cran: MiRKAT | Projects | Ecosyste.ms: Papers

10.1186/s13073-016-0302-3

An adaptive association test for microbiome data
Cited by: 63
Author(s): Chong Wu, Jun Chen, Junghi Kim, Wei Pan
Software Mentions: 6
Published: over 8 years ago

Experimental design and quantitative analysis of microbial community multiomics
Cited by: 125
Author(s): Himel Mallick, Siyuan Ma, Eric A. Franzosa, Tommi Vatanen, Xochitl C. Morgan, Curtis Huttenhower
Software Mentions: 6
Published: almost 7 years ago

10.1186/s40168-017-0262-x

A powerful microbiome-based association test and a microbial taxa discovery framework for comprehensive association mapping
Cited by: 58
Author(s): Hyunwook Koh, Martin J. Blaser, Hui-Lin Li
Software Mentions: 6
Published: over 7 years ago

10.1093/bioinformatics/btw311

PERMANOVA-S: association test for microbial community composition that accommodates confounders and multiple distances
Cited by: 94
Author(s): Zheng-Zheng Tang, Guanhua Chen, Alexander V. Alekseyenko
Software Mentions: 5
Published: over 8 years ago

10.1128/mSystems.00053-18

Balances: a New Perspective for Microbiome Analysis
Cited by: 173
Author(s): Javier Rivera Pinto, J. J. Egozcue, Vera Pawlowsky‐Glahn, Roger Paredes, Marc Noguera‐Julian, M. Luz Calle
Software Mentions: 5
Published: about 6 years ago

10.1007/s00125-021-05464-w

Markers of metabolic health and gut microbiome diversity: findings from two population-based cohort studies
Cited by: 25
Author(s): Semi Zouiouich, Erikka Loftfield, Inge Huybrechts, Vivian Viallon, Panayiotis Louca, Emily Vogtmann, Philippa M Wells, Claire J. Steves, Karl‐Heinz Herzig, Cristina Menni, Marjo‐Riitta Järvelin, Rashmi Sinha, Marc J. Gunter
Software Mentions: 5
Published: over 3 years ago

10.1038/s41598-018-36355-7

An adaptive microbiome α-diversity-based association analysis method
Cited by: 27
Author(s): Hyunwook Koh
Software Mentions: 4
Published: almost 6 years ago

10.3390/nu13093248

The Gut Microbiota during a Behavioral Weight Loss Intervention
Cited by: 17
Author(s): Maggie A. Stanislawski, Daniel N. Frank, Sarah J. Borengasser, Danielle M. Ostendorf, Diana Ir, Purevsuren Jambal, Kristen Bing, Liza Wayland, Janet Siebert, Daniel H. Bessesen, Paul S. MacLean, Edward L. Melanson, Victoria A. Catenacci
Software Mentions: 4
Published: about 3 years ago

10.1093/gigascience/gix107

HOMINID: a framework for identifying associations between host genetic variation and microbiome composition
Cited by: 8
Author(s): Joshua Lynch, Karen Tang, Sambhawa Priya, Joanna Sands, Margaret Sands, Evan Tang, Sayan Mukherjee, Dan Knights, Ran Blekhman
Software Mentions: 4
Published: about 7 years ago

10.3389/fmicb.2021.609048

kernInt: A Kernel Framework for Integrating Supervised and Unsupervised Analyses in Spatio-Temporal Metagenomic Datasets
Cited by: 8
Author(s): Elies Ramon, Lluís A. Belanche-Muñoz, F. Molist, Raquel Quintanilla, Miguel Pérez‐Enciso, Yuliaxis Ramayo-Caldas
Software Mentions: 4
Published: almost 4 years ago

10.1002/cam4.2660

Oral microbial community composition is associated with pancreatic cancer: A case‐control study in Iran
Cited by: 36
Author(s): Emily Vogtmann, Yongli Han, J. Gregory Caporaso, Nicholas A. Bokulich, Muhammad Ashraf, Alireza Moayyedkazemi, Xing Hua, Farin Kamangar, Yunhu Wan, Shalabh Suman, Bin Zhu, Amy Hutchinson, Casey Dagnall, Kristine Jones, Belynda Hicks, Jianxin Shi, Reza Malekzadeh, Christian C. Abnet, Akram Pourshams
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.ppat.1007672

Increased mucosal neutrophil survival is associated with altered microbiota in HIV infection
Cited by: 34
Author(s): Tiffany Hensley-McBain, Michael C. Wu, Jennifer A. Manuzak, Ryan Cheu, Andrew T. Gustin, Connor B. Driscoll, Alexander S. Zevin, Charlene Miller, Ernesto Coronado, Eric E. Smith, Jean Chang, Michael Gale, Ma Somsouk, Adam Burgener, Peter W. Hunt, Thomas J. Hope, Ann C. Collier, Nichole R. Klatt
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-018-4599-8

A highly adaptive microbiome-based association test for survival traits
Cited by: 32
Author(s): Hyunwook Koh, Alexandra E. Livanos, Martin J. Blaser, Huilin Li
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2019.00458

A Distance-Based Kernel Association Test Based on the Generalized Linear Mixed Model for Correlated Microbiome Studies
Cited by: 27
Author(s): Hyunwook Koh, Yutong Li, Xiang Zhan, Jun Chen, Ni Zhao
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2019.00350

An Adaptive Multivariate Two-Sample Test With Application to Microbiome Differential Abundance Analysis
Cited by: 10
Author(s): Kalins Banerjee, Ni Zhao, A. Srinivasan, Lingzhou Xue, Steven D. Hicks, Frank A. Middleton, Rongling Wu, Xiang Zhan
Software Mentions: 3
Published: over 5 years ago

10.1186/s42523-021-00107-2

Sustainable plant-based diets promote rainbow trout gut microbiota richness and do not alter resistance to bacterial infection
Cited by: 13
Author(s): David Pérez-Pascual, Ana Elena Pérez‐Cobas, Dimitri Rigaudeau, Tatiana Rochat, Jean‐François Bernardet, Sandrine Skiba‐Cassy, Yann Marchand, Éric Duchaud, Jean‐Marc Ghigo
Software Mentions: 2
Published: over 3 years ago

10.1186/s40168-020-00834-9

A powerful microbial group association test based on the higher criticism analysis for sparse microbial association signals
Cited by: 8
Author(s): Hyunwook Koh, Ni Zhao
Software Mentions: 2
Published: over 4 years ago

10.1128/mSystems.00639-19

Racial Differences in the Oral Microbiome: Data from Low-Income Populations of African Ancestry and European Ancestry
Cited by: 28
Author(s): Yaohua Yang, Zheng Wang, Qiuyin Cai, Martha J. Shrubsole, Zhiheng Pei, Robert M. Brucker, Mark Steinwandel, Seth R. Bordenstein, Zhigang Li, William J. Blot, Xiao‐Ou Shu, Jirong Long
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12967-020-02642-z

Respiratory microbiome profiles differ by recent hospitalization and nursing home residence in patients on mechanical ventilation
Cited by: 6
Author(s): Min Gyung Baek, Seong Ji Woo, Nameun Kim, Chaeyun Baek, Sungho Won, Youngmi Kim, Jae Jun Lee, Hana Yi, Ji Young Hong
Software Mentions: 2
Published: almost 4 years ago

10.3389/fmicb.2016.01611

Exploring Relationships between Host Genome and Microbiome: New Insights from Genome-Wide Association Studies
Cited by: 22
Author(s): Muslihudeen A. Abdul-Aziz, Alan Cooper, Laura S. Weyrich
Software Mentions: 1
Published: about 8 years ago

10.1093/gigascience/giab005

MB-GAN: Microbiome Simulation via Generative Adversarial Network
Cited by: 9
Author(s): Ruichen Rong, Shuang Jiang, Lin Xu, Guanghua Xiao, Yang Xie, Dajiang Liu, Qiwei Li, Xiaowei Zhan
Software Mentions: 1
Published: almost 4 years ago

10.1080/19490976.2020.1791677

Long-term effects of antimicrobial drugs on the composition of the human gut microbiota
Cited by: 28
Author(s): Marlies Mulder, Djawad Radjabzadeh, Jessica C. Kiefte–de Jong, André G. Uitterlinden, Robert Kraaij, Bruno H. Stricker, Annelies Verbon
Software Mentions: 1
Published: about 4 years ago

10.3389/fchem.2020.00600

New Roadmaps for Non-muscle-invasive Bladder Cancer With Unfavorable Prognosis
Cited by: 13
Author(s): Katia Pane, Peppino Mirabelli, Luigi Coppola, Ester Illiano, Marco Salvatore, Monica Franzese
Software Mentions: 1
Published: over 4 years ago

10.1038/srep30751

The Microbiome of Aseptically Collected Human Breast Tissue in Benign and Malignant Disease
Cited by: 284
Author(s): Tina J. Hieken, Jun Chen, Tanya L. Hoskin, Marina Walther-Antonio, Stephen Johnson, Sheri Ramaker, Jian Xiao, Derek C. Radisky, Keith L. Knutson, Krishna R. Kalari, Jingwen Yao, Larry M. Baddour, Nicholas Chia, Amy C. Degnim
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0216114

Mammographic breast density and its association with urinary estrogens and the fecal microbiota in postmenopausal women
Cited by: 11
Author(s): Gieira S. Jones, Heather Spencer Feigelson, Roni T. Falk, Xing Hua, Jacques Ravel, Guoqin Yu, Roberto Flores, Mitchell H. Gail, Jianxin Shi, Xia Xu, James J. Goedert
Software Mentions: 1
Published: over 5 years ago

10.1186/s40168-017-0239-9

MiRKAT-S: a community-level test of association between the microbiota and survival times
Cited by: 46
Author(s): Anna Plantinga, Xiang Zhan, Ni Zhao, Jun Chen, Robert R. Jenq, Michael C. Wu
Software Mentions: 1
Published: almost 8 years ago

10.1186/s12866-018-1379-1

The effect of antimicrobial drug use on the composition of the genitourinary microbiota in an elderly population
Cited by: 19
Author(s): Marlies Mulder, Djawad Radjabzadeh, Robert‐Jan Hassing, Jan Heeringa, André G. Uitterlinden, Robert Kraaij, Bruno H. Ch. Stricker, Annelies Verbon
Software Mentions: 1
Published: almost 6 years ago

10.1097/HJH.0000000000002878

Gut microbiome diversity and composition is associated with hypertension in women
Cited by: 18
Author(s): Panayiotis Louca, Ana Nogal, Philippa M Wells, Francesco Asnicar, Jonathan Wolf, Claire J. Steves, Tim D. Spector, Nicola Segata, Sarah Berry, Ana M. Valdes, Cristina Menni
Software Mentions: 1
Published: over 3 years ago

10.3389/fmicb.2018.03146

Gut Microbiota Features in Young Children With Autism Spectrum Disorders
Cited by: 130
Author(s): Lorena Coretti, Lorella Paparo, Maria Pia Riccio, Felice Amato, Mariella Cuomo, Alessandro Natale, Luca Borrelli, Giusi Corrado, Carmen De, Marika Comegna, Elisabetta Buommino, Giuseppe Castaldo, Carmela Bravaccio, Lorenzo Chiariotti, Roberto Berni Canani, Francesca Lembo
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13073-019-0672-4

Relating the gut metagenome and metatranscriptome to immunotherapy responses in melanoma patients
Cited by: 116
Author(s): Brandilyn A. Peters, Mathew Wilson, Una Moran, Anna C. Pavlick, Allison Izsak, Todd Wechter, Jeffrey S. Weber, Iman Osman, Jiyoung Ahn
Software Mentions: 1
Published: about 5 years ago

Ecosyste.ms: Papers

Projects: cran: MiRKAT

Papers Mentioning MiRKAT 30