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Javad Zahiri

Title(s)Postdoctoral Scholar, Neurosciences
SchoolVc-health Sciences-schools
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Moonlighting protein prediction using physico-chemical and evolutional properties via machine learning methods. BMC Bioinformatics. 2021 May 24; 22(1):261. Shirafkan F, Gharaghani S, Rahimian K, Sajedi RH, Zahiri J. PMID: 34030624.
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    2. Proteomic profiling of the rat hippocampus from the kindling and pilocarpine models of epilepsy: potential targets in calcium regulatory network. Sci Rep. 2021 Apr 15; 11(1):8252. Sadeghi L, Rizvanov AA, Dabirmanesh B, Salafutdinov II, Sayyah M, Shojaei A, Zahiri J, Mirnajafi-Zadeh J, Khorsand B, Khajeh K, Fathollahi Y. PMID: 33859251.
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    3. Posttranslational modifications in proteins: resources, tools and prediction methods. Database (Oxford). 2021 Apr 07; 2021. Ramazi S, Zahiri J. PMID: 33826699.
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    4. Bioinformatic tools for DNA methylation and histone modification: A survey. Genomics. 2021 Mar 04; 113(3):1098-1113. Chenarani N, Emamjomeh A, Allahverdi A, Mirmostafa S, Afsharinia MH, Zahiri J. PMID: 33677056.
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    5. RepCOOL: computational drug repositioning via integrating heterogeneous biological networks. J Transl Med. 2020 10 02; 18(1):375. Fahimian G, Zahiri J, Arab SS, Sajedi RH. PMID: 33008415.
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    6. Alpha influenza virus infiltration prediction using virus-human protein-protein interaction network. Math Biosci Eng. 2020 04 15; 17(4):3109-3129. Khorsand B, Savadi A, Zahiri J, Naghibzadeh M. PMID: 32987519.
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    7. Estimation of transverse mixing coefficient in streams using M5, MARS, GA, and PSO approaches. Environ Sci Pollut Res Int. 2020 May; 27(13):14553-14566. Zahiri J, Nezaratian H. PMID: 32048189.
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    8. Evaluation of post-translational modifications in histone proteins: A review on histone modification defects in developmental and neurological disorders. J Biosci. 2020; 45. Ramazi S, Allahverdi A, Zahiri J. PMID: 33184251.
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    9. Digging deeper into volatile organic compounds associated with cancer. Biol Methods Protoc. 2019; 4(1):bpz014. Janfaza S, Khorsand B, Nikkhah M, Zahiri J. PMID: 32161807.
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    10. Novel BDNF-regulatory microRNAs in neurodegenerative disorders pathogenesis: An in silico study. Comput Biol Chem. 2019 Dec; 83:107153. Khani-Habibabadi F, Askari S, Zahiri J, Javan M, Behmanesh M. PMID: 31751881.
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    11. iMet: A graphical user interface software tool to merge metabolic networks. Heliyon. 2019 Jun; 5(6):e01766. Mohammadi R, Zahiri J, Niroomand MJ. PMID: 31286073.
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    12. Gibberellin causes wide transcriptional modifications in the early stage of grape cluster development. Genomics. 2020 01; 112(1):820-830. Shiri Y, Solouki M, Ebrahimie E, Emamjomeh A, Zahiri J. PMID: 31136791.
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    13. AntAngioCOOL: computational detection of anti-angiogenic peptides. J Transl Med. 2019 03 04; 17(1):71. Zahiri J, Khorsand B, Yousefi AA, Kargar M, Shirali Hossein Zade R, Mahdevar G. PMID: 30832671.
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    14. OligoCOOL: A mobile application for nucleotide sequence analysis. Biochem Mol Biol Educ. 2019 03; 47(2):201-206. Khorsand B, Khammari A, Shirvanizadeh N, Zahiri J, Arab SS. PMID: 30681253.
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    15. Protein complex prediction: A survey. Genomics. 2020 01; 112(1):174-183. Zahiri J, Emamjomeh A, Bagheri S, Ivazeh A, Mahdevar G, Sepasi Tehrani H, Mirzaie M, Fakheri BA, Mohammad-Noori M. PMID: 30660789.
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    16. Identification, Prediction and Data Analysis of Noncoding RNAs: A Review. Med Chem. 2019; 15(3):216-230. Emamjomeh A, Zahiri J, Asadian M, Behmanesh M, Fakheri BA, Mahdevar G. PMID: 30484409.
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    17. Identification of the Molecular Events Involved in the Development of Prefrontal Cortex Through the Analysis of RNA-Seq Data From BrainSpan. ASN Neuro. 2019 Jan-Dec; 11:1759091419854627. Najafi H, Naseri M, Zahiri J, Totonchi M, Sadeghizadeh M. PMID: 31213068.
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    18. Performance evaluation measures for protein complex prediction. Genomics. 2019 12; 111(6):1483-1492. Ivazeh A, Zahiri J, Rahgozar M, Srihari S. PMID: 30312661.
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    19. afpCOOL: A tool for antifreeze protein prediction. Heliyon. 2018 Jul; 4(7):e00705. Eslami M, Shirali Hossein Zade R, Takalloo Z, Mahdevar G, Emamjomeh A, Sajedi RH, Zahiri J. PMID: 30094375.
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    20. Unraveling the transcriptional complexity of compactness in sistan grape cluster. . 2018 May; 270:198-208. Shiri Y, Solouki M, Ebrahimie E, Emamjomeh A, Zahiri J. PMID: 29576073.
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    21. Cancer Odor Database (COD): a critical databank for cancer diagnosis research. Database (Oxford). 2017 01 01; 2017. Janfaza S, Banan Nojavani M, Khorsand B, Nikkhah M, Zahiri J. PMID: 29220448.
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    22. A systems biology approach to reconcile metabolic network models with application to Synechocystis sp. PCC 6803 for biofuel production. Mol Biosyst. 2016 07 19; 12(8):2552-61. Mohammadi R, Fallah-Mehrabadi J, Bidkhori G, Zahiri J, Javad Niroomand M, Masoudi-Nejad A. PMID: 27265370.
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    23. rpiCOOL: A tool for In Silico RNA-protein interaction detection using random forest. J Theor Biol. 2016 08 07; 402:1-8. Akbaripour-Elahabad M, Zahiri J, Rafeh R, Eslami M, Azari M. PMID: 27134008.
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    24. Computational Detection of piRNA in Human Using Support Vector Machine. Avicenna J Med Biotechnol. 2016 Jan-Mar; 8(1):36-41. Seyeddokht A, Aslaminejad AA, Masoudi-Nejad A, Nassiri M, Zahiri J, Sadeghi B. PMID: 26855734.
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    25. LocFuse: human protein-protein interaction prediction via classifier fusion using protein localization information. Genomics. 2014 Dec; 104(6 Pt B):496-503. Zahiri J, Mohammad-Noori M, Ebrahimpour R, Saadat S, Bozorgmehr JH, Goldberg T, Masoudi-Nejad A. PMID: 25458812.
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    26. Predicting protein-protein interactions between human and hepatitis C virus via an ensemble learning method. Mol Biosyst. 2014 Dec; 10(12):3147-54. Emamjomeh A, Goliaei B, Zahiri J, Ebrahimpour R. PMID: 25230581.
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    27. Analysis of candidate genes has proposed the role of y chromosome in human prostate cancer. Iran J Cancer Prev. 2014; 7(4):204-11. Khosravi P, Zahiri J, Gazestani VH, Mirkhalaf S, Akbarzadeh M, Sadeghi M, Goliaei B. PMID: 25628841.
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    28. Computational Prediction of Protein-Protein Interaction Networks: Algo-rithms and Resources. Curr Genomics. 2013 Sep; 14(6):397-414. Zahiri J, Bozorgmehr JH, Masoudi-Nejad A. PMID: 24396273.
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    29. PPIevo: protein-protein interaction prediction from PSSM based evolutionary information. Genomics. 2013 Oct; 102(4):237-42. Zahiri J, Yaghoubi O, Mohammad-Noori M, Ebrahimpour R, Masoudi-Nejad A. PMID: 23747746.
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    30. Scatter-search with support vector machine for prediction of relative solvent accessibility. EXCLI J. 2013; 12:52-63. Kashefi AH, Meshkin A, Zargoosh M, Zahiri J, Taheri M, Ashtiani S. PMID: 26417216.
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    31. A novel efficient dynamic programming algorithm for haplotype block partitioning. J Theor Biol. 2010 Nov 21; 267(2):164-70. Zahiri J, Mahdevar G, Nowzari-Dalini A, Ahrabian H, Sadeghi M. PMID: 20728452.
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    32. Tag SNP selection via a genetic algorithm. J Biomed Inform. 2010 Oct; 43(5):800-4. Mahdevar G, Zahiri J, Sadeghi M, Nowzari-Dalini A, Ahrabian H. PMID: 20546935.
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