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Chromosome Reports Description
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| In effort to allow the users of the
essentially finished
sequence viewable at the NCBI and the
UCSC Human
Genome Browser to evaluate the quality of the human
genome sequence, we have created a series of web pages that show comparisons
with existing genome-wide sequence tagged sites (STS) maps, BAC end
sequence pair information, and clone sequence
overlaps. Using this resource, areas in the genome of special research
interest can be examined to determine whether the sequence information
is accurate and reliable before expensive and time-consuming
experiments are undertaken.
The following sequencing centers have primary responsibility for the listed chromosomes:
| Sequencing Center | Contact | Chromosomes |
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| Baylor College of Medicine | Steve Scherrer | 3, 12 |
| Genoscope National Sequencing Centre | Jean Weissenbach | 14 |
| Dept. of Energy Joint Genome Institute | Joe Monforte | 5 |
| Los Alamos National Laboratory | Norman Doggett | 16 |
| RIKEN Human Genome Research Group | Todd Taylor | 11, 21 (21 consortium) |
| Sanger Centre | Jane Rogers | 1, 6, 9, 10, 13, 20, 22, X |
| Stanford Human Genome Center | Jane Grimwood | 19 |
| Washington University Genome Sequencing Center | Rick Wilson | 2, 4, 7, Y |
| Whitehead Institute | Chad Nausbaum | 8, 15, 17, 18 |
More information about the sequencing effort can be found at Ensembl's
Human Assemblies Genome
Server and NCBI's Human Genome
Sequencing web sites.
Each center is responsible for producing a complete recipe (agp file)
composed of accessioned sequences for their chromosome(s). All of the sequence
contained in the ordered and oriented portion of each chromosome is finished sequence.
For the essentially finished sequence, web pages have been created
showing how each of these compare with other sources of information.
Currently, the user can view the correspondence between the essentially finished sequence
and sequence-tagged site STS maps in both a
scatter plot and in a tabular format. The STS maps
employed in this analysis include the
Genethon and
Marshfield
genetic maps, the
Whitehead
Institute YAC map, and the NCBI GeneMap99 GB4 and
G3,
Whitehead
Institute, and
Stanford
TNG radiation hybridization (RH) maps. In addition, there is BAC End Pairs and
Clone Overlap information. A
Summary Page is provided that
shows a high-level view of all of this information for each
chromosome. Multiple sources of information are used because each has
errors. With this combination, it can be determined often whether
there is an error in one of the chromosome sequences, or if there is a mistake in the
conflicting information.
Feedback concerning both these webs pages and the underlying
clone maps on which they are based is encouraged. If there appears to
be an error in the chromosome sequence, please alert the chromosome
coordinator for the corresponding chromosome as listed in the table
above. Please include supporting evidence showing why the current sequence
is not accurate.
For general comments regarding these web pages, please contact
Terry Furey at UC Santa Cruz.
Terry Furey
Last modified: Fri Dec 20 09:41:44 PST 2002
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