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Databases – Page 2

Flora of China

Flora of ChinaThe 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…)

D i s c o v e r L i f e

DiscoverAbout
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

Super Natural IISuper 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.

Url : http://bioinf-applied.charite.de/supernatural_new/index.php

Harvard University Herbaria & Libraries

History
The rich and varied Harvard University botanical collections trace back to the activities of Asa Gray, who came to Harvard in 1842. Gray arrived at a particularly opportune time in American botanical history. Private collectors accompanying various survey expeditions in the expanding American West were sending back an abundance of specimens to scholars in the East. Gray, who had been collaborating with John Torrey in New York on a Flora of North America, was the ideal person to receive, describe and catalogue them, many of which proved new to science. At the same time Gray used duplicates from those collections to exchange with his colleagues in other parts of the world, who themselves were reaping the fruits of an expanding period of exploration in the Old World. The results of those efforts, which continue to this day, have resulted in a collection cosmopolitan in scope, unique in much of its representation and, with well over five million specimens, among the largest in the world. (more…)

Healing Food Reference

This site is part of a public education project created by Mike Adams, the Health Ranger, and hosted by Truth Publishing. Its purpose is to educate and empower consumers with information they can use to prevent and even help reverse degenerative disease. There are no commercial sponsors of this site, and neither Mike Adams nor Truth Publishing was paid anything to create this site.

Nature’s foods contain powerful medicine in the form of phytonutrients, and knowing how to use those natural medicines empowers people with the information they need to be healthier, happier and free from the ravages of chronic disease. (more…)

Royal Botanic Garden Edinburgh

rbge

 

The Royal Botanic Garden Edinburgh (RBGE) was founded in the 17th century as a physic garden, growing medicinal plants. This first Garden was in St Anne’s Yard, part of the Holyrood Palace grounds, and occupied an area the size of a tennis court.

RBGE now extends to four sites – Edinburgh, Benmore (near Dunoon in Argyll), Dawyck (near Peebles in the Borders) and Logan (near Stranraer in Galloway), and is the second richest collection of plant species in the world.

Since the 19th century it has received public funding, and it is now sponsored by the Scottish Government’s Environment and Forestry Directorate (ENFOR). The Garden’s remit and mission is rooted in the National Heritage (Scotland) Act 1985. (more…)

PASMet

PASMetPASMet (Prediction, Analysis and Simulation of Metabolic reaction networks) is a user-friendly web-based platform for predicting, modelling, and analysing metabolic systems. It provides an interface for accessing various computational algorithms allowing users to easily work in computational biology.

Url : http://pasmet.riken.jp/

Chem-TCM database

CHEM TCMChem-TCM database gathers 12070 chemical records, constituents of approximately 350 herbs used in traditional Chinese medicine. There are over 9,500 unique molecular records adjusted for overlapping presence in multiple plants and different stereochemistry. Chem-TCM has four parts: chemical identification, botanical information, predicted activity against common Western therapeutic targets, and estimated molecular activity according to traditional Chinese herbal medicine categories. Chemical information Chemical information lists calculated chemical-physical properties, chirality, name, InChI Key, Registry Number, pharmacology (where known), molecular scaffold type and natural product class. There are 10 major phytochemical classes: aliphatics, alkaloids, simple phenolics, lignans, quinones, polyphenols (flavonoids and tannins), and mono-, sesqui-, di-, and triterpenes (including sterols). The distribution of these classes in relation to traditional Chinese medicine profile is delineated with SOM-Ward clustering. (more…)

NAPRALERT

NAPRALERT® is a relational database of all natural products, including ethnomedical information, pharmacological / biochemical information of extracts of organisms in vitro, in situ, in vivo, in humans (case reports, non-clinical trials) and clinical studies. Similar information is available for secondary metabolites from natural sources.

Background

In 1975 the system began a systematic search of the literature by examining every journal pertinent to natural products in our UIC Health Science Library, as well as viewing the Table of Contents of a large number of journals from the Internet on a regular (monthly) basis. These journals were selected from a list of journals that historically we knew contained pertinent data for the system. In addition pertinent sections of Chemical Abstracts, particularly the Biochemistry Section, were examined for articles not found in our Library sources and original articles were obtained via Interlibrary Loans. We are fortunate also to have many foreign journals in which articles are rarely found through the aforementioned sources.

To date more than 200,000 scientific papers and reviews are included in NAPRALERT, representing organisms from all countries of the world, including marine organisms, including the geographic origin from where the organisms were obtained. (more…)

Super Natural II

SuperSuper 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.

Url : http://bioinf-applied.charite.de

The Universal Natural Products Database (UNPD)

The Universal Natural Products Database (UNPD) was designed to be a comprehensive resource of natural products for virtual screening. UNPD comprises 229358 molecules in the current version and their identification information (chemical name, CAS registry number, molecular formula, molecular weight, international chemical identifier and simplified molecular input line entry specification) and molecular properties (AlogP, Number of Hydrogen Bond Acceptor, Number of Hydrogen Bond Donors, ). All 3D structures (sdf and mol2 format) were optimized in the MMFF94 force field and can be freely accessed

Url : http://pkuxxj.pku.edu.cn/UNPD/introduction.php

Dictionary of Natural Products Online

UntitledThe Chapman & Hall/CRC Chemical Database is a structured database holding information on chemical substances. It includes descriptive and numerical data on chemical, physical and biological properties of compounds; systematic and common names of compounds; literature references; structure diagrams and their associated connection tables. The Dictionary of Natural Products Online is a subset of this database and includes all compounds contained in the Dictionary of Natural Products (Main Work and Supplements).

The Dictionary of Natural Products (DNP) is the only comprehensive and fully-edited database on natural products. It arose as a daughter product of the well-known Dictionary of Organic Compounds (DOC) which, since its inception in the 1930s has, through successive editions, always been a leading source of natural product information.

In the early 1980s, following the publication of the Fifth Edition of DOC, the first to be founded on database methods, the Editors and contributors for the various classes of natural products embarked on a programme of enlargement, rationalisation and classification of the natural product entries, while at the same time keeping the coverage up-to-date. In 1992 the results of this major project, which had grown to match DOC in size, were separately published in both book (7 volumes) and CD-ROM format, leaving DOC with coverage of only the most widely distributed and/or practically important natural products. DNP compilation has since continued unabated by a combination of an exhaustive survey of current literature and of historical sources such as reviews to pick up minor natural products and items of data previously overlooked. (more…)

The Natural Capital™ Plant Database

The Natural Capital™ Plant Database is a repository of temperate climate plant information for ecological design. Our partner designers have combined the best sources of plant research and documentation in order to provide the highest integrity for a wide variety of users.  Whether you are a first-time gardener or an experienced permaculture designer, we hope you find the information you need to take your knowledge of plants and ecological systems to the next level.  We use citations from multiple sources and provide detail on plant characteristics, tolerances and behaviors, ecological functions, human uses, concerns, and plant associates.

Coming Soon! Bamboo and Citrus plants in 2015. We hope to add many more tropical plants and look for submissions from our subscribers.

The Natural Capital Plant Database provides a variety of design tools from searching for plants based on selected criteria to creating ecological analogs.  Downloadable query spreadsheets are formatted on most of the screens with all the information needed for sorting and refining plant choices.

Url : http://permacultureplantdata.com/

Natural Medicines

Systematic Aggregation, Analysis, and Review of the Literature
Search Strategy
To prepare each Natural Medicines monograph, electronic searches are conducted in many databases, including AMED, CANCERLIT, CINAHL, CISCOM, the Cochrane Library, EMBASE, HerbMed, International Pharmaceutical Abstracts, Medline, and NAPRALERT. Search terms include the common name(s), scientific name(s), and all listed synonyms for each topic. Searches are conducted of additional journals (not indexed in common databases), and of bibliographies from selected secondary references. No restrictions are placed on language or quality of publications. Researchers in the field of complementary and alternative medicine (CAM) are consulted for access to additional references or ongoing research.

Selection Criteria
All literature is collected pertaining to efficacy in humans (regardless of study design, quality, or language), dosing, precautions, adverse effects, use in pregnancy/lactation, interactions, alteration of laboratory assays, and mechanism of action (in vitro, animal research, human data). Standardized inclusion/exclusion criteria are utilized for selection. (more…)

The National Tropical Botanical Garden (NTBG)

UntitledThe National Tropical Botanical Garden (NTBG) is a not-for-profit institution, dedicated to discovering, saving, and studying the world’s tropical plants and to sharing what is learned. In just over 40 years, the NTBG has grown to encompass nearly 2,000 acres of gardens and preserves. Thousands of species have been gathered from throughout the tropical world, through hundreds of field expeditions by staff and through collaborations with other institutions and researchers, to form a living collection that is unparalleled anywhere. This collection includes the largest assemblages of native Hawaiian plant species and of breadfruit cultivars in existence. Many of these plants are threatened and endangered or have already disappeared from their native habitats. In its preserves and beyond its properties, the NTBG is actively working to restore degraded habitats, further expanding its efforts to save plants that are otherwise faced with extinction. NTBG’s gardens are not only havens for imperiled plants – they are living laboratories for both staff scientists and visiting researchers from all over the world. An extensive research library and herbarium are located at NTBG’s headquarters and a state-of-the-art conservation and horticulture center is in the adjacent McBryde Garden. (more…)

Plant Database

About

The University of Connecticut has developed this site dedicated to the ornamental attributes, appropriate use and identification of landscape plants. This site is geared toward the teaching of landscape plants and contains valuable information for students, homeowners and plant professionals.

At the core of this site are plant information pages that contain text, photographs, illustrations and latin name pronounciations. The plants listed in this resource are meant to create an awareness of the great variety of ornamental plants that will grow in USDA hardiness zone 6 or colder, and to encourage people to think about planting a greater variety of ornamentals. Users should be aware that some plants listed are not readily available and may actually be difficult to find.

The interactive Plant Selector is available to allow users to search the University of Connecticut Plant Database to find trees, shrubs and vines which meet specific landscape situations and express particular ornamental traits.

The majority of images on the UConn Plant Database have been provided by Dr. Mark H. Brand, University of Connecticut. Others who have contributed photographs include: Dr. Edward Corbett, University of Connecticut; Dr. Glenn Dryer, Connecticut College Arboretum; Kimberly A. Mason, University of Connecticut; Jonathan M. Lehrer, University of Connecticut; Michael Harvey, Bartlett Arboretum; Dr. Mark Starrett, University of Vermont; Margaret Taylor, Storrs, CT; and the American Conifer Society.

Url : http://hort.uconn.edu/

PlantGDB and Genome Annotation

About

The plantgdb.org web resource is currently being managed as part of an NSF-funded project (IOS-1126267) to develop robust genome annotation methods, tools, and standard training sets for the plethora of plant genomes currently or soon to be sequenced. Read more about the project here.

Previously, PlantGDB was developed under NSF grants IOS-0606909 and DBI-0110254 and DBI-0321600.

Project Objectives

The scale of sequence and other data accumulation in plant genomics is outstripping our ability effectively to annotate those genomes. The goal of this project is to develop novel, highly automated, scalable, comprehensive, and accurate approaches to genome annotation to address this problem. Project deliverables include (1) software that implements the novel prediction algorithms, (2) visualization and data access portals, and (3) a cyberinfrastructure environment implementation of the developed tools for distributed computing, sharing of protocols, and analysis provenance recording. In the long run, the project seeks to explore the extent to which genomic biology can transition from a largely descriptive to a highly predictive science driven by quantitative measurements, with algorithms and computation as the domain-adapted language. Read more about project goals and approaches.

(more…)

The Philippine Herbs and Supplements Research Database

Philippine HerbThe Philippine Herbs and Supplements Research Database website was initially funded by the Department of Agriculture and Fisheries Biotechnology Program. The site is a repository of researches on Philippine medicinal plants, as well as of studies on health supplements used in the country. It is hoped that the website will serve as a “one-stop site” for RESEARCHERS and other stakeholders with interest on Philippine herbs and supplements.

The site is currently divided under five (5) major divisions we believe will assist researchers embarking on a research topic on Philippine herbs and supplements, marked on the MAIN MENU bar as: 1) RESEARCH DATABANK; 2) RESEARCH TOOLS; 3) MONOGRAPHS & ADVISORIES; 4) BOOKS & REVIEWS; and 5) LINKS. Hovering the mouse cursor on a selected division expands it in a drop down menu selections. The categories of selections may be readjusted in future site enhancements and upgrades.

On the TOP LEFT portion of the site below the MAIN MENU bar is the site SEARCH button for searching of documents and related articles contained on the website databases corresponding to keywords entered in the space provided.  (more…)

Regional Plant Research Center

RPRC is envisioned to become the largest Botanic Garden in Eastern India. Conservatories for specialized groups of plants shall be established for research and propagation. A detail inventory of plant resources of eastern India with specific reference to RET plants would be developed for monitoring. Bio-prospecting for human welfare would be one of the major focuses of research agenda. Advanced laboratories and instrumentation facility would help in crop improvement and herbal drug development. Useful national and international collaborations will strengthen scientific resources and add value to applied research programs. The Center is poised to play a key role in imparting advanced training on biotechnology in addition to the ongoing Ph.D and M.Phil (project) courses. Short and long term courses on Systematic botany and molecular taxonomy will

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