Mohieddin Jafari

Publications

Research output per year 2014 2016 2018 2019 2021 2022

• 39 Article
• 2 Paper
• 1 Editorial
• 1 Letter
• 1 More
  • 1 Review Article

Research output per year

Research output per year

Search results

• 2022

  A community challenge for a pancancer drug mechanism of action inference from perturbational profile data

  Douglass Jr., E. F., Allaway, R. J., Szalai, B., Wang, W., Tian, T., Fernández-Torras, A., Realubit, R., Karan, C., Zheng, S., Pessia, A., Tanoli, Z., Jafari, M., Wan, F., Li, S., Xiong, Y., Duran-Frigola, M., Bertoni, M., Badia-i-Mompel, P., Mateo, L., Guitart-Pla, O., & 8 othersChung, V., Tang, J., Zeng, J., Aloy, P., Saez-Rodriguez, J., Guinney, J., Gerhard, D. S. & Califano, A., 18 Jan 2022, In: Cell Reports Medicine. 3, 1, 20 p., 100492.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Bipartite network models to design combination therapies in acute myeloid leukaemia

  Jafari, M., Mirzaie, M., Bao, J., Barneh, F., Zheng, S., Eriksson, J., Heckman, C. A. & Tang, J., 19 Apr 2022, In: Nature Communications. 13, 1, 12 p., 2128.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• The ENDS of assumptions; an online tool for the Epistemic Nonparametric Drug-response Scoring

  Amiryousefi, A., Williams, B., Jafari, M. & Tang, J., Jun 2022, In: Bioinformatics. 38, 11, p. 3132-3133 2 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• 2021

  ANGIOTENSIN RECEPTOR BLOCKER LOSARTAN INHIBITS TUMOR GROWTH OF COLORECTAL CANCER

  Hashemzehi, M., Rahmani, F., Khoshakhlagh, M., Avan, A., Asgharzadeh, F., Barneh, F., Moradi-Marjaneh, R., Soleimani, A., Fiuji, H., Ferns, G. A., Ryzhikov, M., Jafari, M., Khazaei, M. & Hassanian, S. M., 2021, In: EXCLI Journal. 20, p. 506-521 16 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• Downregulation of ITM2A Gene Expression in Macrophages of Patients with Ankylosing Spondylitis

  Lari, A., Gholami Pourbadie, H., Jafari, M., Sharifi-Zarchi, A., Akhtari, M., Nejatbakhsh Samimi, L., Jamshidi, A. & Mahmoudi, M., Nov 2021, In: International Archives of Allergy and Immunology. 182, 11, p. 1113–1121 9 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Efficacy of Persian medicine herbal formulations (capsules and decoction) compared to standard care in patients with COVID-19, a multicenter open-labeled, randomized, controlled clinical trial

  Karimi, M., Zarei, A., Soleymani, S., Jamalimoghadamsiahkali, S., Asadi, A., Shati, M., Jafari, M., Rezadoost, H., Kordafshar, G., Naghizadeh, A., Mardi, R., Namiranian, P., Khamechi, S. P., Ansari, N., Adel Mehraban, M. S., Aliakbarzadeh, H., Khanavi, M., Esmaealzadeh, N., Moravveji, A., Salahi, M., & 17 othersKhoi, M., Razzaghi, R., Banafshe, H. R., Alizadeh, M., Akhbari, M., Atharizadeh, M., Izadikhah, A., Elsagh, M., Hossein Zade Ghahnavieh, M., Eghbalian, F., Vanai, A., Izadi, H., Moravej, S. A. A., Jazayeri, S. F., Bayat, H., Emadi Koochak, H. & Zargaran, A., Nov 2021, In: Phytotherapy Research. 35, 11, p. 6295-6309 15 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP) versus adult T-cell leukemia/lymphoma (ATLL)

  Zarei-Ghobadi, M., Sheikhi, M., Teymoori-Rad, M., Yaslianifard, S., Norouzi, M., Yaslianifard, S., Faraji, R., Farahmand, M., Bayat, S., Jafari, M. & Mozhgani, S-H., 23 Mar 2021, In: BMC research notes. 14, 1, 7 p., 109.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Identification of Celecoxib targeted proteins using label-free thermal proteome profiling on rat hippocampus

  Gholizadeh, E., Karbalaei, R., Khaleghian, A., Salimi, M., Gilany, K., Soliymani, R., Tanoli, Z., Rezadoost, H., Baumann, M., Jafari, M. & Tang, J., 1 May 2021, In: Molecular pharmacology : an international journal. 99, 5, p. 308-318 11 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• IrGO: Iranian traditional medicine General Ontology and knowledge base

  Naghizadeh, A., Salamat, M., Hamzeian, D., Akbari, S., Rezaeizadeh, H., Vaghasloo, M. A., Karbalaei, R., Mirzaie, M., Karimi, M. & Jafari, M., 16 Apr 2021, In: Journal of biomedical semantics. 12, 1, 11 p., 9.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Metabolomic signature of amino acids in plasma of patients with non-segmental Vitiligo

  Marzabani, R., Rezadoost, H., Choopanian, P., Kolahdooz, S., Mozafari, N., Mirzaie, M., Karimi, M., Nieminen, A. & Jafari, M., Oct 2021, In: Metabolomics. 17, 10, 11 p., 92.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Metformin inhibits polyphosphate-induced hyper-permeability and inflammation

  Asgharzadeh, F., Barneh, F., Fakhraie, M., Barkhordar, S. L. A., Shabani, M., Soleimani, A., Rahmani, F., Ariakia, F., Mehraban, S., Avan, A., Hashemzehi, M., Arjmand, M-H., Behnam-Rassouli, R., Jaberi, N., Sayyed-Hosseinian, S-H., Ferns, G. A., Ryzhikov, M., Jafari, M., Khazaei, M. & Hassanian, S. M., Oct 2021, In: International Immunopharmacology. 99, 10 p., 107937.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Network-based modeling of herb combinations in traditional Chinese medicine

  Wang, Y., Yang, H., Chen, L., Jafari, M. & Tang, J., Sep 2021, In: Briefings in Bioinformatics. 22, 5, p. 1-13 13 p., 106.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Rigosertib elicits potent anti-tumor responses in colorectal cancer by inhibiting Ras signaling pathway

  Rahmani, F., Hashemzehi, M., Avan, A., Barneh, F., Asgharzadeh, F., Marjaneh, R. M., Soleimani, A., Parizadeh, M., Ferns, G. A., Mobarhan, M. G., Ryzhikov, M., Afshari, A. R., Ahmadian, M. R., Giovannetti, E., Jafari, M., Khazaei, M. & Hassanian, S. M., Sep 2021, In: Cellular Signalling. 85, 14 p., 110069.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• 2020

  Can We Assume the Gene Expression Profile as a Proxy for Signaling Network Activity?

  Piran, M., Karbalaei, R., Piran, M., Aldahdooh, J., Mirzaie, M., Ansari-Pour, N., Tang, J. & Jafari, M., Jun 2020, In: Biomolecules. 10, 6, 15 p., 850.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Intraperitoneal Administration of Telmisartan Prevents Postsurgical Adhesion Band Formation

  Arjmand, M-H., Zahedi-Avval, F., Barneh, F., Mousavi, S. H., Asgharzadeh, F., Hashemzehi, M., Soleimani, A., Avan, A., Fakhraie, M., Nasiri, S. N., Mehraban, S., Ferns, G. A., Ryzhikov, M., Jafari, M., Khazaei, M. & Hassanian, S. M., Apr 2020, In: Journal of Surgical Research. 248, p. 171-181 11 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• Rigosertib potently protects against colitis-associated intestinal fibrosis and inflammation by regulating PI3K/AKT and NF-kappa B signaling pathways

  Rahmani, F., Asgharzadeh, F., Avan, A., Barneh, F., Parizadeh, M. R., Ferns, G. A., Ryzhikov, M., Ahmadian, M. R., Giovannetti, E., Jafari, M., Khazaei, M. & Hassanian, S. M., 15 May 2020, In: Life Sciences. 249, 10 p., 117470.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• UNaProd: A Universal Natural Product Database for Materia Medica of Iranian Traditional Medicine

  Naghizadeh, A., Hamzeheian, D., Akbari, S., Mohammadi, F., Otoufat, T., Asgari, S., Zarei, A., Noroozi, S., Nasiri, N., Salamat, M., Karbalaei, R., Mirzaie, M., Rezaeizadeh, H., Karimi, M. & Jafari, M., 13 May 2020, In: Evidence-based complementary and alternative medicine. 2020, 14 p., 3690781.

  Research output: Contribution to journal › Article › Scientific › peer-review
• 2019

  An insight to HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP) pathogenesis; evidence from high-throughput data integration and meta-analysis

  Mozhgani, S-H., Piran, M., Zarei-Ghobadi, M., Jafari, M., Jazayeri, S-M., Mokhtari-Azad, T., Teymoori-Rad, M., Valizadeh, N., Farajifard, H., Mirzaie, M., Khamseh, A., Rafatpanah, H., Rezaee, S-A. & Norouzi, M., 30 Dec 2019, In: Retrovirology. 16, 1, 11 p., 46.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• CINNA: an R/CRAN package to decipher Central Informative Nodes in Network Analysis

  Ashtiani, M., Mirzaie, M. & Jafari, M., 15 Apr 2019, In: Bioinformatics. 35, 8, p. 1436-1437 2 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• DrugComb: an integrative cancer drug combination data portal

  Zagidullin, B., Aldahdooh, J., Zheng, S., Wang, W., Wang, Y., Saad, J., Malyutina, A., Jafari, M., Tanoli, Z., Pessia, A. & Tang, J., 2 Jul 2019, In: Nucleic Acids Research. 47, W1, p. W43-W51 9 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• IMMAN: an R/Bioconductor package for Interolog protein network reconstruction, mapping and mining analysis

  Ashtiani, M., Nickchi, P., Jahangiri-Tazehkand, S., Safari, A., Mirzaie, M. & Jafari, M., 12 Feb 2019, In: BMC Bioinformatics. 20, 4 p., 73.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Integrated use of bioinformatic resources reveals that co-targeting of histone deacetylases, IKBK and SRC inhibits epithelial-mesenchymal transition in cancer

  Barneh, F., Mirzaie, M., Nickchi, P., Tan, T. Z., Thiery, J. P., Piran, M., Salimi, M., Goshadrou, F., Aref, A. R. & Jafari, M., Mar 2019, In: Briefings in Bioinformatics. 20, 2, p. 717-731 15 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• Predicting Meridian in Chinese traditional medicine using machine learning approaches

  Wang, Y., Jafari, M., Tang, Y. & Tang, J., 25 Nov 2019, In: PLoS Computational Biology. 15, 11, 21 p., 1007249.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• 2018

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

  Ashtiani, M., Salehzadeh-Yazdi, A., Razaghi-Moghadam, Z., Hennig, H., Wolkenhauer, O., Mirzaie, M. & Jafari, M., 31 Jul 2018, In: BMC Systems Biology. 12, 1, 17 p., 80.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Human T-lymphotropic virus 1 (HTLV-1) pathogenesis: A systems virology study

  Mozhgani, S-H., Zarei-Ghobadi, M., Teymoori-Rad, M., Mokhtari-Azad, T., Mirzaie, M., Sheikhi, M., Jazayeri, S-M., Shahbahrami, R., Ghourchian, H., Jafari, M., Rezaee, S-A. & Norouzi, M., May 2018, In: Journal of Cellular Biochemistry. 119, 5, p. 3968-3979 12 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Phytosomal-curcumin antagonizes cell growth and migration, induced by thrombin through AMP-Kinase in breast cancer

  Hashemzehi, M., Behnam-Rassouli, R., Hassanian, S. M., Moradi-Binabaj, M., Moradi-Marjaneh, R., Rahmani, F., Fiuji, H., Jamili, M., Mirahmadi, M., Boromand, N., Piran, M., Jafari, M., Sahebkar, A., Avan, A. & Khazaei, M., Jul 2018, In: Journal of Cellular Biochemistry. 119, 7, p. 5996-6007 12 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Systems biology recalls to us some aspects of traditional medicine

  Jafari, M. & Karimi, M., 2018, In: F1000Research. 7, p. 1080 1 p.

  Research output: Contribution to journal › Article › Scientific

  Open Access

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• Valproic acid inhibits the protective effects of stromal cells against chemotherapy in breast cancer: Insights from proteomics and systems biology

  Barneh, F., Salimi, M., Goshadrou, F., Ashtiani, M., Mirzaie, M., Zali, H. & Jafari, M., Nov 2018, In: Journal of Cellular Biochemistry. 119, 11, p. 9270-9283 14 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• 2017

  A logic-based dynamic modeling approach to explicate the evolution of the central dogma of molecular biology

  Jafari, M., Ansari-Pour, N., Azimzadeh, S. & Mirzaie, M., 21 Dec 2017, In: PLoS One. 12, 12, 14 p., 0189922.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• 2016

  Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd

  Wang, Z., Monteiro, C. D., Jagodnik, K. M., Fernandez, N. F., Gundersen, G. W., Rouillard, A. D., Jenkins, S. L., Feldmann, A. S., Hu, K. S., McDermott, M. G., Duan, Q., Clark, N. R., Jones, M. R., Kou, Y., Goff, T., Woodland, H., Amaral, F. M. R., Szeto, G. L., Fuchs, O., Rose, S. M. S-F., & 29 othersSharma, S., Schwartz, U., Bengoetxea Bausela, X., Szymkiewicz, M., Maroulis, V., Salykin, A., Barra, C. M., Kruth, C. D., Bongio, N. J., Mathur, V., Todoric, R. D., Rubin, U. E., Malatras, A., Fulp, C. T., Galindo, J. A., Motiejunaite, R., Jueschke, C., Dishuck, P. C., Lahl, K., Jafari, M., Aibar, S., Zaravinos, A., Steenhuizen, L. H., Allison, L. R., Gamallo, P., de Andres Segura, F., Devlin, T. D., Perez-Garcia, V. & Ma'ayan, A., Sep 2016, In: Nature Communications. 7, 11 p., 12846.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Polarity-based fractionation in proteomics: hydrophilic interaction vs reversed-phase liquid chromatography

  Jafari, M., Mirzaie, M., Khodabandeh, M., Rezadoost, H., Ghassempour, A. & Aboul-Enein, H. Y., Jul 2016, In: Biomedical Chromatography. 30, 7, p. 1036-1041 6 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• Proteomics of hot-wet and cold-dry temperaments proposed in Iranian traditional medicine: a Network-based Study

  Rezadoost, H., Karimi, M. & Jafari, M., 25 Jul 2016, In: Scientific Reports. 6, 8 p., 30133.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Systems Biomedicine of Rabies Delineates the Affected Signaling Pathways

  Jamalkandi, S. A., Mozhgani, S-H., Pourbadie, H. G., Mirzaie, M., Noorbakhsh, F., Vaziri, B., Gholami, A., Ansari-Pour, N. & Jafari, M., 7 Nov 2016, In: Frontiers in Microbiology. 7, 22 p., 1688.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Testis-Specific Y-Centric Protein Protein Interaction Network Provides Clues to the Etiology of Severe Spermatogenic Failure

  Ansari-Pour, N., Razaghi-Moghadam, Z., Barneh, F. & Jafari, M., Mar 2016, In: Journal of Proteome Research. 15, 3, p. 1011-1022 12 p.

  Research output: Contribution to journal › Article › Scientific › peer-review

• Updates on drug-target network; facilitating polypharmacology and data integration by growth of DrugBank database

  Barneh, F., Jafari, M. & Mirzaie, M., Nov 2016, In: Briefings in Bioinformatics. 17, 6, p. 1070-1080 11 p.

  Research output: Contribution to journal › Article › Scientific › peer-review
• 2015

  Interlog protein network: an evolutionary benchmark of protein interaction networks for the evaluation of clustering algorithms

  Jafari, M., Mirzaie, M. & Sadeghi, M., 5 Oct 2015, In: BMC Bioinformatics. 16, 9 p., 319.

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• PEIMAN 1.0: Post-translational modification Enrichment, Integration and Matching ANalysis

  Nickchi, P., Jafari, M. & Kalantari, S., 23 Apr 2015, In: Database-The journal of biological databases and curation. 10 p., bav037 .

  Research output: Contribution to journal › Article › Scientific › peer-review

  Open Access

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• Signaling network of lipids as a comprehensive scaffold for omics data integration in sputum of COPD patients

  Jamalkandi, S. A., Mirzaie, M., Jafari, M., Mehrani, H., Shariati, P. & Khodabandeh, M., Oct 2015, In: Biochimica and Biophysica Acta. Molecular and Cell Biology of Lipids. 1851, 10, p. 1383-1393 11 p.

  Research output: Contribution to journal › Article › Scientific › peer-review
• 2014

  Proteomics and Traditional Medicine: New Aspect in Explanation of Temperaments

  Jafari, M., Rezadoost, H., Karimi, M., Mirzaie, M., Rezaie-Tavirani, M., Khodabandeh, M., Kordafshari, G., Abbasian, N., Nickchi, P., Gilany, K. & Ghassempour, A., 2014, In: Forschende komplementarmedizin. 21, 4, p. 250-253 4 p.

  Research output: Contribution to journal › Article › Scientific › peer-review