The HCV database has requested support from NIH-DMID's
Complete Genome
Sequencing Initiative to sequence additional complete genomes for
unusual HCV genotypes, so that the reference set can be expanded, and
future naming conflicts can be prevented as much as possible. The support
is limited to sequencing expertise and capacity, in this case from the
Broad Institute at MIT.
In keeping with NIH's data publication policy, the sequences will be
made available to the public as soon as they are completed, but we expect
a publication will result from this initiative. The paper will describe
the new genomes and their implications for our knowledge of HCV, and will be
written either at the end of the project or when enough genomes have been
sequenced to justify a publication.
Currently, the following people participate in this effort, either by donating samples, or by isolating DNA from the samples that will be sent to the Broad Institute for sequencing. Bruce Birren at the Broad institute coordinates the technical details; the HCV database will coordinate the sample collection.
If you think you might be able to contribute some samples to this project, please let us know by sending an email to hcv-info@lanl.gov. We will update this list frequently.
Contributors
Institute | PI | Role in the project |
Harvard University | Todd Allen | DNA isolation |
Kansas University Medical Center | Ling Lu | DNA isolation |
Public Health Institute, Quebec City | Donald Murphy | sample donation |
Indiana University Medical Center | Jean Ndjomou | sample donation |
Innogenetics, Belgium | Erwin Sablon | sample donation |
Edinburgh University | Peter Simmonds | sample donation |
Chinese Academy of Medical Sciences, Beijing, China | Linqi Zhang | sample donation |
University of Amsterdam | Marcel Beld | sample donation |
Micropathology Ltd, UK | Phil Bennett | sample donation |
yellow background means no more samples needed |
Complete genomes needed
Genotype | Needed | Donated | By | Sequenced |
1d | 3 | 1 | Phil Bennett | |
1e | 3 | |||
1f | 3 | |||
1g | 3 | 3 | Phil Bennett | |
1h | 3 | |||
1i | 3 | 3 | Donald Murphy, Phil Bennett | |
1j | 3 | |||
1k | 3 | |||
1l | 3 | 1? | ||
1m | 3 | |||
2c | 2 | 3 | Erwin Sablon, Phil Bennett | |
2d | 3 | |||
2e | 3 | |||
2f | 3 | 2 | Peter Simmonds | |
2g | 3 | |||
2h | 3 | |||
2i | 2 | 2 | Phil Bennett | |
2k | 2 | 2 | Erwin Sablon, Phil Bennett | |
2l | 3 | |||
2m | 3 | 3 | Donald Murphy | |
3b | 2 | 3 | Linqi Zhang, Peter Simmonds, Phil Bennett | |
3c | 3 | |||
3d | 3 | 1 | Marcel Beld | |
3e | 3 | |||
3f | 3 | 1 | Marcel Beld | |
3g | 3 | |||
3h | 3 | 3 | Phil Bennett | |
3i | 3 | 3 | Donald Murphy, Phil Bennett | |
3k | 2 | |||
4c | 3 | 2 | Marcel Beld | |
4d | 3 | 2 | Erwin Sablon, Phil Bennett | |
4e | 3 | 3 | Marcel Beld | |
4f | 3 | 3 | Jean Ndjomou, Phil Bennett | |
4g | 3 | 2 | Phil Bennett | |
4h | 3 | |||
4k | 3 | 3 | Erwin Sablon, Phil Bennett | |
4l | 3 | 3 | Phil Bennett | |
4m | 3 | 2 | Phil Bennett | |
4n | 3 | 2 | Phil Bennett | |
4o | 3 | 3 | Phil Bennett | |
4p | 3 | |||
4q | 3 | 3 | Donald Murphy, Phil Bennett | |
4r | 3 | 3 | Erwin Sablon, Phil Bennett | |
4s | 3 | |||
4t | 3 | |||
6a | 2 | 2 | Erwin Sablon, Phil Bennett | |
6b | 2 | |||
6c | 2 | |||
6d | 2 | |||
6e | 3 | 3 | Peter Simmonds, Phil Bennett | |
6f | 1 | |||
6g | 1 | |||
6h | 2 | |||
6i | 1 | |||
6j | 1 | |||
6l | 2 | |||
6o | 2 | |||
6p | 2 | 1 | Erwin Sablon | |
6q | 2 | 3 | Donald Murphy |