The Arabidopsis Information Resource (TAIR) maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana . Data available from TAIR includes the complete genome sequence along with gene structure, gene product information, gene expression, DNA and seed stocks, genome maps, genetic and physical markers, publications, and information about the Arabidopsis research community. Gene product function data is updated every week from the latest published research literature and community data submissions. TAIR also provides extensive linkouts from our data pages to other Arabidopsis resources. (more…)
About the Human Metabolome Database
The Human Metabolome Database (HMDB) is a freely available electronic database containing detailed information about small molecule metabolites found in the human body. It is intended to be used for applications in metabolomics, clinical chemistry, biomarker discovery and general education. The database is designed to contain or link three kinds of data: 1) chemical data, 2) clinical data, and 3) molecular biology/biochemistry data. The database contains 114,222 metabolite entries including both water-soluble and lipid soluble metabolites as well as metabolites that would be regarded as either abundant (> 1 uM) or relatively rare (< 1 nM). Additionally, 5,702 protein sequences are linked to these metabolite entries. Each MetaboCard entry contains 130 data fields with 2/3 of the information being devoted to chemical/clinical data and the other 1/3 devoted to enzymatic or biochemical data. (more…)
BioMagResBank (BMRB) is the publicly-accessible depository for NMR results from peptides, proteins, and nucleic acids recognized by the International Society of Magnetic Resonance and by the IUPAC-IUBMB-IUPAB Inter-Union Task Group on the Standardization of Data Bases of Protein and Nucleic Acid Structures Determined by NMR Spectroscopy. In addition, BMRB provides reference information and maintains a collection of NMR pulse sequences and computer software for biomolecular NMR. Access to data in BMRB is free directly from its web site (URL http://www.bmrb.wisc.edu) and ftp site (ftp.bmrb.wisc.edu) and will remain so as public funding permits. The concept of a biomolecular NMR data bank was developed under a five-year research grant awarded to the University of Wisconsin-Madison from the National Library of Medicine, National Institutes of Health. BMRB at the University of Wisconsin-Madison has been supported since 1 September 1996 by the National Library of Medicine. (more…)
To promote “Chemical Biological Research” that aims to elucidate biological phenomena using chemical compounds as starting materials, chemical libraries and databases that describe the chemical and biological information of the libraries must be appropriately maintained.
Our group will construct chemical libraries and databases through the genetic and organic chemical researches of secondary metabolites from actinomycetes and fungi.
We will also promote basic research to validate the usefulness of the chemical library, to identify the molecular target of the active compound, and to elucidate the mechanism behind the action of the active compounds in the libraries.
We will continue to maintain infrastructure for chemical biological studies.
mrshiftdb2 is a NMR database (web database) for organic structures and their nuclear magnetic resonance (nmr) spectra. It allows for spectrum prediction (13C, 1H and other nuclei) as well as for searching spectra, structures and other properties. Last not least, it features peer-reviewed submission of datasets by its users. The nmrshiftdb2 software is open source, the data is published under an open content license. Please consult the documentation for more detailed information. nmrshiftdb2 is the continuation of the NMRShiftDB project with additional data and bugfixes and changes in the software.
Global Natural Products Social Molecular Networking (GNPS, https://gnps.ucsd.edu/) is a web-based mass spectrometry ecosystem that aims to be an open-access knowledge base for community-wide organization and sharing of raw, processed or identified tandem mass (MS/MS) spectrometry data. GNPS aids in identification and discovery throughout the entire life cycle of data; from initial data acquisition/analysis to post publication.
Modern drug discovery and today’s pharmacopeia is largely benefited from nature. More than 50% of approved drugs are natural products or natural product derivatives. It is estimated that there are about a million natural products have been isolated and many of them have been subjected to experimental assays to evaluate quantitative biological activities. However, there is a lack of an integrated datahouse to assemble these valuable data from individual literatures and provide to research community. With the motivation of addressing this gap, the Natural Product Activity and Species Source Database (NPASS) is developed to provide a freely accessible database integrating detailed information of species sources and biological activities of natural products.
A study of alternative medicine in the Philippines is, inevitably, a study of the origins of its people and the amalgam of cultures and influences: Centuries of Spanish colonial rule and the indelible consequences of its religion, hundreds of years of trade with China and assimilation of its healing arts, tribal and provincial diversities with its profusion of folklore and mythologies, all redounding into the Filipino’s easy disposition for superstitions and the allure for the esoteric, mystical, and fringe.
Certainly, western medicine prevails – in the metropolitan areas, with its heart centers and hospitals plush with the accoutrements of modern medicine, in the provincial capitals and cities equipped with the diagnostic machineries essential for the commerce of mainstream medicine. But for the majority of the rural poor – including the urban-suburban poor – there are the chronic crippling economic disabilities that make mainstream health care unaffordable, often accessed only as a debt-inducing last resort.
Plants For A Future (PFAF) is an online free-to-use information database and associated website for those interested in edible and useful plants. Originally focused on plants suitable for temperate regions, it has now been extended to include many of the more important tropical and sub-tropical edible and useful plants. The PFAF website (https://pfaf.org) enables access to powerful search facilities, and in all the database now contains information on over 8000 plants.
These resources are maintained by a UK registered charitable company. The objectives of the PFAF charity are ‘to advance the education of the public by the promotion of all aspects of ecologically sustainable vegan-organic horticulture and agriculture with an emphasis on tree, shrub and other perennial species; and the undertaking of research into such horticulture and agriculture, and dissemination of the results of such research.’ (more…)
Since 2001 the Intergovernmental Committee of the World Intellectual Property Organization (WIPO) has been discussed on world protection of the traditional knowledge of each country. At the seventh session of the Meeting of International Authorities under the Patent Cooperation Treaty (PCT) in February 2003, it was agreed that traditional knowledge should be included in the “Non-patent literature” part of the PCT minimum documentation according to criteria.
In line with the international protection movement, the Korean Intellectual Property Office (KIPO) decided to formulate information strategy planning for the building of a database of traditional knowledge in 2004. The database, which was compiled from 2005 to 2007, was based on traditional Korean medicine. A search service of the database commenced in December 2007. (more…)
Annies Remedy A-Z Medicinal Herb Chartcontains information on hundreds of traditional medicinal herbs and plants, yet it is still only a tiny fraction of the natural plants used for healing worldwide. The focus is for the most part on Western herbs though there is a sampling on the most popular herbs from the herbal traditions of China and Ayurveda as well as other cultures. The herb profiles include photographs, descriptions, medicinal uses, folklore, and references from the leading herbalists of today and ancient times. You can browse alphabetically by common names, to find information on a popular herb like ginger, or find it listed by its botanical name, Zingiber officinale.
BRAHMS (software updated to v7.9.10 on 14 February 2018) provides an integrated management system for preserved specimens, botanic gardens, seed banks and field surveys as well as those undertaking floristic or taxonomic research. The BRAHMS project is part of the research programme at Oxford to study and document plant diversity.
- Rapid Data Entry (RDE) optimises data and image capture, verifying data on entry.
- Querying with almost limitless flexibility.
- Sort, calculate, analyse and chart data based on single or multiple column selections.
- Format names, literature and other data for journal specific reporting.
- Design smart report templates using the graphic designer or the HTML formatter.
- Print reports directly from BRAHMS or send as text to documents.
- Map directly to Google Earth, ArcGIS, Diva or in fact any GIS you want.
- Calculate and map plant richness and bio-quality at any scale.
- Select and export data to XML, CSV, Excel, Access, TXT and others.
- Exchange data using Darwin Core, Symbiota, API/LAPI.
- Design websites directly from BRAHMS using the WebConnect module.
- Upload data and images to your website(s) with data restriction themes.
The Database of Natural Products for CAncer gene REgulation in Cancer Types
Department of Bioscience and Biotechnology, Sejong University, Korea
Natural Products CARE(NPCARE), a database for Natural Products-CAncer gene REgulation, provides the level of gene expression and the inhibition of cencer cells in various cancer types by the effect of extract and Natural compounds from more than 2000 native species including plants, marine species and microorganisms. 700 genes and 1100 cancer cell lines annotated by expert enable users to gain insight into finding potential anti-cancer drugs and understanding the mechanism of Natural products for cancer treatment.
For further information about the study please contact Choi et al.
Species 2000 is an autonomous federation of taxonomic database custodians, involving taxonomists throughout the world. Our goal is to collate a uniform and validated index to the world’s known species (plants, animals, fungi and microbes). Species 2000 is registered as a not-for-profit company limited by guarantee (registered in England No. 3479405)
Species 2000 began as a joint programme between CODATA(link is external) (International Council for Science: Committee on Data for Science and Technology), IUBS(link is external) (International Union of Biological Sciences) and the IUMS(link is external) (International Union of Microbiological Societies) in the early 1990’s. In 1996 eighteen taxonomic database organisations agreed to convert Species 2000 into a legal entity as the vehicle for developing the global Species 2000 programme. It is an associate participant in the Global Biodiversity Information Facility ( GBIF(link is external) ); a data provider to EC LifeWatch(link is external) ; and is recognised by the United Nations Environment Program ( UNEP(link is external) ) and the Convention on Biological Diversity ( CBD(link is external) ). (more…)
The aim of a World Register of Marine Species (WoRMS) is to provide an authoritative and comprehensive list of names of marine organisms, including information on synonymy. While the highest priority goes to valid names, other names in use are included so that this register can serve as a guide to interpret taxonomic literature.
The content of WoRMS is controlled by taxonomic and thematic experts, not by database managers. WoRMS has an editorial management system where each taxonomic group is represented by an expert who has the authority over the content, and is responsible for controlling the quality of the information. Each of these main taxonomic editors can invite several specialists of smaller groups within their area of responsibility to join them. (more…)
Calflora is 1. a website you can use to learn about plants that grow wild in California (both native plants and weeds); and 2. a nonprofit organization responsible for providing this service. Calflora is run by the team described above. Information in Calflora comes from many sources: public agencies, non-profits, scientists, private donors, and you!
You can enter the common or scientific name of a plant to find out about it. Or, use the name wizard to just enter part of a name and have the wizard make suggestions. The result is an illustrated table of plants that match the name you entered. Click one of the plants in the table to learn the details about that plant — in particular, where it’s been observed in California.
Try it out!
The diversity of plant species in Chinais extraordinary. With an area almost exactly that of the continental United States, China has nearly twice as many plant species, about 31,000 or one-eighth of the world’s total, versus only about 20,000 for the U.S.A. and Canada combined. This number includes about 8,000 species of medicinal and economically important plants and about 7,500 species of trees and shrubs.The Flora of China will describe and otherwise document these species. The Flora of China is a new work, being an English-language revision of the Flora Republicae Popularis Sinicae (FRPS), with taxonomy reflecting the current understanding of each group. The sequence of families is a modified Englerian system, similar to that used in FRPS; however, the circumscription of some families reflects the present understanding of the groups. All of the vascular plants of China will be covered, including brief descriptions, identification keys, essential synonymy, phenology, provincial distribution in China, brief statements on extra-Chinese distribution, and remarks regarding the circumscription of problematic taxa. (more…)
Our web tools can benefit you and your projects. Teachers can design hands-on ecological research projects for the schoolyard or local park without killing specimens. Park managers can track migrations of invasive species. Scientists can map large collections and present information about species. Amateur naturalists can upload images and make a life list of species they find. Environmental educators can build online field guides so simple they can be used even by the youngest beginner.
Everyone can benefit in some way from a partnership with Discover Life. With our powerful integrated web tools, you can:
Keep a life list – store your photographic (or video/audio) records of natural history. It’s your own electronic nature journal – this is a service somewhat like Flickr or Picasa web albums, but linked to species information, map data and more. You can keep thousands of photographs and other data on our site for free, and store associated information as well. To see examples of stored photographs, click here.
Map species you find – every time you enter locality data to one of your photo records, it will instantly map as a point on the Global Mapper. This works similarly to Google Earth, but our mapper is capable of mapping many more points, each of them attached to an individual record of species occurrence. (more…)
Super Natural II, a database of natural products. It contains 325,508 natural compounds (NCs), including information about the corresponding 2d structures, physicochemical properties, predicted toxicity class and potential vendors. Natural products are small compounds synthesized by living organisms. The chemical diversity of these molecules is tremendous and offers inspiration for innovations in medicine, nutrition, agrochemical research and life sciences. Most of the currently used cosmetics and drugs are either natural products or close derivatives thereof.