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Y. Lim · SciRah

Researcher profile · Semantic Scholar

Y. Lim

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Y. Lim — researcher profile on SciRah

h-index: 27
Works: 47
Citations: 3,851

Most-cited papers

Lytic to temperate switching of viral communities
B. Knowles, C. Silveira, B. Bailey, K. Barott +39 more
2016Nature589 citations Open access
Semantic Scholar
Global microbialization of coral reefs
A. Haas, M. F. Fairoz, L. W. Kelly, Craig E. Nelson +15 more
2016Nature Microbiology294 citations
Semantic Scholar
Metagenomic analysis of viruses in reclaimed water.
K. Rosario, C. Nilsson, Y. Lim, Y. Ruan +1 more
2009Environmental Microbiology288 citations
Semantic Scholar
TagCleaner: Identification and removal of tag sequences from genomic and metagenomic datasets
R. Schmieder, Y. Lim, F. Rohwer, R. Edwards
2010BMC Bioinformatics253 citations Open access
Semantic Scholar
Broad Surveys of DNA Viral Diversity Obtained through Viral Metagenomics of Mosquitoes
T. Ng, D. Willner, Y. Lim, R. Schmieder +6 more
2011PLoS ONE219 citations Open access
Semantic Scholar
Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors
L. W. Kelly, Gareth J. Williams, K. Barott, C. Carlson +13 more
2014Proceedings of the National Academy of Sciences of the United States of America209 citations Open access
Semantic Scholar
Spatial distribution of microbial communities in the cystic fibrosis lung
D. Willner, Matthew Haynes, Mike Furlan, R. Schmieder +4 more
2011The ISME Journal181 citations Open access
Semantic Scholar
METAGENOMICS AND METATRANSCRIPTOMICS: WINDOWS ON CF-ASSOCIATED VIRAL AND MICROBIAL COMMUNITIES
Y. Lim, R. Schmieder, Matthew Haynes, D. Willner +7 more
2012Journal of Cystic Fibrosis159 citations Open access
Semantic Scholar
Clinical Insights from Metagenomic Analysis of Sputum Samples from Patients with Cystic Fibrosis
Y. Lim, Jose S. Evangelista, R. Schmieder, B. Bailey +6 more
2013Journal of Clinical Microbiology133 citations Open access
Semantic Scholar
Breath gas metabolites and bacterial metagenomes from cystic fibrosis airways indicate active pH neutral 2,3-butanedione fermentation
Katrine L. Whiteson, S. Meinardi, Y. Lim, R. Schmieder +5 more
2014The ISME Journal132 citations Open access
Semantic Scholar
Biogeochemical Forces Shape the Composition and Physiology of Polymicrobial Communities in the Cystic Fibrosis Lung
R. Quinn, Y. Lim, H. Maughan, D. Conrad +2 more
2014mBio115 citations Open access
Semantic Scholar
The upper respiratory tract as a microbial source for pulmonary infections in cystic fibrosis. Parallels from island biogeography.
Katrine L. Whiteson, B. Bailey, Megan Bergkessel, D. Conrad +11 more
2014American Journal of Respiratory and Critical Care Medicine108 citations Open access
Semantic Scholar
Three dimensional microbiome and metabolome cartography of a diseased human lung
Neha Garg, Mingxun Wang, E. Hyde, R. D. da Silva +16 more
2017Cell Host and Microbe107 citations Open access
Semantic Scholar
Microbial, host and xenobiotic diversity in the cystic fibrosis sputum metabolome
R. Quinn, Vanessa V. Phelan, Katrine L. Whiteson, Neha Garg +5 more
2015The ISME Journal105 citations Open access
Semantic Scholar
Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung.
D. Willner, Matthew Haynes, Mike Furlan, N. Hanson +7 more
2012American Journal of Respiratory Cell and Molecular Biology105 citations Open access
Semantic Scholar
Metabolomics of pulmonary exacerbations reveals the personalized nature of cystic fibrosis disease
R. Quinn, Y. Lim, Tytus D. Mak, Katrine L. Whiteson +4 more
2016PeerJ85 citations Open access
Semantic Scholar
Ecological networking of cystic fibrosis lung infections
R. Quinn, Katrine L. Whiteson, Y. Lim, Jiangchao Zhao +4 more
2016npj Biofilms and Microbiomes85 citations Open access
Semantic Scholar
Mass spectral similarity for untargeted metabolomics data analysis of complex mixtures
Neha Garg, Clifford A. Kapono, Y. Lim, Nobuhiro Koyama +4 more
2014International Journal of Mass Spectrometry84 citations Open access
Semantic Scholar
Metabolomics of reef benthic interactions reveals a bioactive lipid involved in coral defence
R. Quinn, M. Vermeij, Aaron C. Hartmann, Ines Galtier d'Auriac +9 more
2016Proceedings of the Royal Society of London. Biological Sciences77 citations Open access
Semantic Scholar
Identification of a Novel Human Papillomavirus by Metagenomic Analysis of Samples from Patients with Febrile Respiratory Illness
J. Mokili, B. Dutilh, Y. Lim, Bradley S. Schneider +8 more
2013PLoS ONE62 citations Open access
Semantic Scholar
Mechanistic Model of Rothia mucilaginosa Adaptation toward Persistence in the CF Lung, Based on a Genome Reconstructed from Metagenomic Data
Y. Lim, R. Schmieder, Matthew Haynes, Mike Furlan +9 more
2013PLoS ONE62 citations Open access
Semantic Scholar
Diversity, Productivity, and Stability of an Industrial Microbial Ecosystem
Doruk Beyter, Pei-Zhong Tang, S. Becker, T. Hoang +8 more
2016Applied and Environmental Microbiology56 citations Open access
Semantic Scholar
Species-Specific Viromes in the Ancestral Holobiont Hydra
J. Grasis, T. Lachnit, F. Anton-Erxleben, Y. Lim +11 more
2014PLoS ONE55 citations Open access
Semantic Scholar
Diel population and functional synchrony of microbial communities on coral reefs
L. W. Kelly, Craig E. Nelson, A. Haas, Douglas S. Naliboff +16 more
2019Nature Communications53 citations Open access
Semantic Scholar
Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen
Neha Garg, Yi Zeng, A. Edlund, A. Melnik +13 more
2016mSystems36 citations Open access
Semantic Scholar
Cystic Fibrosis Rapid Response: Translating Multi-omics Data into Clinically Relevant Information
A. G. Cobián Güemes, Y. Lim, R. Quinn, D. Conrad +9 more
2019mBio33 citations Open access
Semantic Scholar
Unraveling the Unseen Players in the Ocean - A Field Guide to Water Chemistry and Marine Microbiology
A. Haas, B. Knowles, Y. Lim, Tracey McDole Somera +3 more
2014Journal of Visualized Experiments32 citations Open access
Semantic Scholar
Purifying the Impure: Sequencing Metagenomes and Metatranscriptomes from Complex Animal-associated Samples
Y. Lim, Matthew Haynes, Mike Furlan, Charles E. Robertson +2 more
2014Journal of Visualized Experiments26 citations Open access
Semantic Scholar
Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition
Y. Lim, Daniel Cuevas, G. Silva, Kristen Aguinaldo +15 more
2014PeerJ23 citations Open access
Semantic Scholar
Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis
A. Melnik, Y. Vázquez-Baeza, A. Aksenov, E. Hyde +23 more
2019mSystems21 citations Open access
Semantic Scholar
A Winogradsky-based culture system shows an association between microbial fermentation and cystic fibrosis exacerbation
R. Quinn, Katrine L. Whiteson, Y. Lim, P. Salamon +6 more
2015The ISME Journal19 citations Open access
Semantic Scholar
Corrigendum: Lytic to temperate switching of viral communities
B. Knowles, C. Silveira, B. Bailey, K. Barott +39 more
2016Nature12 citations Open access
Semantic Scholar
Identification and removal of ribosomal RNA sequences from metatranscriptomes
R. Schmieder, Y. Lim, R. Edwards
2011Bioinform.12 citations Open access
Semantic Scholar
Correction to ‘Metabolomics of reef benthic interactions reveals a bioactive lipid involved in coral defence’
R. Quinn, M. Vermeij, Aaron C. Hartmann, Inès Galtier D’Auriac +9 more
2016Proceedings of the Royal Society of London. Biological Sciences8 citations Open access
Semantic Scholar
Using viromes to predict novel immune proteins in non-model organisms
S. Quistad, Y. Lim, G. Silva, Craig E. Nelson +4 more
2016Proceedings of the Royal Society of London. Biological Sciences7 citations Open access
Semantic Scholar
Decoding diversity in a coral reef fish species complex with restricted range using metagenomic sequencing of gut contents
Beverly J French, Y. Lim, B. Zgliczynski, R. Edwards +2 more
2020Ecology and Evolution5 citations Open access
Semantic Scholar
Vector-based metagenomics for animal virus surveillance
T. Ng, D. Willner, C. Nilsson, Y. Lim +5 more
20104 citations Open access
Semantic Scholar
A Winogradsky-based culture system shows an association between microbial fermentation and cystic fibrosis exacerbation
R. Quinn, Katrine L. Whiteson, Y. Lim, P. Salamon +6 more
2014The ISME Journal2 citations Open access
Semantic Scholar
Central carbon metabolism switching in lytic versus temperate coral reef viral communities
Jacob Kelman, Meena Khan, C. Umunna, R. Brainard +28 more
2025bioRxiv0 citations Open access
Semantic Scholar
The Molecular and Microbial Microenvironments in Chronically Diseased Lungs
A. Melnik, Y. Vázquez-Baeza, A. Aksenov, E. Hyde +23 more
2019bioRxiv0 citations Open access
Semantic Scholar
Three Dimensional Cartography of Microbiome and Metabolome Data onto Radiological Images of the Human Lung
Neha Garg, Mingxun Wang, E. Hyde, R. D. da Silva +16 more
20180 citations
Semantic Scholar
Spatial a
Neha Garg, Yi Zeng, A. Edlund, A. Melnik +12 more
20160 citations
Semantic Scholar
Polymicrobial Infections in Cystic Fibrosis Lungs: The Need for Personalized Treatment
Y. Lim
20150 citations
Semantic Scholar
Linking genetic potential and active metabolism in cystic fibrosis microbial communities to find biomarkers of disease state
Katrine L. Whiteson, Y. Lim, R. Quinn, S. Meinardi +3 more
20140 citations
Semantic Scholar
with Cystic Fibrosis Analysis of Sputum Samples from Patients Clinical Insights from Metagenomic
J. Clin, Matthew Haynes, Mike Furlan, Y. Lim +1 more
20140 citations
Semantic Scholar
Rapid Communication Case Studies of the Spatial Heterogeneity of DNA Viruses in the Cystic Fibrosis Lung
D. Willner, Matthew Haynes, Mike Furlan, N. Hanson +7 more
20120 citations
Semantic Scholar
Metagenomic analysis of viruses in reclaimed wateremi
K. Rosario, C. Nilsson, Y. Lim, Y. Ruan +1 more
20090 citations
Semantic Scholar

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Katrine L. Whiteson×10

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S. Sandin — researcher profile on SciRah

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Mike Furlan — researcher profile on SciRah

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L. W. Kelly — researcher profile on SciRah