R01 CA158472/CA/NCI NIH HHS/United States[Grant Number] - Search Results

Year	Number of Results
2012	2
2013	4
2014	5
2015	3
2016	3
2017	2
2018	3
2019	3
2020	2
2021	3
2022	2
2023	1
2024	0

1

A workflow to study mechanistic indicators for driver gene prediction with Moonlight.

Nourbakhsh M, Saksager A, Tom N, Chen XS, Colaprico A, Olsen C, Tiberti M, Papaleo E. Nourbakhsh M, et al. Brief Bioinform. 2023 Sep 20;24(5):bbad274. doi: 10.1093/bib/bbad274. Brief Bioinform. 2023. PMID: 37551622

2

MethReg: estimating the regulatory potential of DNA methylation in gene transcription.

Silva TC, Young JI, Martin ER, Chen XS, Wang L. Silva TC, et al. Nucleic Acids Res. 2022 May 20;50(9):e51. doi: 10.1093/nar/gkac030. Nucleic Acids Res. 2022. PMID: 35100398 Free PMC article.

3

PathwayMultiomics: An R Package for Efficient Integrative Analysis of Multi-Omics Datasets With Matched or Un-matched Samples.

Odom GJ, Colaprico A, Silva TC, Chen XS, Wang L. Odom GJ, et al. Front Genet. 2021 Dec 22;12:783713. doi: 10.3389/fgene.2021.783713. eCollection 2021. Front Genet. 2021. PMID: 35003218 Free PMC article.

4

Multi-omics analysis identifies therapeutic vulnerabilities in triple-negative breast cancer subtypes.

Lehmann BD, Colaprico A, Silva TC, Chen J, An H, Ban Y, Huang H, Wang L, James JL, Balko JM, Gonzalez-Ericsson PI, Sanders ME, Zhang B, Pietenpol JA, Chen XS. Lehmann BD, et al. Nat Commun. 2021 Nov 1;12(1):6276. doi: 10.1038/s41467-021-26502-6. Nat Commun. 2021. PMID: 34725325 Free PMC article.

5

A SMAD4-modulated gene profile predicts disease-free survival in stage II and III colorectal cancer.

Szeglin BC, Wu C, Marco MR, Park HS, Zhang Z, Zhang B, Garcia-Aguilar J, Beauchamp RD, Chen XS, Smith JJ. Szeglin BC, et al. Cancer Rep (Hoboken). 2022 Jan;5(1):e1423. doi: 10.1002/cnr2.1423. Epub 2021 Jun 10. Cancer Rep (Hoboken). 2022. PMID: 34114372 Free PMC article.

6

PathwayPCA: an R/Bioconductor Package for Pathway Based Integrative Analysis of Multi-Omics Data.

Odom GJ, Ban Y, Colaprico A, Liu L, Silva TC, Sun X, Pico AR, Zhang B, Wang L, Chen X. Odom GJ, et al. Proteomics. 2020 Nov;20(21-22):e1900409. doi: 10.1002/pmic.201900409. Epub 2020 Jul 2. Proteomics. 2020. PMID: 32430990 Free PMC article.

7

Interpreting pathways to discover cancer driver genes with Moonlight.

Colaprico A, Olsen C, Bailey MH, Odom GJ, Terkelsen T, Silva TC, Olsen AV, Cantini L, Zinovyev A, Barillot E, Noushmehr H, Bertoli G, Castiglioni I, Cava C, Bontempi G, Chen XS, Papaleo E. Colaprico A, et al. Nat Commun. 2020 Jan 3;11(1):69. doi: 10.1038/s41467-019-13803-0. Nat Commun. 2020. PMID: 31900418 Free PMC article.

8

coMethDMR: accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies with continuous phenotypes.

Gomez L, Odom GJ, Young JI, Martin ER, Liu L, Chen X, Griswold AJ, Gao Z, Zhang L, Wang L. Gomez L, et al. Nucleic Acids Res. 2019 Sep 26;47(17):e98. doi: 10.1093/nar/gkz590. Nucleic Acids Res. 2019. PMID: 31291459 Free PMC article.

9

SMAD4 Loss in Colorectal Cancer Patients Correlates with Recurrence, Loss of Immune Infiltrate, and Chemoresistance.

Wasserman I, Lee LH, Ogino S, Marco MR, Wu C, Chen X, Datta J, Sadot E, Szeglin B, Guillem JG, Paty PB, Weiser MR, Nash GM, Saltz L, Barlas A, Manova-Todorova K, Uppada SPB, Elghouayel AE, Ntiamoah P, Glickman JN, Hamada T, Kosumi K, Inamura K, Chan AT, Nishihara R, Cercek A, Ganesh K, Kemeny NE, Dhawan P, Yaeger R, Sawyers CL, Garcia-Aguilar J, Giannakis M, Shia J, Smith JJ. Wasserman I, et al. Clin Cancer Res. 2019 Mar 15;25(6):1948-1956. doi: 10.1158/1078-0432.CCR-18-1726. Epub 2018 Dec 26. Clin Cancer Res. 2019. PMID: 30587545 Free PMC article.

10

An evaluation of supervised methods for identifying differentially methylated regions in Illumina methylation arrays.

Mallik S, Odom GJ, Gao Z, Gomez L, Chen X, Wang L. Mallik S, et al. Brief Bioinform. 2019 Nov 27;20(6):2224-2235. doi: 10.1093/bib/bby085. Brief Bioinform. 2019. PMID: 30239597 Free PMC article. Review.

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