Impact of RNA structure on the prediction of donor and acceptor splice sites. - Sayed-Amir Marashi; Changiz Eslahchi; Hamid Pezeshk; Mehdi Sadeghi (BMC Bioinform., 2006)

Importance of RNA secondary structure information for yeast donor and acceptor splice site predictions by neural networks. - Sayed-Amir Marashi; Hani Goodarzi; Mehdi Sadeghi; Changiz Eslahchi; Hamid Pezeshk (Comput. Biol. Chem., 2006)

Impact of residue accessible surface area on the prediction of protein secondary structures. - Amir Momen-Roknabadi; Mehdi Sadeghi; Hamid Pezeshk; Sayed-Amir Marashi (BMC Bioinform., 2008)

A tale of two symmetrical tails: Structural and functional characteristics of palindromes in proteins. - Armita Sheari; Mehdi Kargar; Ali Katanforoush; Shahriar Arab; Mehdi Sadeghi; Hamid Pezeshk; Changiz Eslahchi; Sayed-Amir Marashi (BMC Bioinform., 2008)

Flux coupling analysis of metabolic networks is sensitive to missing reactions. - Sayed-Amir Marashi; Alexander Bockmayr (Biosyst., 2011)

FFCA: a feasibility-based method for flux coupling analysis of metabolic networks. - László Dávid; Sayed-Amir Marashi; Abdelhalim Larhlimi; Bettina Mieth; Alexander Bockmayr (BMC Bioinform., 2011)

Analysis of Metabolic Subnetworks by Flux Cone Projection. - Sayed-Amir Marashi; László Dávid; Alexander Bockmayr (Algorithms Mol. Biol., 2012)

Reconstruction of phylogenetic trees of prokaryotes using maximal common intervals. - Mahdi Heydari; Sayed-Amir Marashi; Ruzbeh Tusserkani; Mehdi Sadeghi (Biosyst., 2014)

FCDECOMP: Decomposition of metabolic networks based on flux coupling relations. - Abolfazl Rezvan; Sayed-Amir Marashi; Changiz Eslahchi (J. Bioinform. Comput. Biol., 2014)

CAMWI: Detecting protein complexes using weighted clustering coefficient and weighted density. - Amir lakizadeh; Saeed Jalili; Sayed-Amir Marashi (Comput. Biol. Chem., 2015)

Evidence for the relationship between the regulatory effects of microRNAs and attack robustness of biological networks. - Mehdi Ahmadi; Rahim Jafari; Sayed-Amir Marashi; Ali Farazmand (Comput. Biol. Medicine, 2015)

On correlated reaction sets and coupled reaction sets in metabolic networks. - Sayed-Amir Marashi; Zhaleh Hosseini (J. Bioinform. Comput. Biol., 2015)

Biomedical applications of cell- and tissue-specific metabolic network models. - Hamideh Fouladiha; Sayed-Amir Marashi (J. Biomed. Informatics, 2017)

A graph-based approach to analyze flux-balanced pathways in metabolic networks. - Mona Arabzadeh; Morteza Saheb Zamani; Mehdi Sedighi; Sayed-Amir Marashi (Biosyst., 2018)

Cancer driver gene discovery in transcriptional regulatory networks using influence maximization approach. - Majid Rahimi; Babak Teimourpour; Sayed-Amir Marashi (Comput. Biol. Medicine, 2019)

A system architecture for parallel analysis of flux-balanced metabolic pathways. - Mona Arabzadeh; Mehdi Sedighi; Morteza Saheb Zamani; Sayed-Amir Marashi (Comput. Biol. Chem., 2020)

NDDSA: A network- and domain-based method for predicting drug-side effect associations. - Soheila Shabani-Mashcool; Sayed-Amir Marashi; Sajjad Gharaghani (Inf. Process. Manag., 2020)

EIA-CNDP: An exact iterative algorithm for critical node detection problem. - Javad Rezaei; Fatemeh Zare-Mirakabad; Seyyed Ali MirHassani; Sayed-Amir Marashi (Comput. Oper. Res., 2021)