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.
bioRxiv. 2023 Nov 17. PMID: 38014256
Other Positions
Instructor in Medicine
Medicine-Brigham and Women's Hospital
Harvard Medical School
Links
Bibliography
Adjustment of spurious correlations in co-expression measurements from RNA-Sequencing data.
Hsieh PH, Lopes-Ramos CM, Zucknick M, Sandve GK, Glass K, Kuijjer ML.
Bioinformatics. 2023 10 03. 39(10). PMID: 37802917
Gene regulatory Networks Reveal Sex Difference in Lung Adenocarcinoma.
Saha E, Guebila MB, Fanfani V, Fischer J, Shutta KH, Mandros P, DeMeo DL, Quackenbush J, Lopes-Ramos CM.
bioRxiv. 2023 Sep 24. PMID: 37790409
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.
Genome Biol. 2023 03 09. 24(1):45. PMID: 36894939
X chromosome associations with chronic obstructive pulmonary disease and related phenotypes: an X chromosome-wide association study.
Hayden LP, Hobbs BD, Busch R, Cho MH, Liu M, Lopes-Ramos CM, Lomas DA, Bakke P, Gulsvik A, Silverman EK, Crapo JD, Beaty TH, Laird NM, Lange C, DeMeo DL.
Respir Res. 2023 Feb 01. 24(1):38. PMID: 36726148
An online notebook resource for reproducible inference, analysis and publication of gene regulatory networks.
Ben Guebila M, Weighill D, Lopes-Ramos CM, Burkholz R, Pop RT, Palepu K, Shapoval M, Fagny M, Schlauch D, Glass K, Altenbuchinger M, Kuijjer ML, Platig J, Quackenbush J.
Nat Methods. 2022 05. 19(5):511-513. PMID: 35459940
GRAND: a database of gene regulatory network models across human conditions.
Ben Guebila M, Lopes-Ramos CM, Weighill D, Sonawane AR, Burkholz R, Shamsaei B, Platig J, Glass K, Kuijjer ML, Quackenbush J.
Nucleic Acids Res. 2022 01 07. 50(D1):D610-D621. PMID: 34508353
Regulatory Network of PD1 Signaling Is Associated with Prognosis in Glioblastoma Multiforme.
Lopes-Ramos CM, Belova T, Brunner TH, Ben Guebila M, Osorio D, Quackenbush J, Kuijjer ML.
Cancer Res. 2021 11 01. 81(21):5401-5412. PMID: 34493595
Gene regulatory network inference as relaxed graph matching
Weighill D, Ben Guebila M, Lopes-Ramos CM, Glass K, Quackenbush J, Platig J, Burkholz R.
Proceedings of the AAAI Conference on Artificial Intelligence. 2021. 11(35):10263-10272.
Gene regulatory network inference as relaxed graph matching.
Weighill D, Guebila MB, Lopes-Ramos C, Glass K, Quackenbush J, Platig J, Burkholz R.
Proc AAAI Conf Artif Intell. 2021 Feb. 35(11):10263-10272. PMID: 34707916