[BiO BB] Re: region identification

[Dan Bolser]

J.W. Bizzaro wrote:
> darx wrote:
> 
>> I'm studiying bHLH proteins for an assignment. And i'm pretty
>> much a noob. :)
> 
> 
> Darx, I hope you're not expecting mailing list subscribers to answer 
> every question on a homework assignment :-)  That is unfair to yourself, 
> your classmates, and the subscribers.  Please reference your course 
> materials and/or ask your instructor.

Its hard to know where to draw the line when it comes to 'research 
assignments' (kinda different from something like a maths assignment I 
guess), however, it is always good to acknowladge your sources :)

By conincidence I found this (SAPS);

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1549558&query_hl=28

<quote>

We describe several protein sequence statistics designed to evaluate 
distinctive attributes of residue content and arrangement in primary 
structure. Considered are global compositional biases, local clustering 
of different residue types (e.g., charged residues, hydrophobic 
residues, Ser/Thr), long runs of charged or uncharged residues, periodic 
patterns, counts and distribution of homooligopeptides, and unusual 
spacings between particular residue types. The computer program SAPS 
(statistical analysis of protein sequences) calculates all the 
statistics for any individual protein sequence input and is available 
for the UNIX environment through electronic mail on request to V.B. 
(volker/genomic at stanford.edu).

</quote>

While reading an exelent summary email posted here;

http://bioinformatics.org/pipermail/ssml-general/2005-July/000203.html


Darx, if you have time, it is always good to send a final email back to 
the list summarizing what you have found.


Cheers,
Dan.



> Thanks,
> Jeff