<div dir="ltr"><div class="gmail_default" style="font-size:small">Dear Rado,<br><br></div><div class="gmail_default" style="font-size:small">Is there any reason in particular you elected to not share your data through the <a href="https://www.ebi.ac.uk/pdbe/emdb/empiar/">EMPIAR</a>?<br><br>"EMPIAR, the Electron Microscopy Pilot Image Archive, is a public
resource for raw, 2D electron microscopy images. Here, you can browse,
upload, and download and reprocess the thousands of raw, 2D images used
to build a 3D structure."<br><br></div><div class="gmail_default" style="font-size:small">-Ben H.<br></div></div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div style="text-align:justify"><span style="color:rgb(32,18,77);font-family:garamond,serif;font-size:small">*************************************</span><br></div><div><font size="2"><span style="color:rgb(32,18,77);font-family:garamond,serif;line-height:24px">Benjamin Himes</span><br></font></div><div><font size="2"><span style="text-align:justify;color:rgb(32,18,77);font-family:garamond,serif">D</span><span style="color:rgb(32,18,77);font-family:garamond,serif;text-align:justify">epartment of Structural Biology</span></font></div><div><font face="garamond, serif" size="2" color="#20124d" style="background-color:rgb(255,255,255)"><span style="text-align:justify">University of Pittsburgh School of Medicine</span><br style="text-align:justify"><span style="text-align:justify">2050 Biomedical Science Tower 3 (BST3).</span></font></div><div><span style="color:rgb(32,18,77);text-align:justify"><font face="garamond, serif" size="2">3501 5th Ave, Pittsburgh, PA 15260</font></span><font face="garamond, serif" size="2" color="#20124d" style="background-color:rgb(255,255,255)"><span style="text-align:justify"><br></span></font></div><div><font face="garamond, serif" size="2" color="#20124d" style="background-color:rgb(255,255,255)"><br></font></div><div><font face="garamond, serif" size="2" color="#20124d" style="background-color:rgb(255,255,255)"><b>(412) 648-7262 </b>(Office)</font></div><div><font size="2" color="#20124d" style="background-color:rgb(255,255,255)"><font face="garamond, serif"><strong style="text-align:justify">(412)648-8998</strong><span style="text-align:justify"> (Lab fax)</span></font></font></div><div><font size="2" color="#20124d" style="background-color:rgb(255,255,255)"><font face="garamond, serif"><span style="text-align:justify">*************************************</span></font></font></div><div><font size="2" color="#20124d" style="background-color:rgb(255,255,255)"><font face="garamond, serif"><span style="text-align:justify"><br></span></font></font></div><span style="line-height:24px;background-color:rgb(255,255,255)"><font color="#274e13" size="2" face="garamond, serif">No trees were killed to send this message, but</font></span><div><span style="color:rgb(39,78,19);line-height:24px"><font size="2" face="garamond, serif">a large number of electrons were terribly inconvenienced.</font></span></div><div><font color="#274e13" size="2" face="garamond, serif"><span style="line-height:24px"><br></span></font></div><div><font color="#274e13" size="2" face="garamond, serif"><span style="line-height:24px"><div>It is an abiding passion of human beings to attempt to read and re-view history as an orderly progression of events running according to a well-coordinated and rational script. Don't be fooled.</div><div><br></div></span></font></div></div></div></div></div></div></div></div>
<br><div class="gmail_quote">On Tue, Jul 5, 2016 at 8:32 AM, <span dir="ltr"><<a href="mailto:3dem-request@ncmir.ucsd.edu" target="_blank">3dem-request@ncmir.ucsd.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Send 3dem mailing list submissions to<br>
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When replying, please edit your Subject line so it is more specific<br>
than "Re: Contents of 3dem digest..."<br>
<br>
<br>
Today's Topics:<br>
<br>
1. Phase plate test dataset (Radostin Danev)<br>
2. Postdoctoral position - Advanced Microscopy and Modelling<br>
(Eric Gilles Hanssen)<br>
3. Re: Phase plate test dataset (Radostin Danev)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Tue, 5 Jul 2016 10:38:33 +0200<br>
From: Radostin Danev <<a href="mailto:danev@biochem.mpg.de">danev@biochem.mpg.de</a>><br>
To: <<a href="mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a>><br>
Subject: [3dem] Phase plate test dataset<br>
Message-ID: <08a401d1d698$9d39d0c0$d7ad7240$@<a href="http://biochem.mpg.de" rel="noreferrer" target="_blank">biochem.mpg.de</a>><br>
Content-Type: text/plain; charset="us-ascii"<br>
<br>
Dear Colleagues,<br>
<br>
<br>
<br>
As I mentioned at the 3DEM GRC I am happy to share a small subset of phase<br>
plate images acquired with defocus.<br>
<br>
I put the first 20 images of a 20S proteasome dataset on my Dropbox, here:<br>
<a href="https://www.dropbox.com/sh/omjjhwhhqsjvsm6/AAAAg32yTzc4_CvrjtdQI_Raa?dl=0" rel="noreferrer" target="_blank">https://www.dropbox.com/sh/omjjhwhhqsjvsm6/AAAAg32yTzc4_CvrjtdQI_Raa?dl=0</a><br>
<br>
There are also picked particle coordinates in *_automatch.star and CTF<br>
parameters in *_ctffind3.log files.<br>
<br>
Other data:<br>
<br>
- accel. voltage 300 kV<br>
<br>
- pixel size 1.054 A<br>
<br>
- Cs 2.62 mm<br>
<br>
- particle diameter 190 A<br>
<br>
<br>
<br>
With D7 symmetry this subset of ~ 7,300 particles refines to ~ 2.9 A<br>
resolution.<br>
<br>
<br>
<br>
All the best,<br>
<br>
<br>
<br>
Rado<br>
<br>
<br>
<br>
<br>
<br>
===================================<br>
<br>
Radostin Danev, Ph.D.<br>
<br>
Max Planck Institute of Biochemistry<br>
Department of Molecular Structural Biology<br>
Am Klopferspitz 18<br>
82152 Martinsried<br>
Germany<br>
<br>
e-mail: <a href="mailto:danev@biochem.mpg.de">danev@biochem.mpg.de</a><br>
<br>
phone: <a href="tel:%2B49%20%2889%29%208578-2651" value="+498985782651">+49 (89) 8578-2651</a><br>
fax: <a href="tel:%2B49%20%2889%29%208578-2641" value="+498985782641">+49 (89) 8578-2641</a><br>
<br>
===================================<br>
<br>
<br>
<br>
<br>
<br>
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------------------------------<br>
<br>
Message: 2<br>
Date: Tue, 5 Jul 2016 10:39:48 +0000<br>
From: Eric Gilles Hanssen <<a href="mailto:ehanssen@unimelb.edu.au">ehanssen@unimelb.edu.au</a>><br>
To: "<a href="mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a>" <<a href="mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a>><br>
Subject: [3dem] Postdoctoral position - Advanced Microscopy and<br>
Modelling<br>
Message-ID: <<a href="mailto:4E057941-24F1-43B7-B41B-2D14A3263E9A@unimelb.edu.au">4E057941-24F1-43B7-B41B-2D14A3263E9A@unimelb.edu.au</a>><br>
Content-Type: text/plain; charset="windows-1252"<br>
<br>
Dear all,<br>
The University of Melbourne is advertising in new post doctoral position for advanced imaging see below.<br>
Please contact Prof Leann Tilley for more info <a href="mailto:ltilley@unimelb.edu.au">ltilley@unimelb.edu.au</a><mailto:<a href="mailto:ltilley@unimelb.edu.au">ltilley@unimelb.edu.au</a>><br>
Regards<br>
Eric<br>
<br>
Postdoctoral Research Fellow ? Advanced Microscopy<br>
Department of Biochemistry and Molecular Biology, University of Melbourne<br>
<br>
This position is funded by an Australian Research Council Laureate Fellowship Program. The vision of the program is to develop sophisticated and integrated bio-metrology (measurement) methods to study a complex cellular processes in the malaria parasite. You will work with a team of experts to develop and implement novel imaging methods, biophysical techniques and computational studies that will enable, for the first time, whole organism mapping and modelling of malaria parasites. The Program will work as an interdisciplinary collaboration for high-resolution bio-imaging and computational modelling. The host laboratory is situated in the Bio21 Molecular Science and Biotechnology Institute, on the University campus. You will work with colleagues from the University?s Departments of Biochemistry and Molecular Biology, Maths and Stats and from the School of Engineering.<br>
Salary: $66,809* - $90,657 p.a. (*PhD Entry Level $84,458 p.a.) plus 9.5% superannuation<br>
Job No: 0041023<br>
For position information and to apply online go to <a href="http://about.unimelb" rel="noreferrer" target="_blank">http://about.unimelb</a><<a href="http://about.unimelb.edu.au/careers" rel="noreferrer" target="_blank">http://about.unimelb.edu.au/careers</a>>.<a href="http://edu.au/careers" rel="noreferrer" target="_blank">edu.au/careers</a><<a href="http://about.unimelb.edu.au/careers" rel="noreferrer" target="_blank">http://about.unimelb.edu.au/careers</a>>, and under the relevant option (?Current Staff? or ?Prospective Staff?) search by the job title or number.<br>
<a href="http://jobs.unimelb.edu.au/caw/en/job/888403/postdoctoral-research-fellow-advanced-microscopy" rel="noreferrer" target="_blank">http://jobs.unimelb.edu.au/caw/en/job/888403/postdoctoral-research-fellow-advanced-microscopy</a><br>
<br>
<br>
<br>
Assoc/Prof Eric Hanssen<br>
<br>
Head - Bio21 Advanced Microscopy Facility<br>
Principle Fellow - Department of Biochemistry and Molecular Biology<br>
<br>
The University of Melbourne<br>
Bio21 Institute - 30 flemington rd - VIC 3010<br>
<a href="tel:%2B61%203%208344%202449" value="+61383442449">+61 3 8344 2449</a><br>
<a href="http://www.microscopy.unimelb.edu.au" rel="noreferrer" target="_blank">www.microscopy.unimelb.edu.au</a><<a href="http://www.microscopy.unimelb.edu.au" rel="noreferrer" target="_blank">http://www.microscopy.unimelb.edu.au</a>><br>
<br>
<br>
<br>
<br>
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<br>
------------------------------<br>
<br>
Message: 3<br>
Date: Tue, 5 Jul 2016 14:31:35 +0200<br>
From: Radostin Danev <<a href="mailto:danev@biochem.mpg.de">danev@biochem.mpg.de</a>><br>
To: <<a href="mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a>><br>
Subject: Re: [3dem] Phase plate test dataset<br>
Message-ID: <092301d1d6b9$2b29ab60$817d0220$@<a href="http://biochem.mpg.de" rel="noreferrer" target="_blank">biochem.mpg.de</a>><br>
Content-Type: text/plain; charset="us-ascii"<br>
<br>
My Dropbox public links were suspended due to "excessive traffic". I<br>
uploaded the dataset to our FTP server (could be a bit slow):<br>
<br>
<br>
<br>
<a href="http://bmftp.biochem.mpg.de" rel="noreferrer" target="_blank">bmftp.biochem.mpg.de</a><br>
<br>
user: MPIB<br>
<br>
pass: biochemie<br>
<br>
<br>
<br>
All the best,<br>
<br>
<br>
<br>
Rado<br>
<br>
<br>
<br>
<br>
<br>
From: 3dem [mailto:<a href="mailto:3dem-bounces@ncmir.ucsd.edu">3dem-bounces@ncmir.ucsd.edu</a>] On Behalf Of Radostin Danev<br>
Sent: 05 July 2016 10:39<br>
To: <a href="mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a><br>
Subject: [3dem] Phase plate test dataset<br>
<br>
<br>
<br>
Dear Colleagues,<br>
<br>
<br>
<br>
As I mentioned at the 3DEM GRC I am happy to share a small subset of phase<br>
plate images acquired with defocus.<br>
<br>
I put the first 20 images of a 20S proteasome dataset on my Dropbox, here:<br>
<a href="https://www.dropbox.com/sh/omjjhwhhqsjvsm6/AAAAg32yTzc4_CvrjtdQI_Raa?dl=0" rel="noreferrer" target="_blank">https://www.dropbox.com/sh/omjjhwhhqsjvsm6/AAAAg32yTzc4_CvrjtdQI_Raa?dl=0</a><br>
<br>
There are also picked particle coordinates in *_automatch.star and CTF<br>
parameters in *_ctffind3.log files.<br>
<br>
Other data:<br>
<br>
- accel. voltage 300 kV<br>
<br>
- pixel size 1.054 A<br>
<br>
- Cs 2.62 mm<br>
<br>
- particle diameter 190 A<br>
<br>
<br>
<br>
With D7 symmetry this subset of ~ 7,300 particles refines to ~ 2.9 A<br>
resolution.<br>
<br>
<br>
<br>
All the best,<br>
<br>
<br>
<br>
Rado<br>
<br>
<br>
<br>
<br>
<br>
===================================<br>
<br>
Radostin Danev, Ph.D.<br>
<br>
Max Planck Institute of Biochemistry<br>
Department of Molecular Structural Biology<br>
Am Klopferspitz 18<br>
82152 Martinsried<br>
Germany<br>
<br>
e-mail: <a href="mailto:danev@biochem.mpg.de">danev@biochem.mpg.de</a><br>
<br>
phone: <a href="tel:%2B49%20%2889%29%208578-2651" value="+498985782651">+49 (89) 8578-2651</a><br>
fax: <a href="tel:%2B49%20%2889%29%208578-2641" value="+498985782641">+49 (89) 8578-2641</a><br>
<br>
===================================<br>
<br>
<br>
<br>
<br>
<br>
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</blockquote></div><br></div>