2013 Events

iPlant Events and Workshops for 2013

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Title	Type	Date	Location	iPlant Contact	Institution Contact	Notes
CSUPERB	Symposium	Jan 3-5	Anaheim, CA	Nirav Merchant	Sandy Sharp, CSU LA Taskforce Chair	Workshop: Atmosphere Cloud Computing for Education and Research Trainers: Nirav Merchant, Andre Mercer
2013 Tucson Winter Institute in Plant Breeding	Workshop	Jan 7-11	Bio5 Institute, Tucson, AZ	S. Goff	B. Walsh, BIO5	Module 4 (Slides): iPlant Overview, Discovery Environment, Heterosis, Cloud Computing, Climate Models, Data Store (Quick Start Guide), CoGe, Molecular Breeding, Integrated Breeding Platform Trainers: Steve Goff and Nirav Merchant
International Biogeography Society Mtg	Annual Meeting	Jan 9-12	Miami, FL	M. Narro		Presentation: Brian Enquist, The commonness and distribution of rarity: Quantifying the botanical diversity of all plant species in the Americas Posters: - Benjamin Blonder, Assembly of plant communities in climate space - John C. Donoghue, Quantifying the fundamental unit of biogeography: Assessing different methods to measure geographic range size and why it matters - Benoit Parmentier, Climate interpolation of daily maximum temperature: improvements for the production of climate datasets Lists M Narro as co-author
BeanCAP Adv Cmte Meeting	Annual Meeting	Jan 10	Handlery Hotel and Resort 950 Hotel Circle North San Diego, CA	S. Goff	Phil McClean BeanCAP Project Director	Steve Goff invited; not attending as he'll be teaching at Winter Breeding Institute.
National Institute for Food and Agriculture - Animal Project Directors' Meeting	Meeting	Jan 11	San Diego, CA	D. Ware		Presentation: Doreen Ware, Overview of iPlant
Tools and Services Workshop @ PAG	Workshop	Jan 11	Sheraton San Diego Hotel & Marina	J. Williams	N/A	Half-day workshop (~1:00PM-7:00PM) one day before the start of PAG. The Sheraton is adjacent to the San Diego airport.
PAG XXI (wikipage)	Conference	Jan 12-16	San Diego, CA	S. Goff		PAGXXI (website) Early Pre-Registration - accepted up through and including October 31 Standard Pre-Registration - November 1 through January 9th On site Registration - available after January 9th, 2013
Ensembl Browser Workshop @ UA	Workshop	Jan 22	Tucson, AZ	N. Merchant, F. McCarthy	Bert Overduin Vertebrate Genomics Team EMBL - European Bioinformatics Institute Wellcome Trust Genome Campus Hinxton, Cambridge CB10 1SD United Kingdom	Participants will include iPlant staff, plus UA departments. Room: Keating 103 Limit: 45 people
Ensembl API Workshop @ UA	Workshop	Jan 23	Tucson, AZ	N. Merchant, F. McCarthy	Bert Overduin Vertebrate Genomics Team EMBL - European Bioinformatics Institute Wellcome Trust Genome Campus Hinxton, Cambridge CB10 1SD United Kingdom	Participants will include iPlant staff, plus UA departments. Room: Drachman 119 Limit: 20 people
iPlant HIP Hackathon	Hackathon	Jan 28-Feb 1	Tucson, AZ	N. Matasci, 411	Arlin Stoltzfus arlin@umd.edu Fellow, IBBR; Adj. Assoc. Prof., UMCP; Research Biologist, NIST IBBR, 9600 Gudelsky Drive, Rockville, MD, 20850	HIP = Hackathons, Interoperability, and Phylogenies Group at NESCent Room: Keating 103 (and breakout rooms)
4th AgMIP Development Sprint	Hackathon	Feb 4-8	Austin, TX	Jayme Brown 411	Steve Welch	Invited workshop for AgMIP community. The main goal of the workshop is to develop data translation tools to enable multiple crop models to be used by AgMIP researchers. Info about AgMIP Development Workshops can be found here.
Big Data Computing: Building a Vision for ARS Information Management	Meeting	Feb. 5-6	GWCC, Beltsville, MD	D. Ware, M. Vaughn		The USDA ARS is hosting a meeting on big data. Presentations: Doreen Ware, Matthew Vaughn,
Biotechnology - Life Sciences Seminar Series at University of Nebraska, Lincoln	Presentation	Feb. 6	Lincoln, NE	S. Goff	Thomas C. Hoegemeyer 362 H Plant Science Hall University of Nebraska-Lincoln Lincoln, NE 68583-0915 402-472-7049	Presentation: Steve Goff, The heterosis model, why iPlant tools/CI are necessary to solve this, and other basic biology questions
BIOSA/BIO5 Student Industry Networking Event	Meeting	Feb 13	Tucson, AZ	U. Hilgert	BIO5 EOT	Andre Mercer, Chris LaRose, Monica Lent, and Tina Lee to provide information about Big Data in biomedical research to UA graduate and undergraduate students.
Technology in Tucson: Industry and Education Showcase	Trade Show	Feb 16	Tucson, AZ	U. Hilgert	AZ Tech Council	Uwe Hilgert to staff booth providing information about iPlant Collaborative.
GinE @ National Biotechnology Education Conference	Conference	Feb 16	Santa Clara, CA	D. Micklos		Workshop: DNA Barcoding Trainers: Dave Micklos
Gordon Research Conference in Quantitative Genetics and Genomics	Conference	Feb. 17- 22	Galveston, TX	D. Ware, S. Goff, A. Stapleton		Presentation: Steve Goff, The iPlant Collaborative This will be given in Doreen's stead. Attendees: Ann Stapleton, Bruce Walsh, and many other associated collaborators.
Phenotype RCN	Meeting	Feb 23-25	NESCent, Durham, NC	R. Walls	Eva	Ramona Walls to represent iPlant at the meeting.
UA Microbiology Dept. Lecture Series	Seminar	Feb 27	Tucson, AZ	S. Goff	Maggie So, Immunology Dept.	Presentation: Steve Goff, The heterosis model, why iPlant tools/CI are necessary to solve this, and other basic biology questions. 1PM, MRB102
Genomes to Germplasm	Meeting	Feb 28 - Mar 2	INRA, Versailles, France	N. Merchant, E. Lyons	P. Kersey, EMBL	Nirav Merchant and Eric Lyons to represent iPlant on "...(ii) informatics needs and solutions: what infrastructure and data standards are available, and what componenets are missing or underdeveloped, particularly in the context of globally distributed activities,..." and "...(iv) tools needed to practically apply these data for the purposes of plant breeding and crop development."
RCN Pollen Meeting	Meeting	Mar 2	Tucson, AZ	M. Narro,	Ravi Palanivelu	Presentation: Martha Narro and Steve Goff, Overview of iPlant, Data Store, and DE Presentation: Naim Matasic, Atmosphere Presentation: Shannon Oliver and Andrew Predoehl, Bisque Presentation: Matt Bomhoff, CoGe
Murray State University	Seminar	Mar 8	Murray, KY	A. Stapleton		Presentation: Ann Stapleton, iPlant Overview
Tucson Festival of Books	Informal Talk for General Public	Mar 9	Tucson, AZ	E. Lyons		Presentation: Eric Lyons, "What you can learn from your genome" Part of Science Cafe Talks at the Book Festival, Main Stage, 3PM.
Ecological and Functional Genomics Group @ SUNY Stony Brook	Seminar	Mar 11	Stony Brook, NY	C. Noustsos		Presentation: Christos Noutsos, "Big Data in Plant Biology: an example in Ecology and Evolution"
High Tech Anthropology by Menlo Innovations	Course	Mar 11-15	Ann Arbor, MI	S. Oliver		Training for Shannon Oliver on Agile software Development Designated Lodging: Campus Inn Ann Arbor
TSW @ Maize Genetics Conference	Workshop	Mar 14	Pheasant Run Resort, St. Charles, IL	U. Hilgert	Margy Moore	Half-day workshop (~10:00AM-3:00PM) one day before the Maize Genetics Conference 2013.
Pittsburgh Supercomputing Center	Presentation	Mar 18-19	Pittsburgh, PA	S. Goff	Phil Blood	Presentation: Steve Goff, Using the iPlant cyberinfratstructure to explore the potential connection between protein metabolism, hybrid vigor, and cellular aging. Designated lodging: Wyndham Hotel University Center.
GinE @ Hinxton, UK	Workshop	Mar 21-22	Hinxton, UK	D. Micklos		Workshop: DNA Barcoding / DNA Subway Trainers: Dave Micklos Presentation: DNA Barcoding 101: A Practical and Planning Workshop for Science Centers
EAGER-RCN4GSC Meeting	Meeting	Mar 25-29	Seattle, WA	R. Walls		Ramona Walls to attend. Hosted by the I3BR EAGER project.
Software Carpentry Workshop: Programming for Biologists	Workshop	Apr 4-5	Tucson, AZ	N. Merchant, J. Messier	Titus Brown	Online Registration. Business purpose: "Our goal is to help scientists and engineers become more productive by teaching them basic computing skills, like program design, version control, testing, and task automation. In our teaching we emphasise how these skills can contribute to quality, usable, reproducible research. In this two-day boot camp, short tutorials will alternate with hands-on practical exercises. Attendees will be encouraged both to help one another, and to apply what they have learned to their own research problems during and between sessions." iPlant is sponsoring the travel expenses of Dr. Titus Brown.
North Carolina Academy of Science Annual Meeting	Meeting	Apr 6	Pembroke, NC	D. Micklos		Presentation: Dave Micklos, Engineering Society: The American Eugenics Movement Presentation: Dave Mcklos, iPlant Collaborative Project
PSI Advisory Board Mtg	Meeting	Apr 5	Ames, IA	S. Goff	Deanne Brill	Steve Goff to participate in Plant Science Institute Council/Board Meeting.
Institute of Bioinformatics State-of-the-Art Next Generation Sequence Symposium	Presentation	Apr 8-9	Athens, GA	E. Lyons	Travis Glenn	Presentation: Eric Lyons, iPlant Data Store: Managing Your Data's Lifescycle Presentation: Eric Lyons, CoGe: Web Based Services for Comparative Genomics Agenda
Genome/Transcriptome Assembly & RNA Seq Training	Workshop/Seminar	Apr 11	Blacksburg, VA	R. Barthelson	Dorothea Tholl, Shelley Moore, Gunjune Kim	Workshop: Genome/Transcriptome Assembly & RNA Seq Training Trainer: Roger Barthelson Audience: Molecular Plant Sciences Program students at Virginia Tech Agenda: AM Sessions include Plantagora & Genome Assembly; PM Sessions include iPlant DE; RNA Seq; transcriptome assembly.
Bioinformatics Seminar Series	Seminar	Apr 12	Kannapolis, NC	S. Goff	Debby Roseman/Ann Loraine	Presentation: Steve Goff, What iPlant Can Do For You
Genomics Standards Consortium	Meeting	Apr 21-26	Bethesda, MD	R. Walls		Ramona Walls to attend. Hosted by RCN4GSC.
G-8 International Conference on Open Data for Agriculture	Conference	Apr 29-30	Washington, DC	D. Stanzione	Jack Okamuro	Presentation (invited): Dan Stanzione,
Plant Phenotype Pilot Project Meeting	Meeting	Apr 30 - May 3	Ames, IA	R. Walls		Ramona Walls to attend. Hosted by Phenotype Ontology RCN.
Nanoinformatics Workshop	Workshop	May 7	Los Angeles, CA	N. Merchant	Yoram Cohen	A workshop that will use iPlant CI as part of the CEIN collaboration. Trainer: Nirav Merchant
Syngenta Corporation	Meeting	May 8	RTP, NC	S. Goff		Steve meeting to discuss Syngenta database in Data Store.
Iowa State Software Integration Tutorial	Workshop	May 13-14	Ames, IA	M. Vaughn	James Koltes	A training workshop to teach software integration into iPlant DE, use of the FAPI, Atmosphere, and XSEDE resources. Trainer: Matt Vaughn
Mars Corporation	Meeting	May 14-15	Davis, CA	S. Goff		Steve Goff to meet with members of the Mars Corporation to discuss potential synergies and present on iPlant resources available for genomics research/molecular breeding.
Plant Ontology, Gene Ontology, and Protein Ontology Group	Meeting	May 15-17	Buffalo, NY	R. Walls		Ramona Walls to attend.
Next-Generation Sequencing Workshop @ UNC Charlotte	Workshop	May 16-17	Charlotte, NC	J. Williams, M. Vaughn	Ann Loraine	Presentation: Matt Vaughn, How the iPlant Cyberinfrastructure Can Help Accelerate Your Science Workshop: Scalable Metagenomic Analysis Using the iPlant Discovery Environment and Atmosphere Trainer: Matt Vaughn
Forest Modeling	Meeting	May 22	Tucson, AZ	M. Narro	Brian Enquist	Kickoff meeting for Forest Modeling project
Syngenta	Meeting	May 28	RTP, NC	S. Goff		Continuing discussions re: database.
National Association of Plant Breeders	Meeting	Jun 2- 5	Tampa, FL	S. Goff, D. Ware	David Francis	Presentation: Steve Goff, Overview of iPlant CI and its Applications, Wed. June 5, 8:05 am, Ballroom Data Workshop: D. Francis and D. Ware presiding, Wed. June 5, 1 pm Attendees: Doreen Ware, Steve Goff, Liya Wang, Jason Williams, Nicole Hopkins
KBase-iPlant Collaborations	Meeting	Jun 4-6	Lemont, Illinois	D. Stanzione, N. Merchant, S. McKay, E. Skidmore, et al.	India Gordon	Goal: to discuss KBase-iPlant Collaborations
Navigating New Risk Landscapes & Opportunities in Global Food Systems	Meeting	Jun 11-13	Tallberg, Sweden	S. Goff	M. Jahn, D. LeZaks	Steve Goff is invited to this meeting for 40 senior distinguished colleagues from private and public sectors entitled "Navigating New Risk Landscapes & Opportunities in Global Food Systems." This meeting will start in the afternoon of Tuesday, June 11th and run through early afternoon June 13th 2013 in Tällberg, Sweden.
IBP Annual Meeting	Meeting	June 18-21	Montpellier, France	S. Goff	Xavier Delannay	Steve Goff invited to represent iPlant.
iRODS Tutorial for UITS	Workshop (UA internal)	June 24-25	Tucson, AZ	N. Merchant	L. Breeger, iRODS	Trainer: Lisa Breeger, iRODS
Galaxy Meeting	Internal iPlant Meeting	June 24 - 28	Austin, TX	N. Merchant, E. Skidmore, N. Matasci, D. Stanzione, M. Vaughn		Meeting with Galaxy/TACC/UA to discuss synergies /shared resources between the two projects. Designated lodging: Westin Austin at the Domain
Science for Team Science 4th Annual Conference	Conference	Jun 26	Evanston, IL	Catherine Freeman		Presentation: Catherine Freeman, Examining the iPlant Collaborative from a Team Science Perspective
Training Material for CI for Use by Biologists	Workshop	July 8-9	Baltimore, MD	N. Merchant, S. McKay		Part of the BEACON-led NSF "training material for CI use by Biologists " Workshop
UArizona IT Summit	Closed Workshop	July 10	Tucson, AZ	E. Skidmore	Michele Norin Chief Information Officer University of Arizona ITSummit.arizona.edu	Presentation: Sangeeta Kuchimanchi, Log Monitoring and Visualization Presentation: JMatt Peterson, Monica Lent, and Steve Gregory, The Cloud Is For Everyone Presentation: Edwin Skidmore, OpenStack: The Sky is the Limit
2013 CUAHSI Conference on Hydroinformatics and Modeling	Conference	July 17-19	Logan, UT	D. Gessler		Presentation: Damian Gessler,
ASPB/Plant Biology 2013 iPlant@ASPB	Conference	Jul 20 - 24	Providence, RI	J. Williams D.Ware		Presentation: Doreen Ware, Cyberinfrastructures for Plant Science: iPlant and KBase Poster: Christos Noutsos, iPlant collaborative: A case study on Soybean RNA-expression analysis Attendees: Jason Williams,
RCN-UBE Incubator Workshop: Enhancing Data Discovery and Usability for Inquiry in Biology	Workshop	July 25- 26	University of Michigan, Ann Arbor	N. Matasci, J. Williams	Tanya Dewey	Participants: Martha Narro, Uwe Hilgert The goals of the workshop are to discuss the issues around challenges of making data available for use in undergraduate biology classrooms Meeting Report
Botany 2013 iPlant@BSA	Conference	Jul 24 - Aug 1	New Orleans, LA	J. Williams		Sunday July 28th; Full day iPlant Tool and Services workshop; Full day DNA Subway workshop Trainers: Jason Williams, Sheldon McKay, Uwe Hilgert
MidAtlantic Plant Molecular Biology Meeting	Meeting	Aug 15-16	Laurel, MD	S.McKay		Presentation: Sheldon McKay, The iPlant Collaborative: Bringing together high performance computing and biology
SESYNC Vis Tools Short Course	Short Course	Aug 15-16	Annapolis, MD	N. Merchant	D. Carpenter, SESYNC	Agenda
National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University	Presentation	Aug 18	Wuhan, China	S. Goff	Jinghua Xiao, Qifa Zhang
Plant Genomics in China XIV	Conference	Aug 19-22	Nanjing, China	S. Goff	Na Li	Presentation: Steve Goff, iPlant Resources International Conference Hotel of Nanjing, No.2 Sifang Cheng, Zhongshanling, PRC
NSF-iPlant Leadership Meeting	Meeting	Sep 3-4	Austin, TX	S. Goff, D. Stanzione, D. Ware	Karen Cone	Designated Lodging: Hyatt House Austin Arboretum
NSF Plant Genome Research Program Annual Awardee Meeting	Conference	September 5-6	Arlington, VA	D. Ware J. Williams	Diane Okamuro	Presentation: The iPlant Collaborative, Community Cyberinfrastcuture for Life Science, Jason Williams Poster: iPlant Collaborative, Cyberinfrastructure that Brings Data to Life
Data Mining with iPlant	Workshop	Sept 17-20, 2013	Warwick, UK	D. Stanzione, M. Vaughn, N. Matasci, J. Williams	Charis Cook	Workshop Wiki Page Venue: The University of Warwick, Gibbet Hill Campus Date: 17-20 September 2013 Cost: Registration for the whole four-day workshop is £100, including accomodation from 17-20 September. Registration for the first day only is free. All delegates must cover their own travel expenses. Registration will close on 16 August.
TSW @ College Station	Workshop	Sept 23-24	College Station, TX	J. Williams, J. Fonner	Kranthi Mandadi
Digital Environment for Sample Curation	Workshop	Sept 23-25	Palisades, NY	R. Walls		Presentation: Ramona Walls, Overview of the iPlant Cyber Infrastructure
GinE @ Prairie View A&M University	Workshop	Sept 26-27	Prairie View, TX	J. Williams	G. Regisford
Science Gateways	Workshop	Sept 27	Indianapolis, IN	L. Wang		Presentation: "Building an open Genome Wide Association Study (GWAS) platform"
TSW @ NYBG	Workshop	Oct 3	NYC, NY	J. Williams	Amy Litt, Jerry Eng	Tools and Services Workshop
RNA Seq & BioExtract Server	Webinar	Oct 11	n/a	J. Williams	C. Lushbough	Webinar Co-taught with Carol Lushbough from Univ. South Dakota
Beard Fdn Fall Conf on Appetite	Conference	Oct 21-22	NYC, NY	S. Goff	J. Halperi, Ashley Kosiak Program Assistant Phone: 212-627-1111 ext.572 www.jamesbeard.org	Presentation: Steve Goff, The Biology of Appetite
GWAS Advisory Group	Meeting	Oct 26-27	Tucson, AZ	N. Merchant, S. Goff, N. Hopkins	B. Walsh	Convening 3 GWAS scientists for input into GWAS pipeline development. Attendees: William Muir, Purdue University; Shizhong Xu, Univeristy of California, Riverside; Ignacy Misztal, University of Georgia; Bruce Walsh; University of Arizona Designated Lodging: Peppertrees B&B
TSW@ Colorado State University	Workshop	Oct 28-29	Ft. Collins, CO	J. Williams	Jan Leach	TSW Workshop
TDWG 2013 (Annual Conference for Biodiversity Information Standards)	Conference	Oct 28 - Nov 1	Florence, IT	R. Walls		Presentation: Ramona Walls, "Linking Biodiversity Data with the Biological Collections Ontology" Ramona Walls is also co-chair of the Ontologies and Formal Models break-out, Semantics for Biodiversity Special Session
GinE @ Community College of Denver	Workshop	Oct 30-31 Cancelled	Denver, CO	J. Williams	Heidi Loshbaugh	GinE Workshop held adjacent to American Indian Science and Engineering Society National Conference.
2013 ASA-CSSA-SSSA	Annual Meeting	Nov 3-6	Tampa, FL	S. Goff	Hugh Earl	Crop Science Society of America (CSSA) Presentation: Steve Goff, "Using the Iplant Cyberinfrastructure to Explore the Connections Between Cellular Respiration, Heterosis and the Molecular Biology of Aging" Session date & time: Monday, November 4, 2013, 8:45 AM to 12:00 PM Session title: Symposium--Crop Respiration - The Other Half of the Carbon Balance Goff presentation time: 10:20 AM to 10:45 AM
UC Davis Genome Center Meeting	Meeting	Nov 7	Davis, CA	S. Goff, N. Matasci	Allen Van Deynze, Ph.D., Director of Research at Seed Biotechnology Center at UC Davis Richard Michelmore, Director of the Genome Center at the Genome and Biomedical Sciences Facility at UC Davis Tel 530-752-1729	Business Purpose: An all-day meeting at the Genome Center with an introduction of iPlant and IBP followed by faculty talks and discussions on the African project, relations between iPlant and the Genome Center, and how best to work together. Designated Lodging: Best Western University Lodge 123 B Street, Davis, CA 95616
KBase-iPlant Collaboration Meeting(POSTPONED)	Meeting	Nov 6-8	Austin, TX	D. Stanzione, N. Merchant, E. Skidmore, et al.		Follow-up to May 2013 meeting
BioExtract/SSWAP Meeting	Meeting	Nov 19-20	Vermillion, SD	D. Gessler	Carol Lushbough	Gessler and Lushbough will discuss integration SSWAP into BioExtract. Designated Lodging: Prairie Inn, 916 N. Dakota St., Vermillion, SD
SQG Conference	Meeting	Nov 24-26	Seattle, WA	A. Stapleton		Anne presenting poster on iPlant.
African Plant Breeding Academy / Orphan Crops Consortium Steering Cmte	Meeting	Dec 2-3	Nairobi, KENYA	S. Goff	Allen Van Deynze World Agroforestry Center ICRAF Nairobi, Kenya	Steve signed the MOU/NDA with IRRI and participated in the Steering Cmte for the Orphan Crops Consortium, including Mars Inc, UC Davis, ICRAF, NEPAD, etc.
iPlant TSW @CSHL Plant Genomes & Biotechnology: From Genes to Networks	Workshop/Meeting	Dec 4-7	Cold Spring Harbor, NY	J. Williams		1/2-Day TSW on Dec 4th, Jason W. Will give the talk "The iPlant Collaborative - A Unified Cyberinfrastructure for Plant Science."
KBase Collaboration Meeting	Meeting	Dec. 18	Oak Ridge, TN	S. Goff	Martin Keller	Designated Lodging: Homewood Suites, 10935 Turkey Drive, Knoxville, TN Steve's seminar: "Using the iPlant cyberinfratstructure platform to explore the potential connection between protein metabolism, hybrid vigor, and cellular aging. Abstract: Transcriptomic profiling was used to determine the relative differences in gene expression between young inbreds, young hybrids, and old hybrids. The iPlant Discovery Environment facilitated the analysis of the large datasets and storage of the data and analysis results. Lessons learned in this proof-of-concept exploration of gene expression data are helping to shape the future direction of the tools and services available from iPlant. The analysis results suggest that further studies in this area will help bring clarity to the molecular mechanisms of cellular aging as well as to the application of this knowledge in crop productivity.