EMBO workshop 2018 - Revision history

Raffaele Coray at 13:17, 2 December 2024

2024-12-02T13:17:58Z

Stefano Scaramuzza: /* Data sets */

2018-09-05T07:01:11Z

Data sets

Stefano Scaramuzza: /* Instructors */

2018-09-05T06:56:56Z

Instructors

Stefano Scaramuzza: /* Data sets */

2018-09-03T13:17:27Z

Data sets

Stefano Scaramuzza: /* Data sets */

2018-09-03T13:15:27Z

Data sets

Stefano Scaramuzza: /* Guided presentation: */

2018-09-03T09:44:42Z

Guided presentation:

Stefano Scaramuzza at 09:43, 3 September 2018

2018-09-03T09:43:08Z

Stefano Scaramuzza at 09:42, 3 September 2018

2018-09-03T09:42:46Z

Stefano Scaramuzza: /* Program */

2018-09-03T09:24:17Z

Program

Stefano Scaramuzza at 09:16, 3 September 2018

2018-09-03T09:16:13Z

← Older revision		Revision as of 13:17, 2 December 2024
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		+	[[Category:WalkthroughsSpecific]]
		+
	''Dynamo'' will be used for the subtomogram averaging part of the EMBO course on Image Processing for CryoEM data.		''Dynamo'' will be used for the subtomogram averaging part of the EMBO course on Image Processing for CryoEM data.

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 == Data sets ==
-In the directory <tt>XXX</tt> there are folders with real data sets. Data sets:
+In the directory <tt>/g/embo2018/data/DYNAMO</tt> there are folders with real data sets. Data sets:
 *Tomogram 1 is called <tt>crop.rec</tt>. The data is a fraction of a tomogram.  The full tomogram was used in ''Cryo-electron tomography reveals novel features of a viral RNA replication compartment''.  (Ertel et al.), and represents several FHV viruses docked in the outer membrane of a mitochondrion. Data can be downloaded [[Advanced_starters_guide#Downloading | here]]

@@ Line 58: / Line 58: @@
 ==Instructors==
 *Dustin Morado, MRC-LMB, Cambridge, UK.
 *Paula Navarro, C-CINA, University of Basel, Switzerland.
 * Giulia Zanetti, Birkbeck College, London, UK.

@@ Line 5: / Line 5: @@
 == Data sets ==
 In the directory <tt>XXX</tt> there are folders with real data sets. Data sets:
-*Tomogram 1 is called <tt>crop.rec</tt>. The data is a fraction of a tomogram.  The full tomogram was used in "Cryo-electron tomography reveals novel features of a viral RNA replication compartment."  (Ertel et al.), and represents several FHV viruses docked in the outer membrane of a mitochondrion. Data can be downloaded [[Advanced_starters_guide#Downloading | here]]
+*Tomogram 1 is called <tt>crop.rec</tt>. The data is a fraction of a tomogram.  The full tomogram was used in ''Cryo-electron tomography reveals novel features of a viral RNA replication compartment''.  (Ertel et al.), and represents several FHV viruses docked in the outer membrane of a mitochondrion. Data can be downloaded [[Advanced_starters_guide#Downloading | here]]
 *Tomogram 2 is called <tt>t20s.mrc</tt>. The tomogram visualises purified T20S proteasome in solution. Data can be downloaded [[Walkthrough_for_template_matching#Data_set | here]]
-*Tomogram 3 is called <tt>v17.rec</tt>. This single tomogram is part of the data set used for the paper An atomic model of HIV-1 capsid-SP1 reveals structures regulating assembly and maturation by Schur FK, Obr M, Hagen WJ, Wan W, Jakobi AJ, Kirkpatrick JM, Sachse C, Kräusslich HG and Briggs JA. (2016). Data can be downloaded [[Walkthrough_for_lattices_on_vesicles#Data | here]]
+*Tomogram 3 is called <tt>v17.rec</tt>. This single tomogram is part of the data set used for the paper ''An atomic model of HIV-1 capsid-SP1 reveals structures regulating assembly and maturation'' by Schur FK, Obr M, Hagen WJ, Wan W, Jakobi AJ, Kirkpatrick JM, Sachse C, Kräusslich HG and Briggs JA. (2016). Data can be downloaded [[Walkthrough_for_lattices_on_vesicles#Data | here]]
 ==Program==

← Older revision		Revision as of 13:15, 3 September 2018
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	*Tomogram 2 is called <tt>t20s.mrc</tt>. The tomogram visualises purified T20S proteasome in solution. Data can be downloaded [[Walkthrough_for_template_matching#Data_set \| here]]		*Tomogram 2 is called <tt>t20s.mrc</tt>. The tomogram visualises purified T20S proteasome in solution. Data can be downloaded [[Walkthrough_for_template_matching#Data_set \| here]]
		+
		+	*Tomogram 3 is called <tt>v17.rec</tt>. This single tomogram is part of the data set used for the paper An atomic model of HIV-1 capsid-SP1 reveals structures regulating assembly and maturation by Schur FK, Obr M, Hagen WJ, Wan W, Jakobi AJ, Kirkpatrick JM, Sachse C, Kräusslich HG and Briggs JA. (2016). Data can be downloaded [[Walkthrough_for_lattices_on_vesicles#Data \| here]]

	==Program==		==Program==

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 =====Guided presentation:=====
 * Walkthrough on [[Walkthrough_for_template_matching | template matching]]
 * Overview discussion of  [[Advanced_starters_guide | Advanced starters guide]]

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 =====Working own your own:=====
-*Walkthrough for [[Getting_a_Structure_from_Multiple_Tomograms_of_HIV_Capsids_(walkthrough) | VLP project]]  getting a structure from multiple tomograms of HIV capsids.
+*Walkthrough for [[Getting_a_Structure_from_Multiple_Tomograms_of_HIV_Capsids_(walkthrough) | VLP project]]:  getting a structure from multiple tomograms of HIV capsids.
 ==Instructors==

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 =====Working on your own=====
 * Walkthrough for [[Advanced_starters_guide | Advanced starters guide]]
 ===Thursday September 6th:===
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 *VLP project (link)
 ==Instructors==

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 =====Working on your own=====
 * Basic [[Starters guide | walkthrough]]: creating a catalogue, picking particles, launching a project.
 ===Wednesday September 5th===
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 *VLP project (link)