Greene CS - Search Results

1

ADAGE signature analysis: differential expression analysis with data-defined gene sets.

Tan J, Huyck M, Hu D, Zelaya RA, Hogan DA, Greene CS. Tan J, et al. Among authors: greene cs. BMC Bioinformatics. 2017 Nov 22;18(1):512. doi: 10.1186/s12859-017-1905-4. BMC Bioinformatics. 2017. PMID: 29166858 Free PMC article.

2

Big data bioinformatics.

Greene CS, Tan J, Ung M, Moore JH, Cheng C. Greene CS, et al. J Cell Physiol. 2014 Dec;229(12):1896-900. doi: 10.1002/jcp.24662. J Cell Physiol. 2014. PMID: 24799088 Free PMC article. Review.

3

Unsupervised feature construction and knowledge extraction from genome-wide assays of breast cancer with denoising autoencoders.

Tan J, Ung M, Cheng C, Greene CS. Tan J, et al. Among authors: greene cs. Pac Symp Biocomput. 2015;20:132-43. Pac Symp Biocomput. 2015. PMID: 25592575 Free PMC article.

4

Understanding multicellular function and disease with human tissue-specific networks.

Greene CS, Krishnan A, Wong AK, Ricciotti E, Zelaya RA, Himmelstein DS, Zhang R, Hartmann BM, Zaslavsky E, Sealfon SC, Chasman DI, FitzGerald GA, Dolinski K, Grosser T, Troyanskaya OG. Greene CS, et al. Nat Genet. 2015 Jun;47(6):569-76. doi: 10.1038/ng.3259. Epub 2015 Apr 27. Nat Genet. 2015. PMID: 25915600 Free PMC article.

5

Leveraging global gene expression patterns to predict expression of unmeasured genes.

Rudd J, Zelaya RA, Demidenko E, Goode EL, Greene CS, Doherty JA. Rudd J, et al. Among authors: greene cs. BMC Genomics. 2015 Dec 15;16:1065. doi: 10.1186/s12864-015-2250-5. BMC Genomics. 2015. PMID: 26666289 Free PMC article.

6

COMPUTATIONAL APPROACHES TO STUDY MICROBES AND MICROBIOMES.

Greene CS, Foster JA, Stanton BA, Hogan DA, Bromberg Y. Greene CS, et al. Pac Symp Biocomput. 2016;21:557-67. Pac Symp Biocomput. 2016. PMID: 26776218 Free PMC article.

7

Cross-platform normalization of microarray and RNA-seq data for machine learning applications.

Thompson JA, Tan J, Greene CS. Thompson JA, et al. Among authors: greene cs. PeerJ. 2016 Jan 21;4:e1621. doi: 10.7717/peerj.1621. eCollection 2016. PeerJ. 2016. PMID: 26844019 Free PMC article.

8

ADAGE-Based Integration of Publicly Available Pseudomonas aeruginosa Gene Expression Data with Denoising Autoencoders Illuminates Microbe-Host Interactions.

Tan J, Hammond JH, Hogan DA, Greene CS. Tan J, et al. Among authors: greene cs. mSystems. 2016 Jan 19;1(1):e00025-15. doi: 10.1128/mSystems.00025-15. eCollection 2016 Jan-Feb. mSystems. 2016. PMID: 27822512 Free PMC article.

9

Unsupervised Extraction of Stable Expression Signatures from Public Compendia with an Ensemble of Neural Networks.

Tan J, Doing G, Lewis KA, Price CE, Chen KM, Cady KC, Perchuk B, Laub MT, Hogan DA, Greene CS. Tan J, et al. Among authors: greene cs. Cell Syst. 2017 Jul 26;5(1):63-71.e6. doi: 10.1016/j.cels.2017.06.003. Epub 2017 Jul 12. Cell Syst. 2017. PMID: 28711280 Free PMC article.

10

Functional network community detection can disaggregate and filter multiple underlying pathways in enrichment analyses.

Harrington LX, Way GP, Doherty JA, Greene CS. Harrington LX, et al. Among authors: greene cs. Pac Symp Biocomput. 2018;23:157-167. Pac Symp Biocomput. 2018. PMID: 29218878 Free PMC article.

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