Taroni JN - Search Results

1

Integrative Analysis Identifies Candidate Tumor Microenvironment and Intracellular Signaling Pathways that Define Tumor Heterogeneity in NF1.

Banerjee J, Allaway RJ, Taroni JN, Baker A, Zhang X, Moon CI, Pratilas CA, Blakeley JO, Guinney J, Hirbe A, Greene CS, Gosline SJ. Banerjee J, et al. Among authors: taroni jn. Genes (Basel). 2020 Feb 21;11(2):226. doi: 10.3390/genes11020226. Genes (Basel). 2020. PMID: 32098059 Free PMC article.

2

Systems level analysis of systemic sclerosis shows a network of immune and profibrotic pathways connected with genetic polymorphisms.

Mahoney JM, Taroni J, Martyanov V, Wood TA, Greene CS, Pioli PA, Hinchcliff ME, Whitfield ML. Mahoney JM, et al. PLoS Comput Biol. 2015 Jan 8;11(1):e1004005. doi: 10.1371/journal.pcbi.1004005. eCollection 2015 Jan. PLoS Comput Biol. 2015. PMID: 25569146 Free PMC article.

3

A novel multi-network approach reveals tissue-specific cellular modulators of fibrosis in systemic sclerosis.

Taroni JN, Greene CS, Martyanov V, Wood TA, Christmann RB, Farber HW, Lafyatis RA, Denton CP, Hinchcliff ME, Pioli PA, Mahoney JM, Whitfield ML. Taroni JN, et al. Genome Med. 2017 Mar 23;9(1):27. doi: 10.1186/s13073-017-0417-1. Genome Med. 2017. PMID: 28330499 Free PMC article.

4

A Multimodal Strategy Used by a Large c-di-GMP Network.

Dahlstrom KM, Collins AJ, Doing G, Taroni JN, Gauvin TJ, Greene CS, Hogan DA, O'Toole GA. Dahlstrom KM, et al. Among authors: taroni jn. J Bacteriol. 2018 Mar 26;200(8):e00703-17. doi: 10.1128/JB.00703-17. Print 2018 Apr 15. J Bacteriol. 2018. PMID: 29311282 Free PMC article.

5

Metabolic pathways and immunometabolism in rare kidney diseases.

Grayson PC, Eddy S, Taroni JN, Lightfoot YL, Mariani L, Parikh H, Lindenmeyer MT, Ju W, Greene CS, Godfrey B, Cohen CD, Krischer J, Kretzler M, Merkel PA; Vasculitis Clinical Research Consortium, the European Renal cDNA Bank cohort, and the Nephrotic Syndrome Study Network. Grayson PC, et al. Among authors: taroni jn. Ann Rheum Dis. 2018 Aug;77(8):1226-1233. doi: 10.1136/annrheumdis-2017-212935. Epub 2018 May 3. Ann Rheum Dis. 2018. PMID: 29724730 Free PMC article.

6

MultiPLIER: A Transfer Learning Framework for Transcriptomics Reveals Systemic Features of Rare Disease.

Taroni JN, Grayson PC, Hu Q, Eddy S, Kretzler M, Merkel PA, Greene CS. Taroni JN, et al. Cell Syst. 2019 May 22;8(5):380-394.e4. doi: 10.1016/j.cels.2019.04.003. Cell Syst. 2019. PMID: 31121115 Free PMC article.

7

Macrophages in SHH subgroup medulloblastoma display dynamic heterogeneity that varies with treatment modality.

Dang MT, Gonzalez MV, Gaonkar KS, Rathi KS, Young P, Arif S, Zhai L, Alam Z, Devalaraja S, To TKJ, Folkert IW, Raman P, Rokita JL, Martinez D, Taroni JN, Shapiro JA, Greene CS, Savonen C, Mafra F, Hakonarson H, Curran T, Haldar M. Dang MT, et al. Among authors: taroni jn. Cell Rep. 2021 Mar 30;34(13):108917. doi: 10.1016/j.celrep.2021.108917. Cell Rep. 2021. PMID: 33789113 Free PMC article.

8

Ten simple rules for large-scale data processing.

Fungtammasan A, Lee A, Taroni J, Wheeler K, Chin CS, Davis S, Greene C. Fungtammasan A, et al. PLoS Comput Biol. 2022 Feb 10;18(2):e1009757. doi: 10.1371/journal.pcbi.1009757. eCollection 2022 Feb. PLoS Comput Biol. 2022. PMID: 35143491 Free PMC article. No abstract available.

9

GenomicSuperSignature facilitates interpretation of RNA-seq experiments through robust, efficient comparison to public databases.

Oh S, Geistlinger L, Ramos M, Blankenberg D, van den Beek M, Taroni JN, Carey VJ, Greene CS, Waldron L, Davis S. Oh S, et al. Among authors: taroni jn. Nat Commun. 2022 Jun 27;13(1):3695. doi: 10.1038/s41467-022-31411-3. Nat Commun. 2022. PMID: 35760813 Free PMC article.

10

Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously.

Foltz SM, Greene CS, Taroni JN. Foltz SM, et al. Among authors: taroni jn. Commun Biol. 2023 Feb 25;6(1):222. doi: 10.1038/s42003-023-04588-6. Commun Biol. 2023. PMID: 36841852 Free PMC article.

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