ANNOUNCING:
WHITEHEAD INSTITUTE/MIT CENTER FOR GENOME RESEARCH
HUMAN GENOMIC MAPPING PROJECT
DATA RELEASE 10 (MAY 1996)
The tenth release of data from the Human Physical Mapping
Project at the Whitehead Institute/MIT Genome Center, covering data
generated through the end of May, 1996, is now available.
This data release contains YAC screening data for 21,412 sequence tagged
sites (STSs) screened on the CEPH mega-YAC library. For each STS, we
report addresses for the YACs found to contain the STS. From the data
obtained so far, there are 292 contigs assembled using single
linkage between STSs.
In addition, we also report a radiation hybrid map of the genome
containing 11599 STS markers mapped on the Genebridge Panel, as well
as integrations of the genetic, radiation hybrid and YAC contig
maps.
The data is available electronically in two ways.
ANONYMOUS FTP: The entire data release is available as a set of
Microsoft Excel files and tab-delimited ascii files on our ftp
server. Using an ftp client (such as "Fetch" on the Macintosh),
connect to
ftp-genome.wi.mit.edu
Use "anonymous" as your user name, and give your e-mail address as your
password. The data files are present in the directory
/distribution/human_STS_releases/may96.
The contents are as follows:
5-96.INTRO.txt Introduction to the data release, in straight text format
5-96.INTRO.html The same in HTML (World Wide Web) format
5-96.STS2YAC.txt STS & YAC screening data as tab-delimited text.
chromosomes/ The same, split into smaller chromosome-specific files
5-96.YAC2STS.txt Inverse map of YAC to STS screening data
5-96.CONTIG2STS.txt YAC contig lists.
5-96.CONTIG2STS.txt The same, inverted.
5-96.SEQUENCES.txt Full sequences of STSs developed in-house.
5-95.MAPPED.EST.txt Cross reference between ESTs, IMAGE clones and map positions.
5-96.ALIASES.txt Cross reference of STS names.
pictures/ Pictures of integrated maps in Macintosh and PS forms.
rhmap/ Radiation hybrid maps.
The data is also available in compressed form using the gzip program.
THE WORLD-WIDE WEB: You will need a World Wide Web client such as
Mosaic (Unix, MS-Windows and Macintosh) or MacWeb (Macintosh).
Instruct your client to connect to
http://www-genome.wi.mit.edu/
>From there, follow the "Human Physical Mapping Project" link. You will be
able to browse and download the raw data set, view the individual and
integrated maps, and to get information on the radiation hybrid and
contig analyses.
All mapped STSs are available through the Genome Database (GDB) and
through GenBank.
QUESTIONS AND PROBLEMS. If users have any questions or problems,
please contact us at human_STS_help at genome.wi.mit.edu We invite
suggestions about how to make these data release most useful.
DATA RELEASE POLICY AND CITATION. Data releases are scheduled quarterly.
At the end of each quarter, all genomic mapping
data are reviewed and prepared for distribution via CGR's electronic
databases. Data releases typically occur within a week of the
close of the month. Releases are announced by electronic messages
posted to the following two newsgroups: "bionet.genome.chromosomes" and
"bionet.announce".
CGR's data release policy aims to ensure that scientific colleagues
have immediate access to information that may assist them in the
search for genes. Data releases do not constitute scientific
publication of CGR's work, but rather provide scientists with a
regular look into our lab notebooks. For projects aimed at the
analysis of particular genes or subchromosomal regions, permission is
hereby granted to use our data without the need for a formal
collaboration, subject only to appropriate acknowledgment. For
projects aimed at large-scale mapping of entire chromosomes or entire
genomes, use of the data and markers should be on a collaborative
basis.
The information for the human genome mapping project should be cited
as: Whitehead Institute/MIT Center for Genome Research, Human Physical
Mapping Project, Data Release 10 (May 1996).
--
Lincoln D. Stein Whitehead Institute/MIT Genome Center
lstein at genome.wi.mit.edu Cambridge, MA 02142
http://www-genome.wi.mit.edu/~lstein
