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21 results

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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: ben guebila m. 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: ben guebila m. bioRxiv [Preprint]. 2024 Sep 22:2024.09.19.613876. doi: 10.1101/2024.09.19.613876. bioRxiv. 2024. PMID: 39345481 Free PMC article. Preprint.
Spatial Cellular Networks from omics data with SpaCeNet.
Schrod S, Lück N, Lohmayer R, Solbrig S, Völkl D, Wipfler T, Shutta KH, Ben Guebila M, Schäfer A, Beißbarth T, Zacharias HU, Oefner PJ, Quackenbush J, Altenbuchinger M. Schrod S, et al. Among authors: ben guebila m. Genome Res. 2024 Oct 11;34(9):1371-1383. doi: 10.1101/gr.279125.124. Genome Res. 2024. PMID: 39231609
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: ben guebila m. 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: ben guebila m. 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.
Bayesian Optimized sample-specific Networks Obtained By Omics data (BONOBO).
Saha E, Fanfani V, Mandros P, Ben-Guebila M, Fischer J, Hoff-Shutta K, Glass K, DeMeo DL, Lopes-Ramos C, Quackenbush J. Saha E, et al. Among authors: ben guebila m. bioRxiv [Preprint]. 2023 Nov 17:2023.11.16.567119. doi: 10.1101/2023.11.16.567119. bioRxiv. 2023. Update in: Genome Res. 2024 Oct 11;34(9):1397-1410. doi: 10.1101/gr.279117.124 PMID: 38014256 Free PMC article. Updated. Preprint.
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. Genome Biol. 2023 Mar 9;24(1):45. doi: 10.1186/s13059-023-02877-1. Genome Biol. 2023. PMID: 36894939 Free PMC article.
Predicting genotype-specific gene regulatory networks.
Weighill D, Ben Guebila M, Glass K, Quackenbush J, Platig J. Weighill D, et al. Among authors: ben guebila m. Genome Res. 2022 Mar;32(3):524-533. doi: 10.1101/gr.275107.120. Epub 2022 Feb 22. Genome Res. 2022. PMID: 35193937 Free PMC article.
21 results