Kumar Roy & Mohammad Saiful Alam Bhuiyan & Ricardo Atai, 2024. "Effects of iron supplements and iron-containing micronutrient powders on the gut microbiome in Bangladeshi infants: a randomized controlled trial," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
19. Gertrude Ecklu-Mensah & Candice Choo-Kang & Maria Gjerstad Maseng & Sonya Donato & Pascal Bovet & Bharathi Viswanathan & Kweku Bedu-Addo & Jacob Plange-Rhule & Prince Oti Boateng & Terrence E. Forrest, 2023. "Gut microbiota and fecal short chain fatty acids differ with adiposity and country of origin: the METS-microbiome study," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
20. Shulei Wang, 2023. "Robust differential abundance test in compositional data," Biometrika, Biometrika Trust, vol. 110(1), pages 169-185.
21. Jonathan W. Lo & Domenico Cozzetto & James L. Alexander & Nathan P. Danckert & Matthew Madgwick & Naomi Knox & Jillian Yong Xin Sieh & Marton Olbei & Zhigang Liu & Hajir Ibraheim & Jesus Miguens Blanc, 2023. "Immune checkpoint inhibitor-induced colitis is mediated by polyfunctional lymphocytes and is dependent on an IL23/IFNγ axis," Nature Communications, Nature, vol. 14(1), pages 1-20, December.
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26. Jose Agudelo & Xing Chen & Sromona D. Mukherjee & Jane K. Nguyen & Leslie A. Bruggeman & Aaron W. Miller, 2024. "Cefazolin shifts the kidney microbiota to promote a lithogenic environment," Nature Communications, Nature, vol. 15(1), pages 1-19, December.