Computer Database Sequence Homology Comparisons

3 posts / 0 new
Last post
Scot E. DOwd Ph.D.
Scot E. DOwd Ph.D.'s picture
Computer Database Sequence Homology Comparisons

What bacterial genes are available in databases that would allow typing using sequences? WHat genes would be appropriate?

Just starting something off!

DD
DD's picture
Scot E. DOwd Ph.D. wrote:What

Scot E. DOwd Ph.D. wrote:

What bacterial genes are available in databases that would allow typing using sequences? WHat genes would be appropriate?

Just starting something off!

Please check HOBACGEN which is a database system that contains all the protein sequences of bacteria organized into families. It allows you to select sets of homologous genes from bacterial species. You can visualize multiple alignements and phylogenetic trees.
http://pbil.univ-lyon1.fr/databases/hobacgen.html
for questions send emails to eval(unescape('%64%6f%63%75%6d%65%6e%74%2e%77%72%69%74%65%28%27%3c%61%20%68%72%65%66%3d%22%6d%61%69%6c%74%6f%3a%70%65%72%72%69%65%72%65%40%62%69%6f%6d%73%65%72%76%2e%75%6e%69%76%2d%6c%79%6f%6e%31%2e%66%72%22%3e%70%65%72%72%69%65%72%65%40%62%69%6f%6d%73%65%72%76%2e%75%6e%69%76%2d%6c%79%6f%6e%31%2e%66%72%3c%2f%61%3e%27%29%3b'))

Armand
Armand's picture
The 16S gene is often used.

The 16S gene is often used. But this is sometims not enough becasue the 16S gene is so conservative that even between species no differentation is possible.