Whitehead/MIT Human Physical Map, Release 12

Lester Hui lester at genome.wi.mit.edu
Fri Aug 1 15:02:04 EST 1997

                 DATA RELEASE 12 (JULY 1997)

The twelfth and final  release of data from the Human Physical Mapping
Project at the Whitehead Institute/MIT Genome Center, covering data
generated through the end of July, 1997, is now available.

This data release contains YAC and/or radiation hybrid screening data for
24,568 sequence tagged sites (STSs) screened on the CEPH mega-YAC library
and/or the Genebridge 4 radiation hybrid panel.    

For each STS, we report addresses for the YACs found to contain the STS. The
data assemble into 294 contigs using single linkage between STSs.

In addition, we also report a radiation hybrid map of the genome
containing 14665 STS markers mapped on the Genebridge 4  Panel, as well
as integrations of the genetic, radiation hybrid and YAC contig maps.
The map includes data from over 12000 expressed sequences, part of the
transcript map published in Science 25 October 1996.

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 


Use "anonymous" as your user name, and give your e-mail address as
your password.  The data files are present in the directory

The contents are as follows:

  07-97.INTRO.txt        Introduction to the data release, in straight text format
  07-97.INTRO.html       The same in HTML (World Wide Web) format
  07-97.STS.DATA.txt     STS mapping data as tab-delimited text.
  chromosomes/           The same, split into smaller chromosome-specific files
  07-97.YAC2STS.txt      Inverse map of YAC to STS screening data
  07-97.CONTIG2STS.txt   YAC contig lists.
  07-97.CONTIG2STS.txt   The same, inverted.
  07-97.SEQUENCES.txt    Full sequences of STSs developed in-house.
  07-97.MAPPED.EST.txt   Cross reference between ESTs, IMAGE clones and map positions.
  07-97.ALIASES.txt      Cross reference of STS names.
  pictures/              Pictures of integrated maps in Macintosh and PS forms.
  rhmap/                 Radiation hybrid maps.
  genmap/                Genethon genetic linkage 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 


>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 will be available through the Genome Database (GDB) and
through GenBank.  Users interested in EST mapping are also referred to
the following URL:


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

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

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 12 (July 1997).

More information about the Bionews mailing list