Dear All,
with regards to diffraction images storage (see also Androulakis et
al., Acta Cryst. (2008). D64, 810–814: Federated repositories of X-
ray diffraction images), I am all for it - one to be able to catch
fraud, but more importantly so structures can be improved in the
future and better data processing programs can be developed.
However, I would welcome a central repository or at least a central
organisation of local nodes, because I can see no local solution where
I am (probably other small macromolecular crystallography groups would
have the same problem). In fact, if someone would agree to host our
data I would be happy to upload datasets. For some datasets it would
even be useful if I could send the digital tapes, we don't have a
reader for them anymore and in that way we ourselves can have access
to our own data...
Greetings,
Mark
Mark J. van Raaij
Dpto de Bioquímica, Facultad de Farmacia
Universidad de Santiago
15782 Santiago de Compostela
Spain
http://web.usc.es/~vanraaij/
On 24 Sep 2008, at 02:43, Ashley Buckle wrote:
We put our raw data, plus metadata here: http://www.tardis.edu.au
JCSG also make data available, but I think its just an archive, with
little or no annotation
cheers
Ashley
On 24/09/2008, at 7:02 AM, afyfe wrote:
Dear Tommi,
I'm not sure whether 'test data sets part I' relates to the query
I mailed the other day but, in light of the recent posts
regarding fundamental literature, your suggestion seems an
excellent one.
Perhaps I'm not looking in the right places, but finding examples
of image sets exhibiting e.g., radiation damage, crystal slippage,
autoindexing failures or any of the aberrations shown in Phil
Evans' excellent scala tutorial seems difficult. Likewise for
examples of good and bad final-refinement maps. Making primary/
intermediate data available would benefit both students and
algorithm comparison/validation (e.g. measuring performance on
standard data sets is routine in data-visualization/image-
processing papers).
Tommi Kajander wrote:
Also, i think that would be nice if this type of info could be put
on the web, part of the wiki for instance..
if there is some consensus to what works + the typical proteins
easily available.
Tommi Kajander, Ph.D.
Structural Biology and Biophysics
Institute of Biotechnology
University of Helsinki
Viikinkaari 1
(P.O. Box 65)
00014 Helsinki
Finland
p. +358-9-19158903
[EMAIL PROTECTED]
--
Alastair Fyfe
Graduate Student
Biomolecular Engineering Dept.
University of California, Santa Cruz
Associate Professor Ashley M Buckle
NHMRC Senior Research Fellow
The Department of Biochemistry and Molecular Biology
School of Biomedical Sciences, Faculty of Medicine
Victorian Bioinformatics Consortium (VBC)
Monash University, Clayton, Vic 3800
Australia
http://www.med.monash.edu.au/biochem/staff/abuckle.html
iChat/AIM: blindcaptaincat
skype: ashley.buckle
Tel: (613) 9902 0269 (office)
Tel: (613) 9905 1653 (lab)
Fax : (613) 9905 4699
