Geometry.Net - Biology: Taxonomy

NCBI Taxonomy Homepage
Searchable and browsable taxonomy tree of organisms for which there are publicly available gene sequences.
http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html/

Extractions: Recent changes to classification Taxonomy Tip of the Day Did you know that BLAST sequence similarity searches can be limited and analyzed by taxonomic criteria? For example, typing 'Bacteria' into the organism field in the Advanced Blast program will limit a BLAST search to only bacterial sequences. In addition, you can view BLAST results sorted by organism and other taxonomic criteria by following the 'Taxonomy reports' link. Arabidopsis thaliana Escherichia coli Pneumocystis carinii Bos taurus ... Zea mays Comments and questions to info@ncbi.nlm.nih.gov
Digital Taxonomy - Introduction
An attempt to present a wideranging resource of information for biodiversity data management in the Category Science Biology taxonomy Software Taxonomic DatabasesDigital taxonomy. An Information Resource on Biodiversity Data Management.
http://www.geocities.com/RainForest/Vines/8695/
Learning Skills Program - Bloom's Taxonomy
Bloom's taxonomy *. Benjamin Bloom created this taxonomy for categorizing levelof abstraction of questions that commonly occur in educational settings.
http://www.coun.uvic.ca/learn/program/hndouts/bloom.html

Extractions: Bloom's Taxonomy Benjamin Bloom created this taxonomy for categorizing level of abstraction of questions that commonly occur in educational settings. The taxonomy provides a useful structure in which to categorize test questions, since professors will characteristically ask questions within particular levels, and if you can determine the levels of questions that will appear on your exams, you will be able to study using appropriate strategies. Knowledge observation and recall of information knowledge of dates, events, places knowledge of major ideas mastery of subject matter Question Cues: list, define, tell, describe, identify, show, label, collect, examine, tabulate, quote, name, who, when, where, etc. Comprehension understanding information grasp meaning translate knowledge into new context interpret facts, compare, contrast order, group, infer causes predict consequences Question Cues:
Page Lab
About taxonomy and systematics at the University of Glasgow, with links to other internet resources on these subjects.
http://taxonomy.zoology.gla.ac.uk/

Extractions: "Taxonomy at Glasgow" site relauched as "Page Lab" web site. Welcome to the Page lab web site! Our research interests include host-parasite cospeciation, phylogenetic inference, supertrees, genome evolution, RNA secondary structure and evolution, and louse phylogeny. Use the tabs above to browse the site. MrBayes web form (create "mrbayes" blocks online) Daniel Huson's SplitsTree ported to Mac OS X Modified MinCut Supertrees presentation by Rod Page given at WABI 2002. is available for Mac OS. Page, Roderic D. M., editor Tangled Trees: Phylogeny, Cospeciation, and Coevolution
GRIN TAXONOMY HOME PAGE
GRIN taxonomy. A recent paper on GRIN taxonomy provides a thorough discussion ofdata standards and taxonomic philosophy. General Queries of GRIN taxonomy
http://www.ars-grin.gov/npgs/tax/

Extractions: GRIN taxonomic data provide the structure and nomenclature for the accessions of the National Plant Germplasm System ( NPGS ). Many plants (37,000 taxa, 14,000 genera) are included in GRIN taxonomy, especially economic plants. A recent paper on GRIN taxonomy provides a thorough discussion of data standards and taxonomic philosophy. Complex queries of species data (using multiple criteria)
UCMP Web Lift To Taxa
Access data on the fungi, plantae, chromista, metazoa, and protisa kingdoms. With photos and descriptions of key entries, and scientific names.
http://www.ucmp.berkeley.edu/help/taxaform.html
Taxonomy Lab: An Exercise In Taxonomy, Evolution, And Classification, Interdisci
Lab is used in various courses at the university. It seeks to reveal the field's creativity and how classification schemes are derived.
http://jrscience.wcp.muohio.edu/lab/TaxonomyLab.html

Extractions: Welcome! It is 12:30 PM on Tuesday, March 18, 2003. This page has served visitors. Last Update: Friday, September 27, 2002. We use this lab in Patterns and Processes , and Tropical Marine Ecology . This exercise illustrates the creativity involved in taxonomy and the roles form and function, ancestral traits and derived characters play in generating classification schemes. It can also serve as an introduction to topics in evolution and paleontology. We have noticed that in the field, after completing this exercise, students begin to recognize distinctions and similarities in fauna which they may have not noticed before. Terms for Discussion Phylogeny Divergence Convergence Linnaeus Heirarchy Evolutionary Tree Homologous Structure Morphology Function It has become apparent to scientists that the biosphere consists of, at a minimum, 1.5 million described species. Some researchers estimate that there may be upwards of 40 million species (Go here for an
Agent Or Program
Paper on the nature of autonomous agents. Discusses the differences between an agent and an ordinary program. Is it an Agent, or just a Program? A taxonomy for Autonomous Agents
http://www.msci.memphis.edu/~franklin/AgentProg.html

Extractions: Abstract The advent of software agents gave rise to much discussion of just what such an agent is, and of how they differ from programs in general. Here we propose a formal definition of an autonomous agent which clearly distinguishes a software agent from just any program. We also offer the beginnings of a natural kinds taxonomy of autonomous agents, and discuss possibilities for further classification . Finally, we discuss subagents and multiagent systems On meeting a friend or colleague that we haven't seen for a while, or a new acquaintance, some version of the following conversation often ensues:
Supernova Taxonomy
A discussion of the taxonomy of supernovae.
http://rsd-www.nrl.navy.mil/7212/montes/snetax.html

Extractions: Supernova Taxonomy First published 1996 October 17; last updated 2002 February 12 by Marcos J. Montes The observational classes are in sharp-cornered boxes. Theoretical interpretations (i.e. possible progenitors ) are listed in the boxes with rounded corners. Examples are listed underneath the observational classes. It should be noted that SN 1987A had a fairly odd behavior (for fairly well understood reasons) and is certainly not a prototypical SN IIP. It was rather sub-luminous, and while it may represent a certain population of sub-luminous SN II, we will probably not detect too many members of this population precisely because they are sub-luminous. SN 1987A may be better classified as an SN IIpec. A theoretical interpretation of observations has driven the organization of this plot. At the left side, there is little or no hydrogen present in the ejecta; as one moves right, there is increasing evidence for hydrogen. SN IIP have a plateau in their post-maximum light curve, while SN IIL do not (Barbon et al 1979). SN IIL and IIP may The current classification scheme has these broad divisions: SN I show no hydrogen lines in their early spectra; SN II do show hydrogen in their early spectra. Subclasses determined by spectral evidence are denoted by lower-case letters, Ia, Ib, Ic, IIb (Woosley et al. 1987; Filippenko 1988), and IIn (Schlegel 1990) . Subclasses determined by certain properties of the (usually)
HORTAX - The Horticultural Taxonomy Group
Gives the history of HORTAX, an association of taxonomists and horticulturists interested in the classification and nomenclature of cultivated plants, member information and links to the archives of HORTAX News.
http://www.hortax.org.uk/

Extractions: The Horticultural Taxonomy Group Welcome to our Web pages. HORTAX was formed in 1988 as a privately invited association of taxonomists and horticulturists based in the British Isles and having a professional interest in the classification and nomenclature of cultivated plants. Members of HORTAX History and Achievements of HORTAX Symposia on the Taxonomy of Cultivated Plants Archive of HORTAX NEWS Issues ... Related Web Resources Contact us:
Vas's M.Phil Chapter 7 Taxonomy
Discussions of past classification systems and development of a new one.
http://www.gigaflop.demon.co.uk/comp/chapt7.htm

Extractions: It explains various published parallel computer taxonomies, and introduces a new one based on how I saw the field developing. At the moment there are only a few chapters is on line so apologies for any cross references to other chapters. To see the formulae later on in this page your browser should display mathematical symbols correctly.
Image Database Search
Searchable taxonomy map from University of British Columbia.
http://www.science.ubc.ca/~frst111/cgi-bin/db_gallery/taxamap.html
African Wildlife - Taxonomy
Taxonomic rank of common African animals, some with photographs.
http://www.eskimo.com/~rowdenw/EEA/photo/spp/spp-FContents.html
Page Lab - Other Software
taxonomy, Systematics, and Bioinformatics at the University of Glasgow. Home People Research Data Software Publications Services Teaching Links Category Science Biology taxonomy Software Directories
http://taxonomy.zoology.gla.ac.uk/software.html

Extractions: at the University of Glasgow Home People Research Data ... Programming and other documents This is a list of some software we have found useful. A much more extensive list is provided by Joe Felsenstein. View NEXUS and PHYLIP format tree files on Macs (68K and Power Mac) and Windows (16 and 32 bit). Unix version as well ( TreeView X View and manipulate MEGA format trees under Windows. C ollection of A PL F unctions for C ladistic A nalysis, written by Rino Zandee . Currently Macintosh only, but Windows version coming. MrBayes is a program for Bayesian inference of phylogeny using Markov Chain Monte Carlo methods. Avaialble for Mac, PC, and Unix. The standard program for phylogenetic analysis (Mac OS, Windows, Unix). The most comphrehensive, all imbracing collection of phylogenetic programs, including parsimony, maximum likelihood, and distance methods, plus utility programs. Runs on anything. Spectronet is a package for the analysis and visualization of complex evolutionary data that is not best represented by a bifurcating tree. Given an alignment in NEXUS format, the package works by computing a collection of weighted splits or bipartitions of the taxa and then allowing the user to interactively analyze the resulting collection using tools such as Lento-plots and median networks (Windows only).
Entrez-Taxonomy
The NCBI Entrez taxonomy Homepage. The NCBI taxonomy database containsthe names of all organisms that are represented in the genetic
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Taxonomy
NCBI Taxonomy Homepage
taxonomy resource description. Allow to browse taxonomy tree that containsclassification of organizms. NCBI Front Page, The NCBI taxonomy Homepage.
http://www.ncbi.nlm.nih.gov/Taxonomy/

Extractions: Recent changes to classification Taxonomy Tip of the Day Did you know that BLAST sequence similarity searches can be limited and analyzed by taxonomic criteria? For example, typing 'Bacteria' into the organism field in the Advanced Blast program will limit a BLAST search to only bacterial sequences. In addition, you can view BLAST results sorted by organism and other taxonomic criteria by following the 'Taxonomy reports' link. Arabidopsis thaliana Escherichia coli Pneumocystis carinii Bos taurus ... Zea mays Comments and questions to info@ncbi.nlm.nih.gov
NCBI Taxonomy Homepage
taxonomy resource description. Allow to browse taxonomy tree that contains classification of organizms. Consequently, the classification found in the NCBI/GenBank taxonomy database will occasionally change to incorporate new
http://www.ncbi.nlm.nih.gov/Taxonomy/tax.html

Extractions: Recent changes to classification Taxonomy Tip of the Day Did you know that BLAST sequence similarity searches can be limited and analyzed by taxonomic criteria? For example, typing 'Bacteria' into the organism field in the Advanced Blast program will limit a BLAST search to only bacterial sequences. In addition, you can view BLAST results sorted by organism and other taxonomic criteria by following the 'Taxonomy reports' link. Arabidopsis thaliana Escherichia coli Pneumocystis carinii Bos taurus ... Zea mays Comments and questions to info@ncbi.nlm.nih.gov
Natural Perspective
Dedicated to the beauty and science of nature and to the joys nature brings to those who explore it. The material here is organized according to the biological principles of taxonomy.
http://www.perspective.com/nature/index.html

Extractions: Plantae Fungi Animalia Protoctista ... Biosphere Monthly Feature: The Plant Kingdom This site is dedicated to the beauty and science of nature and to the joys nature brings to those who explore it. The joy of seeing "familiar faces" everywhere; the invigoration a nature walk brings to both body and soul; the beauty and diversity of our Earthly co-habitants; and the pleasure of eating something found along the way. The material here is organized according to the biological principles of Taxonomy, or classification: We live on a planet called Earth. Biologists call the Earth and its atmosphere the Biosphere . The Biosphere is composed of organic and inorganic matter. Organic matter (stuff containing carbon) is again divided into living and non-living objects. All living beings are currently divided into five Kingdoms. Four of these Kingdoms are depicted above: Plantae , the plant kingdom, studied in the field of Botany Fungi , the kingdom of fungus and molds, studied as Mycology Animalia , the animal kingdom, the domain of Zoology ; and Protoctista , a catch-all for all other "higher-order" organisms from single-celled microbes to large seaweeds (algae). The fifth kingdom
DELTA: DEscription Language For TAxonomy
A flexible format for encoding taxonomic descriptions for computer processing. It can be used to produce naturallanguage descriptions, keys, classifications, and information-retrieval systems.
http://biodiversity.bio.uno.edu/delta/

Extractions: The DELTA format (DEscription Language for TAxonomy) is a flexible method for encoding taxonomic descriptions for computer processing. It has been adopted by the International Taxonomic Databases Working Group (TDWG) as a standard for data exchange. DELTA-format data can be used to produce natural-language descriptions, interactive or conventional keys, cladistic or phenetic classifications, and information-retrieval systems. Biodiversity and Biological Collections Server

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