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Page 1
Reproducible processing of TCGA regulatory networks.
Fanfani V, Shutta KH, Mandros P, Fischer J, Saha E, Micheletti S, Chen C, Ben Guebila M, Lopes-Ramos CM, Quackenbush J. Fanfani V, et al. Among authors: lopes ramos cm. bioRxiv [Preprint]. 2024 Nov 7:2024.11.05.622163. doi: 10.1101/2024.11.05.622163. bioRxiv. 2024. PMID: 39574772 Free PMC article. Preprint.
Selective loss of Y chromosomes in lung adenocarcinoma modulates the tumor immune environment through cancer/testis antigens.
Fischer J, Shutta KH, Chen C, Fanfani V, Saha E, Mandros P, Ben Guebila M, Xiu J, Nieva J, Liu S, Uprety D, Spetzler D, Lopes-Ramos CM, DeMeo D, Quackenbush J. Fischer J, et al. Among authors: lopes ramos cm. bioRxiv [Preprint]. 2024 Sep 22:2024.09.19.613876. doi: 10.1101/2024.09.19.613876. bioRxiv. 2024. PMID: 39345481 Free PMC article. Preprint.
Bayesian inference of sample-specific coexpression networks.
Saha E, Fanfani V, Mandros P, Ben Guebila M, Fischer J, Shutta KH, DeMeo DL, Lopes-Ramos CM, Quackenbush J. Saha E, et al. Among authors: lopes ramos cm. Genome Res. 2024 Oct 11;34(9):1397-1410. doi: 10.1101/gr.279117.124. Genome Res. 2024. PMID: 39134413 Free PMC article.
Gene regulatory networks reveal sex difference in lung adenocarcinoma.
Saha E, Ben Guebila M, Fanfani V, Fischer J, Shutta KH, Mandros P, DeMeo DL, Quackenbush J, Lopes-Ramos CM. Saha E, et al. Among authors: lopes ramos cm. Biol Sex Differ. 2024 Aug 6;15(1):62. doi: 10.1186/s13293-024-00634-y. Biol Sex Differ. 2024. PMID: 39107837 Free PMC article.
Sex-biased Regulation of Extracellular Matrix Genes in COPD.
Lopes-Ramos CM, Shutta KH, Ryu MH, Huang Y, Saha E, Ziniti J, Chase R, Hobbs BD, Yun JH, Castaldi P, Hersh CP, Glass K, Silverman EK, Quackenbush J, DeMeo DL. Lopes-Ramos CM, et al. Am J Respir Cell Mol Biol. 2024 Aug 5. doi: 10.1165/rcmb.2024-0226OC. Online ahead of print. Am J Respir Cell Mol Biol. 2024. PMID: 39102858
The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks.
Ben Guebila M, Wang T, Lopes-Ramos CM, Fanfani V, Weighill D, Burkholz R, Schlauch D, Paulson JN, Altenbuchinger M, Shutta KH, Sonawane AR, Lim J, Calderer G, van IJzendoorn DGP, Morgan D, Marin A, Chen CY, Song Q, Saha E, DeMeo DL, Padi M, Platig J, Kuijjer ML, Glass K, Quackenbush J. Ben Guebila M, et al. Among authors: lopes ramos cm. Genome Biol. 2023 Mar 9;24(1):45. doi: 10.1186/s13059-023-02877-1. Genome Biol. 2023. PMID: 36894939 Free PMC article.
30 results