| Big data bioinformatics CS Greene, J Tan, M Ung, JH Moore, C Cheng Journal of cellular physiology 229 (12), 1896-1900, 2014 | 255 | 2014 |
| Unsupervised feature construction and knowledge extraction from genome-wide assays of breast cancer with denoising autoencoders J Tan, M Ung, C Cheng, CS Greene Pacific symposium on biocomputing co-chairs, 132-143, 2014 | 172 | 2014 |
| Adage-based integration of publicly available pseudomonas aeruginosa gene expression data with denoising autoencoders illuminates microbe-host interactions J Tan, JH Hammond, DA Hogan, CS Greene MSystems 1 (1), 10.1128/msystems. 00025-15, 2016 | 114 | 2016 |
| A haploid genetics toolbox for Arabidopsis thaliana M Ravi, MPA Marimuthu, EH Tan, S Maheshwari, IM Henry, ... Nature communications 5 (1), 5334, 2014 | 109 | 2014 |
| Unsupervised extraction of stable expression signatures from public compendia with an ensemble of neural networks J Tan, G Doing, KA Lewis, CE Price, KM Chen, KC Cady, B Perchuk, ... Cell systems 5 (1), 63-71. e6, 2017 | 92* | 2017 |
| Cross-platform normalization of microarray and RNA-seq data for machine learning applications JA Thompson, J Tan, CS Greene PeerJ 4, e1621, 2016 | 89 | 2016 |
| Rapid rule compaction strategies for global knowledge discovery in a supervised learning classifier system J Tan, J Moore, R Urbanowicz Artificial Life Conference Proceedings, 110-117, 2013 | 38 | 2013 |
| Synthetic glycans control gut microbiome structure and mitigate colitis in mice AC Tolonen, N Beauchemin, C Bayne, L Li, J Tan, J Lee, BM Meehan, ... Nature communications 13 (1), 1244, 2022 | 35 | 2022 |
| High-resolution temporal profiling of the human gut microbiome reveals consistent and cascading alterations in response to dietary glycans R Creswell, J Tan, JW Leff, B Brooks, MA Mahowald, R Thieroff-Ekerdt, ... Genome Medicine 12, 1-16, 2020 | 20 | 2020 |
| ADAGE signature analysis: differential expression analysis with data-defined gene sets J Tan, M Huyck, D Hu, RA Zelaya, DA Hogan, CS Greene Bmc Bioinformatics 18, 1-15, 2017 | 20 | 2017 |
| PathCORE-T: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia KM Chen, J Tan, GP Way, G Doing, DA Hogan, CS Greene BioData Mining 11, 1-20, 2018 | 15 | 2018 |
| Microbiome metabolic therapies reduce microbiota-associated ammonia in ex vivo fecal samples from healthy subjects and patients with minimal hepatic encephalopathy and … J Bajaj, K Miller, J Tan, J Lawrence, R Mittleman, B Meehan The digital international liver Congress™, 2020 | 3 | 2020 |
| KB174 Reduces Relative Abundance of Multidrug Resistant (MDR) Enterobacteriaceae in Fecal Samples From Patients With Cirrhosis in an Ex Vivo Assay JS Bajaj, K Miller, J Lawrence, J Tan, NA Palma, G LeBlanc, ... Poster presented at: The Digital International Liver Congress, 2020 | 1 | 2020 |
| Time-point specific weighting improves coexpression networks from time-course experiments J Tan, GD Grant, ML Whitfield, CS Greene Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics …, 2013 | 1 | 2013 |
| Modulation of the Gut Microbiome by Novel Synthetic Glycans for the Production of Propionate and the Reduction of Cardiometabolic Risk Factors YA Millet, J Meisner, J Tan, A Jose, E Humphries, KJ Miller, C Bayne, ... bioRxiv, 2022.04. 04.487010, 2022 | | 2022 |
| Community Shift in the Gut Microbiome is a Potential Mechanism for Reduction in Gut Microbiota-Associated Ammonia by the Novel Synthetic Glycan, KB174, in Patients with Well … J Lawrence, Y Zheng, J Tan, NA Palma, T Bransford, M Wingertzahn HEPATOLOGY 72, 368A-368A, 2020 | | 2020 |
| KB39, A NOVEL SYNTHETIC GLYCAN MODULATING THE GUT MICROBIOME, DECREASES FATTY LIVER AND ATHEROSCLEROSIS IN DIET-INDUCED MURINE MODELS OF NON-ALCOHOLIC FATTY LIVER AND … Y Millet, J Tan, J Meisner, A Jose, E Humphries, CM Konipnicki, L Harvey, ... HEPATOLOGY 72, 372A-372A, 2020 | | 2020 |
| KB174 reduces relative abundance of multidrug resistance (MDR) enterobacteriaceae in fecal samples from patients with cirrhosis in an ex vivo test system JS Bajaj, K Miller, J Lawrence, J Tan, N Palma, G LeBlanc, T Yatsunenko Journal of Hepatology 73, S722, 2020 | | 2020 |
| Unsupervised Discovery of Biological Features From Gene Expression Data J Tan Dartmouth College, 2017 | | 2017 |
