FAQ
Q. What clones do the sets use?
The sets use BAC clones from RPCI, CHORI and Caltech-D libraries. The clones are selected on the basis of coverage and redundancy of the current sequence assembly and fingerprint map, as evaluated by fingerprint and sequence data.
Q. Are the sets available?
The human rearray (clones or DNA prep) is currently available through BACPAC as a chromosome-specific or whole-set rearray. The mouse set is being validated. The rat set has not yet been constructed.
Q. What is the performance of the sets?
The sets have been constructed at a clone sampling resolution of about 80kb and a redundancy of 2X. An account of experimental performance of the human set has been reported in several publications.
Q. How can I see clone positions?
Clones are localized to the genome by fingerprint alignments and end sequence alignments. Positions can be viewed on UCSC genome browser tracks, or downloaded directly as flat files for processing.
Q. Whom do I contact if I have questions?
For all questions related to the distribution and availability of the human rearray set, contact Pieter de Jong, or visit BACPAC . If you have questions about the clone mappings and content on this web site, contact Martin Krzywinski (Genome Sciences Center).
Clone Set Summaries
| human BAC array | |
|---|---|
| clones | 32,855 |
| libraries |
RPCI-11 RPCI-13 Caltech-D |
| resolution | 76 kb |
| redundancy | 1.8 x |
| availability | BACPAC Resources |
| contact | Pieter J. de Jong |
| details | view | download | |
| mouse BAC array | |
|---|---|
| clones | 28,103 |
| libraries |
RPCI-23 RPCI-24 |
| resolution | 80 kb |
| redundancy | 2 x |
| availability | to be validated |
| contact | Martin Krzywinski |
| details | view | download | |
| rat BAC array | |
|---|---|
| clones | 27,312 |
| libraries |
CHORI-230 RPCI-31 RPCI-32 |
| resolution | 88 kb |
| redundancy | 2.2 x |
| availability | to be rearrayed |
| contact | Martin Krzywinski |
| details | view | download | |
The Genome Sciences Centre has undertaken the selection of BAC clone sets representing the human, mouse and rat genomes. The objective of the clone sets is to achieve sub-100kb sampling resolution across the entire genome. The BAC clone sets are selected using existing BAC library, fingerprint map and sequence resources. Selection of the clones was guided by the requirement that the clone set provide maximal coverage of the sequence assembly and fingerprint map. Each full-genome clone set is designed to contain approximately 30,000 BACs, selected to provide an average of 2X across the genomes. The identity of each clone in a set is verified using high resolution fingerprints. The set, and derived applications, have been described in the literature
The density of these clone sets is an order of magnitude greater than that of currently available whole genome CGH arrays, offering the prospect of detecting smaller chromosomal rearrangements. The human clone set is now publicly available. The mouse and rat clone sets will be available in the future.
Browse the Human BAC Array
