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Topic: Genome projects

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	Spartanburg SC \| GoUpstate.com \| Spartanburg Herald-Journal (Site not responding. Last check: 2007-10-16)
		Genome projects are scientific endeavours that ultimately aim to determine the complete genome sequence of an organism (be it an animal, a plant, a fungus, a bacterium, an archaean, a protist or a virus).
		The Human Genome Project was a landmark genome project and some have argued that the era of genomics is one of the more fundamental advances in human history.
		Genome assembly refers to the process of taking a large number of short DNA sequences, all of which were generated by a shotgun sequencing project, and putting them back together to create a representation of the original chromosomes from which the DNA originated.
	www.goupstate.com /apps/pbcs.dll/section?category=NEWS&template=wiki&text=genome_projects (1290 words)

	Genome - Wikipedia, the free encyclopedia
		The study of the global properties of genomes of related organisms is usually referred to as genomics, which distinguishes it from genetics which generally studies the properties of single genes or groups of genes.
		Since genomes and their organisms are very complex, one research strategy is to reduce the number of genes in a genome to the bare minimum and still have the organism in question survive.
		Genomes are more than the sum of an organism's genes and have traits that may be measured and studied without reference to the details of any particular genes and their products.
	en.wikipedia.org /wiki/Genome (975 words)

	Animal Genome Projects - Academic Info
		Gene Sequence of Yersinia pestis [the bacterium that causes plague]
		It includes data from the Drosophila Genome Projects and data curated from the literature.
		A joint project between the laboratories of Dr. Ethan Bier, UCSD Biology and Dr. Michael Gribskov, San Diego Supercomputer Center.
	www.academicinfo.net /biologygenomea.html (914 words)

	HGSC Sequencing Projects
		The HGSC is sequencing the genome of the tammar wallaby (Macropus eugenii) as part of the Tammar Wallaby Genome Sequencing Consortium, a collaboration between the HGSC and the Australian Genome Research Facility Ltd. (AGRF).
		The HGSC is sequencing the genome of the white-tufted-ear Marmoset (Callithrix jacchus).
		The goal of the project is to produce a seven-fold WGS shotgun assembly, using small insert plasmids as well as large insert clone ends from BACs and Fosmids.
	www.hgsc.bcm.tmc.edu /projects (1162 words)

	nature genome gateway - news - national (Site not responding. Last check: 2007-10-16)
		New plans to set up a high-speed genome sequencing center are being widely seen as evidence of an increased willingness by Japanese industry to invest into genomics and post-genomics research.
		A new joint Genome Research Centre between the German states of Berlin and Brandenburg is to be created - the successful result of a year of lobbying by senior life scientists.
		German genome scientists and industrial research managers have rejected accusations by a top government official that they have not been doing enough to convince the government of the political importance of genome research.
	www.nature.com /genomics/news/national.html (968 words)

	In the News - Genome Projects (Site not responding. Last check: 2007-10-16)
		Genome Projects are elucidating the complete genetic information or DNA sequence of an organism.
		On February 12, 2001 the near completion of the Human Genome Project has been announced.
		Most genome projects have deciphered the sequence of microbial and viral organisms.
	www.whatislife.com /news/news_genomics.html (273 words)

	genome.gov \| 1998 Release: Human Genome Sequencing Projects Funding
		Seven research projects to spell out the human genetic instruction book have been extended for a third year to further refine strategies for completing the DNA sequence of the human.
		The sequencing projects began two years ago to pilot test new ways to apply sequencing strategies to the large and complex human genome.
		To answer those questions, pilot project investigators have for the past two years been testing strategies that span the entire large-scale sequencing process, from up-front preparation of sequence maps through assembly and analysis of the data.
	www.genome.gov /10000602 (314 words)

	genome valence \| ben fry
		With several 'genome' projects nearing states of completion, a primary use of the data for biologists is to search for a sequence of letters and see if it's found in the genome of another organism.
		The genome of an organism is made up of thousands of genes (34,000 for the human, 20,000 for the mouse, and 14,000 for the fruitfly).
		Valence originated as a project for my master's thesis which focussed on using properties of organic systems as a method for dealing with large amounts of data from dynamic sources.
	acg.media.mit.edu /people/fry/genomevalence (519 words)

	Genome Projects
		Genome projects are scientific endeavours that aim to map the genome of a living being or of a species (be it an animal, a plant, a fungus, a bacterium, an archaean, a protist or a virus), that is, the complete set of genes caried by this living being or virus.
		The Human Genome Project was such a project.
		Some have argued that the era of genomics is one of the more fundamental advances in human history.
	www.geocities.com /bioinformaticsweb/genomicprojects.html (660 words)

	SurfWax: News, Reviews and Articles On Genome Projects
		Most genome projects have only sequenced one or two genomes from any species, said the study's first author of the Institute for Genomic Research in Rockville, Md. which makes it difficult to determine how much diversity exists between individuals.
		The project is one of 40 new genome projects announced Thursday by the Department of Energy Joint Genome Institute.
		Some typical questions which come to mind are: who is the owner of the results of the human genome projects and the results of the proteomics research.
	biology.surfwax.com /files/Genome_Projects.html (1107 words)

	A new set of bioinformatics tools for genome projects (Site not responding. Last check: 2007-10-16)
		One of the particular features of this project was that the general coordination, the DNA laboratories, and the bioinformatics and sequencing laboratories were geographically distant from one another, being distributed throughout much of Brazil (for information on the origin and significance of the network, see Simpson, 2001).
		In order to deal with the drawbacks inherent to projects of this type, a series of follow-up and management reports were made available daily on the project’s home page (www.brgene.lncc.br/cviolaceum).
		The two modules are interconnected, thus allowing genomic sequences generated during the assembly phase to be used during annotation; likewise the information generated by the annotation can assist in the process of assembly analysis.
	www.funpecrp.com.br /gmr/year2004/vol1-3/SCv0002_full_text.htm (4358 words)

	Council for Responsible Genetics
		On the one hand, both genome projects have affirmed what many scientists have been saying all along: the idea of a single-function gene is a myth.
		Furthermore, both human genome projects demonstrated the increasing difficulty of defining what a gene actually is. The “junk DNA” that many researchers regarded as useless now requires re-analysis.
		The human genome project has made clear that corporations that have already claimed genes as their own have, in fact, laid claim to a higher percentage of the entire human genome than they at first realized.
	www.gene-watch.org /programs/patents/genome-project.html (758 words)

	Microbial Genomics Research Projects
		Pyrococcus horikoshii: DOGAN, a genome database of microorganisms sequenced at NITE
		GeneDB: multiorganism database housing fungi, protozoa, bacterial and vector genomes
		Staphylococcus aureus MW2: DOGAN, a genome database of microorganisms sequenced at NITE
	www.microbialgenome.org /links.shtml (2160 words)

	TIGR Plant Genome Projects
		The Comprehensive Phytopathogen Genome Resource is a database dedicated to collation of genome sequence and annotation data for all plant pathogens (viruses, bacteria, fungi, stramenopiles, nematodes).
		The TIGR Loblolly Pine Functional Genomics Project, in collaboration with the Institute of Paper Science and Technology and funded by the National Science Foundation.
		The TIGR Castor bean Database provides links to the castor bean genome project at TIGR which includes sequencing and assembly of a 4X draft of the ~400 Mbp genome using a whole genome shotgun strategy and ~50,000 ESTs from different tissues to aid in gene discovery and annotation.
	www.tigr.org /plantgenomics/htdocs/databases.html (373 words)

	Genome biology
		Genomic biology takes a holistic approach to molecular biology and evolution by studying the complete genome, its genes, and its protein expression patterns.
		The Human Genome Project generated an unprecedented amount of knowledge about human genetics.
		Entrez Genome provides access to genomic data contributed by the scientific community for species whose sequencing and mapping is complete or in progress.
	www.ncbi.nih.gov /Genomes (132 words)

	Sinorhizobium Genome Projects (Site not responding. Last check: 2007-10-16)
		The genome of Rhizobium meliloti consists of a circular chromosome of 3.5 million nucleotides, two megaplasmids - pEXO of 1.7 million nucleotides and pnod-nif of 1.3 million nucleotides.
		Projects are currently underway to sequence this agriculturally important bacterium.
		Graduate student positions are available to study functional genomics and bioinformatics in Rhizobium meliloti.
	life.biology.mcmaster.ca /~brian/rhizobium.html (224 words)

	Counting the cost of genome projects
		In the opinion of scientists, at least, the expense of sequencing genomes will be more than offset by the medical and scientific gains to follow.
		Now, in this month's issue of Genome Research, a team led by Eric Lander of the Whitehead Institute for Biomedical Research analyzes the efficiency of current sequencing approaches and proposes a strategy to slash the price tag on genome projects.
		Deciphering the typical mammalian genome requires scientists to break up its millions of DNA base pairs into manageable fragments, sequence the pieces, and (the tricky part) somehow assemble them back together.
	www.eurekalert.org /pub_releases/1999-12/CSHL-Ctco-271299.php (223 words)

	Currently Supported Large-Scale Genome Sequencing Projects, National Institute of allergy and Infectious Diseases ...
		Genome sequencing reveals the lineup of paired chemical bases that make up the pathogen's DNA, the language of life.
		Recognizing the tremendous benefits of genome sequencing, NIAID has funded projects to sequence the full genomes of a number of medically important microbes, including the bacteria that cause tuberculosis, gonorrhea, chlamydia and cholera (see Table).
		This information is further analyzed to provide insight on important features of the genome that may affect the biology of the microbe and its ability to cause disease.
	www.niaid.nih.gov /cgi-shl/genome/genome.cfm (482 words)

	Category:Genome projects - Biocrawler (Site not responding. Last check: 2007-10-16)
		Genome projects are scientific endeavours that aim to map the genome of a living being or of a species.
		For more information, see the main article about Genome projects.
		This page was last modified 14:20, 15 Jan 2005.
	www.biocrawler.com /encyclopedia/Category:Genome_projects (47 words)

	Fungal genome analysis
		A breakthrough in genome research was the determination of the first complete eukaryotic genome sequence of the well-studied budding yeast Saccharomyces cerevisiae finished in 1996.
		The project will generate a new quality of a genome resource beyond the mere sequence data, integrating distributed database components and data aquisition sources.
		The German sequencing project of the Neurospora crassa chromosomes II and V as well as the manual annotation of the complete genome (sequenced by the Whitehead Institute Center for Genome Research, Cambridge, Massachusetts, USA) supported by the Deutsche Forschungsgesellschaft (DFG) will provide a putative gene set (around 10,000 genes) for analysis.
	mips.gsf.de /projects/fungi (491 words)

	Internet-based Distributed Computing Projects - Active Projects
		The project, called HMMER, uses the Hidden Markov Modeling technique to compare known DNA sequences (amino acids) against the data from the Human Genome Project to find similar sequences.
		United Devices' second project is searching for cancer-fighting drugs in partnership with the National Foundation for Cancer Research (NFCR) Centre for Drug Discovery in the Department of Chemistry at the University of Oxford, England.
		Folderol is a volunteer project that uses a screensaver, command-line client or system client application to simulate protein folding of the data from the Human Genome Project.
	distributedcomputing.info /distrib-2001/distrib-projects.html (4255 words)

	Rice Projects
		The cereals are the most important food crops in the world and determining the entire genomic sequence of a model cereal will reveal the basic gene set for monocot plants.
		The 430 Mb genome of rice (Arumuganathan and Earle 1991) is the smallest among the cultivated cereals and Nipponbare has the most comprehensive molecular genetic (Harushima et al.
		The first link compiles sequence and BLAST analysis of an ongoing project to develop a sequence tagged connector (STC) framework to sequence the rice genome.
	www.genome.clemson.edu /projects/rice/index.html (206 words)

	The Neurospora Genome Project: Home Page
		The Neurospora Genome Project (NGP) represents an effort to obtain partial or complete nucleotide sequences from a large number of cDNA clones derived from conidial, mycelial, unfertilized sexual and perithecial libraries of N.
		A German consortion coordinated by Dr. Ulrich Schulte (at the Institute of Biochemistry, Heinrich-Heine-University, D-40225 Duesseldorf) is sequencing two chromosomes (linkage groups II and V); this project is supported by the Deutsche Forschungsgesellschaft (DFG).
		The NGPC is charged with providing a venue for members of the community to organize genome projects and will serve as a clearing house for all Neurospora genome efforts.
	biology.unm.edu /biology/ngp/home.html (690 words)

	Cloning and assembly strategies in microbial genome projects -- Frangeul et al. 145 (10): 2625 -- Microbiology
		of a microbial genome is that of whole-genome shotgun sequencing.
		Bacillus subtilis genome project: cloning and sequencing of the 97 kb region from 325 degrees to 333 degrees.
		Rose, M. and Entian, K. New genes in the 170 degrees region of the Bacillus subtilis genome encode DNA gyrase subunits, a thioredoxin, a xylanase and an amino acid transporter.
	mic.sgmjournals.org /cgi/content/full/145/10/2625 (5473 words)

	Information: Introduction to the Sanger Institute
		Human Genome Project: the Sanger Institute is responsible for sequencing one-third (1,000,000,000 base-pairs) of the human genome.
		Both organisms are important in biological and biomedical research and their genome sequence will speed efforts to identify human genes (and their control regions), to model human disease and to study developmental control.
		We have instituted projects to study human DNA sequence variation and to correlate those changes with genetic diseases.
	www.sanger.ac.uk /Info/Intro/operations.shtml (514 words)

	Plasmodium falciparum Genome Project
		To maximise the benefits to the scientific community of Plasmodium genome sequencing, the Pathogen Sequencing Unit is committed to the curation of Plasmodium spp.
		A project to shotgun sequence the genome of the IT parasite line is underway as a component of the BioMalPar Consortium(European Union 6th Framework Program, Contract number LSHP-LT-2004-503578).
		To facilitate comparative genomic analyses and to circumvent possible artefacts resulting from the study of laboratory cultured strains we have extended our analyses to a clinical isolate obtained from a female patient at St Georges Hospital London.
	www.sanger.ac.uk /Projects/P_falciparum (715 words)

	Sequencing Projects
		The genome center at the University of Wisconsin was established to sequence the genome of Escherichia coli K-12 strain MG1655, which has served for decades as a model organism for basic studies of biochemistry, physiology, genetics and biotechnology.
		When the sequencing of this genome was completed in 1997, we turned to a group of related bacterial pathogens, making use of the E.
		The results of genome sequencing support the widespread involvement of horizontal transfer in the evolution of the Enterobacteriaceae, leading to the presence of distinct islands of DNA in different lineages.
	www.genome.wisc.edu /sequencing.htm (272 words)

	About the Human Genome Project
		The project originally was planned to last 15 years, but rapid technological advances accelerated the completion date to 2003.
		A unique aspect of the U.S. Human Genome Project is that it was the first large scientific undertaking to address potential ELSI implications arising from project data.
		Another important feature of the project was the federal government's long-standing dedication to the transfer of technology to the private sector.
	www.ornl.gov /sci/techresources/Human_Genome/project/about.shtml (680 words)

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