Sayed Amir Marashi

1. Investigating physiological and molecular responses in rice (Oryza sativa L.) subsp. indica and japonica during cold stress

Soltani Fatemeh, Maali Amiri Reza, تاپفر نادین, Marashi Sayed Amir, Alizadeh Houshang (2024).

2. AmiR-P3: An AI-based microRNA prediction pipeline in plants

عطائی سبحان, احمدی جعفر, Marashi Sayed Amir, Abolhassani Ilia (2024)., PLoS One, 19(8), e0308016.

3. predicting the impact of missense mutations on the protein structure networks: a case study of human phenylalanine hydroxylase and alfa galactosidase

Inanloorahatloo Kolsoum, Bahramali Golnaz, Ghandali Fatemeh, Marashi Sayed Amir (2024)., 3rd International & 12th Iranian Conference on Bioinformatics Partners with SilicoGene, 28-29 February, Behshahr, Iran.

4. A method to visualize pseudo-potential landscape of high-dimensional Boolean networks

Taheri Ledari Mohammad, Marashi Sayed Amir, Kavousi Kaveh (2024)., 3rd International & 12th Iranian Conference on Bioinformatics, 28-29 February, Behshahr, Iran.

1. SL-scan identifies synthetic lethal interactions in cancer using metabolic networks

[] [], Marashi Sayed Amir, Montazeri Hesam (2023)., Scientific Reports, 13(1).

2. RT-DOb, a switch gene for the gene pair {Csf1r, Milr1}, can influence the onset of Alzheimer’s disease by regulating communication between mast cell and microglia

Khayer Nasibeh, Motamed Nasrin, Marashi Sayed Amir, Goshadrou Fatemeh (2023)., PLoS One, 18(7), e0288134.

3. Feature set prioritization of metagenomes for predicting colorectal cancer based on multiple human gut microbiome datasets

Tavakkol-Hamedani Zahra, Marashi Sayed Amir, Kavousi Kaveh (2023)., 2nd International & 11th Iranian Conference on Bioinformatics, 28 February-1 March, Tehran, Iran.

4. Glucose Metabolism: Optimizing Regenerative Functionalities of Mesenchymal Stromal Cells Postimplantation

Luo Guotian, Wosinski Pauline, Salazar-Noratto Giuliana E., Bensidhoum Morad, Bizios Rena, Marashi Sayed Amir, Potier Esther, Sheng Puyi, Petite Herve (2023)., Tissue Engineering Part B-Reviews, 29(1), 47-61.

5. Engineering a Novel Metabolic Pathway for Improving Cellular Malonyl-CoA Levels in Escherichia coli

Moteallehi-ardakani Mohammad Hossein, Asad Sedigheh, Marashi Sayed Amir, Moghadasi Sayedeh Afrooz, Zarparvart Parisa (2023)., MOLECULAR BIOTECHNOLOGY, 1(1).

1. Genome-scale metabolic model-based engineering of Escherichia coli enhances recombinant single-chain antibody fragment production

Behravan Aidin, Hashemi Atieh, Marashi Sayed Amir, Hamideh Fouladiha (2022)., BIOTECHNOLOGY LETTERS, 44(12).

2. The assessment of essential genes in the stability of PPI networks using critical node detection problem

Rezaei Javad, Zare-Mirakabad Fatemeh, Marashi Sayed Amir, MirHassani Seyed Ali (2022)., AUT Journal of Mathematics and Computing, 3(1), 59-76.

3. Utilization of CTAnalyzer algorithm to identify pri-microRNA candidate sequences in the genome of Azadirachta indica

عطائی سبحان, احمدی جعفر, Marashi Sayed Amir (2022).

4. A Constraint-based modeling approach to reach an improved chemically defined minimal medium for recombinant antiEpEX-scFv production by Escherichia coli

Behravan Aidin, Hashemi Atieh, Marashi Sayed Amir (2022)., BIOCHEMICAL ENGINEERING JOURNAL, 179(1), 108339.

5. Critical assessment of genome-scale metabolic models of Arabidopsis thaliana

Zamani Amirzakaria Javad, Marashi Sayed Amir, Malbo0bi Mohammad Ali, Lohrasebi Tahmineh, Forouzan Esmail (2022)., Molecular Omics, 18(4), 328-335.

1. Structural systems pharmacology: A framework for integrating metabolic network and structure-based virtual screening for drug discovery against bacteria

Nazarshodeh Elmira, Marashi Sayed Amir, Gharaghani Sajjad (2021)., PLoS One, 16(12), e0261267.

2. In silico prediction of enzymatic reactions catalyzed by acid phosphatases

Zamani Amirzakaria Javad, Malboobi Mohammadali, Marashi Sayed Amir, Lohrasebi Tahmineh (2021)., JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 39(11), 3900-3911.

3. DEVELOPMENT OF NEW C4 CROPS

Marashi Sayed Amir, Dadras Armin, Banaei Moghaddam Ali Mohammad (2021)., 3rd International Cukurova Agriculture and Veterinary Congress, 9-10 October, Adama, Turkey.

4. Systematically gap-filling the genome-scale metabolic model of CHO cells

Hamideh Fouladiha, Marashi Sayed Amir, Li. Shangzhong, Li Zerong, Masson Helen O., Vaziri Behrouz, Lewis Nathan E. (2021)., BIOTECHNOLOGY LETTERS, 43(1), 73-87.

5. EIA-CNDP: An Exact Iterative Algorithm for Critical Node Detection Problem

Rezaei Javad, Zare-Mirakabad Fatemeh, MirHassani Seyed Ali, Marashi Sayed Amir (2021)., COMPUTERS & OPERATIONS RESEARCH, 127(1), 105138.

6. CAMAMED: a pipeline for composition-aware mapping-based analysis of metagenomic data

Norouzi-Beirami Mohammad Hossein, Marashi Sayed Amir, Banaei Moghaddam Ali Mohammad, Kavousi Kaveh (2021)., NAR Genomics and Bioinformatics, 3(1).

1. Substructure-ADR Association Identification by Statistical Tests

Shabani Soheila, Marashi Sayed Amir, Gharaghani Sajjad (2020)., Ninth Iranian Conference on Bioinformatics, 11-12 November, Tehran, Iran.

2. Impact of hfq and sigE on the tolerance of Zymomonas mobilis ZM4 to furfural and acetic acid stresses

Nouri Hoda, Moghimi Hamid, Marashi Sayed Amir, Allahi Elahe (2020)., PLoS One, 15(10), e0240330.

3. A system architecture for parallel analysis of flux-balanced metabolic pathways

Arabzadeh Mona, Sedighi Mehdi, Saheb Zamani Morteza, Marashi Sayed Amir (2020)., COMPUTATIONAL BIOLOGY AND CHEMISTRY, 88(88), 107309.

4. Rps27a might act as a controller of microglia activation in triggering neurodegenerative diseases

Khayer Nasibeh, Mirzaei Azad Mehdi, Marashi Sayed Amir, jalesi maryam (2020)., PLoS One, 15(9), e0239219.

5. NDDSA: A network- and domain-based method for predicting drug-side effect associations

Shabanimashcool Soheila, Marashi Sayed Amir, Gharaghani Sajjad (2020)., INFORMATION PROCESSING & MANAGEMENT, 57(6), 102357.