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| Mon Mar 14, 2011 | == NCMI Workshop on Single Particle Reconstruction, Validation and Analysis == === March 14 - 17, 2011 === |
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| Theme - Single particle reconstruction | This page contains the workshop schedule, and will contain the PDFs of each of the presentations at the workshop. Speakers are asked to upload their presentations sometime before the beginning of their talk (preferably as far in advance as possible). |
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| ||8:00 - 8:50||Registration||Outside PGH 200|| ||8:50 - 9:10||Opening remarks/Introduction to Workshop||PGH200||Steve Ludtke and others|| ||9:10 - 10:00||[[attachment:1_1_chiu_microscopy.pdf|Introduction to transmission electron microscopy]]||PGH200||Wah Chiu|| ||10:00 - 10:50||[[attachment:1_2_henderson_image_processing.pdf|Image Processing Theory]]||PGH200||Richard Henderson||PGH200|| ||11:00 - 11:20||Coffee Break||PGH200 Hall|| ||11:20 - 12:30||[[attachment:1_3_ludtke_EMAN2.pdf|Tutorial 1 - Getting started with EMAN2, CTF & Class-averages]]||PGH232&200||Steve Ludtke|| ||12:30 - 1:30||Lunch||Hall outside 200|| ||1:30 - 3:00||Tutorial 1, contd - Initial models||PGH232&200||Steve Ludtke|| ||3:00 - 3:20||Coffee Break||PGH200 Hall|| ||3:20 - 5:00||Tutorial 1, contd - First refinement & other issues||PGH232&200||Steve Ludtke|| ||5:00 - 6:00||[[attachment:1_4_cong_TriC-CCT.pdf|Research Lecture: Structural studies of TriC/CCT]]||PGH200||Yao Cong|| ||6:00 - 9:00||Dinner - with participant short talks||PGH200|| |
'''Mon Mar 14, 2011''' |
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| Tue Mar 15, 2011 Theme - Helices & Heterogeneity ||9:00 - 10:00||[[attachment:2_1_egelman_IHRSR.pdf|IHRSR]]||PGH200||Ed Egelman|| ||10:00 - 10:20||Coffee Break||PGH200 Hall|| ||10:20 - 11:20||[[attachment:2_2_penczek_conformation.pdf|Identification of conformational states using resampling]]||PGH200||Pawel Penczek|| ||11:30 - 12:30||[[attachment:2_3_goddard_chimera.pdf|Tutorial 2 - Chimera]]||PGH232&200||Tom Goddard|| ||12:30 - 1:30||Lunch|| || ||1:30 - 3:00||[[attachment:2_4_ludtke_EMAN2.pdf|Tutorial 3 - Evaluating refinements, heterogeneity, etc.]]||PGH232&200||Steve Ludtke|| ||3:00 - 3:15||Coffee Break||PGH200 Hall|| ||3:15 - 5:00||[[attachment:2_5_penczek_SPARX.pdf|Tutorial 4 - Introduction to identification of conformational states in SPARX]]||PGH232&200||Pawel Penczek|| ||5:15 - 6:15||[[attachment:2_6_zhang_mmcpn.pdf|Research Talk - Multiple states of a chaperonin and a method for analyzing heterogeneous conformations in cryo-EM|| ||6:30 - 9:00||Dinner||Library/Hilton|| Wed, Mar 16, 2011 Theme - Related methods ||'''8:50 - 9:15'''||[[attachment:3_1_murray_frealign.pdf|Quick morning tutorial session]]||'''PGH232&200'''||Stephen Murray|| ||9:15 - 10:00||[[attachment:3_2_schmid_spt.pdf|Single Particle Tomography]]||PGH200||Mike Schmid|| ||10:10 - 10:30||Coffee Break||PGH200 Hall|| ||10:30 - 11:00||[[attachment:3_3_lawson_PDB.pdf|Single Particle Tomography]]||PGH200||Cathy Lawson|| Practicals (Computer classroom & Laptops in the lecture hall) 11:00 - 11:45 Greg Pinitilie Segger 11:45 - 12:45 Lunch 12:45 - 3:00 Multirefine EMAN2/Frealign Other topics 3:00 - 3:30 Break 3:30 - 5:00 Mike Schmid/Jesus Montoya Single particle tomography tutorial 5:10 - 6:10 Research Talk Irina Serysheva Structural studies of Calcium release channels |
''Theme - Single particle reconstruction'' ||8:00 - 8:50 ||Registration ||Outside PGH 200 || || ||8:50 - 9:10 ||Opening remarks/Introduction to Workshop ||PGH200 ||Dr. Steve Ludtke || ||9:10 - 10:00 ||[[attachment:1_1_chiu_microscopy.pdf|Introduction to transmission electron microscopy]] ||PGH200 ||Dr. Wah Chiu || ||10:00 - 10:50 ||[[attachment:1_2_henderson_image_processing.pdf|Image processing theory]] ||PGH200 ||Dr. Richard Henderson || ||11:00 - 11:20 ||Coffee Break || || || ||11:20 - 12:30 ||[[attachment:1_3_ludtke_EMAN2.pdf|Tutorial 1 - Getting started with EMAN2, CTF & class-averages]] ||PGH232&200 ||Dr. Steve Ludtke || ||12:30 - 1:30 ||Lunch || || || ||1:30 - 3:00 ||Tutorial 1, contd - Initial models ||PGH232&200 ||Dr. Steve Ludtke || ||3:00 - 3:20 ||Coffee Break || || || ||3:20 - 5:00 ||Tutorial 1, contd - First refinement & other issues ||PGH232&200 ||Dr. Steve Ludtke || ||5:00 - 6:00 ||[[attachment:1_4_cong_TriC-CCT.pdf|Research Lecture: Structural studies of TriC/CCT]] ||PGH200 ||Dr. Yao Cong || ||6:00 - 9:00 ||Dinner onsite - with participant short talks ||PGH200 || || |
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| 6:30 - Banquet at Fung’s Kitchen Bus leaves U of H at 6:30 |
'''Tue Mar 15, 2011''' |
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| Thu, Mar 17, 2011 Theme: Validation & Modeling |
''Theme - Helices & Heterogeneity'' ||9:00 - 10:00 ||[[attachment:2_1_egelman_IHRSR.pdf|Helical filaments, heterogeneity and polymorphisms]] ||PGH200 ||Dr. Edward Egelman || ||10:00 - 10:20 ||Coffee Break || || || ||10:20 - 11:20 ||[[attachment:2_2_penczek_conformation.pdf|Identification of conformational states using resampling]] ||PGH200 ||Dr. Pawel Penczek || ||11:30 - 12:30 ||[[attachment:2_3_goddard_chimera.pdf|Tutorial 2 - Chimera]] ||PGH232&200 ||Tom Goddard || ||12:30 - 1:30 ||Lunch || || || ||1:30 - 3:00 ||[[attachment:2_4_ludtke_EMAN2.pdf|Tutorial 3 - Evaluating refinements, heterogeneity, etc.]] ||PGH232&200 ||Dr. Steve Ludtke || ||3:00 - 3:15 ||Coffee Break || || || ||3:15 - 5:00 ||[[attachment:2_5_penczek_SPARX.pdf|Tutorial 4 - Introduction to identification of conformational states in SPARX]] ||PGH232&200 ||Dr. Pawel Penczek || ||5:15 - 6:15 ||[[attachment:2_6_zhang_mmcpn.pdf|Research Talk - Multiple states of a chaperonin and a method for analyzing heterogeneous conformations in cryo-EM]] ||PGH200 ||Dr. Junjie (George) Zhang || ||6:30 - 9:00 ||Dinner ||UH Library || || |
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| Morning Lectures (Main lecture hall) 9:00 - 10:00 Richard Henderson Validating maps with tilt data Resolution 10:00 - 10:30 Break 10:30 - 11:30 Gunnar Schroeder DireX |
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| Practicals (Computer classroom & Laptops in the lecture hall) 11:30 - 12:15 Ian Rees EMEN2 Tutorial and demo 12:15 - 1:00 Lunch |
'''Wed, Mar 16, 2011''' |
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| 1:00 - 2:30 Yao Cong Rosetta Introduction and Tutorial 2:30 - 3:00 Break 3:00 - 4:30 Matt Baker Gorgon Introduction and Tutorial |
''Theme - Related methods'' ||'''8:50 - 9:15''' ||[[attachment:3_1_murray_frealign.pdf|Tutorial 5 - Quick morning tutorial session]] ||'''PGH232&200''' ||Stephen Murray || ||9:15 - 10:00 ||[[attachment:3_2_schmid_spt.pdf|Single particle tomography]] ||PGH200 ||Dr. Mike Schmid || ||10:10 - 10:30 ||Coffee Break || || || ||10:30 - 11:00 ||[[attachment:3_3_lawson_PDB.pdf|EMDatabank.org & Data Archival]] ||PGH200 ||Dr. Cathy Lawson || ||11:00 - 11:45 ||[[attachment:3_4_pintilie_segger.pdf|Tutorial 6 - Segmentation with Segger]] ||PGH200&232 ||Dr. Greg Pintilie || ||11:45 - 12:45 ||Lunch || || || ||12:45 - 3:00 ||Tutorial 5 cont'd - Frealign, multirefine, etc. ||PGH200&232 ||Dr. Steve Ludtke & Stephen Murray || ||3:00 - 3:30 ||Coffee Break || || || ||3:30 - 5:00 ||[[attachment:3_5_montoya_spt.pdf|Tutorial 7 - Single Particle Tomography in EMAN2]] ||PGH200&232 ||Jesus Montoya & Dr. John Flanagan || ||5:10 - 6:10 ||[[attachment:3_6_serysheva_cachannels.pdf|Research Talk - Structural studies of Calcium release channels]] ||PGH200&232 ||Dr. Irina Serysheva || ||7:00 - 9:00 ||Workshop Banquet '''Bus leaves U of H at 6:30 !''' ||Fung’s Kitchen|| || |
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| 4:30 - 5:30 Workshop wrap-up, final issues | '''Thu, Mar 17, 2011''' |
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| workshop ends | ''Theme: Validation & Modeling'' ||9:00 - 10:00 ||[[attachment:4_1_henderson_validation.pdf|Methods for Validation of Cryo-EM Maps]] ||PGH200 ||Dr. Richard Henderson || ||10:00 - 10:30 ||Coffee Break || || || ||10:30 - 11:30 ||[[attachment:4_2_schroeder_direx.pdf|Real-space Refinement of Atomic Models in DireX]] ||PGH200/232 ||Dr. Gunnar Schroeder || ||11:30 - 12:15 ||[[attachment:4_3_rees_emen2.pdf|The EMEN2 Electronic Notebook and OODB]] ||PGH200/232 ||Ian Rees || ||12:15 - 1:00 ||Lunch || || || ||1:00 - 2:30 ||[[attachment:4_4_cong_rosetta.pdf|Introduction to Rosetta]] ||PGH200/232 ||Dr. Yao Cong || ||2:30 - 3:00 ||Coffee Break || || || ||3:00 - 4:30 ||[[attachment:4_5_baker_gorgon.pdf|Model Building and Analysis with Gorgon]] ||PGH200/232 ||Dr. Matt Baker || ||4:30 - 5:30 ||Workshop wrap-up, final discussion || || |
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| 6:00 Speaker dinner | '''''Workshop Ends''''' ''Note: Wah will host a dinner for any speakers who will be around Thurs evening'' |
NCMI Workshop on Single Particle Reconstruction, Validation and Analysis
March 14 - 17, 2011
This page contains the workshop schedule, and will contain the PDFs of each of the presentations at the workshop. Speakers are asked to upload their presentations sometime before the beginning of their talk (preferably as far in advance as possible).
Mon Mar 14, 2011
Theme - Single particle reconstruction
8:00 - 8:50 |
Registration |
Outside PGH 200 |
|
8:50 - 9:10 |
Opening remarks/Introduction to Workshop |
PGH200 |
Dr. Steve Ludtke |
9:10 - 10:00 |
PGH200 |
Dr. Wah Chiu |
|
10:00 - 10:50 |
PGH200 |
Dr. Richard Henderson |
|
11:00 - 11:20 |
Coffee Break |
|
|
11:20 - 12:30 |
Tutorial 1 - Getting started with EMAN2, CTF & class-averages |
PGH232&200 |
Dr. Steve Ludtke |
12:30 - 1:30 |
Lunch |
|
|
1:30 - 3:00 |
Tutorial 1, contd - Initial models |
PGH232&200 |
Dr. Steve Ludtke |
3:00 - 3:20 |
Coffee Break |
|
|
3:20 - 5:00 |
Tutorial 1, contd - First refinement & other issues |
PGH232&200 |
Dr. Steve Ludtke |
5:00 - 6:00 |
PGH200 |
Dr. Yao Cong |
|
6:00 - 9:00 |
Dinner onsite - with participant short talks |
PGH200 |
|
Tue Mar 15, 2011
Theme - Helices & Heterogeneity
9:00 - 10:00 |
PGH200 |
Dr. Edward Egelman |
|
10:00 - 10:20 |
Coffee Break |
|
|
10:20 - 11:20 |
PGH200 |
Dr. Pawel Penczek |
|
11:30 - 12:30 |
PGH232&200 |
Tom Goddard |
|
12:30 - 1:30 |
Lunch |
|
|
1:30 - 3:00 |
PGH232&200 |
Dr. Steve Ludtke |
|
3:00 - 3:15 |
Coffee Break |
|
|
3:15 - 5:00 |
Tutorial 4 - Introduction to identification of conformational states in SPARX |
PGH232&200 |
Dr. Pawel Penczek |
5:15 - 6:15 |
PGH200 |
Dr. Junjie (George) Zhang |
|
6:30 - 9:00 |
Dinner |
UH Library |
|
Wed, Mar 16, 2011
Theme - Related methods
8:50 - 9:15 |
PGH232&200 |
Stephen Murray |
|
9:15 - 10:00 |
PGH200 |
Dr. Mike Schmid |
|
10:10 - 10:30 |
Coffee Break |
|
|
10:30 - 11:00 |
PGH200 |
Dr. Cathy Lawson |
|
11:00 - 11:45 |
PGH200&232 |
Dr. Greg Pintilie |
|
11:45 - 12:45 |
Lunch |
|
|
12:45 - 3:00 |
Tutorial 5 cont'd - Frealign, multirefine, etc. |
PGH200&232 |
Dr. Steve Ludtke & Stephen Murray |
3:00 - 3:30 |
Coffee Break |
|
|
3:30 - 5:00 |
PGH200&232 |
Jesus Montoya & Dr. John Flanagan |
|
5:10 - 6:10 |
Research Talk - Structural studies of Calcium release channels |
PGH200&232 |
Dr. Irina Serysheva |
7:00 - 9:00 |
Workshop Banquet Bus leaves U of H at 6:30 ! |
Fung’s Kitchen |
|
Thu, Mar 17, 2011
Theme: Validation & Modeling
9:00 - 10:00 |
PGH200 |
Dr. Richard Henderson |
|
10:00 - 10:30 |
Coffee Break |
|
|
10:30 - 11:30 |
PGH200/232 |
Dr. Gunnar Schroeder |
|
11:30 - 12:15 |
PGH200/232 |
Ian Rees |
|
12:15 - 1:00 |
Lunch |
|
|
1:00 - 2:30 |
PGH200/232 |
Dr. Yao Cong |
|
2:30 - 3:00 |
Coffee Break |
|
|
3:00 - 4:30 |
PGH200/232 |
Dr. Matt Baker |
|
4:30 - 5:30 |
Workshop wrap-up, final discussion |
|
Workshop Ends
Note: Wah will host a dinner for any speakers who will be around Thurs evening