bioconductor: mixOmics | Projects

10.1111/pbi.13372

PANOMICS meets germplasm
Cited by: 69
Author(s): Wolfram Weckwerth, Arindam Ghatak, Anke Bellaire, Palak Chaturvedi, Rajeev K. Varshney
Software Mentions: 3
Published: over 4 years ago

Salivary Microbiota Shifts under Sustained Consumption of Oolong Tea in Healthy Adults
Cited by: 6
Author(s): Zhibin Liu, Hongwen Guo, Wen Zhang, Li Ni
Software Mentions: 3
Published: over 4 years ago

10.3390/nu13051492

Identification and Validation of Nutrient State-Dependent Serum Protein Mediators of Human CD4+ T Cell Responsiveness
Cited by: 13
Author(s): Han Kim, Komudi Singh, Matthew J Rodman, Shakiba Hassanzadeh, Yvonne Baumer, Rebecca D. Huffstutler, Jinguo Chen, Julián Candia, Foo Cheung, Katherine E. Stagliano, Mehdi Pirooznia, Tiffany M. Powell‐Wiley, Michael N. Sack
Software Mentions: 3
Published: over 3 years ago

10.1038/s41598-019-50139-7

Microbiota fingerprints within the oral cavity of cetaceans as indicators for population biomonitoring
Cited by: 14
Author(s): Pedro Soares-Castro, Helena Araújo-Rodrigues, Filipa Godoy-Vitorino, Marisa Ferreira, Pablo Covelo, Alfredo López, José Vingada, Catarina Eira, Pedro M. Santos
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-019-50593-3

Metabolome and microbiome profiling of a stress-sensitive rat model of gut-brain axis dysfunction
Cited by: 18
Author(s): Shalome A. Bassett, Wayne Young, Karl Fraser, Julie E. Dalziel, Jim Webster, Leigh Ryan, Patrick Fitzgerald, Catherine Stanton, Timothy G. Dinan, John F. Cryan, Gerard Clarke, Niall P. Hyland, Nicole C. Roy
Software Mentions: 3
Published: about 5 years ago

10.1007/s11306-021-01821-3

Systematic selection of competing metabolomics methods in a metabolite-sensory relationship study
Cited by: 3
Author(s): Nasser Davarzani, Carmen Díez-Simón, Justus L. Großmann, Doris M. Jacobs, Rudi van Doorn, M. A. Berg, Age K. Smilde, Roland Mumm, Robert D. Hall, Johan A. Westerhuis
Software Mentions: 3
Published: about 3 years ago

10.3390/metabo9040076

Systems Biology and Multi-Omics Integration: Viewpoints from the Metabolomics Research Community
Cited by: 350
Author(s): Farhana R. Pinu, David J. Beale, Amy M. Paten, Konstantinos A. Kouremenos, Sanjay Swarup, Horst Joachim Schirra, David S. Wishart
Software Mentions: 3
Published: over 5 years ago

10.1186/s12986-020-00456-w

High fat diet significantly changed the global gene expression profile involved in hepatic drug metabolism and pharmacokinetic system in mice
Cited by: 15
Author(s): Yuqi He, Tao Yang, Yimei Du, Lin Q, Feifei Ma, Zunping Wu, Hua Ling, Li Yang, Zhengtao Wang, Qingdi Zhou, Guangbo Ge, Yuqi He
Software Mentions: 3
Published: over 4 years ago

10.1186/s12870-021-03049-8

Transcriptome and metabolomic analysis to reveal the browning spot formation of ‘Huangguan’ pear
Cited by: 10
Author(s): Qi Wang, Xinyi Wu, Li Liu, Daozhi Yao, Jinchao Li, Jie Fang, Xiaonan Chen, Li Zhu, Pu Liu, Zhenfeng Ye, Bing Jia, Wei Heng
Software Mentions: 3
Published: over 3 years ago

10.3390/molecules24142582

Comprehensive Chemical Profiling and Multidirectional Biological Investigation of Two Wild Anthemis Species (Anthemis tinctoria var. Pallida and A. cretica subsp. tenuiloba): Focus on Neuroprotective Effects
Cited by: 22
Author(s): Giustino Orlando, Gökhan Zengin, Claudio Ferrante, Maurizio Ronci, Lucia Recinella, İsmail Şenkardeş, Reneta Gevrenova, Dimitrina Zheleva‐Dimitrova, Annalisa Chiavaroli, Sheila Leone, Simonetta Cristina Di Simone, Luigi Brunetti, Marie Carene Nancy Picot-Allain, Mohamad Fawzi Mahomoodally, Kouadio Ibrahime Sinan, Luigi Menghini
Software Mentions: 3
Published: over 5 years ago

10.1186/s12014-018-9221-1

High accuracy differentiating autoimmune pancreatitis from pancreatic ductal adenocarcinoma by immunoglobulin G glycosylation
Cited by: 23
Author(s): Hsi-Chang Shih, Ming‐Chu Chang, Chein‐Hung Chen, I‐Lin Tsai, San-Yuan Wang, Ya-Po Kuo, Chung-Hsuan Chen, Yu-Ting Chang
Software Mentions: 3
Published: almost 6 years ago

10.3390/ani10101742

The Impact of Producing Type and Dietary Crude Protein on Animal Performances and Microbiota Together with Greenhouse Gases Emissions in Growing Pigs
Cited by: 2
Author(s): Ahmad Reza Seradj, J. Balcells, Laura Sarri, Lorenzo Fraile, Gabriel de la Fuente Oliver
Software Mentions: 3
Published: about 4 years ago

10.1128/AEM.02541-20

Colonization of Naive Roots from Populus tremula × alba Involves Successive Waves of Fungi and Bacteria with Different Trophic Abilities
Cited by: 9
Author(s): F. Fracchia, Lauralie Mangeot-Peter, Lea Jacquot, Francis Martin, Claire Veneault‐Fourrey, Aurélie Deveau
Software Mentions: 3
Published: over 3 years ago

10.1111/jcmm.16520

Comprehensive metabolomic profiling in early IgA nephropathy patients reveals urine glycine as a prognostic biomarker
Cited by: 12
Author(s): Sehoon Park, Jueun Lee, Seung Hee Yang, Hajeong Lee, Joo Young Kim, Min-Kyoung Park, Kyu Hong Kim, Jiwon Moon, Semin Cho, Soojin Lee, Yaerim Kim, Jung Pyo Lee, Chang Wook Jeong, Cheol Kwak, Kwon Wook Joo, Chun Soo Lim, Yon Su Kim, Gwi Seo Hwang, Yon Su Kim
Software Mentions: 2
Published: over 3 years ago

10.1155/2020/2489175

An Integrated Transcriptomic and Proteomic Analysis Identifies Significant Novel Pathways for Henoch-Schönlein Purpura Nephritis Progression
Cited by: 4
Author(s): Biao Xie, Wei Zhang, Qi Zhang, Qiuju Zhang, Yupeng Wang, Lin Sun, Meina Liu, Ping Zhou
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms17111789

Tomato Juice Consumption Modifies the Urinary Peptide Profile in Sprague-Dawley Rats with Induced Hepatic Steatosis
Cited by: 9
Author(s): Gala Martín‐Pozuelo, Rocío González-Barrio, Gonzalo G. Barberá, Amaya Albalat, Javier García‐Alonso, William Mullen, Harald Mischak, María Jesús Periago
Software Mentions: 2
Published: about 8 years ago

10.1093/jxb/ert349

Deciphering genetic diversity and inheritance of tomato fruit weight and composition through a systems biology approach
Cited by: 19
Author(s): Laura Pascual, Jiaxin Xu, Benoît Biais, Mickaël Maucourt, Patricia Ballias, Stéphane Bernillon, Catherine Deborde, Daniel Jacob, Aurore Desgroux, Mireille Faurobert, Jean‐Paul Bouchet, Yves Gibon, Annick Moing, Mathilde Causse
Software Mentions: 2
Published: about 11 years ago

10.3390/ijms18081652

Transcriptome Profiling in Human Diseases: New Advances and Perspectives
Cited by: 150
Author(s): Amelia Casamassimi, Antonio Federico, Monica Rienzo, Sabrina Esposito, Alfredo Ciccodicola
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.ppat.1009326

The pentose phosphate pathway constitutes a major metabolic hub in pathogenic Francisella
Cited by: 13
Author(s): Héloïse Rytter, Anne Jamet, Jason Ziveri, Elodie Ramond, Mathieu Coureuil, Pauline Lagouge-Roussey, Daniel Euphrasie, Fabiola Tros, Nicolas Goudin, Cérina Chhuon, Ivan Nemazanyy, Fabrício Edgar de Moraes, Carlos Alberto Labate, Ida Chiara Guerrera, Alain Charbit
Software Mentions: 2
Published: over 3 years ago

10.1038/srep20318

Human oral isolate Lactobacillus fermentum AGR1487 induces a pro-inflammatory response in germ-free rat colons
Cited by: 15
Author(s): Rachel C. Anderson, Dulantha Ulluwishewa, Wayne Young, Leigh Ryan, Gemma Henderson, Marjolein Meijerink, Eva Maier, Jerry M. Wells, Nicole C. Roy
Software Mentions: 2
Published: almost 9 years ago

10.3390/ani11092553

Evaluating the Inclusion of Cold-Pressed Rapeseed Cake in the Concentrate for Dairy Cows upon Ruminal Biohydrogenation Process, Ruminal Microbial Community and Milk Production and Acceptability
Cited by: 4
Author(s): Idoia Goiri, Izaro Zubiria, José Luis Lavín, Hanen Benhissi, Raquel Atxaerandio, R. Ruíz, N. Mandaluniz, A. García-Rodríguez
Software Mentions: 2
Published: about 3 years ago

10.1111/1462-2920.14975

Quick microbial molecular phenotyping by differential shotgun proteomics
Cited by: 22
Author(s): Duarte Gouveia, Lucia Grenga, Olivier Pible, Jean Armengaud
Software Mentions: 2
Published: over 4 years ago

10.1038/srep41047

New determinants of olfactory habituation
Cited by: 35
Author(s): Charlotte Sinding, François Valadier, Viviana Al-Hassani, Gilles Féron, Anne Tromelin, Ioannis Kontaris, Thomas Hummel
Software Mentions: 2
Published: almost 8 years ago

10.1038/srep40555

Lipidomics reveals dramatic lipid compositional changes in the maturing postnatal lung
Cited by: 61
Author(s): Sydney E. Dautel, Jennifer Kyle, Gérémy Clair, Ryan Sontag, Karl K. Weitz, Anil Shukla, Son Nguyen, Young Mo Kim, Erika Zink, Teresa Luders, Charles W. Frevert, Sina A. Gharib, Julia Laskin, James P. Carson, Thomas O. Metz, Richard A. Corley, Charles Ansong
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41598-017-07929-8

Field-based assessment of the mechanism of maize yield enhancement by Azospirillum lipoferum CRT1
Cited by: 30
Author(s): Camille Rozier, Jihane Hamzaoui, Damien Lemoine, Sonia Czarnes, Laurent Legendre
Software Mentions: 2
Published: over 7 years ago

10.3389/fimmu.2017.01083

Perturbation of B Cell Gene Expression Persists in HIV-Infected Children Despite Effective Antiretroviral Therapy and Predicts H1N1 Response
Cited by: 18
Author(s): Nicola Cotugno, Lesley de Armas, Suresh Pallikkuth, Stefano Rinaldi, Biju Issac, Alberto Cagigi, Paolo Rossi, Paolo Palma, Savita Pahwa
Software Mentions: 2
Published: about 7 years ago

10.3390/microorganisms8040535

Modulation of Pectin on Mucosal Innate Immune Function in Pigs Mediated by Gut Microbiota
Cited by: 18
Author(s): Weida Wu, Li Zhang, Bing Xia, Shouwei Tang, Jingjing Xie, Hongfu Zhang
Software Mentions: 2
Published: over 4 years ago

10.3390/nu13041092

A Polyphenol Enriched Variety of Apple Alters Circulating Immune Cell Gene Expression and Faecal Microbiota Composition in Healthy Adults: A Randomized Controlled Trial
Cited by: 18
Author(s): Matthew P. G. Barnett, Wayne Young, Kelly Armstrong, Diane Brewster, Janine M. Cooney, Stephanie Ellett, Richard V. Espley, William A. Laing, Paul Maclean, Tony K. McGhie, Greg Pringle, Nicole C. Roy, Lynnette R. Ferguson
Software Mentions: 2
Published: over 3 years ago

10.3390/microorganisms8121961

Spent Coffee Grounds Alter Bacterial Communities in Latxa Dairy Ewes
Cited by: 5
Author(s): Idoia Goiri, Xabier Díaz de Otálora, R. Ruíz, Jagoba Rey, Raquel Atxaerandio, José L. Lavín, David San Martín, Mikel Orive, Bruno Iñarra, Jaime Zufía, J. Urkiza, A. García-Rodríguez
Software Mentions: 2
Published: almost 4 years ago

10.2174/1874285801812010071

Probiotics Strains Modulate Gut Microbiota and Lipid Metabolism in Mule Ducks
Cited by: 7
Author(s): Maxime Even, Stéphane Davail, Mikael Rey, Annabelle Tavernier, Marianne Houssier, Marie Bernadet, Karine Gontier, Géraldine Pascal, Karine Ricaud
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-018-30295-y

A controlled aquarium system and approach to study the role of sponge-bacteria interactions using Aplysilla rosea and Vibrio natriegens
Cited by: 2
Author(s): Mohammad F. Mehbub, Jason E. Tanner, Stephen J. Barnett, J. F. Bekker, Christopher M. M. Franco, Wei Zhang
Software Mentions: 2
Published: over 6 years ago

10.3390/nu7053370

Low Folate and Selenium in the Mouse Maternal Diet Alters Liver Gene Expression Patterns in the Offspring after Weaning
Cited by: 15
Author(s): Matthew P. G. Barnett, Emma N. Bermingham, Wayne Young, Shalome A. Bassett, John E. Hesketh, Anabel Maciel-Dominguez, Warren C. McNabb, Nicole C. Roy
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-018-30150-0

Root exudate metabolomes change under drought and show limited capacity for recovery
Cited by: 190
Author(s): Albert Gargallo‐Garriga, Catherine Preece, Jordi Sardans, Michal Oravec, Otmar Urban, Josep Peñuelas
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-018-31543-x

Detection of high-risk carbapenem-resistant Klebsiella pneumoniae and Enterobacter cloacae isolates using volatile molecular profiles
Cited by: 15
Author(s): Christiaan A. Rees, Mavra Nasir, Agnieszka Smolinska, Alexa E. Lewis, Katherine R. Kane, Shannon Kossmann, Orkan Sezer, Paola C. Zucchi, Yohei Doi, Elizabeth B. Hirsch, Jane E. Hill
Software Mentions: 2
Published: about 6 years ago

10.3389/fmicb.2020.00983

Shifts in the Fecal Microbial Community of Cystoisospora suis Infected Piglets in Response to Toltrazuril
Cited by: 10
Author(s): Aruna Shrestha, Barbara U. Metzler‐Zebeli, Hamadi Karembé, Daniel Šperling, Simone Koger, Anja Joachim
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-019-41738-5

The potential probiotic Lactobacillus rhamnosus CNCM I-3690 strain protects the intestinal barrier by stimulating both mucus production and cytoprotective response
Cited by: 86
Author(s): Rebeca Martín, Célia Chamignon, Nadia Mhedbi-Hajri, Florian Chain, Muriel Derrien, Unai Escribano-Vázquez, Peggy Garault, Aurélie Cotillard, Hang-Phuong Pham, Christian Chervaux, Luis G. Bermúdez‐Humarán, Tamara Smokvina, Philippe Langella
Software Mentions: 2
Published: over 5 years ago

10.1186/1753-6561-5-S4-S35

Dietary unsaturated fatty acids affect the mammary gland integrity and health in lactating dairy cows
Cited by: 9
Author(s): Núria Mach, J. van Baal, L. Kruijt, A.A.A. Jacobs, M.A. Smits
Software Mentions: 2
Published: over 13 years ago

10.1186/s40168-019-0717-3

Microbial differences between dental plaque and historic dental calculus are related to oral biofilm maturation stage
Cited by: 91
Author(s): Irina M. Velsko, James A. Fellows Yates, Franziska Aron, Richard Hagan, Laurent Frantz, Louise Loe, Juan Bautista Rodriguez Martinez, Eros Chaves, Chris Gosden, Greger Larson, Christina Warinner
Software Mentions: 2
Published: over 5 years ago

10.1186/s12870-021-03102-6

Chickpea shows genotype-specific nodulation responses across soil nitrogen environment and root disease resistance categories
Cited by: 7
Author(s): Krista L. Plett, S. L. Bithell, Adrian Dando, Jonathan M. Plett
Software Mentions: 2
Published: over 3 years ago

10.3389/fmicb.2021.669937

Candidatus Methylumidiphilus Drives Peaks in Methanotrophic Relative Abundance in Stratified Lakes and Ponds Across Northern Landscapes
Cited by: 9
Author(s): Gaëtan Martin, Antti J. Rissanen, Sarahi L. Garcia, Maliheh Mehrshad, Moritz Buck, Sari Peura
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-019-51397-1

Cytosolic 10-formyltetrahydrofolate dehydrogenase regulates glycine metabolism in mouse liver
Cited by: 14
Author(s): Natalia I. Krupenko, Jaspreet Sharma, Peter Pediaditakis, Baharan Fekry, Kristi L. Helke, Xiuxia Du, Susan Sumner, Sergey A. Krupenko
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-020-63579-3

Hepatocyte-specific deletion of Pparα promotes NAFLD in the context of obesity
Cited by: 69
Author(s): Marion Régnier, Arnaud Polizzi, Sarra Smati, Céline Lukowicz, Anne Fougerat, Yannick Lippi, Edwin Fouché, Frédèric Lasserre, Claire Naylies, Colette Bétoulières, Valentin Barquissau, Etienne Mouisel, Justine Bertrand‐Michel, Aurélie Batut, Talal Al Saati, Cécile Canlet, Marie Tremblay-Franco, Sandrine Ellero‐Simatos, Dominique Langin, Catherine Postic, Walter Wahli, Nicolas Loiseau, Hervé Guillou, Alexandra Montagner
Software Mentions: 2
Published: over 4 years ago

10.1186/s12866-021-02233-y

Optimisation of sample storage and DNA extraction for human gut microbiota studies
Cited by: 23
Author(s): Jekaterina Kazantseva, Esther Malv, Aleksei Kaleda, Aili Kallastu, Anne Meikas
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-020-65891-4

Comparative assessment of faecal microbial composition and metabonome of swine, farmers and human control
Cited by: 12
Author(s): Shiang Chiet Tan, Chun Wie Chong, Ivan Kok Seng Yap, Kwai Lin Thong, Cindy Shuan Ju Teh
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-73709-6

Multi-gene metabolic engineering of tomato plants results in increased fruit yield up to 23%
Cited by: 12
Author(s): José G. Vallarino, Szymon Kubiszewski-Jakubiak, Stephanie Ruf, Margit Rößner, Stefan Timm, Hermann Bauwe, Fernando Carrari, Doris Rentsch, Ralph Bock, Lee J. Sweetlove, Alisdair R. Fernie
Software Mentions: 2
Published: about 4 years ago

10.1186/s40168-018-0531-3

Influence of cigarette smoking on the human duodenal mucosa-associated microbiota
Cited by: 60
Author(s): Erin R. Shanahan, Ayesha Shah, Natasha A. Koloski, Marjorie M. Walker, Nicholas J. Talley, Mark Morrison, Gerald Holtmann
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-020-75759-2

Proteomics reveals the preliminary physiological states of the spotted seal (Phoca largha) pups
Cited by: 5
Author(s): Jing Tian, Jing Du, Jingfeng Han, Xiangbo Bao, Xinran Song, Zengkui Lu
Software Mentions: 2
Published: about 4 years ago

10.3389/fmicb.2020.00445

Microbiota Succession and Chemical Composition Involved in the Radish Fermentation Process in Different Containers
Cited by: 14
Author(s): Lei Liu, Xiao She, Xing Chen, Qian Yang, Yufei Tao, Yalin Li, Shuyu Guo, Wenliang Xiang, Guorong Liu, Yu Rao
Software Mentions: 2
Published: over 4 years ago

10.1186/s12866-020-02021-0

Gut microbiota: effect of pubertal status
Cited by: 34
Author(s): Xin Yuan, Ruimin Chen, Ying Zhang, Xiaoqin Lin, Xiaohong Yang
Software Mentions: 2
Published: about 4 years ago

10.1186/s12920-020-00825-7

RNA sequencing analysis reveals increased expression of interferon signaling genes and dysregulation of bone metabolism affecting pathways in the whole blood of patients with osteogenesis imperfecta
Cited by: 4
Author(s): Lidiia Zhytnik, Katre Maasalu, Ene Reimann, Aare Märtson, Sulev Kõks
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12920-015-0108-y

From big data analysis to personalized medicine for all: challenges and opportunities
Cited by: 366
Author(s): Akram Alyass, Michelle Turcotte, David Meyre
Software Mentions: 2
Published: over 9 years ago

10.1038/s41598-021-82084-9

Early life dietary intervention in dairy calves results in a long-term reduction in methane emissions
Cited by: 24
Author(s): S. J. Meale, Milka Popova, Cristina Saro, Cécile Martin, Aurélien Bernard, Marie Lagrée, D. R. Yáñez-Ruíz, Hamid Boudra, S. Duval, Diego P. Morgavi
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-021-85919-7

Developmental exposure to silver nanoparticles leads to long term gut dysbiosis and neurobehavioral alterations
Cited by: 20
Author(s): Zhen Lyu, Shreya Ghoshdastidar, Karamkolly R. Rekha, Dhananjay Suresh, Jiude Mao, Nathan J. Bivens, Raghuraman Kannan, Trupti Joshi, Cheryl S. Rosenfeld, Anandhi Upendran
Software Mentions: 2
Published: over 3 years ago

10.1002/mnfr.201600141

Maternal exposure to a Western-style diet causes differences in intestinal microbiota composition and gene expression of suckling mouse pups
Cited by: 32
Author(s): Wilma T. Steegenga, Mona Mischke, Carolien Lute, Mark V. Boekschoten, Ágnes Lendvai, Maurien Pruis, Henkjan J. Verkade, Bert J. M. van de Heijning, Jos Boekhorst, Harro M. Timmerman, Torsten Plösch, Michael Müller, Guido Hooiveld
Software Mentions: 2
Published: over 8 years ago

10.3390/nu11010010

Plasma Sulphur-Containing Amino Acids, Physical Exercise and Insulin Sensitivity in Overweight Dysglycemic and Normal Weight Normoglycemic Men
Cited by: 26
Author(s): Sindre Lee, Trond E. Olsen, Kathrine J. Vinknes, Helga Refsum, Hanne Løvdal Gulseth, Kåre I. Birkeland, Christian A. Drevon
Software Mentions: 2
Published: almost 6 years ago

10.7717/peerj.3019

Key bacterial families (Clostridiaceae, Erysipelotrichaceae and Bacteroidaceae) are related to the digestion of protein and energy in dogs
Cited by: 117
Author(s): Emma N. Bermingham, Paul Maclean, David G. Thomas, Nick Cave, Wayne Young
Software Mentions: 2
Published: over 7 years ago

10.3390/s21072518

The Impact of Short-Term Exposure to Air Pollution on the Exhaled Breath of Healthy Adults
Cited by: 4
Author(s): Ariana Lammers, Anne H. Neerincx, Susanne Vijverberg, Cristina Longo, Nicole Janssen, A. John F. Boere, Paul Brinkman, Flemming R. Cassee, Anke‐Hilse Maitland‐van der Zee
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-019-3116-7

A hierarchical integration deep flexible neural forest framework for cancer subtype classification by integrating multi-omics data
Cited by: 58
Author(s): Jing Xu, Peng Wu, Yuehui Chen, Qingchun Meng, Hussain Dawood, Hassan Dawood
Software Mentions: 2
Published: about 5 years ago

10.3390/nu9030272

Bioavailability of Microencapsulated Iron from Fortified Bread Assessed Using Piglet Model
Cited by: 12
Author(s): Malgorzata A. Bryszewska, Luca Laghi, Augusta Zannoni, Andrea Gianotti, Francesca Barone, Danielle Laure Taneyo Saa, Maria Laura Bacci, Domenico Ventrella, Monica Forni
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2019.01618

Cover Crop Management Practices Rather Than Composition of Cover Crop Mixtures Affect Bacterial Communities in No-Till Agroecosystems
Cited by: 58
Author(s): Sana Romdhane, Aymé Spor, Hugues Busset, Laurent Falchetto, Juliette Martin, Florian Bizouard, David Bru, Marie-Christine Breuil, Laurent Philippot, Stéphane Cordeau
Software Mentions: 2
Published: over 5 years ago

10.1038/s41398-021-01323-9

Transcriptomic signaling pathways involved in a naturalistic model of inflammation-related depression and its remission
Cited by: 8
Author(s): Marie‐Pierre Moisan, Aline Foury, Sandra Dexpert, Steve W. Cole, Cédric Beau, Damien Forestier, Patrick Ledaguenel, Eric Magne, Lucile Capuron
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-021-04296-0

Integrative, multi-omics, analysis of blood samples improves model predictions: applications to cancer
Cited by: 4
Author(s): Erica Ponzi, Magne Thoresen, Therese Haugdahl Nøst, Kajsa Møllersen
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2105-12-253

Sparse PLS discriminant analysis: biologically relevant feature selection and graphical displays for multiclass problems
Cited by: 618
Author(s): Kim‐Anh Lê Cao, Simon Boitard, Philippe Besse
Software Mentions: 2
Published: over 13 years ago

10.1128/mSphere.00089-18

Shifts in the Gut Metabolome and Clostridium difficile Transcriptome throughout Colonization and Infection in a Mouse Model
Cited by: 81
Author(s): Joshua R. Fletcher, Samantha Erwin, Cristina Lanzas, Casey M. Theriot
Software Mentions: 2
Published: over 6 years ago

10.1128/mSystems.00261-18

Feed Restriction Modifies Intestinal Microbiota-Host Mucosal Networking in Chickens Divergent in Residual Feed Intake
Cited by: 26
Author(s): Barbara U. Metzler‐Zebeli, Sina-Catherine Siegerstetter, Elizabeth Magowan, Peadar G. Lawlor, Renée M. Petri, Niamh E. O ́Connell, Qendrim Zebeli
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0140769

Effect of Elevated Atmospheric CO2 and Temperature on the Disease Severity of Rocket Plants Caused by Fusarium Wilt under Phytotron Conditions
Cited by: 24
Author(s): Walter Chitarra, Ilenia Siciliano, Ilario Ferrocino, M. L. Gullino, A. Garibaldi
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0255337

Multi-omics subtyping pipeline for chronic obstructive pulmonary disease
Cited by: 13
Author(s): Lucas A. Gillenwater, Shahab Helmi, Evan Stene, Katherine Pratte, Yonghua Zhuang, Ronald P. Schuyler, Leslie A. Lange, Peter J. Castaldi, Craig P. Hersh, Farnoush Banaei-Kashani, Russell P. Bowler, Katerina Kechris
Software Mentions: 2
Published: about 3 years ago

10.3389/fmicb.2018.02698

Feed Restriction Modulates the Fecal Microbiota Composition, Nutrient Retention, and Feed Efficiency in Chickens Divergent in Residual Feed Intake
Cited by: 19
Author(s): Sina-Catherine Siegerstetter, Renée M. Petri, Elizabeth Magowan, Peadar G. Lawlor, Qendrim Zebeli, Niamh O’Connell, Barbara U. Metzler‐Zebeli
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0177030

Long-term fertilization determines different metabolomic profiles and responses in saplings of three rainforest tree species with different adult canopy position
Cited by: 8
Author(s): Albert Gargallo‐Garriga, S. Joseph Wright, Jordi Sardans, Míriam Pérez‐Trujillo, Michal Oravec, Kristýna Večeřová, Otmar Urban, Marcos Fernández‐Martínez, Teodor Parella, Josep Peñuelas
Software Mentions: 2
Published: over 7 years ago

10.1128/mSystems.00348-19

Timing of Calorie Restriction in Mice Impacts Host Metabolic Phenotype with Correlative Changes in Gut Microbiota
Cited by: 26
Author(s): Liying Zhang, Xinhe Xue, Rui Zhai, Xin Yang, Hui Li, Liping Zhao, Chenhong Zhang
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0249961

Impairment in facial expression generation in patients with repaired unilateral cleft lip: Effects of the physical properties of facial soft tissues
Cited by: 3
Author(s): Dong‐Hoon Lee, Chihiro Tanikawa, Takashi Yamashiro
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0098707

Adipose Tissue CIDEA Is Associated, Independently of Weight Variation, to Change in Insulin Resistance during a Longitudinal Weight Control Dietary Program in Obese Individuals
Cited by: 10
Author(s): Émilie Montastier, Sébastien Dejean, Caroline Le Gall, Wim H. M. Saris, Dominique Langin, Nathalie Viguerie
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0228499

Examining the distributional equity of urban tree canopy cover and ecosystem services across United States cities
Cited by: 54
Author(s): Christopher B. Riley, Mary M. Gardiner
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0137919

The Rules of Aggression: How Genetic, Chemical and Spatial Factors Affect Intercolony Fights in a Dominant Species, the Mediterranean Acrobat Ant Crematogaster scutellaris
Cited by: 34
Author(s): Filippo Frizzi, Claudio Ciofi, Leonardo Dapporto, Chiara Natali, Guido Chelazzi, Stefano Turillazzi, Giacomo Santini
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0112168

Understanding the Relationship between Cotton Fiber Properties and Non-Cellulosic Cell Wall Polysaccharides
Cited by: 15
Author(s): Dhivyaa Rajasundaram, Jean-Luc Runavot, Xiaoyuan Guo, William G. T. Willats, Frank Meulewaeter, Joachim Selbig
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pone.0045249

A Gene-Phenotype Network Based on Genetic Variability for Drought Responses Reveals Key Physiological Processes in Controlled and Natural Environments
Cited by: 53
Author(s): David Rodrı́guez-Lázaro, Sandrine Arribat, Pierre Maury, Marie‐Laure Martin‐Magniette, Thibaut Hourlier, Marion Laporte, Didier Varès, Sébastien Carrère, Philippe Grieu, Sandrine Balzergue, Jérôme Gouzy, Patrick Vincourt, Nicolas Langlade
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0177664

Characterization of basal and lipopolysaccharide-induced microRNA expression in equine peripheral blood mononuclear cells using Next-Generation Sequencing
Cited by: 6
Author(s): Nick Parkinson, Virginia Buechner-Maxwell, Sharon G. Witonsky, R. Scott Pleasant, Stephen R. Werre, S. Ansar Ahmed
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2018.01231

The Fecal Microbiota in the Domestic Cat (Felis catus) Is Influenced by Interactions Between Age and Diet; A Five Year Longitudinal Study
Cited by: 33
Author(s): Emma N. Bermingham, Wayne Young, Christina F. Butowski, Christina D. Moon, Paul Maclean, Douglas Rosendale, Nick Cave, David G. Thomas
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0128669

Fecal Microbiota in Healthy Subjects Following Omnivore, Vegetarian and Vegan Diets: Culturable Populations and rRNA DGGE Profiling
Cited by: 78
Author(s): Ilario Ferrocino, Raffaella Di Cagno, Maria De Angelis, Silvia Turroni, Lucia Vannini, Elena Bancalari, Kalliopi Rantsiou, Gianluigi Cardinali, Erasmo Neviani, Luca Simone Cocolin
Software Mentions: 2
Published: over 9 years ago

10.3389/fmicb.2019.03084

The Progress of Multi-Omics Technologies: Determining Function in Lactic Acid Bacteria Using a Systems Level Approach
Cited by: 50
Author(s): Shane O’Donnell, R. Paul Ross, Catherine Stanton
Software Mentions: 2
Published: almost 5 years ago

10.3390/diagnostics11020149

Novel Metabolic Signatures of Prostate Cancer Revealed by 1H-NMR Metabolomics of Urine
Cited by: 20
Author(s): Bo Yang, Chuan Zhang, Sheng Cheng, Gonghui Li, Jan Griebel, Jochen Neuhaus
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.cmet.2016.04.001

Mapping the Human Platelet Lipidome Reveals Cytosolic Phospholipase A2 as a Regulator of Mitochondrial Bioenergetics during Activation
Cited by: 149
Author(s): David A. Slatter, Maceler Aldrovandi, Anne E O’Connor, Stuart M. Allen, Christopher J. Brasher, Robert C. Murphy, Sven Mecklemann, Saranya Ravi, Victor Darley‐Usmar, Valerie Bridget O'Donnell
Software Mentions: 2
Published: over 8 years ago

10.1111/cmi.13191

Germ‐free and microbiota‐associated mice yield small intestinal epithelial organoids with equivalent and robust transcriptome/proteome expression phenotypes
Cited by: 21
Author(s): Annika Hausmann, Giancarlo Russo, Jonas Grossmann, Mirjam Zünd, Gerald Schwank, Ruedi Aebersold, Yansheng Liu, Mikael E. Sellin, Wolf‐Dietrich Hardt
Software Mentions: 2
Published: over 4 years ago

10.1007/s00018-020-03504-z

Colorectal cancer cell lines show striking diversity of their O-glycome reflecting the cellular differentiation phenotype
Cited by: 33
Author(s): Katarina Madunić, Tao Zhang, Oleg A. Mayboroda, Stephanie Holst, Kathrin Stavenhagen, Chunsheng Jin, Niclas G. Karlsson, Guinevere S. M. Lageveen-Kammeijer, Manfred Wuhrer
Software Mentions: 2
Published: over 4 years ago

10.1242/dmm.047746

Metabolomics and lipidomics in Caenorhabditis elegans using a single-sample preparation
Cited by: 20
Author(s): Marte Molenaars, Bauke V. Schomakers, Hyung L. Elfrink, Arwen W. Gao, Martin A. T. Vervaart, Mia L. Pras‐Raves, Angela C. M. Luyf, Reuben L. Smith, Mark G. Sterken, J.E. Kammenga, Antoine H. C. van Kampen, Georges E. Janssens, Frédéric M. Vaz, Michel van Weeghel, Riekelt H. Houtkooper
Software Mentions: 2
Published: over 3 years ago

10.3390/molecules26175425

HS–SPME–GC–MS and Electronic Nose Reveal Differences in the Volatile Profiles of Hedychium Flowers
Cited by: 15
Author(s): Yiwei Zhou, Farhat Abbas, Zhidong Wang, Yunyi Yu, Yuechong Yue, Xinyue Li, Rangcai Yu, Yanting Fan
Software Mentions: 2
Published: about 3 years ago

10.3390/ani9100755

Effect of Feeding Cold-Pressed Sunflower Cake on Ruminal Fermentation, Lipid Metabolism and Bacterial Community in Dairy Cows
Cited by: 12
Author(s): Izaro Zubiria, A. García-Rodríguez, Raquel Atxaerandio, R. Ruíz, Hanen Benhissi, N. Mandaluniz, José L. Lavín, Leticia Abecia, Idoia Goiri
Software Mentions: 2
Published: about 5 years ago

10.3390/metabo11080535

Four Weeks of Probiotic Supplementation Alters the Metabolic Perturbations Induced by Marathon Running: Insight from Metabolomics
Cited by: 4
Author(s): Jamie N. Pugh, Marie M. Phelan, Eva Caamaño-Gutiérrez, Albert K. Sparks, James P. Morton, Graeme L. Close, Daniel J. Owens
Software Mentions: 2
Published: over 3 years ago

10.3389/fphys.2018.01968

Intestinal Morphologic and Microbiota Responses to Dietary Bacillus spp. in a Broiler Chicken Model
Cited by: 71
Author(s): Chengliang Li, Jing Wang, Haijun Zhang, Shu‐geng Wu, Qianru Hui, Chengbo Yang, Rejun Fang, Guang‐hai Qi
Software Mentions: 2
Published: almost 6 years ago

10.3389/fpls.2019.00832

Proteomic Data Integration Highlights Central Actors Involved in Einkorn (Triticum monococcum ssp. monococcum) Grain Filling in Relation to Grain Storage Protein Composition
Cited by: 2
Author(s): Emmanuelle Bancel, Titouan Bonnot, Marlène Davanture, David Álvarez, Michel Zivy, Pierre Martre, Sébastien Dejean, Catherine Ravel
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2021.723656

Transcriptomics and Other Omics Approaches to Investigate Effects of Xenobiotics on the Placenta
Cited by: 14
Author(s): Cheryl S. Rosenfeld
Software Mentions: 2
Published: about 3 years ago

10.3390/microorganisms8081151

Discovery of Predictors of Mycoplasma hyopneumoniae Vaccine Response Efficiency in Pigs: 16S rRNA Gene Fecal Microbiota Analysis
Cited by: 9
Author(s): Peris M. Munyaka, Fany Blanc, Jordi Estellé, Gaëtan Lemonnier, Jean Jacques Leplat, Marie Rossignol, Déborah Jardet, Graham Plastow, Yvon Billon, Benjamin P. Willing, Claire Rogel–Gaillard
Software Mentions: 2
Published: over 4 years ago

10.3389/fpls.2017.00617

Exploring Blueberry Aroma Complexity by Chromatographic and Direct-Injection Spectrometric Techniques
Cited by: 60
Author(s): Brian Farneti, Iuliia Khomenko, M. Grisenti, M. Ajelli, Emanuela Betta, Alberto Alarcon Algarra, Luca Cappellin, Eugenio Aprea, F. Gasperi, Franco Biasioli, L. Giongo
Software Mentions: 2
Published: over 7 years ago

10.3389/fpls.2019.00430

Phenotypic Trait Variation as a Response to Altitude-Related Constraints in Arabidopsis Populations
Cited by: 10
Author(s): Harold Duruflé, Philippe Ranocha, Duchesse Lacour Mbadinga Mbadinga, Sébastien Déjean, Maxime Bonhomme, Hélène San Clemente, Sébastien Viudes, Ali Eljebbawi, Valérie Delorme-Hinoux, Julio Sáez‐Vásquez, Jean‐Philippe Reichheld, Nathalie Escaravage, Monique Burrus, Christophe Dunand
Software Mentions: 2
Published: over 5 years ago

10.3389/fpls.2019.00352

Using Growth and Transpiration Phenotyping Under Controlled Conditions to Select Water Efficient Banana Genotypes
Cited by: 23
Author(s): Jelle van Wesemael, Ewaut Kissel, David Eyland, Tracy Lawson, Rony Swennen, Sébastien Carpentier
Software Mentions: 2
Published: over 5 years ago

10.3389/fpls.2021.697576

Uncovering Trait Associations Resulting in Maximal Seed Yield in Winter and Spring Oilseed Rape
Cited by: 5
Author(s): Laura Siles, Kirsty L. Hassall, Cristina Sanchis Gritsch, Peter J. Eastmond, Smita Kurup
Software Mentions: 2
Published: about 3 years ago

10.3389/fpls.2020.600278

Physiological and Proteomic Signatures Reveal Mechanisms of Superior Drought Resilience in Pearl Millet Compared to Wheat
Cited by: 35
Author(s): Arindam Ghatak, Palak Chaturvedi, Gert Bachmann, Luís Valledor, Živa Ramšak, Mitra Mohammadi Bazargani, Prasad Bajaj, Sridharan Jegadeesan, Weimin Liu, Xiaoliang Sun, Kristina Gruden, Rajeev K. Varshney, Wolfram Weckwerth
Software Mentions: 2
Published: almost 4 years ago

10.3389/fpls.2017.01483

An Integrated Method to Analyze Farm Vulnerability to Climatic and Economic Variability According to Farm Configurations and Farmers’ Adaptations
Cited by: 22
Author(s): Guillaume Martin, Marie-Angélina Magne, Magali San Cristobal
Software Mentions: 2
Published: about 7 years ago

10.3389/fpls.2018.01556

Eco-Metabolomics and Metabolic Modeling: Making the Leap From Model Systems in the Lab to Native Populations in the Field
Cited by: 26
Author(s): Matthias Nagler, Thomas Nägele, Christian Gilli, Lena Fragner, Arthur Korte, Alexander Platzer, Ashley Farlow, Magnus Nordborg, Wolfram Weckwerth
Software Mentions: 2
Published: about 6 years ago

10.3389/fncel.2019.00007

Altered Urinary Amino Acids in Children With Autism Spectrum Disorders
Cited by: 37
Author(s): Aiping Liu, Wei Zhou, Liuhong Qu, Fusheng He, Hui Wang, Yan Wang, Chunquan Cai, Xiaoge Li, Wenhao Zhou, Mingbang Wang
Software Mentions: 2
Published: almost 6 years ago

Projects: bioconductor: mixOmics

Papers Mentioning mixOmics 375