Zampieri G - Search Results

1

Metatranscriptomics-guided genome-scale metabolic modeling of microbial communities.

Zampieri G, Campanaro S, Angione C, Treu L. Zampieri G, et al. Cell Rep Methods. 2023 Jan 6;3(1):100383. doi: 10.1016/j.crmeth.2022.100383. eCollection 2023 Jan 23. Cell Rep Methods. 2023. PMID: 36814842 Free PMC article.

2

Machine and deep learning meet genome-scale metabolic modeling.

Zampieri G, Vijayakumar S, Yaneske E, Angione C. Zampieri G, et al. PLoS Comput Biol. 2019 Jul 11;15(7):e1007084. doi: 10.1371/journal.pcbi.1007084. eCollection 2019 Jul. PLoS Comput Biol. 2019. PMID: 31295267 Free PMC article. Review.

3

A mechanism-aware and multiomic machine-learning pipeline characterizes yeast cell growth.

Culley C, Vijayakumar S, Zampieri G, Angione C. Culley C, et al. Among authors: zampieri g. Proc Natl Acad Sci U S A. 2020 Aug 4;117(31):18869-18879. doi: 10.1073/pnas.2002959117. Epub 2020 Jul 16. Proc Natl Acad Sci U S A. 2020. PMID: 32675233 Free PMC article.

4

Revealing metabolic mechanisms of interaction in the anaerobic digestion microbiome by flux balance analysis.

Basile A, Campanaro S, Kovalovszki A, Zampieri G, Rossi A, Angelidaki I, Valle G, Treu L. Basile A, et al. Among authors: zampieri g. Metab Eng. 2020 Nov;62:138-149. doi: 10.1016/j.ymben.2020.08.013. Epub 2020 Sep 6. Metab Eng. 2020. PMID: 32905861

5

Multimodal regularized linear models with flux balance analysis for mechanistic integration of omics data.

Magazzù G, Zampieri G, Angione C. Magazzù G, et al. Among authors: zampieri g. Bioinformatics. 2021 Oct 25;37(20):3546-3552. doi: 10.1093/bioinformatics/btab324. Bioinformatics. 2021. PMID: 33974036

6

Genome-scale metabolic modelling of SARS-CoV-2 in cancer cells reveals an increased shift to glycolytic energy production.

Yaneske E, Zampieri G, Bertoldi L, Benvenuto G, Angione C. Yaneske E, et al. Among authors: zampieri g. FEBS Lett. 2021 Sep;595(18):2350-2365. doi: 10.1002/1873-3468.14180. Epub 2021 Sep 5. FEBS Lett. 2021. PMID: 34409594 Free PMC article.

7

Integrating genome-scale metabolic modelling and transfer learning for human gene regulatory network reconstruction.

Pio G, Mignone P, Magazzù G, Zampieri G, Ceci M, Angione C. Pio G, et al. Among authors: zampieri g. Bioinformatics. 2022 Jan 3;38(2):487-493. doi: 10.1093/bioinformatics/btab647. Bioinformatics. 2022. PMID: 34499112

8

KEMET - A python tool for KEGG Module evaluation and microbial genome annotation expansion.

Palù M, Basile A, Zampieri G, Treu L, Rossi A, Morlino MS, Campanaro S. Palù M, et al. Among authors: zampieri g. Comput Struct Biotechnol J. 2022 Mar 26;20:1481-1486. doi: 10.1016/j.csbj.2022.03.015. eCollection 2022. Comput Struct Biotechnol J. 2022. PMID: 35422973 Free PMC article.

9

Genome Sequencing Variations in the Octodon degus, an Unconventional Natural Model of Aging and Alzheimer's Disease.

Hurley MJ, Urra C, Garduno BM, Bruno A, Kimbell A, Wilkinson B, Marino-Buslje C, Ezquer M, Ezquer F, Aburto PF, Poulin E, Vasquez RA, Deacon R, Avila A, Altimiras F, Whitney Vanderklish P, Zampieri G, Angione C, Constantino G, Holmes TC, Coba MP, Xu X, Cogram P. Hurley MJ, et al. Among authors: zampieri g. Front Aging Neurosci. 2022 Jun 30;14:894994. doi: 10.3389/fnagi.2022.894994. eCollection 2022. Front Aging Neurosci. 2022. PMID: 35860672 Free PMC article.

10

Integrating metagenomic binning with flux balance analysis to unravel syntrophies in anaerobic CO₂ methanation.

De Bernardini N, Basile A, Zampieri G, Kovalovszki A, De Diego Diaz B, Offer E, Wongfaed N, Angelidaki I, Kougias PG, Campanaro S, Treu L. De Bernardini N, et al. Among authors: zampieri g. Microbiome. 2022 Aug 3;10(1):117. doi: 10.1186/s40168-022-01311-1. Microbiome. 2022. PMID: 35918706 Free PMC article.

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