CGAP is generating a set of cytogenetically FISH-mapped BAC clones at a
resolution of 1-2 MB across the human genome and have also been physically
mapped to the genome based on STS data. The BAC clones have been linked to
a parallel database of cancer-associated chromosome
aberrations to provide a wealth of clinical, histopathologic and genetic
information and to several relevant NCBI databases.
All CCAP BAC clones can be ordered from
Open BioSystems.
- Click on one of the hyperlinked chromosome numbers in the "Select a
chromosome" box to view a specific chromosome. (A chromosome number
will be hyperlinked only if there is FISH data available.)
- The results screen displays a current reference ideogram with links to:
- Cytogenetic map coordinates that take you to cancer-associated chromosome
aberrations
- BAC id (NCBI)
- STS id (NCBI)
- BAC end (NCBI)
- Insert sequence( NCBI)
- Contig (NCBI)
- As new BAC clones are FISH mapped by chromosome, the data is updated.
All chromosomes are expected to be FISH-mapped by end of summer, 2001.
Since this BAC map is constructed at a higher resolution than that used in the
traditional ISCN (1978) G-stain 850-band nomenclature system, it was
necessary to derive
a method for referencing this data. We chose to add a
lowercase letter (beginning with 'a') to the ISCN nomenclature
to indicate separate,
resolvable divisions within each band. For example:
- The large band 7p22.23 contains
seven resolvable divisions (7p22.23a,
7p22.23b, ..., 7p22.23g, centomeric to
telomeric.
- The small band 7p32.1
has one resolvable division (7p32.1a).
Map Information and Links |
Information is provided in one table per chromosome,
in which each row contains information related to a single BAC clone. Each table has four columns,
containing the following information and links:
Column Heading | Description |
Reference ideogram: | Provides a spatial reference for the
additional letter designations on top of the traditional
G-stain 850-band nomenclature system.
|
Map coordinate | Gives a band or range of bands for the
location of the FISH-mapped BAC
clone. The link leads you to the human
neoplasm recurrent chromosomal aberration data for this location. |
BAC clone id | Gives the bacterial artificial chromosome id
(used to order the clone from
Research Genetics). The link takes you to NCBI's BAC clone registry where
additional BAC information is found. |
STS id | Gives the sequence tag site (STS) identifier that is
linked to additional STS mapping information, including GenBank accession and
NHGRI contigs. |
BAC End | Gives the identifier for one or both
of the end sequences of the BAC and links you to the NCBI GenBank entry. |
Insert Sequence | Provides the GenBank accession
number of the BAC clone and
links to the GenBank entry. |
Contig | Links to NCBI's Human Map View
|
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