EXPLORING PLANT RESEARCH WITH THE HELP OF VITAL BIOINFORMATICS DATABASES AND ONLINE RESOURCES
Main Article Content
Keywords
Databases, Genomics, Bioinformatics, Plant, Crop, Web Servers
Abstract
Bioinformatics plays a role, in the field of plant science today. With an increase in data volume, there is a growing demand for tools and methods for managing, visualizing, implementing, evaluating, modeling, and predicting this data. However many biology researchers may lack familiarity with the bioinformatics resources, which can lead to missed opportunities and misinterpretation of the data. In this review article, we highlighted the web resources that offer analysis capabilities for plant research data including genomics, transcriptomics, comparative genomics, bio-ontologies, sequence and structural comparisons plant disease related databases well as proteomics databases. Additionally we provide insights into integrated modules found within these resources that are specifically tailored for analyzing plant associated data. Overall this review aims to assist plant researchers in accessing bioinformatics resources for their data analysis needs while promoting the use of bioinformatics tools to effectively address experimental challenges, within the field of plant sciences.
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31. Mower, J.P., The PREP suite: predictive RNA editors for plant mitochondrial genes, chloroplast genes and user-defined alignments. Nucleic acids research, 2009. 37(suppl_2): p. W253-W259.
32. Zhang, Z., et al., PMRD: plant microRNA database. Nucleic acids research, 2010. 38(suppl_1): p. D806-D813.
33. Nakano, M., et al., Plant MPSS databases: signature-based transcriptional resources for analyses of mRNA and small RNA. Nucleic acids research, 2006. 34(suppl_1): p. D731-D735.
34. Brown, J.W., et al., Plant snoRNA database. Nucleic acids research, 2003. 31(1): p. 432-435.
35. Lescot, M., et al., PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Nucleic acids research, 2002. 30(1): p. 325-327.
36. Shahmuradov, I.A., et al., PlantProm: a database of plant promoter sequences. Nucleic acids research, 2003. 31(1): p. 114-117.
37. Meng, Y., et al., PmiRKB: a plant microRNA knowledge base. Nucleic acids research, 2010. 39(suppl_1): p. D181-D187.
38. Canaran, P., et al., Panzea: an update on new content and features. Nucleic acids research, 2007. 36(suppl_1): p. D1041-D1043.
39. Bai, Y., et al., PlncRNADB: A Repository of Plant lncRNAs and lncRNA-RBP Protein Interactions. Current Bioinformatics, 2019. 14(7): p. 621-627.
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45. Ye, J., et al., AtCircDB: a tissue-specific database for Arabidopsis circular RNAs. Briefings in bioinformatics, 2019. 20(1): p. 58-65.
46. Gupta, N., et al., PVsiRNAdb: a database for plant exclusive virus-derived small interfering RNAs. Database, 2018. 2018.
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May 25, 2024
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Noreen Fatima, Haris Abdul Rehman, , Mah Noor Hassan, Iqra Naeem, Babur Ali Akbar, Muhammad Nabeel Aslam, Zanib Fatima, Aqsa Qurban, Muhammad Umar, & Tayyaba Arif. (2024). EXPLORING PLANT RESEARCH WITH THE HELP OF VITAL BIOINFORMATICS DATABASES AND ONLINE RESOURCES. Journal of Population Therapeutics and Clinical Pharmacology, 31(5), 1469–1497. https://doi.org/10.53555/jptcp.v31i5.6359
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Author Biographies
Noreen Fatima
Department of Plant Pathology, University of Sargodha, Pakistan
Haris Abdul Rehman
Department of Microbiology, University of Central Punjab, Lahore, Pakistan
, Mah Noor Hassan
Department of Biochemistry, University of Central Punjab, Lahore, Pakistan
Iqra Naeem
Department of Environmental Sciences, COMSATS University Vehari Campus, Pakistan
Babur Ali Akbar
Centre of Agricultural Biochemistry and Biotechnology, University of Agriculture Faisalabad, Pakistan
Muhammad Nabeel Aslam
Department of Plant Breeding and Genetics, University of Sargodha, Pakistan
Zanib Fatima
Centre of Agricultural Biochemistry and Biotechnology, University of Agriculture Faisalabad, Pakistan
Aqsa Qurban
Department of Life Sciences, University of Management and Technology, Lahore, Pakistan
Muhammad Umar
Government College Women University Faisalabad, Pakistan
Tayyaba Arif
Kinnaird College for Women, Lahore, Pakistan