cran: rfPermute | Projects | Ecosyste.ms: Papers

10.1128/mSystems.00298-20

Coupling Bacterial Community Assembly to Microbial Metabolism across Soil Profiles
Cited by: 72
Author(s): Lu Luan, Chao Liang, Lijun Chen, Haotian Wang, Qinsong Xu, Yuji Jiang, Bo Sun
Software Mentions: 9
Published: over 4 years ago

10.1128/mSystems.01150-20

Distinct Community Assembly Processes of Abundant and Rare Soil Bacteria in Coastal Wetlands along an Inundation Gradient
Cited by: 36
Author(s): Gui‐Feng Gao, Dan Peng, Binu M. Tripathi, Yihui Zhang, Haiyan Chu
Software Mentions: 8
Published: almost 4 years ago

10.1038/s41598-020-57622-6

Mainland and island populations of Mussaenda kwangtungensis differ in their phyllosphere fungal community composition and network structure
Cited by: 16
Author(s): Xin Qian, Shengchun Li, Bian Wu, Yong-Long Wang, Niu‐Niu Ji, Hui Yao, Hongyue Cai, Miaomiao Shi, Dianxiang Zhang
Software Mentions: 8
Published: over 4 years ago

10.1186/s12864-021-07659-2

Inferring and analyzing gene regulatory networks from multi-factorial expression data: a complete and interactive suite
Cited by: 15
Author(s): Océane Cassan, Sophie Lèbre, Antoine Martin
Software Mentions: 8
Published: over 3 years ago

10.1038/s41396-019-0383-2

Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots
Cited by: 596
Author(s): Samiran Banerjee, Florian Walder, Lucie Büchi, Marion Meyer, Alain Held, Andreas Gattinger, Thomas Keller, Raphaël Charles, Marcel G. A. van der Heijden
Software Mentions: 8
Published: over 5 years ago

10.1371/journal.pone.0188660

An analytical approach to sparse telemetry data
Cited by: 3
Author(s): Michael J. Kinney, David Kacev, Suzanne Kohin, Tomoharu Eguchi
Software Mentions: 7
Published: almost 7 years ago

10.3389/fmicb.2021.646821

Fungal Diversity and Community Assembly of Ectomycorrhizal Fungi Associated With Five Pine Species in Inner Mongolia, China
Cited by: 7
Author(s): Yong-Long Wang, Xuan Zhang, Ying Xu, Busayo Joshua Babalola, Simin Xiang, Ye Zhao, Yida Fan
Software Mentions: 7
Published: over 3 years ago

10.3390/metabo11050326

Exploration of Blood Lipoprotein and Lipid Fraction Profiles in Healthy Subjects through Integrated Univariate, Multivariate, and Network Analysis Reveals Association of Lipase Activity and Cholesterol Esterification with Sex and Age
Cited by: 4
Author(s): Yasmijn Balder, Alessia Vignoli, Leonardo Tenori, Claudio Luchinat, Edoardo Saccenti
Software Mentions: 6
Published: over 3 years ago

10.1186/s40168-018-0526-0

Soil microbiomes with distinct assemblies through vertical soil profiles drive the cycling of multiple nutrients in reforested ecosystems
Cited by: 299
Author(s): Shuo Jiao, Weimin Chen, Jieli Wang, Nini Du, Qiaoping Li, Gehong Wei
Software Mentions: 6
Published: about 6 years ago

10.1128/mSystems.00100-17

Making It Last: Storage Time and Temperature Have Differential Impacts on Metabolite Profiles of Airway Samples from Cystic Fibrosis Patients
Cited by: 11
Author(s): Stephen Wandro, Lisa A. Carmody, Tara Gallagher, John J. LiPuma, Katrine Whiteson
Software Mentions: 6
Published: almost 7 years ago

10.3390/microorganisms8060883

Linking Shifts in Bacterial Community Composition and Function with Changes in the Dissolved Organic Matter Pool in Ice-Covered Baiyangdian Lake, Northern China
Cited by: 13
Author(s): Shilei Zhou, Yifei Sun, Ming-Hui Yu, Zhenpeng Shi, Hang Zhang, Rui-Zhe Peng, Zaixing Li, Jiansheng Cui, Xiang Liu
Software Mentions: 6
Published: over 4 years ago

10.7717/peerj.8844

Dynamics of ammonia oxidizers and denitrifiers in response to compost addition in black soil, Northeast China
Cited by: 8
Author(s): Zhihui Yang, Yupeng Guan, Ayodeji Bello, Yanxiang Wu, Jiayi Ding, Leiqi Wang, Yuqing Ren, Guangxin Chen, Wei Yang
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0215797

Pelleted-hay alfalfa feed increases sheep wether weight gain and rumen bacterial richness over loose-hay alfalfa feed
Cited by: 12
Author(s): Suzanne L. Ishaq, Medora Lachman, B.A. Wenner, Amy Baeza, Molly Butler, Emily A. Gates, Sarah K. Olivo, Julie Buono Geddes, P. G. Hatfield, Carl J. Yeoman
Software Mentions: 5
Published: over 5 years ago

10.1186/s40168-019-0775-6

Root ethylene mediates rhizosphere microbial community reconstruction when chemically detecting cyanide produced by neighbouring plants
Cited by: 89
Author(s): Yan Chen, Michael Bonkowski, Yi Shen, Bryan S. Griffiths, Yuji Jiang, Xiaoyue Wang, Bo Sun
Software Mentions: 5
Published: over 4 years ago

10.7717/peerj.11230

Ectomycorrhizal fungal communities associated with <i>Larix gemelinii</i> Rupr. in the Great Khingan Mountains, China
Cited by: 2
Author(s): Yong-Long Wang, Ye Zhao, Ying Xu, MA Jian-jun, Busayo Joshua Babalola, Yida Fan
Software Mentions: 5
Published: over 3 years ago

10.1371/journal.pcbi.1007467

Evolution of the nonsense-mediated decay pathway is associated with decreased cytolytic immune infiltration
Cited by: 14
Author(s): Boyang Zhao, Justin R. Pritchard
Software Mentions: 4
Published: almost 5 years ago

10.3389/fmicb.2021.633751

Aboveground and Belowground Plant Traits Explain Latitudinal Patterns in Topsoil Fungal Communities From Tropical to Cold Temperate Forests
Cited by: 5
Author(s): Jun Teng, Jing Tian, Romain L. Barnard, Guirui Yu, Yakov Kuzyakov, Jizhong Zhou
Software Mentions: 4
Published: over 3 years ago

10.1172/JCI149523

Discriminatory plasma biomarkers predict specific clinical phenotypes of necrotizing soft-tissue infections
Cited by: 6
Author(s): Laura M Palma Medina, Eivind Rath, Sanjeevan Jahagirdar, Trond Bruun, Martin Bruun Madsen, Kristoffer Strålin, Christian Unge, Marco Bo Hansen, Per Arnell, Michael Nekludov, Ole Hyldegaard, Magda Lourda, Vítor A. P. Martins dos Santos, Edoardo Saccenti, Steinar Skrede, Mattias Svensson, Anna Norrby‐Teglund
Software Mentions: 4
Published: about 3 years ago

10.1038/s41598-021-92027-z

Changes in gut microbiota in the acute phase after spinal cord injury correlate with severity of the lesion
Cited by: 29
Author(s): Gabriele Bazzocchi, Silvia Turroni, Maria Chiara Bulzamini, Federica D’Amico, Angelica Bava, Massimo Castiglioni, Valentina Cagnetta, Ernesto Losavio, Maurizio Cazzaniga, Laura Terenghi, Luisa De Palma, Giampiero Frasca, Beatrice Aiachini, Sonia Cremascoli, Antonino Massone, Claudia Oggerino, Maria Pia Onesta, Laura Rapisarda, Maria Cristina Pagliacci, Sauro Biscotto, Michele Scarazzato, Tiziana Giovannini, Mimosa Balloni, Marco Candela, Patrizia Brigidi, Carlotte Kiekens
Software Mentions: 4
Published: over 3 years ago

10.1128/mBio.01851-20

Cervicovaginal Microbiome Composition Is Associated with Metabolic Profiles in Healthy Pregnancy
Cited by: 28
Author(s): Andrew Oliver, Brandon LaMere, Claudia Weihe, Stephen Wandro, Karen L. Lindsay, Pathik D. Wadhwa, David A. Mills, David T. Pride, Oliver Fiehn, Trent Northen, Markus de Raad, Huiying Li, Jennifer B. H. Martiny, Susan V. Lynch, Katrine Whiteson
Software Mentions: 4
Published: about 4 years ago

10.1186/s40168-020-00978-8

Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
Cited by: 53
Author(s): Dong Liu, Haowei Ni, Shuo Jiao, Yahai Lu, Jizhong Zhou, Bo Sun, Yuting Liang
Software Mentions: 4
Published: over 3 years ago

10.1128/mSystems.00162-20

Soil Carbon, Nitrogen, and Phosphorus Cycling Microbial Populations and Their Resistance to Global Change Depend on Soil C:N:P Stoichiometry
Cited by: 75
Author(s): Gongwen Luo, Cong Xue, Qianhong Jiang, Yan Xiao, Fengge Zhang, Shiwei Guo, Qirong Shen
Software Mentions: 4
Published: over 4 years ago

10.3390/microorganisms8060806

Bacterial Tomato Pathogen Ralstonia solanacearum Invasion Modulates Rhizosphere Compounds and Facilitates the Cascade Effect of Fungal Pathogen Fusarium solani
Cited by: 11
Author(s): Lv Su, Lifan Zhang, Duoqian Nie, Eiko E. Kuramae, Biao Shen, Qirong Shen
Software Mentions: 3
Published: over 4 years ago

10.1128/mSystems.00704-19

Spatial Variation in Soil Fungal Communities across Paddy Fields in Subtropical China
Cited by: 51
Author(s): Pengfa Li, Weitao Li, Alex J. Dumbrell, Ming Liu, Guilong Li, Meng Wu, Chunyu Jiang, Zhongpei Li
Software Mentions: 3
Published: over 4 years ago

10.3389/fmicb.2019.02271

Distinct Successions of Common and Rare Bacteria in Soil Under Humic Acid Amendment – A Microcosm Study
Cited by: 30
Author(s): Pengfa Li, Jia Liu, Chunyu Jiang, Meng Wu, Ming Liu, Zhongpei Li
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-021-98879-9

A Random Forest approach to identify metrics that best predict match outcome and player ranking in the esport Rocket League
Cited by: 9
Author(s): Tim D. Smithies, Mark J. Campbell, Niall Ramsbottom, Adam J. Toth
Software Mentions: 3
Published: about 3 years ago

10.1038/s41398-021-01504-6

Gut microbiota signature in treatment-naïve attention-deficit/hyperactivity disorder
Cited by: 20
Author(s): Vanesa Richarte, Cristina Sánchez-Mora, Montse Corrales, Christian Fadeuilhe, Laura Vilar-Ribó, Lorena Arribas, Estela Camus García, Silvia Karina Rosales-Ortiz, Alejandro Arias-Vásquez, María Soler Artigas, Marta Ribasés, Josep Antoni Ramos‐Quiroga
Software Mentions: 3
Published: about 3 years ago

10.1038/s41396-021-00906-0

Soil microbial diversity–biomass relationships are driven by soil carbon content across global biomes
Cited by: 137
Author(s): Felipe Bastida, David J. Eldridge, Carlos Garcı́a, G. Kenny Png, Richard D. Bardgett, Manuel Delgado‐Baquerizo
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0208244

Biogeographical zonation of rocky intertidal communities along the coast of Peru (3.5–13.5° S Southeast Pacific)
Cited by: 25
Author(s): Bruno Ibanez‐Erquiaga, Aldo S. Pacheco, Marcelo M. Rivadeneira, Claudia L Tejada
Software Mentions: 3
Published: almost 6 years ago

10.7717/peerj.8147

Accumulation of di-2-ethylhexyl phthalate from polyvinyl chloride flooring into settled house dust and the effect on the bacterial community
Cited by: 6
Author(s): Samantha Velazquez, Chenyang Bi, Jeff Kline, Susie Nunez, Rich Corsi, Ying Xu, Suzanne L. Ishaq
Software Mentions: 3
Published: almost 5 years ago

10.1002/ece3.4346

Linking microbial co‐occurrences to soil ecological processes across a woodland‐grassland ecotone
Cited by: 36
Author(s): Samiran Banerjee, Peter H. Thrall, Andrew Bissett, Marcel G. A. van der Heijden, Alan Richardson
Software Mentions: 3
Published: about 6 years ago

10.3389/fmicb.2020.01936

Soil Microbiomes With the Genetic Capacity for Atmospheric Chemosynthesis Are Widespread Across the Poles and Are Associated With Moisture, Carbon, and Nitrogen Limitation
Cited by: 17
Author(s): Angelique E. Ray, Eden Zhang, Aleks Terauds, Mukan Ji, Weidong Kong, Belinda C. Ferrari
Software Mentions: 3
Published: about 4 years ago

10.1186/s40168-019-0693-7

Competitive interaction with keystone taxa induced negative priming under biochar amendments
Cited by: 119
Author(s): Lijun Chen, Yuji Jiang, Chao Liang, Yu Luo, Qinsong Xu, Cheng Han, Qian Zhao, Bo Sun
Software Mentions: 3
Published: over 5 years ago

10.1186/s40168-020-00918-6

Trophic interactions as determinants of the arbuscular mycorrhizal fungal community with cascading plant-promoting consequences
Cited by: 37
Author(s): Yuji Jiang, Lu Luan, Kaijie Hu, Manqiang Liu, Ziyun Chen, Stefan Geisen, Xiaoyun Chen, Huixin Li, Qinsong Xu, Michael Bonkowski, Bo Sun
Software Mentions: 3
Published: about 4 years ago

10.1186/s12920-019-0494-7

Early gut microbiota signature of aGvHD in children given allogeneic hematopoietic cell transplantation for hematological disorders
Cited by: 48
Author(s): Elena Biagi, Daniele Zama, Simone Rampelli, Silvia Turroni, Patrizia Brigidi, Clarissa Consolandi, Marco Severgnini, Eleonora Picotti, Pietro Gasperini, Pietro Merli, Nunzia Decembrino, Marco Zecca, Simone Cesaro, Maura Faraci, Arcangelo Prete, Franco Locatelli, Andrea Pession, Marco Candela, Riccardo Masetti
Software Mentions: 3
Published: over 5 years ago

10.3390/plants8120612

Disentangling the Contributions of Plant Taxonomic and Functional Diversities in Shaping Aboveground Biomass of a Restored Forest Landscape in Southern China
Cited by: 10
Author(s): Md. Abu Hanif, Qingshui Yu, Xingquan Rao, Wei Shen
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-020-69790-6

Functional fine-mapping of noncoding risk variants in amyotrophic lateral sclerosis utilizing convolutional neural network
Cited by: 11
Author(s): Ali Yousefian-Jazi, Min Kyung Sung, Taeyeop Lee, Yoon Ho Hong, Jung Kyoon Choi, Jinwook Choi
Software Mentions: 2
Published: about 4 years ago

10.3389/fmicb.2018.02803

Nematodes and Microorganisms Interactively Stimulate Soil Organic Carbon Turnover in the Macroaggregates
Cited by: 40
Author(s): Yuji Jiang, Hu Zhou, Lijun Chen, Y. Yuan, Huan Fang, Lu Luan, Yan Chen, Xiaoyue Wang, Manqiang Liu, Huixin Li, Xinhua Peng, Bo Sun
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmicb.2021.664120

The Impact of Fertilizer Amendments on Soil Autotrophic Bacteria and Carbon Emissions in Maize Field on the Semiarid Loess Plateau
Cited by: 5
Author(s): Jinbin Wang, Junhong Xie, Lingling Li, Zhen Luo, Renzhi Zhang, Linlin Wang, Yuji Jiang
Software Mentions: 2
Published: over 3 years ago

10.3389/fmicb.2021.638326

Changes in Soil Microbial Activity, Bacterial Community Composition and Function in a Long-Term Continuous Soybean Cropping System After Corn Insertion and Fertilization
Cited by: 16
Author(s): D. Madhava Rao, Fangang Meng, Xiaoyan Yan, Minghao Zhang, Xingdong Yao, Kyung Seok Kim, Jing Zhao, Qiang Qiu, Futi Xie, Wei Zhang
Software Mentions: 1
Published: over 3 years ago

10.1155/2019/2542640

Mutation Profiling of Premalignant Colorectal Neoplasia
Cited by: 5
Author(s): Jakub Karczmarski, Krzysztof Goryca, Jacek Pachlewski, Michalina Dąbrowska, Kazimiera Pyśniak, Agnieszka Paziewska, Maria Kulecka, Małgorzata Lenarcik, Andrzej Mróz, Michał Mikula, Jerzy Ostrowski
Software Mentions: 1
Published: almost 5 years ago

10.1186/s40168-018-0572-7

Consistent responses of soil microbial taxonomic and functional attributes to mercury pollution across China
Cited by: 99
Author(s): Yurong Liu, Manuel Delgado‐Baquerizo, Li Bi, Jiang Zhu, Ji‐Zheng He
Software Mentions: 1
Published: almost 6 years ago

Projects: cran: rfPermute

Papers Mentioning rfPermute 42