== 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).

The data and software required for participation in the tutorial sessions can be found at: [[Workshop2011]].

Information on the location of the workshop and where to park is here: [[Ws2011/Location]]

The main workshop page is here: http://ncmi.bcm.edu/ncmi/events/workshops/workshops_114

Note that PGH216 is an overflow room for the lectures in case the lecture hall becomes full for the talks. During the tutorial sessions, there will be plenty of seats in PGH232.

'''Mon Mar 14, 2011'''

''Theme - Single particle reconstruction''
||8:00 - 8:50 ||Registration ||Outside PGH 232 || ||
||8:50 - 9:10 ||Opening remarks/Introduction to Workshop ||PGH232 ||Dr. Steve Ludtke ||
||9:10 - 10:00 ||[[attachment:1_1-Chiu_CryoEM.pdf|Cryo-EM Essentials]] ||PGH232 ||Dr. Wah Chiu ||
||10:00 - 10:50 ||[[attachment:1_2_henderson_image_processing.pdf|Image processing theory|&do=get]] ||PGH232 ||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|&do=get]] ||PGH232&200 ||Dr. Steve Ludtke ||
|| ||[[attachment:1_3_ludtke_EMAN2_slides.pdf|Tutorial 1 - Slides from presentation|&do=get]] || || ||
||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]] ||PGH232 ||Dr. Yao Cong ||
||6:00 - 9:00 ||Dinner onsite - with participant short talks ||PGH232 || ||




'''Tue Mar 15, 2011'''

''Theme - Helices & Heterogeneity''
||9:00 - 10:00 ||[[attachment:2_1_egelman_IHRSR.pdf|Helical filaments, heterogeneity and polymorphisms]] ||PGH232 ||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]] ||PGH232 ||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.|&do=get]] ||PGH232&200 ||Dr. Steve Ludtke ||
|| ||[[attachment:2_4a_ludtke_EMAN2.pdf|Tutorial 3 - Presentation slides for tutorial session|&do=get]] || || ||
||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]] ||PGH232 ||Dr. Junjie (George) Zhang ||
||6:30 - 9:00 ||Dinner ||UH Library || ||




'''Wed, Mar 16, 2011'''

''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]] ||PGH232 ||Dr. Mike Schmid ||
||10:10 - 10:30 ||Coffee Break || || ||
||10:30 - 11:00 ||[[attachment:3_3_lawson_PDB.pdf|EMDatabank.org & Data Archival]]  [[attachment:3_3_lawson_EMdepGuide.pdf|Tutorial/Guide]] ||PGH232 ||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 ||Stephen Murray & Dr. Steve Ludtke ||
||3:00 - 3:30 ||Coffee Break || || ||
||3:30 - 5:00 ||[[attachment:3_5_galaz_spt.pdf|Tutorial 7 - Single Particle Tomography in EMAN2]]  [[attachment:3_5_galaz_spt_ppt.pdf|Short PPT intro]]||PGH200&232 ||Jesus Galaz & Dr. John Flanagan ||
||5:10 - 6:10 ||Research Talk - Structural studies of Calcium release channels ||PGH232 ||Dr. Irina Serysheva ||
||7:00 - 9:00 ||Workshop Banquet '''Bus leaves U of H at 6:30 !''' ||[[http://www.fungskitchen.com|Fung’s Kitchen]] || ||




'''Thu, Mar 17, 2011'''

''Theme: Validation & Modeling''
||9:00 - 10:00 ||[[attachment:4_1_henderson_validation.pdf|Methods for Validation of Cryo-EM Maps]] ||PGH232 ||Dr. Richard Henderson ||
||10:00 - 10:30 ||Coffee Break || || ||
||10:30 - 11:30 ||Tutorial 8: [[attachment:4_2_schroeder_direx.pdf|Real-space Refinement of Atomic Models in DireX]] ||PGH200/232 ||Dr. Gunnar Schroeder ||
||11:30 - 12:15 ||Tutorial 9: [[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 ||Tutorial 10: [[attachment:4_4_cong_rosetta.pdf|Introduction to Rosetta]] ||PGH200/232 ||Dr. Yao Cong ||
||2:30 - 3:00 ||Coffee Break || || ||
||3:00 - 4:30 ||Tutorial 11: [[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 || ||




'''''Workshop Ends'''''