Metabolic function-based normalization improves transcriptome data-driven reduction of genome-scale metabolic models

por Jalili, Mahdi, Scharm, Martin, Wolkenhauer, Olaf, Salehzadeh-Yazdi, Ali
Publicado 2023

Controllability in Cancer Metabolic Networks According to Drug Targets as Driver Nodes

por Asgari, Yazdan, Salehzadeh-Yazdi, Ali, Schreiber, Falk, Masoudi-Nejad, Ali
Publicado 2013

Computational Analysis of Reciprocal Association of Metabolism and Epigenetics in the Budding Yeast: A Genome-Scale Metabolic Model (GSMM) Approach

por Salehzadeh-Yazdi, Ali, Asgari, Yazdan, Saboury, Ali Akbar, Masoudi-Nejad, Ali
Publicado 2014

Exploring the Metabolic Heterogeneity of Cancers: A Benchmark Study of Context-Specific Models

por Jalili, Mahdi, Scharm, Martin, Wolkenhauer, Olaf, Damaghi, Mehdi, Salehzadeh-Yazdi, Ali
Publicado 2021

Meta-Analysis of Gene Expression Profiles in Acute Promyelocytic Leukemia Reveals Involved Pathways

por Jalili, Mahdi, Salehzadeh-Yazdi, Ali, Mohammadi, Saeed, Yaghmaie, Marjan, Ghavamzadeh, Ardeshir, Alimoghaddam, Kamran
Publicado 2017

Omics Integration Analyses Reveal the Early Evolution of Malignancy in Breast Cancer

por Sarhadi, Shamim, Salehzadeh-Yazdi, Ali, Damaghi, Mehdi, Zarghami, Nosratollah, Wolkenhauer, Olaf, Hosseini, Hedayatollah
Publicado 2020

CytoKavosh: A Cytoscape Plug-In for Finding Network Motifs in Large Biological Networks

por Masoudi-Nejad, Ali, Ansariola, Mitra, Razaghi Moghadam Kashani, Zahra, Salehzadeh-Yazdi, Ali, Khakabimamaghani, Sahand
Publicado 2012

Comprehensive functional enrichment analysis of male infertility

por Razavi, Seyed Morteza, Sabbaghian, Marjan, Jalili, Mahdi, Divsalar, Adeleh, Wolkenhauer, Olaf, Salehzadeh-Yazdi, Ali
Publicado 2017

Evolution of computational models in BioModels Database and the Physiome Model Repository

por Scharm, Martin, Gebhardt, Tom, Touré, Vasundra, Bagnacani, Andrea, Salehzadeh-Yazdi, Ali, Wolkenhauer, Olaf, Waltemath, Dagmar
Publicado 2018

A Metabolic Model of Intestinal Secretions: The Link between Human Microbiota and Colorectal Cancer Progression

por Salahshouri, Pejman, Emadi-Baygi, Modjtaba, Jalili, Mahdi, Khan, Faiz M., Wolkenhauer, Olaf, Salehzadeh-Yazdi, Ali
Publicado 2021

CentiServer: A Comprehensive Resource, Web-Based Application and R Package for Centrality Analysis

por Jalili, Mahdi, Salehzadeh-Yazdi, Ali, Asgari, Yazdan, Arab, Seyed Shahriar, Yaghmaie, Marjan, Ghavamzadeh, Ardeshir, Alimoghaddam, Kamran
Publicado 2015

Evolution of Centrality Measurements for the Detection of Essential Proteins in Biological Networks

por Jalili, Mahdi, Salehzadeh-Yazdi, Ali, Gupta, Shailendra, Wolkenhauer, Olaf, Yaghmaie, Marjan, Resendis-Antonio, Osbaldo, Alimoghaddam, Kamran
Publicado 2016

A systematic survey of centrality measures for protein-protein interaction networks

por Ashtiani, Minoo, Salehzadeh-Yazdi, Ali, Razaghi-Moghadam, Zahra, Hennig, Holger, Wolkenhauer, Olaf, Mirzaie, Mehdi, Jafari, Mohieddin
Publicado 2018

Computational Models for Clinical Applications in Personalized Medicine—Guidelines and Recommendations for Data Integration and Model Validation

por Collin, Catherine Bjerre, Gebhardt, Tom, Golebiewski, Martin, Karaderi, Tugce, Hillemanns, Maximilian, Khan, Faiz Muhammad, Salehzadeh-Yazdi, Ali, Kirschner, Marc, Krobitsch, Sylvia, Kuepfer, Lars
Publicado 2022

Enzyme-Constrained Models and Omics Analysis of Streptomyces coelicolor Reveal Metabolic Changes that Enhance Heterologous Production

por Sulheim, Snorre, Kumelj, Tjaša, van Dissel, Dino, Salehzadeh-Yazdi, Ali, Du, Chao, van Wezel, Gilles P., Nieselt, Kay, Almaas, Eivind, Wentzel, Alexander, Kerkhoven, Eduard J.
Publicado 2020

Towards biomarkers for outcomes after pancreatic ductal adenocarcinoma and ischaemic stroke, with focus on (co)-morbidity and ageing/cellular senescence (SASKit): protocol for a pr...

por Henze, Larissa, Walter, Uwe, Murua Escobar, Hugo, Junghanss, Christian, Jaster, Robert, Köhling, Rüdiger, Lange, Falko, Salehzadeh-Yazdi, Ali, Wolkenhauer, Olaf, Hamed, Mohamed, Barrantes, Israel, Palmer, Daniel, Möller, Steffen, Kowald, Axel, Heussen, Nicole, Fuellen, Georg
Publicado 2020

Impairment of DNA Methylation Maintenance Is the Main Cause of Global Demethylation in Naive Embryonic Stem Cells

por von Meyenn, Ferdinand, Iurlaro, Mario, Habibi, Ehsan, Liu, Ning Qing, Salehzadeh-Yazdi, Ali, Santos, Fátima, Petrini, Edoardo, Milagre, Inês, Yu, Miao, Xie, Zhenqing, Kroeze, Leonie I., Nesterova, Tatyana B., Jansen, Joop H., Xie, Hehuang, He, Chuan, Reik, Wolf, Stunnenberg, Hendrik G.
Publicado 2016

Impairment of DNA Methylation Maintenance Is the Main Cause of Global Demethylation in Naive Embryonic Stem Cells

por von Meyenn, Ferdinand, Iurlaro, Mario, Habibi, Ehsan, Liu, Ning Qing, Salehzadeh-Yazdi, Ali, Santos, Fátima, Petrini, Edoardo, Milagre, Inês, Yu, Miao, Xie, Zhenqing, Kroeze, Leonie I., Nesterova, Tatyana B., Jansen, Joop H., Xie, Hehuang, He, Chuan, Reik, Wolf, Stunnenberg, Hendrik G.
Publicado 2016