Deep neural network improves the estimation of polygenic risk scores for breast cancer
Badré, Adrien, Zhang, Li, Muchero, Wellington, Reynolds, Justin C, Pan, Chongle
Published in Journal of human genetics (01.04.2021)
Published in Journal of human genetics (01.04.2021)
Get full text
Journal Article
Sigma: strain-level inference of genomes from metagenomic analysis for biosurveillance
Ahn, Tae-Hyuk, Chai, Juanjuan, Pan, Chongle
Published in Bioinformatics (Oxford, England) (15.01.2015)
Published in Bioinformatics (Oxford, England) (15.01.2015)
Get full text
Journal Article
MIDAS: A Database-Searching Algorithm for Metabolite Identification in Metabolomics
Wang, Yingfeng, Kora, Guruprasad, Bowen, Benjamin P, Pan, Chongle
Published in Analytical chemistry (Washington) (07.10.2014)
Published in Analytical chemistry (Washington) (07.10.2014)
Get full text
Journal Article
Systematic Comparison of Label-Free, Metabolic Labeling, and Isobaric Chemical Labeling for Quantitative Proteomics on LTQ Orbitrap Velos
Li, Zhou, Adams, Rachel M, Chourey, Karuna, Hurst, Gregory B, Hettich, Robert L, Pan, Chongle
Published in Journal of proteome research (02.03.2012)
Published in Journal of proteome research (02.03.2012)
Get full text
Journal Article
Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil
Yao, Qiuming, Li, Zhou, Song, Yang, Wright, S Joseph, Guo, Xuan, Tringe, Susannah G, Tfaily, Malak M, Paša-Tolić, Ljiljana, Hazen, Terry C, Turner, Benjamin L, Mayes, Melanie A, Pan, Chongle
Published in Nature ecology & evolution (01.03.2018)
Published in Nature ecology & evolution (01.03.2018)
Get full text
Journal Article
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome
McNulty, Nathan P, Wu, Meng, Erickson, Alison R, Pan, Chongle, Erickson, Brian K, Martens, Eric C, Pudlo, Nicholas A, Muegge, Brian D, Henrissat, Bernard, Hettich, Robert L, Gordon, Jeffrey I
Published in PLoS biology (01.08.2013)
Published in PLoS biology (01.08.2013)
Get full text
Journal Article
Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease
Erickson, Alison R, Cantarel, Brandi L, Lamendella, Regina, Darzi, Youssef, Mongodin, Emmanuel F, Pan, Chongle, Shah, Manesh, Halfvarson, Jonas, Tysk, Curt, Henrissat, Bernard, Raes, Jeroen, Verberkmoes, Nathan C, Fraser, Claire M, Hettich, Robert L, Jansson, Janet K
Published in PloS one (28.11.2012)
Published in PloS one (28.11.2012)
Get full text
Journal Article
Impact of Pretreated Switchgrass and Biomass Carbohydrates on Clostridium thermocellum ATCC 27405 Cellulosome Composition: A Quantitative Proteomic Analysis
Raman, Babu, Pan, Chongle, Hurst, Gregory B, Rodriguez, Miguel Jr, McKeown, Catherine K, Lankford, Patricia K, Samatova, Nagiza F, Mielenz, Jonathan R
Published in PloS one (22.04.2009)
Published in PloS one (22.04.2009)
Get full text
Journal Article
MetaLP: An integrative linear programming method for protein inference in metaproteomics
Feng, Shichao, Ji, Hong-Long, Wang, Huan, Zhang, Bailu, Sterzenbach, Ryan, Pan, Chongle, Guo, Xuan
Published in PLoS computational biology (01.10.2022)
Published in PLoS computational biology (01.10.2022)
Get full text
Journal Article
Islet autoantibody seroconversion in type-1 diabetes is associated with metagenome-assembled genomes in infant gut microbiomes
Zhang, Li, Jonscher, Karen R, Zhang, Zuyuan, Xiong, Yi, Mueller, Ryan S, Friedman, Jacob E, Pan, Chongle
Published in Nature communications (21.06.2022)
Published in Nature communications (21.06.2022)
Get full text
Journal Article
Epidural anesthesia needle guidance by forward-view endoscopic optical coherence tomography and deep learning
Wang, Chen, Calle, Paul, Reynolds, Justin C, Ton, Sam, Yan, Feng, Donaldson, Anthony M, Ladymon, Avery D, Roberts, Pamela R, de Armendi, Alberto J, Fung, Kar-Ming, Shettar, Shashank S, Pan, Chongle, Tang, Qinggong
Published in Scientific reports (31.05.2022)
Published in Scientific reports (31.05.2022)
Get full text
Journal Article
Microbial Community Structure-Function Relationships in Yaquina Bay Estuary Reveal Spatially Distinct Carbon and Nitrogen Cycling Capacities
Kieft, Brandon, Li, Zhou, Bryson, Samuel, Crump, Byron C, Hettich, Robert, Pan, Chongle, Mayali, Xavier, Mueller, Ryan S
Published in Frontiers in microbiology (14.06.2018)
Published in Frontiers in microbiology (14.06.2018)
Get full text
Journal Article
Cross-Feedings, Competition, and Positive and Negative Synergies in a Four-Species Synthetic Community for Anaerobic Degradation of Cellulose to Methane
Wang, Dongyu, Hunt, Kristopher A, Candry, Pieter, Tao, Xuanyu, Wofford, Neil Q, Zhou, Jizhong, McInerney, Michael J, Stahl, David A, Tanner, Ralph S, Zhou, Aifen, Winkler, Mari, Pan, Chongle
Published in mBio (25.04.2023)
Published in mBio (25.04.2023)
Get full text
Journal Article
Phenylpropanoid Biosynthesis Gene Expression Precedes Lignin Accumulation During Shoot Development in Lowland and Upland Switchgrass Genotypes
Saha, Prasenjit, Lin, Fan, Thibivilliers, Sandra, Xiong, Yi, Pan, Chongle, Bartley, Laura E.
Published in Frontiers in plant science (09.08.2021)
Published in Frontiers in plant science (09.08.2021)
Get full text
Journal Article
Integrated proteomics and metabolomics suggests symbiotic metabolism and multimodal regulation in a fungal‐endobacterial system
Li, Zhou, Yao, Qiuming, Dearth, Stephen P., Entler, Matthew R., Castro Gonzalez, Hector F., Uehling, Jessie K., Vilgalys, Rytas J., Hurst, Gregory B., Campagna, Shawn R., Labbé, Jessy L., Pan, Chongle
Published in Environmental microbiology (01.03.2017)
Published in Environmental microbiology (01.03.2017)
Get full text
Journal Article