bioconductor: CAMERA | Projects | Ecosyste.ms: Papers

10.1111/pbi.12692

Eugenol specialty chemical production in transgenic poplar ( <i>Populus tremula </i> × <i> P. alba</i> ) field trials
Cited by: 14
Author(s): Da Liu, Xianghe Yuan, Sungjin Kim, Joaquim V. Marques, P. Pawan Chakravarthy, Syed G. A. Moinuddin, Randi A. Luchterhand, Barri Herman, Laurence B. Davin, Norman G. Lewis
Software Mentions: 1
Published: over 7 years ago

10.3390/plants9091131

Early Molecular Responses of Tomato to Combined Moderate Water Stress and Tomato Red Spider Mite Tetranychus evansi Attack
Cited by: 3
Author(s): Vicent Arbona, Miguel G. Ximénez‐Embún, Alberto Echavarri-Muñoz, Marcos Martin-Sánchez, Aurelio Gómez‐Cadenas, Félix Ortego, Miguel González-Guzmán
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pbio.0050083

Global Ocean Sampling Collection
Cited by: 15
Author(s): Hemai Parthasarathy, Emma Hill, Catriona MacCallum
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pbio.0050075

CAMERA: A Community Resource for Metagenomics
Cited by: 353
Author(s): Rekha Seshadri, Saul Kravitz, Larry Smarr, Paul Gilna, M.E. Frazier
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pbio.0050074

Sorcerer II: The Search for Microbial Diversity Roils the Waters
Cited by: 13
Author(s): Henry Nicholls
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pcbi.1000667

A Primer on Metagenomics
Cited by: 581
Author(s): John Wooley, Adam Godzik, Iddo Friedberg
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0142102

COGNIZER: A Framework for Functional Annotation of Metagenomic Datasets
Cited by: 57
Author(s): T. K. Bose, Mohammed Monzoorul Haque, C. Obula Reddy, Sharmila S. Mande
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0208103

Cereal aphids differently affect benzoxazinoid levels in durum wheat
Cited by: 27
Author(s): R. Shavit, Zhaniya S Batyrshina, Nitsan Dotan, Vered Tzin
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0022918

A Novel Acyl-CoA Beta-Transaminase Characterized from a Metagenome
Cited by: 14
Author(s): Alain Perret, Christophe Lechaplais, Sabine Tricot, Nadia Perchat, Carine Vergne, Christine Pellé, Karine Bastard, Annett Kreimeyer, David Vallenet, Anne Zaparucha, Jean Weissenbach, Marcel Salanoubat
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0025353

MetaBinG: Using GPUs to Accelerate Metagenomic Sequence Classification
Cited by: 10
Author(s): Peng Jia, Xuan Liu, Lei Liu, Chaochun Wei
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0083169

Transgenic Hybrid Poplar for Sustainable and Scalable Production of the Commodity/Specialty Chemical, 2-Phenylethanol
Cited by: 22
Author(s): Michael A. Costa, Joaquim V. Marques, Doralyn S. Dalisay, Barrington Herman, Diana L. Bedgar, Laurence B. Davin, Norman G. Lewis
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0035053

Comparative (Meta)genomic Analysis and Ecological Profiling of Human Gut-Specific Bacteriophage φB124-14
Cited by: 51
Author(s): Lesley A. Ogilvie, Jonathan Caplin, Cinzia Dedi, David Diston, Elizabeth Cheek, Lucas D. Bowler, Huw Taylor, James Ebdon, Brian V. Jones
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0026214

Tissue Specific Diurnal Rhythms of Metabolites and Their Regulation during Herbivore Attack in a Native Tobacco, Nicotiana attenuata
Cited by: 106
Author(s): Sang-Gyu Kim, Felipe Yon, Emmanuel Gaquerel, Jyotasana Gulati, Ian Thomas Baldwin
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0089606

Semantics in Support of Biodiversity Knowledge Discovery: An Introduction to the Biological Collections Ontology and Related Ontologies
Cited by: 113
Author(s): Ramona Walls, John Deck, Robert Guralnick, Steve Baskauf, Reed S. Beaman, Stanley Blum, Shawn Bowers, Pier Luigi Buttigieg, Neil Davies, Dag Endresen, María A. Gandolfo, Robert Hanner, Alyssa Janning, Leonard Krishtalka, Andréa Matsunaga, Peter E. Midford, Norman Morrison, Éamonn Ó Tuama, Mark Schildhauer, Barry Smith, Brian J. Stucky, Andrea K. Thomer, John Wieczorek, Jamie Whitacre, John Wooley
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0020095

Phage Encoded H-NS: A Potential Achilles Heel in the Bacterial Defence System
Cited by: 57
Author(s): Connor T. Skennerton, Florent E. Angly, Mya Breitbart, Lauren M. Bragg, Shaomei He, Katherine D. McMahon, Philip Hugenholtz, Gene W. Tyson
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0153461

Discovery of Metabolic Biomarkers for Duchenne Muscular Dystrophy within a Natural History Study
Cited by: 25
Author(s): Simina M. Boca, Maki Nishida, Michael A. Harris, Shruti Rao, Amrita K. Cheema, Kirandeep Gill, Haeri Seol, Lauren P. Morgenroth, E. Henricson, Craig M. McDonald, Jean K. Mah, Paula R. Clemens, Eric P. Hoffman, Yetrib Hathout, Subha Madhavan
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0071026

Short-Chain Fructo-Oligosaccharides Modulate Intestinal Microbiota and Metabolic Parameters of Humanized Gnotobiotic Diet Induced Obesity Mice
Cited by: 77
Author(s): Frédérique Respondek, Philippe Gérard, Mathilde Bossis, Laura Boschat, Aurélia Bruneau, Sylvie Rabot, Anne Wagner, Jean-Charles Martin
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0013312

Seasonal Changes in Bacterial and Archaeal Gene Expression Patterns across Salinity Gradients in the Columbia River Coastal Margin
Cited by: 27
Author(s): Maria W. Smith, Lydie Herfort, Kaitlin Tyrol, Dominic Suciu, Victoria Campbell, Byron C. Crump, Tawnya D. Peterson, Peter Zuber, António M. Baptista, Holly M. Simon
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0106588

Statistical Approach of Functional Profiling for a Microbial Community
Cited by: 4
Author(s): Lingling An, Nauromal Pookhao, Hongmei Jiang, Jianchu Xu
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0177464

Metabolites contributing to Rhizoctonia solani AG-1-IA maturation and sclerotial differentiation revealed by UPLC-QTOF-MS metabolomics
Cited by: 18
Author(s): Wenjin Hu, Xinli Pan, Hafiz Muhammad Khalid Abbas, Fengfeng Li, Wubei Dong
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0172311

LipidFrag: Improving reliability of in silico fragmentation of lipids and application to the Caenorhabditis elegans lipidome
Cited by: 23
Author(s): Michael Witting, Christoph Ruttkies, Steffen Neumann, Philippe Schmitt‐Kopplin
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0102915

Isolating Fungal Pathogens from a Dynamic Disease Outbreak in a Native Plant Population to Establish Plant-Pathogen Bioassays for the Ecological Model Plant Nicotiana attenuata
Cited by: 24
Author(s): Stefan Schuck, Arne Weinhold, Van Thi Luu, Ian Thomas Baldwin
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0028900

Latitudinal Gradients in Degradation of Marine Dissolved Organic Carbon
Cited by: 85
Author(s): Carol Arnosti, Andrew D. Steen, Kai Ziervogel, Sherif Ghobrial, Wade H. Jeffrey
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0025724

Bioinformatic Analysis Reveals High Diversity of Bacterial Genes for Laccase-Like Enzymes
Cited by: 115
Author(s): Luka Ausec, Martha Zakrzewski, Alexander Goesmann, Andreas Schlüter, Ines Mandic‐Mulec
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0060635

Development of a Multi-Biomarker Disease Activity Test for Rheumatoid Arthritis
Cited by: 146
Author(s): Michael Centola, G. Cavet, Yijing Shen, Saroja Ramanujan, Nicholas Knowlton, Kathryn A. Swan, Mary Turner, Chris W. Sutton, Dustin R. Smith, Douglas J. Haney, David Chernoff, Lyndal K. Hesterberg, John P. Carulli, Peter Taylor, Nancy A. Shadick, Michael E. Weinblatt, Jeffrey R. Curtis
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0003042

Detection of Large Numbers of Novel Sequences in the Metatranscriptomes of Complex Marine Microbial Communities
Cited by: 349
Author(s): Jack A. Gilbert, Dawn Field, Ying Huang, Robert A. Edwards, Weizhong Li, Paul Gilna, Ian Joint
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0141743

Plasma Metabolic Profiles in Women are Menopause Dependent
Cited by: 28
Author(s): Chaofu Ke, Yan Hou, Haiyu Zhang, Kai Yang, Jingtao Wang, Bing Guo, Fan Zhang, Hailong Li, Xiao‐Hua Zhou, Ying Li, Kang Li
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0016900

Host-Associated and Free-Living Phage Communities Differ Profoundly in Phylogenetic Composition
Cited by: 27
Author(s): J. Gregory Caporaso, Rob Knight, Scott T. Kelley
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0093367

Viral Communities Associated with Human Pericardial Fluids in Idiopathic Pericarditis
Cited by: 21
Author(s): Laura Fancello, Sonia Monteil, Nikolay Popgeorgiev, Romain Rivet, Frédérique Gouriet, Pierre‐Edouard Fournier, Didier Raoult, Christelle Desnues
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0046450

A Statistical Framework for Accurate Taxonomic Assignment of Metagenomic Sequencing Reads
Cited by: 24
Author(s): Hongmei Jiang, Lingling An, Simon Lin, Gang Feng, Yuqing Qiu
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0049090

Reticulamoeba Is a Long-Branched Granofilosean (Cercozoa) That Is Missing from Sequence Databases
Cited by: 22
Author(s): David Bass, Akinori Yabuki, Sébastien Santini, Sarah Romac, Cédric Berney
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0017693

Endophyte Microbiome Diversity in Micropropagated Atriplex canescens and Atriplex torreyi var griffithsii
Cited by: 75
Author(s): Mary E. Lucero, Adrian Unc, Peter Cooke, Scot E. Dowd, Sheng Sun
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0050869

Ecogenomic Perspectives on Domains of Unknown Function: Correlation-Based Exploration of Marine Metagenomes
Cited by: 12
Author(s): Pier Luigi Buttigieg, Wolfgang Hankeln, Ivaylo Kostadinov, Renzo Kottmann, Pelin Yilmaz, Melissa B. Duhaime, Frank Oliver Glöckner
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0173315

Herbivore-induced chemical and molecular responses of the kelps Laminaria digitata and Lessonia spicata
Cited by: 14
Author(s): Andrés Ritter, Léa Cabioch, Loraine Brillet-Guéguen, Erwan Corre, Audrey Cosse, Laurence Dartevelle, Harold Duruflé, Carina Fasshauer, Sophie Goulitquer, François Thomas, Juan A. Correa, Philippe Potin, Sylvain Faugeron, Catherine Leblanc
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0129081

Diversity and Evolutionary History of Iron Metabolism Genes in Diatoms
Cited by: 53
Author(s): Ryan D. Groussman, Micaela S. Parker, E. Virginia Armbrust
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0146112

iMet-Q: A User-Friendly Tool for Label-Free Metabolomics Quantitation Using Dynamic Peak-Width Determination
Cited by: 16
Author(s): Hui‐Chen Chang, Ching Tai Chen, Tung-Shing Mamie Lih, Ke Shiuan Lynn, Chiun Gung Juo, Wen Lian Hsu, Ting Yi Sung
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0003375

Probing Metagenomics by Rapid Cluster Analysis of Very Large Datasets
Cited by: 31
Author(s): Weizhong Li, John Wooley, Adam Godzik
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0097801

Comparative Transcriptome Analysis of Four Prymnesiophyte Algae
Cited by: 25
Author(s): Amy E. Koid, Zhenfeng Liu, Ramón Terrado, Adriane C. Jones, David A. Caron, Karla B. Heidelberg
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0005831

A Flood of Microbial Genomes–Do We Need More?
Cited by: 33
Author(s): Niyaz Ahmed
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0004601

Biogeography of Photosynthetic Light-Harvesting Genes in Marine Phytoplankton
Cited by: 38
Author(s): Thomas S. Bibby, Yinan Zhang, Min Chen
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0040096

MetaboSearch: Tool for Mass-Based Metabolite Identification Using Multiple Databases
Cited by: 73
Author(s): Bin Zhou, Jinlan Wang, Habtom W. Ressom
Software Mentions: 1
Published: over 12 years ago

10.1186/s13578-015-0018-x

Metabolomic profiling of Burkholderia pseudomallei using UHPLC-ESI-Q-TOF-MS reveals specific biomarkers including 4-methyl-5-thiazoleethanol and unique thiamine degradation pathway
Cited by: 11
Author(s): Susanna K. P. Lau, Ching Wan Lam, Shirly O. T. Curreem, Kim Chung Lee, Wang Ngai Chow, Candy C. Y. Lau, Siddharth Sridhar, Sally C.Y. Wong, Paolo Martelli, Suk Wai Hui, Kwok‐Yung Yuen, Patrick C. Y. Woo
Software Mentions: 1
Published: over 9 years ago

10.1038/s41419-021-03447-8

A distinct metabolic response characterizes sensitivity to EZH2 inhibition in multiple myeloma
Cited by: 10
Author(s): Patrick Nylund, Alba Atienza Párraga, Jakob Haglöf, Elke De Bruyne, Eline Menu, Berta Garrido-Zabala, Anqi Ma, Jian Jin, Fredrik Öberg, Karin Vanderkerken, Antonia Kalushkova, Helena Jernberg-Wiklund
Software Mentions: 1
Published: almost 4 years ago

10.1007/s00018-019-03441-6

Loss of function in the Drosophila clock gene period results in altered intermediary lipid metabolism and increased susceptibility to starvation
Cited by: 18
Author(s): Stefan Schäbler, Kelechi M. Amatobi, Melanie Horn, Dirk Rieger, Charlotte Helfrich‐Förster, Martin J. Mueller, Christian Wegener, Ágnes Fekete
Software Mentions: 1
Published: almost 5 years ago

10.1002/ctm2.469

Susceptibility to false discovery in biomarker research using liquid chromatography–high resolution mass spectrometry based untargeted metabolomics profiling
Cited by: 4
Author(s): Pengwei Zhang, Irene Ang, Melody M. T. Lam, Rui Wei, Kate M K Lei, Xingwang Zhou, Henry H N Lam, Qing‐Yu He, Terence Chuen Wai Poon
Software Mentions: 1
Published: over 3 years ago

10.1038/s42003-019-0289-6

A large-scale metabolomics study to harness chemical diversity and explore biochemical mechanisms in ryegrass
Cited by: 13
Author(s): Arvind K. Subbaraj, Jan Huege, Karl Fraser, Mingshu Cao, Susanne Rasmussen, Marty J. Faville, S. P. Harrison, Chris S. Jones
Software Mentions: 1
Published: over 5 years ago

10.1155/2007/47304

eGenomics: Cataloguing Our Complete Genome Collection III
Cited by: 4
Author(s): Dawn Field, George M Garrity, Tanya Gray, Jeremy D. Selengut, Peter J. Sterk, Nick Thomson, Tatiana Tatusova, Guy Cochrane, Frank Oliver Glöckner, Renzo Kottmann, Allyson L. Lister, Yoshio Tateno, R. W. Vaughan
Software Mentions: 1
Published: almost 18 years ago

10.5936/csbj.201301002

LC-MS METABOLOMICS FROM STUDY DESIGN TO DATA-ANALYSIS – USING A VERSATILE PATHOGEN AS A TEST CASE
Cited by: 42
Author(s): Maya Berg, Manu Vanaerschot, Andris Jankevics, Bart Cuypers, Rainer Breitling, Jean Claude Dujardin
Software Mentions: 1
Published: almost 12 years ago

10.1016/j.csbj.2014.12.005

News in livestock research — use of Omics -technologies to study the microbiota in the gastrointestinal tract of farm animals
Cited by: 78
Author(s): Simon Deusch, Bruno Tilocca, Amélia Camarinha‐Silva, Jana Seifert
Software Mentions: 1
Published: almost 10 years ago

10.1016/j.cub.2016.01.019

The Breakdown of Stored Triacylglycerols Is Required during Light-Induced Stomatal Opening
Cited by: 100
Author(s): Deirdre H. McLachlan, Jue Lan, Christoph‐Martin Geilfus, Anthony N Dodd, TR Larson, Alison Baker, Hanna Hõrak, Hannes Kollist, Zhesi He, Ian A. Graham, Michael V. Mickelbart, Alistair M. Hetherington
Software Mentions: 1
Published: over 8 years ago

10.2174/138920209789208255

Signal Processing for Metagenomics: Extracting Information from the Soup
Cited by: 30
Author(s): Gail Rosen, Bahrad A. Sokhansanj, Robi Polikar, Mary Ann Bruns, Jacob A. Russell, Elaine Garbarine, Steve Essinger, Non Yok
Software Mentions: 1
Published: about 15 years ago

10.1007/s11926-018-0781-x

Novel Concepts in Psoriatic Arthritis Management: Can We Treat to Target?
Cited by: 22
Author(s): Laura Tucker, Weiyu Ye, Laura C. Coates
Software Mentions: 1
Published: about 6 years ago

10.1016/j.dib.2018.10.113

LC-HRMS data as a result of untargeted metabolomic profiling of human cerebrospinal fluid
Cited by: 2
Author(s): Florence Mehl, Héctor Gallart-Ayala, Ioana Konz, Tony Teav, Aikaterini Oikonomidi, Gwendoline Peyratout, Vera van der Velpen, Julius Popp, Julijana Ivanišević
Software Mentions: 1
Published: almost 6 years ago

10.1007/s10664-020-09934-4

A privacy and security analysis of early-deployed COVID-19 contact tracing Android apps
Cited by: 34
Author(s): Majid Hatamian, Samuel Wairimu, Nurul Momen, Lothar Fritsch
Software Mentions: 1
Published: over 3 years ago

10.1111/j.1462-2920.2012.02791.x

Towards quantitative metagenomics of wild viruses and other ultra‐low concentration DNA samples: a rigorous assessment and optimization of the linker amplification method
Cited by: 129
Author(s): Melissa B. Duhaime, Li Deng, Bonnie T. Poulos, Matthew B. Sullivan
Software Mentions: 1
Published: over 12 years ago

10.1093/femsec/fiw019

Evidence for plasmid-mediated salt tolerance in the human gut microbiome and potential mechanisms
Cited by: 11
Author(s): Eileen Broaders, Ciarán O’Brien, Cormac G. M. Gahan, Julian R. Marchesi
Software Mentions: 1
Published: almost 9 years ago

10.3389/fcell.2021.695540

Identification of Novel Serum Metabolic Biomarkers as Indicators in the Progression of Intravenous Leiomyomatosis: A High Performance Liquid Chromatography-Tandem Mass Spectrometry-Based Study
Cited by: 2
Author(s): Zhitong Ge, Penghui Feng, Zijuan Zhang, Jianchu Li, Qi Yu
Software Mentions: 1
Published: over 3 years ago

10.3389/fcimb.2021.725284

Specific Gut Microbiome and Serum Metabolome Changes in Lung Cancer Patients
Cited by: 34
Author(s): Feng Zhao, Rui An, Liqian Wang, Jikang Shan, Xianjun Wang
Software Mentions: 1
Published: about 3 years ago

10.3389/fcimb.2020.00044

Absence of tmRNA Increases the Persistence to Cefotaxime and the Intercellular Accumulation of Metabolite GlcNAc in Aeromonas veronii
Cited by: 5
Author(s): Wenjing Yu, Daiyu Li, Hong Li, Yanqiong Tang, Hongqian Tang, Xiang Ma, Liu Zhu
Software Mentions: 1
Published: over 4 years ago

10.3389/fendo.2021.691326

Identification of Novel Environmental Substances Relevant to Pediatric Graves’ Disease
Cited by: 0
Author(s): Xia Qin, Jingjing Liu, Xu Xu, Wei Gu, Kefeng Gu, Xiuli Chen, Rongrong Xie, Dandan Zhang, Haiying Wu, Hui Sun, Fengyun Wang, Linqi Chen, Ting Chen
Software Mentions: 1
Published: over 3 years ago

10.3389/fimmu.2020.01331

Alterations in the Gut Microbiome and Cecal Metabolome During Klebsiella pneumoniae-Induced Pneumosepsis
Cited by: 36
Author(s): Ting Wu, Fangming Xu, Cong Su, Hongru Li, Na Lv, Yanyan Liu, Yufeng Gao, Yanhu Lan, Jiabin Li
Software Mentions: 1
Published: over 4 years ago

10.3389/fimmu.2021.665901

The Synergistic Effects of Polysaccharides and Ginsenosides From American Ginseng (Panax quinquefolius L.) Ameliorating Cyclophosphamide-Induced Intestinal Immune Disorders and Gut Barrier Dysfunctions Based on Microbiome-Metabolomics Analysis
Cited by: 49
Author(s): Rongrong Zhou, Dan He, Jing Xie, Qingyijun Zhou, Hongliang Zeng, Hongmei Li, Lusheng Huang
Software Mentions: 1
Published: over 3 years ago

10.3389/fmicb.2015.01488

Unraveling the Functions of the Macroalgal Microbiome
Cited by: 47
Author(s): Ravindra Singh, C. R. K. Reddy
Software Mentions: 1
Published: almost 9 years ago

10.3389/fmicb.2015.01216

The role of biofilms as environmental reservoirs of antibiotic resistance
Cited by: 295
Author(s): José Luís Balcázar, Jèssica Subirats, Carles M. Borrego
Software Mentions: 1
Published: about 9 years ago

10.3389/fmicb.2015.00375

Diversity and comparative genomics of Microviridae in Sphagnum- dominated peatlands
Cited by: 49
Author(s): Achim Quaiser, Alexis Dufresne, Flore Ballaud, Simon Roux, Yvan Zivanovic, Jonathan Colombet, Télesphore Sime-Ngando, André-Jean Francez
Software Mentions: 1
Published: over 9 years ago

10.3389/fmicb.2017.00327

Glucose Uptake in Prochlorococcus: Diversity of Kinetics and Effects on the Metabolism
Cited by: 17
Author(s): María del Carmen Muñoz-Marín, Guadalupe Gómez‐Baena, Jesús Dı́ez, Robert J. Beynon, David González-Ballester, Mikhail V. Zubkov, José Manuel García-Fernández
Software Mentions: 1
Published: over 7 years ago

10.3389/fmicb.2018.00520

A Retrospective Review of Microbiological Methods Applied in Studies Following the Deepwater Horizon Oil Spill
Cited by: 7
Author(s): Shuangfei Zhang, Zhong Huang, Hui Wang
Software Mentions: 1
Published: over 6 years ago

10.3389/fmicb.2016.00822

HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts
Cited by: 41
Author(s): Patrick W. Laffy, Elisha M. Wood‐Charlson, Dmitrij Turaev, Karen D. Weynberg, Emmanuelle S. Botté, Madeleine J. H. van Oppen, Nicole S. Webster, Thomas Rattei
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2016.00197

Microbiota Influences Morphology and Reproduction of the Brown Alga Ectocarpus sp.
Cited by: 46
Author(s): Javier Tapia, Bernardo González, Sophie Goulitquer, Philippe Potin, Juan A. Correa
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2013.00120

Contrasting genomic properties of free-living and particle-attached microbial assemblages within a coastal ecosystem
Cited by: 124
Author(s): Maria W. Smith, Lisa Zeigler Allen, Andrew E. Allen, Lydie Herfort, Holly M. Simon
Software Mentions: 1
Published: almost 12 years ago

10.3389/fmicb.2014.00185

Linking activity and function to ecosystem dynamics in a coastal bacterioplankton community
Cited by: 52
Author(s): Scott M. Gifford, Shalabh Sharma, Mary Ann Moran
Software Mentions: 1
Published: over 10 years ago

10.3389/fmicb.2014.00332

Single-cell genomics reveals features of a Colwellia species that was dominant during the Deepwater Horizon oil spill
Cited by: 85
Author(s): Olivia U. Mason, Jianxin Han, Tanja Woyke, Janet Jansson
Software Mentions: 1
Published: over 10 years ago

10.3389/fmolb.2020.561641

Perturbations of Metabolomic Profiling of Spleen From Rats Infected With Clonorchis sinensis Determined by LC-MS/MS Method
Cited by: 9
Author(s): Xiaoli Zhang, Xinyi Hu, Rui Chen, Baozhi Sun, Yannan Gao, Shanshan Duan, Liyan Liu, Seung-Beom Han
Software Mentions: 1
Published: about 4 years ago

10.3389/fneur.2014.00193

Migraine and Stroke: â€œVascularâ€ Comorbidity
Cited by: 35
Author(s): Donata Guidetti, Eugenia Rota, Nicola Morelli, Paolo Immovilli
Software Mentions: 1
Published: about 10 years ago

10.3389/fonc.2020.00804

Integration of Transcriptome and Metabolome Provides Unique Insights to Pathways Associated With Obese Breast Cancer Patients
Cited by: 33
Author(s): Mohammed A Hassan, Kaltoom Al-Sakkaf, Mohammed Razeeth Shait Mohammed, Ashraf Dallol, Jaudah Al-Maghrabi, Alia Aldahlawi, Sawsan Ashoor, M Maamra, Jiannis Ragoussis, Wei Wu, Mohammad Imran Khan, Abdulrahman L. Al-Malki, Hani Choudhry
Software Mentions: 1
Published: over 4 years ago

10.3389/fonc.2019.00825

Exploring Radiation Response in Two Head and Neck Squamous Carcinoma Cell Lines Through Metabolic Profiling
Cited by: 19
Author(s): Eva Lindell Jonsson, Ida Erngren, Mikael K.R. Engskog, Jakob Haglöf, Torbjörn Arvidsson, Mikael Hedeland, Curt Petterson, Göran Laurell, Marika Nestor
Software Mentions: 1
Published: about 5 years ago

10.3389/fpls.2014.00216

Analysis of plant microbe interactions in the era of next generation sequencing technologies
Cited by: 184
Author(s): Claudia Knief
Software Mentions: 1
Published: over 10 years ago

10.3389/fpls.2017.00133

Untargeted Metabotyping Lolium perenne Reveals Population-Level Variation in Plant Flavonoids and Alkaloids
Cited by: 13
Author(s): Mingshu Cao, Karl Fraser, Chris S. Jones, Alan V. Stewart, Thomas Lyons, Marty J. Faville, Brent Barrett
Software Mentions: 1
Published: almost 8 years ago

10.3389/fpls.2018.00787

The Active Jasmonate JA-Ile Regulates a Specific Subset of Plant Jasmonate-Mediated Resistance to Herbivores in Nature
Cited by: 33
Author(s): Meredith C. Schuman, Stefan Meldau, Emmanuel Gaquerel, Celia Diezel, Erica McGale, Sara Greenfield, Ian T. Baldwin
Software Mentions: 1
Published: over 6 years ago

10.3389/fpls.2016.00838

Accumulation of Flavonols over Hydroxycinnamic Acids Favors Oxidative Damage Protection under Abiotic Stress
Cited by: 177
Author(s): Vicente Martı́nez, Teresa C. Mestre, Francisco Rubio, Amadeo Gironés-Vilaplana, Diego A. Moreno, Ron Mittler, Rosa M. Rivero
Software Mentions: 1
Published: over 8 years ago

10.3389/fpls.2021.717643

Comparative Analyses of Phyllosphere Bacterial Communities and Metabolomes in Newly Developed Needles of Cunninghamia lanceolata (Lamb.) Hook. at Four Stages of Stand Growth
Cited by: 7
Author(s): Kun Sun, Honggang Sun, Zonghao Qiu, Liu Qiang
Software Mentions: 1
Published: about 3 years ago

10.3389/fpls.2017.01738

Transcriptomics and Alternative Splicing Analyses Reveal Large Differences between Maize Lines B73 and Mo17 in Response to Aphid Rhopalosiphum padi Infestation
Cited by: 33
Author(s): Juan Song, Hui Liu, Zhuang Hu, Chunxia Zhao, Yuxing Xu, Shibo Wu, Jinfeng Qi, Jing Li, Christian Hettenhausen, Jianqiang Wu
Software Mentions: 1
Published: about 7 years ago

10.3389/fpsyt.2020.00496

Plasma Metabolite Profiles in First Episode Psychosis: Exploring Symptoms Heterogeneity/Severity in Schizophrenia and Bipolar Disorder Cohorts
Cited by: 4
Author(s): Helena Passarelli Giroud Joaquim, Alana C. Costa, Leda Leme Talib, Frederik Dethloff, Maurício H. Serpa, Marcus V. Zanetti, Martinus van de Bilt, Christoph W. Turck
Software Mentions: 1
Published: over 4 years ago

10.1128/genomeA.00933-13

Metagenome Sequencing of Prokaryotic Microbiota from Two Hypersaline Ponds of a Marine Saltern in Santa Pola, Spain
Cited by: 22
Author(s): Ana Beatriz Fernández, Rohit Ghai, Ana Belén Martín‐Cuadrado, Cristina Sánchez‐Porro, Francisco Rodrı́guez-Valera, António Ventosa
Software Mentions: 1
Published: almost 11 years ago

10.1186/gb-2008-9-7-r106

Taxonomic distribution of large DNA viruses in the sea
Cited by: 145
Author(s): Adam Monier, Jean‐Michel Claverie, Hiroyuki Ogata
Software Mentions: 1
Published: almost 17 years ago

10.1186/s13073-015-0179-6

Mechanistic insights revealed by lipid profiling in monogenic insulin resistance syndromes
Cited by: 23
Author(s): Michael Eiden, Albert Koulman, Mensud Hatunic, James A. West, Steven A. Murfitt, Michael Kwabena Osei, Claire Adams, Xinzhu Wang, Yajing Chu, Luke C. Marney, Lee D. Roberts, Stephen O’Rahilly, Robert K. Semple, David B. Savage, Julian L. Griffin
Software Mentions: 1
Published: over 9 years ago

10.1016/j.gpb.2015.10.003

Web Resources for Metagenomics Studies
Cited by: 27
Author(s): Pravin Dudhagara, Sunil Bhavsar, Chintan Bhagat, Anjana Ghelani, Shreyas Bhatt, Rajesh Patel
Software Mentions: 1
Published: about 9 years ago

10.1097/HS9.0000000000000337

Functional Differences Between EBV- and CMV-Specific CD8+ T cells Demonstrate Heterogeneity of T cell Dysfunction in CLL
Cited by: 3
Author(s): Tom Hofland, Iris de Weerdt, Sanne Endstra, Aldo Jongejan, Laura Platenkamp, Ester B. M. Remmerswaal, Perry D. Moerland, Ineke J. M. ten Berge, Mark‐David Levin, Arnon P. Kater, Sanne H. Tonino
Software Mentions: 1
Published: almost 5 years ago

10.1186/2043-9113-2-4

Analysis of the salivary microbiome using culture-independent techniques
Cited by: 55
Author(s): Vladimir Lazarević, Katrine Whiteson, Nadia Gaïa, Yann Gizard, David Hernández, Laurent Farinelli, Magne Østerås, Patrice François, Jacques Schrenzel
Software Mentions: 1
Published: almost 13 years ago

10.3390/jcm8040515

How to Get the Most from Methotrexate (MTX) Treatment for Your Rheumatoid Arthritis Patient?—MTX in the Treat-to-Target Strategy
Cited by: 51
Author(s): Peter C Taylor, A. Balsa, Mongey Ab, Jérôme Avouac, Hubert Marotte, Mueller Rb
Software Mentions: 1
Published: over 5 years ago

10.1186/1477-5956-10-S1-S8

Ion annotation-assisted analysis of LC-MS based metabolomic experiment
Cited by: 10
Author(s): Rency S. Varghese, Bin Zhou, Mohammad Ranjbar, Yi Zhao, Habtom W. Ressom
Software Mentions: 1
Published: over 12 years ago

10.1038/sdata.2017.190

Ash leaf metabolomes reveal differences between trees tolerant and susceptible to ash dieback disease
Cited by: 12
Author(s): Christine Sambles, Deborah Salmon, Hannah Florance, Thomas P. Howard, Nicholas Smirnoff, Lene Rostgaard Nielsen, Lea Vig McKinney, Erik Dahl Kjær, Richard J. A. Buggs, David J. Studholme, Murray Grant
Software Mentions: 1
Published: almost 7 years ago

10.1038/srep15131

Four novel algal virus genomes discovered from Yellowstone Lake metagenomes
Cited by: 40
Author(s): Weijia Zhang, Jizhong Zhou, Taigang Liu, Yongxin Yu, Yingjie Pan, Shuling Yan, Yongjie Wang
Software Mentions: 1
Published: about 9 years ago

10.1038/srep38243

Prostate Cancer Patients–Negative Biopsy Controls Discrimination by Untargeted Metabolomics Analysis of Urine by LC-QTOF: Upstream Information on Other Omics
Cited by: 30
Author(s): M.A. Fernández-Peralbo, Enrique Gómez Gómez, M. Calderón-Santiago, Julia Carrasco‐Valiente, J. Ruiz-García, M.J. Requena-Tapia, M. D. Luque de Castro, Feliciano Priego‐Capote
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41598-018-37039-y

Integrative omics analysis in Pandanus odorifer (Forssk.) Kuntze reveals the role of Asparagine synthetase in salinity tolerance
Cited by: 22
Author(s): Deo Rashmi, Vitthal T. Barvkar, Altafhusain B. Nadaf, Swapnil Mundhe, Narendra Y. Kadoo
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-019-39235-w

Untargeted metabolomics by high resolution mass spectrometry coupled to normal and reversed phase liquid chromatography as a tool to study the in vitro biotransformation of new psychoactive substances
Cited by: 32
Author(s): Sascha K. Manier, Andreas Keller, Jan Schäper, Markus R. Meyer
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-019-40353-8

Circadian and wake-dependent changes in human plasma polar metabolites during prolonged wakefulness: A preliminary analysis
Cited by: 27
Author(s): Leilah K Grant, Suzanne Ftouni, Brunda Nijagal, David P. De Souza, Dedreia Tull, Malcolm J. McConville, Shanthakumar M W Rajaratnam, Steven W. Lockley, Clare Anderson
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-020-61088-x

Metabolomic-guided discovery of cyclic nonribosomal peptides from Xylaria ellisii sp. nov., a leaf and stem endophyte of Vaccinium angustifolium
Cited by: 17
Author(s): Ashraf Ibrahim, Joey B. Tanney, Fan Fei, Keith A. Seifert, G. Christopher Cutler, Alfredo Capretta, J. David Miller, Mark W. Sumarah
Software Mentions: 1
Published: over 4 years ago

10.1038/s41598-020-65897-y

Effect of congenital adrenal hyperplasia treated by glucocorticoids on plasma metabolome: a machine-learning-based analysis
Cited by: 2
Author(s): Lee S. Nguyen, Edi Prifti, Farid Ichou, Monique Leban, Christian Funck‐Brentano, Philippe Touraine, Joe‐Elie Salem, Anne Bachelot
Software Mentions: 1
Published: over 4 years ago

10.1186/s40064-015-0973-z

Diversity of putative archaeal RNA viruses in metagenomic datasets of a yellowstone acidic hot spring
Cited by: 8
Author(s): Hongming Wang, Yongxin Yu, Taigang Liu, Yingjie Pan, Shuling Yan, Yongjie Wang
Software Mentions: 1
Published: over 9 years ago

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