RosettaCON2016
August 7th - August 10th 2016, Leavenworth, WA

Day 1: Sunday, August 7th

8:45 AM Van departures from UW dorms (Lander Hall)
9:15 AM Van departures from UW South Center
12:00-2:00 PM Lunch at Kingfisher
2:00-3:50 PM Session 1 (Chapel)
3:50-4:15 PM Coffee Break
4:15-5:10 PM CADRES Session
5:30-7:00 PM Dinner at Kingfisher
7:30-8:10 PM Keynote Speaker: David Baker (Chapel)
8:15 PM Poster session 1 (Quail and Tadpole)

Day 2: Monday, August 8th

7:30-9:00 AM Breakfast at Kingfisher
9:00-10:20 AM Session 2 (Chapel)
10:15-10:40 AM Coffee break
10:40-12:00 PM Session 3 (parallel session: Chapel & Woodpecker)
12:00-2:00 PM Lunch at Kingfisher
2:00-3:00 PM Session 4 (Chapel)
3:00-3:20 PM Coffee Break
3:20-4:10 PM XRW Team Session (Chapel)
4:10-4:30 PM Coffee Break
4:30-5:10 PM Session 5 (Chapel)
5:30-7:00 PM Dinner at Kingfisher
7:00-7.45 PM Session 6 (Chapel)
7:45 PM Poster session 2 (Quail and Tadpole)
10:00 PM Carcassonne match (Kingfisher Patio)

Day 3: Tuesday, August 9th

7:30-9:00 AM Breakfast at Kingfisher
9:00-10:15 AM Session 7 (Chapel)
10:15-10:40 AM Coffee break
10:40-12:00 PM Open Discussion Topic Groups
12:00-2:00 PM Lunch at Kingfisher
2:00-2:50 PM Cyrus Session (Chapel)
2:50-3:20 PM Annual RosettaCON Photo followed by Coffee break
3:30-5:00 PM Session 8 (parallel session: Chapel & Woodpecker
5:00-5:30 PM Annual Swim Across Icicle Creek
5:30-7:00 PM Dinner at Kingfisher
7:00-7:40 PM Closing Session (Chapel)
8:00 PM PI Meeting (Fire Pit by the creek)

Day 4: Wednesday, August 10th

7:30-9:00 AM Breakfast at Kingfisher
9:00 AM Bag lunch, checkout, and van/hike departures

Day 1: Sunday, August 7th

8:45 AM Van Departures from UW Dorms

9:15 AM Van Departures from UW South Center

12:00-2:00 PM Lunch at Kingfisher

1:00-1:50 PM Informal Women in Science Meet Up - Find Ora and Rebecca at Kingfisher
1:00-1:50 PM Rosetta Commons Executive Board Meeting (Woodpecker)

2:00-3:50 PM Session 1: Chair: John Karanicolas (Chapel)

2:00-2:10 PM Chu Wang and Patrick Barth (RosettaCon 2016 Chairs): Introduction and Welcome
2:10-2:20 PM Jeffrey Gray (John Hopkins University): RosettaCON Code of Conduct
2:20-2:30 PM RosettaCommons Annual Report and Rosetta Software Licensing (Dennis Hanson, University of Washington)
2:30-2:50 PM Tanja Kortemme (Kortemme Lab, UCSF): Reshaping Structures and Buildings
2:50-3:10 PM Rhiju Das (Das Lab, Stanford University): Vignettes in RNA modeling/design
3:10-3:30 PM Ora Furman (Furman Lab, Hebrew University of Jerusalem): Rosetta FlexPepDock going Global
3.30-3:50 PM Vladimir Yarov-Yarovoy (Yarov Lab, UC Davis): Design Principls of Membrane Protein Structures

3:50-4:15 PM Coffee Break

4:15-5:10 PM CADRES Session: Chairs: Ora Furman and Xavier Ambroggio (Chapel)

4:15-4:30 PM Ora Furman and Xavier Ambroggio (RDG): CADRES assessment
4:30-4:40 PM Team 1: Hahnbeom Park, Frank DiMaio, Phil Bradley
4:40-4:50 PM Team 2: Aliza Rubenstein, Kristin Blacklock, Hai Nguyen, Sagar Khare, David Case
4:50-5:00 PM Team 5: Kyle Barlow, Samuel Thompson, Shane OConnor, Tanja Kortemme
5:00-5:10 PM Team 6: Hayretin Yumerefendi, Andrew Leaver-Fay, Brian Kuhlman

5:30-7 PM Dinner at Kingfisher
7:30-8:10 PM Keynote Speaker: David Baker (Chapel): Local encoding of cyclic peptide structures

8:15 PM Poster session 1 (Quail and Tadpole)

Day 2: Monday, August 8th

7:30-9:00 AM Breakfast at Kingfisher

9:00-10:15 AM Session 2: Chair: Vladimir Yarov-Yarovoy (Chapel)

9:00-9:35 AM Jie Laing (University of Illinois, Chicago): Computational Transfer Free Energy of Beta Barrel Membrane Protein for Folding and Design
9:35-9:55 AM Nik Sgourakis (UC Santa Cruz): Old tricks with new bricks: From protein sample to NMR structure in a matter of days with CHAINS/CS-Rosetta
9:55-10:15 AM Tim Whitehead (Michigan State University): Enzyme Design is Unsurprisingly Difficult

10:15-10:40 AM Coffee break 10:40-12:00 PM Session 3 (parallel session:Chapel & Woodpecker)

Chapel: Chair: Amanda Duran

10:40-11:00 AM Ramesh Jha (Strauss Lab, Los Alamos National Lab): A microbial sensor for organophosphate hydrolysis exploiting an engineered specificity switch in a transcription factor
11:00-11:20 AM Gustav Oberdorfer (Baker Lab, UW): Parametric design of helical barrels and pore-like assemblies
11:20-11:40 AM Alex Carlin (Siegel Lab, UC Davis): Education and automation integrated into an engineering process for enzyme design
11:40-12:00 PM Gideon Lapidoth (Fleishman Lab, Weizmann Institute of Science): Using Evolutionary Principles to Design Novel Enzymes

Woodpecker: Chair: Julia Koehler

10:40-11:00 AM Jason Lai (Barth Lab, ): Modeling water-mediated interactions in transmembrane proteins with hybrid solution
11:00-11:20 AM Jittasak Khowsathit (Karanicolas Lab, University of Kansas): Computational design of ligand-activated antibodies
11:20-11:40 AM Aaron Frank (University of Michigan): Accurate RNA Structure Elucidation Using Chemical Shift-Guided Modeling: Are We There Yet?
11:40-12:00 PM Xiang Feng (Barth Lab): Computational design of ligand binding membrane receptors with high selectivity

12:00-2:00 PM Lunch at Kingfisher
2:00-3:00 PM Session 4: Chair: Sagar Khare (Chapel)

2:00-2:20 PM Frank DiMaio (University of Washington): Energy function optimization guided by small-molecule and macromolecular data
2:20-2:40 PM Sagar Khare (Rutgers University): Design of stimulus-responsive enzymes
2:40-3:00 PM Vatsan Raman (University of Wisconsin, Madison): Accerlating design-build-test cycles with design small molecule biosensors

3:00-3:20 PM Coffee Break

3:30-5:10 PM XRM Team Session: Chair: Jens Meiler (Chapel)

3:20-3:45 PM Andrew Leaver-Fay (University of North Carolina, Chapel Hill): A Crash Course on XML Schema
3:45-4:10 PM Frank Teets & Jared Adolph-Bryfogle: Testing and Tutorials: the 2016 Demos XRW

4:10-4:30 PM Coffee Break

4:30-5:10 PM Session 5: Chair: Jens Meiler (Chapel)

4:30-4:50 PM Vikram Mulligan (University of Washington): Designing heterochiral peptides
4:50-5:10 PM Rich Bonneau (NYU): Peptidomimetic Design

5:30-7:00 PM Dinner at Kingfisher

6:15 PM Meeting for students/PIs attending the Grace Hopper Conference

7:00-7:45 PM Session 6: Chair: Brian Kuhlman (Chapel)

7:00-7:05 PM Presentation of Rosetta Service Award
7:05-7:45 PM Invited Talk: Bill Degrado (UCSF): De Novo Design, Apllications and Opportunities

7:45 PM Poster session 2 (Quail and Tadpole)

10:50 PM Carcassonne match (Kingfisher Patio)

Day 3: Tuesday, August 9th

7:30-9:00 AM Breakfast at Kingfisher

9:00-10:20 AM Session 7: Chair: Rich Bonneau (Chapel)

9:00-9:35 AM Alessandro Senes (University of Wisconsion, Madison): An experimental and computational strategy to study membrane complex assembly
9:35-9:55 AM Possu Huang (Baker Lab, UW and Stanford University): Design of chemically synthesized disulfide bonded mini-protein: de novo TIM barrel from parts
9:55-10:15 AM Roland Dunbrack (Fox Chase Cancer Center): Structures of protein kinase autophosphorylation events

10:15-10:40 AM Coffee Break

10:20-12:00 PM Open Discussion Topic Groups

Conformational and Experimentally Guided Protein Modeling (Green Room Chapel)
Rosetta Tutorial 2016 (Chapel)
Energy Functions (Dipper)
Membrane Proteins (Nuthatch)
Protein Small Molecules (Grotto Pub)
Peptidomimetrics and Non-canonical Amio Acids (Salmon Gallery Terrace)
Antobodies Modeling/Designing (Kingfisher Terrace)
Protein Assemblies and Protein-based Materials (moved next to room 153)
Protein-Protein Interactions (Palybarn)

12:00-2:00 PM Lunch at Kingfisher

1:00 PM Interns, intern mentors, intern PIs, and NSF PO to meet for post-program discussion and evaluation

2:00-2:50 PM Cyrus Session: Chair: Justin Siegel (Chapel)
2:50-3:20 PM Annual RosettaCON photo followed by Coffee Break

3:20-5:00 PM Session 8 (parallel session: Chapel & Woodpecker)

Chapel: Chair: Parisa Hosseinzadeh

3:20-3:40 PM Samuel Thompson (Kortemme Lab, UCSF): Pairing high-throughout screening and multi-state design to map the fitness landscape of functional proteins
3:40-4:00 PM Andy Watkins (Das Lab, Stanford University): Refining chemically modified RNA structures with ERRASER 2.0
4:00-4:20 PM Stephanie Berger (Baker Lab, UW): Computationally designed, high specificity inhibitors probe BCL2 family proteins activity in cancer
4:20-4:40 PM Brian Bender (Meiler Lab): Design of Novel Protein-Ligand Interfaces with RosettaLigand
4:40-5:00 PM Shao-Qing Zhang (DeGrado Lab, UCSF): De Novo Design of Multi-nuclear Clusters in Helical Bundles

Woodpecker: Chair: Franziska Seeger

3:20-3:40 PM Adi Goldenzweig (Fleishman Lab, Weizmann Institute of Science): Designing stable protein variants of recalcitrant proteins in one shot
3:40-4:00 PM Amanda Duran (Meiler Lab): Evaluation of methods to predict membrane protein stability
4:00-4:20 PM Nick Marze (Gray Lab, JHU): The New RosettaAntibody
4:20-4:40 PM Lars Malmstroem (Malstroem Lab, University of Zuerich): Studying protein-protein interactions in complex samples
4:40-5:00 PM Robert Kleffner (North Eastern University): FoldIt Standalone

5:00-5:30 PM Annual Swim Across Icicle Creek

5:30-7:00 PM Dinner at Kingfisher

Women in Science Mentoring Table: Lead by Rebecca, Una, Ora, and Tanja

7:00-7:40 PM Closing Session (Chapel)
8:00 PM PI Meeting (Fire Pit by the Creek)

Day 4: Wednesday, August 10th

7:30-9:00 AM Breakfast at Kingfisher
9:00 AM Bag lunch, checkout, and van/hike departures


	The Rosetta Design Group thanks all Participants, the RosettaCommons Community, the University of Washington, and the Sleeping Lady Mountain Retreat for making this event possible.

backbone

About the Rosetta Design Group The Rosetta Design Group LLC was established in 2007 to bridge the gap between the RosettaCommons academic community and industry.


Contract R&D in modeling and bioinformatics The Rosetta Design Group provides services ranging from assistance for computational scientists in protocol development to fully out-sourced R&D in structural modeing and bioinformatics for computational and experimental groups whose demands exceed their in-house capacities.


Rosetta Design Group Website: http://www.rosettadesigngroup.com ROSETTA resources, events, jobs, the Macromolecular Modeling Blog™, and more.

Industry Participants


Adam Chamberlin Ambry Genetics	Steven Lewis Cyrus	Nasos Dousis Moderna Therapeutics

David Nannemann EMD Serono	Christopher Meyer NSF	Zhifeng Kuang AFRL

Roland Pache Novozymes	Andrea Halweg-Edwards Muse Biotechnology	Lei Shi Monsanto

Ryan Ferrao Genentech	Kyle Roberts Arzeda

Rosetta Commons Participants