Cargando…

Integrating gene expression data into a genome-scale metabolic model to identify reprogramming during adaptive evolution

The development of a method for identifying latent reprogramming in gene expression data resulting from adaptive laboratory evolution (ALE) in response to genetic or environmental perturbations has been a challenge. In this study, a method called Metabolic Reprogramming Identifier (MRI), based on th...

Descripción completa

Detalles Bibliográficos
Autores principales:	Yazdanpanah, Shaghayegh, Motamedian, Ehsan, Shojaosadati, Seyed Abbas
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Public Library of Science 2023
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10547208/ https://www.ncbi.nlm.nih.gov/pubmed/37788289 http://dx.doi.org/10.1371/journal.pone.0292433

Ejemplares similares

Reconstruction of a generic genome-scale metabolic network for chicken: Investigating network connectivity and finding potential biomarkers
por: Salehabadi, Ehsan, et al.
Publicado: (2022)

Developing a metabolic model‐based fed‐batch feeding strategy for Pichia pastoris fermentation through fine‐tuning of the methanol utilization pathway
por: Boojari, Mohammad Amin, et al.
Publicado: (2023)

Investigation on metabolism of cisplatin resistant ovarian cancer using a genome scale metabolic model and microarray data
por: Motamedian, Ehsan, et al.
Publicado: (2015)

Data on the role of starch and ammonia in green synthesis of silver and iron oxide nanoparticles
por: Ghaseminezhad, Seyedeh Masumeh, et al.
Publicado: (2016)

ACBM: An Integrated Agent and Constraint Based Modeling Framework for Simulation of Microbial Communities
por: Karimian, Emadoddin, et al.
Publicado: (2020)

Mechanistic insights into bacterial metabolic reprogramming from omics-integrated genome-scale models
por: Hadadi, Noushin, et al.
Publicado: (2020)

Reconstruction of a regulated two-cell metabolic model to study biohydrogen production in a diazotrophic cyanobacterium Anabaena variabilis ATCC 29413
por: Malek Shahkouhi, Ali, et al.
Publicado: (2020)

Genome-Scale CRISPRa Screen Identifies Novel Factors for Cellular Reprogramming
por: Yang, Jian, et al.
Publicado: (2019)

Author Correction: Mechanistic insights into bacterial metabolic reprogramming from omics-integrated genome-scale models
por: Hadadi, Noushin, et al.
Publicado: (2020)

Elucidating the Reprograming of Colorectal Cancer Metabolism Using Genome-Scale Metabolic Modeling
por: Zhang, Cheng, et al.
Publicado: (2019)

Metabolic regulation boosts bioelectricity generation in Zymomonas mobilis microbial fuel cell, surpassing ethanol production
por: Ahmadpanah, Hananeh, et al.
Publicado: (2023)

A benchmark-driven approach to reconstruct metabolic networks for studying cancer metabolism
por: Jamialahmadi, Oveis, et al.
Publicado: (2019)

The effect of occlusogingival placement of clinical bracket points on the adaptation of a straight wire to the lingual arch form
por: Abdi, Amir Hossein, et al.
Publicado: (2018)

Maximizing Production of Human Interferon-γ in HCDC of Recombinant E. coli
por: Babaeipour, Valiollah, et al.
Publicado: (2013)

Mussel-Inspired Magnetic Nanoflowers as an Effective Nanozyme and Antimicrobial Agent for Biosensing and Catalytic Reduction of Organic Dyes
por: Mohammad, Mahsa, et al.
Publicado: (2020)

FTIR Investigation of Secondary Structure of Reteplase Inclusion Bodies Produced in Escherichia coli in Terms of Urea Concentration
por: Naeimipour, Sajjad, et al.
Publicado: (2020)

Integration of expression data in genome-scale metabolic network reconstructions
por: Blazier, Anna S., et al.
Publicado: (2012)

Methods for integration of transcriptomic data in genome-scale metabolic models
por: Kim, Min Kyung, et al.
Publicado: (2014)

Metabolic reprogramming consequences of sepsis: adaptations and contradictions
por: Liu, Jingjing, et al.
Publicado: (2022)

Role of bioactive magnetic nanoparticles in the prevention of wound pathogenic biofilm formation using smart nanocomposites
por: Eghbalifam, Naeimeh, et al.
Publicado: (2023)

Investigating ethanol production using the Zymomonas mobilis crude extract
por: Aminian, Amirhossein, et al.
Publicado: (2023)

Bio-removal of Heavy Metalsusing Iron-oxidizing Bacteria: A Novel Approach in Environmental Biotechnology
por: Farahani, Sareh, et al.
Publicado: (2020)

Challenges in experimental data integration within genome-scale metabolic models
por: Bourguignon, Pierre-Yves, et al.
Publicado: (2010)

Data-driven integration of genome-scale regulatory and metabolic network models
por: Imam, Saheed, et al.
Publicado: (2015)

The evolution of genome-scale models of cancer metabolism
por: Lewis, Nathan E., et al.
Publicado: (2013)

Optimization and Characterization of Aspirin Encapsulated Nano-liposomes
por: Khodayar, Samira, et al.
Publicado: (2018)

Pathophysiological Integration of Metabolic Reprogramming in Breast Cancer
por: Corchado-Cobos, Roberto, et al.
Publicado: (2022)

Application of a Nanoporous Metal Organic Framework Based on Iron Carboxylate as Drug Delivery System
por: Miri, Bahare, et al.
Publicado: (2018)

Enhancement of extracellular bispecific anti‐MUC1 nanobody expression in E. coli BL21 (DE3) by optimization of temperature and carbon sources through an autoinduction condition
por: Rezaei, Leila, et al.
Publicado: (2020)

Rapid generation of homogenous tumor spheroid microtissues in a scaffold-free platform for high-throughput screening of a novel combination nanomedicine
por: Abolhassani, Hossein, et al.
Publicado: (2023)

Integration of clinical data with a genome-scale metabolic model of the human adipocyte
por: Mardinoglu, Adil, et al.
Publicado: (2013)

Guided extraction of genome-scale metabolic models for the integration and analysis of omics data
por: Walakira, Andrew, et al.
Publicado: (2021)

Salmonella Reprograms Nucleotide Metabolism in Its Adaptation to Nitrosative Stress
por: Fitzsimmons, Liam F., et al.
Publicado: (2018)

Targeted Delivery of 5-fluorouracil with Monoclonal Antibody Modified Bovine Serum Albumin Nanoparticles
por: Fadaeian, Ghazal, et al.
Publicado: (2015)

Integration of metabolic databases for the reconstruction of genome-scale metabolic networks
por: Radrich, Karin, et al.
Publicado: (2010)

Screening of metabolic modulators identifies new strategies to target metabolic reprogramming in melanoma
por: Abildgaard, Cecilie, et al.
Publicado: (2021)

Integration of machine learning and genome-scale metabolic modeling identifies multi-omics biomarkers for radiation resistance
por: Lewis, Joshua E., et al.
Publicado: (2021)

A system-oriented strategy to enhance electron production of Synechocystis sp. PCC6803 in bio-photovoltaic devices: experimental and modeling insights
por: Firoozabadi, Hossein, et al.
Publicado: (2021)

Metabolic Determinants of Enzyme Evolution in a Genome-Scale Bacterial Metabolic Network
por: Aguilar-Rodríguez, José, et al.
Publicado: (2018)

Metabolic Reprogramming and Cell Adhesion in Acute Leukemia Adaptation to the CNS Niche
por: Sharma, Nitesh D., et al.
Publicado: (2021)

Cannot write session to /tmp/vufind_sessions/sess_d6a7k73d9cteiae0f2ju6188d9