The Importance of Biological Databases in Biological Discovery

Baxevanis, Andreas D.; Bateman, Alex

doi:10.1002/0471250953.bi0101s50

Cited by 38 publications

(7 citation statements)

References 37 publications

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“…There are various libraries constructed by computational chemists for natural products that aim to provide excellent resources for screening and the selection of natural products [25]. Fortunately, different databases have been developed with the aim of in silico screening of ethnopharmacology records [26,27]. The diverse range of phytochemicals is being exploited by chemoinformatics [28], which ultimately accelerates the pipeline of drug development [29].…”

Section: New Approaches For Herbal Drugs Usage: In Silico Drug Dismentioning

confidence: 99%

A Comprehensive Review on Medicinal Plants as Antimicrobial Therapeutics: Potential Avenues of Biocompatible Drug Discovery

et al. 2019

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The war on multidrug resistance (MDR) has resulted in the greatest loss to the world’s economy. Antibiotics, the bedrock, and wonder drug of the 20th century have played a central role in treating infectious diseases. However, the inappropriate, irregular, and irrational uses of antibiotics have resulted in the emergence of antimicrobial resistance. This has resulted in an increased interest in medicinal plants since 30–50% of current pharmaceuticals and nutraceuticals are plant-derived. The question we address in this review is whether plants, which produce a rich diversity of secondary metabolites, may provide novel antibiotics to tackle MDR microbes and novel chemosensitizers to reclaim currently used antibiotics that have been rendered ineffective by the MDR microbes. Plants synthesize secondary metabolites and phytochemicals and have great potential to act as therapeutics. The main focus of this mini-review is to highlight the potential benefits of plant derived multiple compounds and the importance of phytochemicals for the development of biocompatible therapeutics. In addition, this review focuses on the diverse effects and efficacy of herbal compounds in controlling the development of MDR in microbes and hopes to inspire research into unexplored plants with a view to identify novel antibiotics for global health benefits.

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Section: New Approaches For Herbal Drugs Usage: In Silico Drug Dismentioning

confidence: 99%

A Comprehensive Review on Medicinal Plants as Antimicrobial Therapeutics: Potential Avenues of Biocompatible Drug Discovery

et al. 2019

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“…Open data provided by databases and reported in our study (e.g., GeneBank, IUCN, SiB-GBIF) have accelerated research in the field of Conservation biology, as well as in research topics in Evolutionary biology and Systematics (Lacher et al, 2012; Baxevanis & Bateman, 2015). However, despite being in an open science context, we found just two data papers in our database (Henao et al, 2019; Mendoza-Henao et al, 2019).…”

Section: Discussionmentioning

confidence: 89%

Current State of Knowledge of Páramo Amphibians in Colombia: Spatio Temporal Trends and Information Gaps to Be Strengthened for Effective Conservation

Saboyá‐Acosta

Urbina‐Cardona

2023

Tropical Conservation Science

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Background and Research Aims: Globally, Colombia is the country with the largest extent of Páramos (delimited in 36 complexes) and with the greatest number of amphibian species in this ecosystem. This work consolidated scientific literature on the amphibians of the Colombian Páramos to characterize temporal, taxonomic, thematic, and geographic patterns, which allow us to identify information gaps that must be fulfilled to achieve effective species conservation. Methods: We conducted a systematic literature survey with seven different search strategies and generated a database. We read each document's Abstract, Methods, Study Area, Results, and supplementary material, following the PRISMA (Preferred Reporting Items for Systematic reviews and Meta-Analyses) protocol. Results: We found 405 documents published between 1863 and 2021. The composition and richness of 142 amphibian species (95 endemics to Colombia), presented significant differences in Páramo complexes and between sectors. Since 2000, the diversity of research topics has increased with a high proportion of studies on Natural History, Systematics and Taxonomy, and Conservation, distributed between 19 and 22 of the departments with Páramos in their jurisdiction. However, much of this knowledge concentrates in less than 20% of total species in just 6% of Páramos complexes. Conclusion: We found critical shortfalls in taxonomy, spatial information, and conservation actions on Páramos amphibians. We need to increase studies that include field data in more geographic areas and research topics, such as Population and Community ecology, Natural history (from a quantitative approach), Infectious disease, and Ecophysiology. Implications for Conservation: The scientific information gaps represent a challenge in generating effective strategies to conserve Páramo amphibians, considering the high degree of endemism and threats to these species. More than 80% of the Páramo amphibian species only have the information of their descriptions and little is known about their ecological requirements, population size, or data related to specific threats.

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“…By offering standardized access to extensive datasets, they empower researchers to collect, search, and analyze information spanning diverse fields. Through effective organization and categorization of data, these databases facilitate the identification of patterns, formulation of hypotheses, and acquisition of valuable insights (Baxevanis & Bateman, 2015). By facilitating data sharing and collaboration, biological databases accelerate scientific progress and drive breakthroughs in understanding the complexities of life (Baxevanis & Bateman, 2015).…”

Section: Introductionmentioning

confidence: 99%

The HABD: Home of All Biological Databases Empowering Biological Research With Cutting‐Edge Database Systems

Ullah,

Rahman,

Ullah

et al. 2024

Current Protocols

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The emergence of computer technologies and computing power has led to the development of several database systems that provide standardized access to vast quantities of data, making it possible to collect, search, index, evaluate, and extract useful knowledge across various fields. The Home of All Biological Databases (HABD) has been established as a continually expanding platform that aims to store, organize, and distribute biological data in a searchable manner, removing all dead and non‐accessible data. The platform meticulously categorizes data into various categories, such as COVID‐19 Pandemic Database (CO‐19PDB), Database relevant to Human Research (DBHR), Cancer Research Database (CRDB), Latest Database of Protein Research (LDBPR), Fungi Databases Collection (FDBC), and many other databases that are categorized based on biological phenomena. It currently provides a total of 22 databases, including 6 published, 5 submitted, and the remaining in various stages of development. These databases encompass a range of areas, including phytochemical‐specific and plastic biodegradation databases. HABD is equipped with search engine optimization (SEO) analyzer and Neil Patel tools, which ensure excellent SEO and high‐speed value. With timely updates, HABD aims to facilitate the processing and visualization of data for scientists, providing a one‐stop‐shop for all biological databases. Computer platforms, such as PhP, html, CSS, Java script and Biopython, are used to build all the databases. © 2024 Wiley Periodicals LLC.

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The Importance of Biological Databases in Biological Discovery

Cited by 38 publications

References 37 publications

A Comprehensive Review on Medicinal Plants as Antimicrobial Therapeutics: Potential Avenues of Biocompatible Drug Discovery

A Comprehensive Review on Medicinal Plants as Antimicrobial Therapeutics: Potential Avenues of Biocompatible Drug Discovery

Current State of Knowledge of Páramo Amphibians in Colombia: Spatio Temporal Trends and Information Gaps to Be Strengthened for Effective Conservation

The HABD: Home of All Biological Databases Empowering Biological Research With Cutting‐Edge Database Systems

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