Biomedical and Translational Informatics Laboratory

   

 

 

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— Ritchie Lab

 

Keynote speakers:

Additional Speakers TBA

 

Trudy F. C. Mackay, PhD, FRS
William Neal Reynolds and Distinguished University Professor of Genetics
Director, Program in Genetics
Associate Director, Comparative Medicine Institute
Department of Biological Sciences
North Carolina State University

  

EDGE 2018 Agenda:

   ** last updated 7/25/2017**

*TENTITIVE*

Wednesday, February 7, 2018

  Arrivals

Thursday, February 8, 2018

8:30 AM   Breakfast and Registration   Terrace 

9:00 AM

Welcome and Scientific Remarks by Drs. Jason Moore & Marylyn Ritchie Salon C

9:30 AM

 

10:00 AM

 

10:30 AM

Break  
10:45 AM

 
11:15 AM

 
11:45 AM Discussion  
12:00 PM Catered Lunch Terrace
1:00 PM

Salon C
1:30 PM

 
2:00 PM Discussion  
2:30 PM Break  
2:45 PM

 
3:15 PM

Discussion

 
4:00 PM Adjourn for the day (Dinner on your own)  

Friday, February 8, 2018

8:30 AM  Breakfast   Terrace 
9:00 AM

Salon C
9:30 AM

 
10:00 AM Discussion  
10:30 AM Break  
11:00 AM

 
11:15 AM

 
11:30 AM


 
11:45 AM Discussion  
12:00 PM Catered Lunch Terrace
1:00 PM Salon C
1:30 PM Group Discussion  
3:00 PM Cocktail Hour Poolside
5:00 PM Dinner on your own  

Saturday, February 10, 2018

  Departures

Marriott Key West Beachside Hotel
3841N. Roosevelt Blvd, Key West, FL(305) 296-8100

http://www.beachsidekeywest.com/index.php

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Local Airport:

  1. Key West International Airport is two miles east of Key West, in Monroe County, Florida. 
  2. Address3491 S Roosevelt Blvd, Key West, FL 33040
  3. Airport CodeEYW

6th Annual Epistasis Discovery in Genetics and Epidemiology (EDGE) Conference

 February 8-9, 2018
Marriott Beach Side - Key West, Florida
 
 
 
Meeting Basics: 
Our Meeting is in Salon C. Head to the main building where you checked in, and take the stair case on your right or elevator on your left when you walk into the building. We are on the second floor in the meeting room closest to the elevator. Look for the Registration table! 
Meals are on the Terrace, and the Friday post conference Cocktail Hour is Poolside!
 
Hotel Shuttle Information:  If you call the hotel (phone number (305) 296-8100) once you have arrived at the airport, have your bags and are ready to go. They will send a shuttle for you (it’s a very short drive)However, please keep in mind that the majority of our attendees are arriving on Wednesday so there may be a wait for the hotel shuttle or it may already be onsite. There will be numerous taxi's available at the airport as well.

 

Accommodations:

 

We have a small hotel block reserved at the conference hotel. Rooms will start at $149/night and are available for you to reserve until Friday, September 15, 2017.

Click here to reserve a room at the The Renaissance Long Beach

Other nearby hotels:

Hotel Name Address Starting Cost per night Distance to confernce hotel
Hyatt Centric The Pike Long Beach 285 Bay Street, Long Beach, CA  $264 0.3 miles
Courtyard Long Beach Downtown 500 East First Street, Long Beach, CA  $224 0.4 miles
Best Western PLUS Hotel at the Convention Center 517 E 1st Street, Long Beach, CA  $238 0.4 miles
Hyatt Regency Long Beach 200 South Pine Ave, Long Beach, CA  $244 0.3 miles
The Westin Long Beach 333 East Ocean Boulevard, Long Beach, CA  $227 0.2 miles

 

Local Airports:

Long Beach Airport (LGB) is a city-owned public airport three miles northeast of downtown Long Beach, in Los Angeles County, California. 
Distance to Conference Hotel: 20 minutes or 7 miles

Los Angeles International Airport (LAX) is the largest and busiest airport in the Greater Los Angeles Area and the state of California, as well as one of the largest international airports in the United States.
Distance to Conference Hotel: 30 minutes or 23 miles

John Wayne Airport (SNA) is an international airport in Orange County, California
Distance to Conference Hotel: 38 minutes or 30 miles

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Conference Venue:

Renaissance Long Beach Hotel
111 East Ocean Boulevard
Long Beach, California 90802 USA

 

 

Let inspiration find you at Renaissance Long Beach Hotel. The artistic, urban Long Beach community resonates in our daily rituals and homegrown design, while the prospect of discovery lies around every corner. The Long Beach hotel’s Navigators can be your guide to the unexpected pleasures of the downtown scene — art, culture, shopping, nightlife, or whatever stirs your soul. Open your senses and experience it all in our eclectic lobby including ocean-to-fork dining at SIP Bar & Lounge and incredible local musical talent. Unwind with a refreshing swim or craft cocktail on our third-floor deck, 111 Pool + Lounge, and enjoy killer views of the Pacific Ocean and the legendary Queen Mary from our Long Beach hotel. Come meet with success, celebrate in style and amplify your senses. Our hotel in Long Beach, CA offers an inspired experience for the modern traveler.

 

 

 Poster abstract submission deadline has been extended to September 15, 2017

Call for Posters

  • The organizers of TBC 2017 invite all interested participants and conference attendees to consider presenting a poster.
  • When preparing accepted posters, please note that your poster should not exceed the following dimensions: 27" (68.58 cm) wide x 34" (86.36 cm) high.  This is a portrait/vertical format.
  • The Proceedings of TBC 2017 will publish abstracts.

Abstract Submission   

  • Online Submission System: https://easychair.org/conferences/?conf=tbc2017
    If you do not have an EasyChair account, please create an account 
    here.
  • The abstracts must be submitted in PDF format. At least one of the authors need to register by the Registration date.
  • Abstract submission due on August 31, 2017  Extended to September 15, 2017
  • Abstracts are limited to 250 words or less. The first page should give keywords, authors' postal and electronic mailing addresses. Abstracts must not have been previously submitted to other conferences or meetings.
  • Abstracts are to be named: Abstract_LastName_FirstName_AbbreviatedTitle or keywords.PDF

Topics

  • Precision Medicine
  • NGS for Personal Genomics, Cancer Genomics and Metagenomics
  • Rare and Common Variants of Human Genome
  • Epigenomics, non-coding RNAs, and DNA methylation analysis
  • Genome-Phenome-Envirome Associations
  • Microarray analysis and functional genomics for disease
  • Biomarkers, Drug Discovery and Pharmacogenomics
  • Biomedical Text/Data Mining and Visualization
  • Network Biology/Medicine and Pathway/Regulation Analysis
  • Biomedical Intelligence, Clinical Informatics, and Health Record
  • Semantic Biology/Medicine and Biomedical Ontologies

 

Paper/Abstract Submissions are now CLOSED.


Call for Papers

  • The Proceedings of TBC 2017 will publish abstracts only without publishing the full-length manuscripts to protect from "prior publication".
  • Selected papers will be invited to a special article of JAMIA.
  • All accepted papers of TBC 2017 will be recommended to be published as journal papers by Journal of the American Medical Informatics Association (JAMIA), Journal of Biomedical Informatics (JBI), BMC Medical Genomics, BMC Medical Informatics and Decision Making, BioData Mining, Healthcare Informatics Research, and Genomics & Informatics.

     * TBC does not publish papers on the conference day, but has 3-month revision process.

Paper Submission    

  • Online Submission System:  https://easychair.org/conferences/?conf=tbc2017 
       If you do not have an EasyChair account, please create an account here.
  • The manuscripts must be submitted in PDF format.
  •  At least one of the authors need to register by the Registration date.
  • Paper submission due on May 31, 2017 June 16, 2017
  • Full papers are limited to 12 pages, including title, abstract (250 words or less), figures, tables, text, and bibliography. The first page should give keywords, authors' postal and electronic mailing addresses. Papers must not have been previously published and must not be currently under consideration for publication elsewhere
  • Papers are to be named: Paper_LastName_FirstName_AbbreviatedTitle or keywords.PDF
  • Suggested Template available for download here

 

Call for Abstracts (Platform or Poster Presentations) 

  • The Proceedings of TBC 2017 will publish abstracts.
  • Selected abstracts will be invited to platform presentations at TBC. Other accepted abstracts will be invited to poster presentations.
  • When preparing accepted posters, please note that your poster should not exceed the following dimensions: 27" (68.58 cm) wide x 34" (86.36 cm) high.  This is a portrait/vertical format.

Abstract Submission    

  • Online Submission System:  https://easychair.org/conferences/?conf=tbc2017
        If you do not have an EasyChair account, please create an account here.
  • The abstracts must be submitted in PDF format. At least one of the authors need to register by the Registration date.
  • Abstract submission due on May 31, 2017   June 16, 2017
  • Abstracts are limited to 250 words or less. The first page should give keywords, authors' postal and electronic mailing addresses. Abstracts must not have been previously submitted to other conferences or meetings.
  • Abstracts are to be named: Abstract_LastName_FirstName_AbbreviatedTitle or keywords.PDF

Topics 

  • Precision Medicine
  • NGS for Personal Genomics, Cancer Genomics and Metagenomics
  • Rare and Common Variants of Human Genome
  • Epigenomics, non-coding RNAs, and DNA methylation analysis
  • Genome-Phenome-Envirome Associations
  • Microarray analysis and functional genomics for disease
  • Biomarkers, Drug Discovery and Pharmacogenomics
  • Biomedical Text/Data Mining and Visualization
  • Network Biology/Medicine and Pathway/Regulation Analysis
  • Biomedical Intelligence, Clinical Informatics, and Health Record
  • Semantic Biology/Medicine and Biomedical Ontologies

Proceedings and Publications

JAMIA (Journal of American Medical Informatics Association) is AMIA's premier peer-reviewed journal for biomedical and health informatics. Covering the full spectrum of activities in the field, JAMIA includes informatics articles in the areas of clinical care, clinical research, translational science, implementation science, imaging, education, consumer health, public health, and policy. JAMIA's articles describe innovative informatics research and systems that help to advance biomedical science and to promote health. Case reports, perspectives and reviews also help readers stay connected with the most important informatics developments in implementation, policy and education.
Impact factor: 3.428 (1st in the Medical Informatics category)
 

The Journal of Biomedical Informatics has been designed to reflect a commitment to high-quality original research papers, reviews, and commentaries in the area of biomedical informatics. Although we publish articles motivated by applications in the biomedical sciences (for example, clinical medicine, health care, population health, imaging, and translational bioinformatics), the journal emphasizes reports of new methodologies and techniques that have general applicability and that form the basis for the evolving science of biomedical informatics.
Impact factor: 2.447

BMC Medical Genomics is an open access journal publishing original peer-reviewed research articles in all aspects of functional genomics, genome structure, genome-scale population genetics, epigenomics, proteomics, systems analysis, and pharmacogenomics in relation to human health and disease.
Impact factor: 2.726

BMC Medical Informatics and Decision Making is an open access journal publishing original peer-reviewed research articles in relation to the design, development, implementation, use, and evaluation of health information technologies and decision-making within the healthcare setting.
Impact factor: 2.042

10148

BioData Mining is an open access, peer reviewed, online journal encompassing research on all aspects of data mining applied to high-dimensional biological and biomedical data, focusing on computational aspects of knowledge discovery from large-scale genetic, transcriptomic, genomic, proteomic, and metabolomic data. Impact factor: 1.64 

Healthcare Informatics Research is the official journal of the Korean Society of Medical Informatics (KOSMI). The Journal provides a national and international medium for dissemination of original results and interpretative reviews concerning the field of healthcare informatics. The scope of the journal covers information systems, computer-aided decision support systems, health information infrastructure, biomedical engineering and Bioinformatics research.

Genomics & Informatics is the official journal of the Korean Genome Organization (KOGO). It is published four times a year in a printed version and on-line. Genomics & Informatics welcomes high-quality research papers presenting novel data on the topics of gene discovery, comparative genome analyses, molecular and human evolution, informatics, genome structure and function, technological innovations and applications, statistical and mathematical methods, cutting-edge genetic and physical mapping and DNA sequencing, and other reports that present data where sequence information is used to address biological concerns.

 

Learning Objectives:

 

Translational Bioinformatics Conference (TBC) will aim to highlight the multi-disciplinary nature research field and provide an opportunity to bring together and exchange ideas between translational bioinformatics researchers. TBC puts its initial emphasis on promoting translational bioinformatics research activities initiated in Asia-Pacific region such that the first annual will be held in Seoul, Korea. Translational bioinformatics is a rapidly emerging field of biomedical data sciences and informatics technologies that efficiently translate basic molecular, genetic, cellular, and clinical data into clinical products or health implications. Translational bioinformaticians with a mix of computer scientists, engineers, epidemiologists, physicists, statisticians, physicians and biologists come together to create the unique intellectual environment of our meeting.


Learning Objectives

  • Major topic areas of this year are focused on infra-technological innovations from bench to bedside, with a particular emphasis on clinical implications
  • To present and exchange the latest progresses in translational bioinformatics.
  • To identify the current challenges, to find research and funding opportunities, and develop future perspectives.
  • To demonstrate how genomic data-driven informatics approaches can facilitate clinical research, genomic medicine, and healthcare
  • To facilitate trans-disciplinary interactions among computational biology, genomics, bio-data sciences, translational medicine, and healthcare.
  • To provide educational opportunities for the rapidly growing new comers.
  • To develop and deploy platform for resource and problem sharing among nation-wide biomedical informatics initiatives.

 

Registration Information: 

registersize

 Early
(6/1-6/16/2017)
 Regular
(6/17- 8/31/2017)
 Late
(9/1-15/2017)
 Corporate  $800.00 $900.00   $1,000.00
 Academic  $600.00 $700.00  $800.00 
Student/Postdoc  $550.00 $600.00  $650.00 

 

*All listed fees are in US Dollars*

 Registration will close at Midnight Eastern Time on August 31, 2017.

 

CANCELLATION POLICY:

  • Before August 1, 2017 - You may cancel your reservation for the cost of your purchased ticket, minus $50 for the processing fee.
  • On or after August 1,2017 - No refunds are able to be issued. We ask that you do please still cancel so that we have appropriate counts.
  • Unfortunately we are unable to transfer your ticket/registration to another individual.

 

Translational Bioinformatics Conference 2017

Translational Bioinformatics in Precision Medicine

 Updated: Wednesday, September 20, 2017

Agenda (pdf)

 

(P): Paper talk, (A): Abstract talk

Friday – September 29th

7:00 am - 8:00 am – Breakfast and Registration

8:00 am - 8:15 am – Welcome and Introductions – Dr. Dokyoon Kim & Dr. Marylyn Ritchie

8:15 am - 9:00 am – Keynote: Dr. David Ledbetter, Precision Health at Geisinger: Longitudinal electronic health data and exome sequence on 250K participants

9:00 am - 9:45 am Keynote: Dr. Jessie Tenenbaum, Translational Bioinformatics: Past, Present, and Future

9:45am - 10:15 am - Break

Precision medicine pipelines and applications

10:15 am-10:35 am – (P) Local genetic ancestry in CDKN2B-AS1 is associated with primary open-angle glaucoma in an African American cohort extracted from de-identified electronic health records (Nicole Restrepo)

10:35 am- 10:50 am – (A) Identification of disease associations with rare Loss of Function variants from 50,000 exomes in Geisinger Health System (Anurag Verma)

10:50 am - 11:05 am - (A) iDEG: A single-subject method utilizing two-paired transcriptomes of an individual to compute differentially expressed genes (Qike Li)

11:05am - 11:25 am - (P) Rare variants in the Splicing Regulatory Elements of EXOC3L4 are associated with brain glucose metabolism in Alzheimer’s disease (Jason Miller) 

11:25 am - 11:40 am – (A) A genome-by-environment interaction classifier for precision medicine: personal transcriptome response to rhinovirus identifies children prone to asthma exacerbations (Yves Lussier)

11:40 am - 12:00 pm - (P) Frequency and phenotype consequence of APOC3 rare variants in patients with very low triglyceride levels (Dana Crawford)

12:00 pm-1:00 pm – Lunch

1:00 pm-1:45 pm – Keynote: Dr. Nicholas Tatonetti, Observational data for biomedical discovery

Pharma Informatics using the EHR

1:45 pm-2:00 pm – (A) Depression diagnosis and antidepressant treatment associated with contemporary prescriptions of narcotics and benzodiazepines with worse outcomes (Wendy Marie Ingram)

2:00 pm-2:20 pm – (P) Pharmacological Risk Factors Associated with Hospital Readmission Rates in a Psychiatric Cohort Identified using Prescriptome Data Mining (Shameer Khader)

2:20 pm-2:40 pm – (P) City-wide Analysis of Drug-Drug-Interactions (Luis Rocha)

2:40 pm-3:00 pm – Break

3:00 pm-3:45 pm –  Keynote: Dr. Ju Han Kim, Precision dinner: a personal interpretation of pharmaco and metabolic genomes

Flash Poster Talks

3:45 pm-3:53 pm – Using a simulation approach to evaluate data-driven algorithms for studying clinical heterogeneity in complex traits (Anna Basile)

3:53 pm-4:01 pm – Probabilistic graphical model of ICD-9 codes from electronic health records (EHRs) of Geisinger Health System (GHS) patients for disease risk prediction conditioned on prior medical history (Marta Byrska-Bishop)

4:01 pm-4:09 pm – Anti-diabetic Rosiglitazone Regulates mRNA Stability of Lipolytic Genes (Kyoung Jae Won)

4:09 pm-4:17 pm – CAS-viewer: Web-based analysis and visualization of alternative splicing in cancer (Younghee Lee)

4:17 pm-4:25 pm – Heterogeneous Network Based Rare Disease Gene Prioritization (Aditya Rao)

4:25 pm-4:33 pm – Challenges and approaches of systems neurobiology networks to understand mechanisms and genetic risk of Alzheimer’s disease (Yuan R. Shang)

4:33 pm-4:41 pm – Collective feature selection to identify important variables for epistatic interactions: A simulation study (Shefali Verma)

4:41 pm-4:49 pm – Computational analyses of single-subject ‘omics to develop a ‘personalome’: How far are we from clinically-interpretable results? (Francesca Vitali) 

5:00 pm-6:30 pm – Poster Session

6:30 pm – Dismissal – Dinner on your own

 

Saturday – September 30th

7:00 am - 8:00 am – Breakfast

8:00 am-8:45 am – Keynote: Dr. Dana Crawford, Diversity in precision medicine research: an example in Cleveland

Medical informatics and text mining in electronic health records

8:45 am-9:00 am – (A) Extracting metadata from large biomedical data repositories and mapping to the bioCADDIE metadata specification DATS (Data Tagging Suite) (Nansu Zong)

9:00 am-9:15 am – (A) Latent-based imputation of laboratory measures from Electronic Health Records (V. Abedi)

9:15 am-9:35 am – (P) Comparison of MetaMap and cTAKES for entity extration in clinical notes: Some remarks about aggregation and semantic types (Ruth Reategui)

9:35 am-9:55 am – (P) Text Mining MEDLINE for Rare Disease Gene Prioritization (Aditya Rao)

9:55 am-10:15 am – Break

Sequencing analysis pipelines for efficient computing

10:15 am-10:30 am–(A) More Complete Variant Discovery in Large Exome Sequencing Projects by Optimization of Analytical Pipelines (Shulan Tian)

10:30 am-10:45 am–(A) Parallel distributed PCR duplication marking algorithm integrated with genome sequence alignment by using streaming technology (Junehawk Lee)

Across the transcriptome – methods and applications

10:45 am-11:00 am– (A) Power Analysis of summary based methods for identifying expression-trait associations (Yogasudha Veturi)

11:00 am-11:20 am – (P) A novel joint analysis framework improves identification of differentially expressed genes in cross disease transcriptomic analysis (Wenyi Qin)

11:20 am-11:40 am – (P) How does normalization matter in RNA-seq disease diagnosis? (Henry Han)

11:40 am-12:00 pm– (P) Indel sensitive and comprehensive variant/mutation detection from RNA sequencing data for precision medicine (Sun Zhifu)

12:00 pm-1:00 pm – Lunch

1:00 pm-1:45 pm – Keynote: Dr. Jason Moore, Artificial intelligence for everyone

Machine learning technologies for bioinformatics

1:45 pm-2:05 pm – (P) Deep learning predicts breast cancer estrogen receptor status from metabolomics data (Fadhl Alakwaa)

2:05 pm-2:25 pm – (P) Clinical Opinion Generation from General Blood Test Results Using Binary Relevance Neural Network with Opinion Grouping (Youjin Kim)

2:25 pm-2:45 pm – (P) Min-Redundancy and Max-Relevance Multi-view Feature Selection for Predicting Ovarian Cancer Survival using Multi-omics Data (Yasser El-Manzalawy)

2:45 pm-3:00 pm – Break

3:00 pm-3:45 pm – Keynote: Dr. Ida Sim, Personal Mobile Technologies for Precision Medicine

Applications of network and pathway analysis to understand disease

3:45 pm-4:05 pm– (P) Pathway Networks Generated from Human Disease Phenome (Ann Cirincione)

4:05 pm-4:25 pm– (P) Integrative Pathway based Survival Prediction utilizing Interaction between Gene Expression and DNA Methylation in Breast Cancer (So Yeon Kim)

4:25 pm-4:40 pm–(A) Survival analysis identifies germline variants associated with overall survival among an endometrial cancer cohort (Jason Miller)

4:40 pm-5:25 pm – Keynote: Dr. Atul Butte, Translating Trillions of Points of Data into Therapies, Diagnostics, and New Insights into Disease

5:25 pm-5:45 pm – Closing Remarks/Best Paper & Abstract Award

5:45 pm – Dismissal

6:00 pm – Banquet

 

Sunday – October 1st

8:00 am – 9:00am - Tutorial: Dr. Marylyn Ritchie, Precision Medicine: Study Design, Tools, and Applications

9:00am - 10:00am – Tutorial: Dr. Dokyoon Kim, Multi-omics Data Integration for Translational Bioinformatics

10:00 am – Closing remarks and TBC 2017 Concludes!

 

 Keynote Speakers:

 

Butte 2 Atul Butte, M.D., Ph.D.
Professor, School of Medicine
University of California, San Francisco
Crawford2 Dana Crawford, Ph.D.
Assistant Director for Research Applications
Asso­ciate Pro­fes­sor of Epi­demi­ol­ogy and Bio­sta­tis­tics
Insti­tute for Com­pu­ta­tional Biol­ogy
Case Western Reserve University
Kim2 Ju Han Kim, M.D., Ph.D.
Professor and Chair, Div. of Biomedical Informatics 
Director, Systems Biomedical Informatics Research Center
Seoul National University College of Medicine
Ledbetter updated David H. Ledbetter, PhD
Executive Vice President & Chief Scientific Officer
Geisinger Health System
Moore 2 Jason Moore, Ph.D.
Edward Rose, M.D. and Elizabeth Kirk Rose, M.D. Professor
Biostatistics and Epidemiology
Perelman School of Medicine
University of Pennsylvania
Ida Sim Ida Sim, M.D., Ph.D.
Professor, School of Medicine
University of California, San Francisco
Tatonetti2 Nicholas P Tatonetti, PhD
Herbert Irving Assistant Professor of Biomedical Informatics
Director of Clinical Informatics
Herbert Irving Comprehensive Cancer Center
Columbia University
Presbyterian Hospital
Tennenbaum 2 Jessie Tenenbaum, Ph.D.
Associate Direct, Bioinformatics
Duke Clinical & Translational Science Institute

 

IMPORTANT DATES

 

PAPER/ABSTRACT SUBMISSION DEADLINE - May 31, 2017 Friday, June 16, 2017

Due to numerous requests we have extended the submission deadline to Friday June 16th.  This is the only extension. June 16th is the final deadline.

 

Paper/Abstract acceptance notices sent - June 30, 2017 July 7, 2017  

Monday July 10th

 

Accepted Paper revisions due by August 6th 

 

TBC 2017 Meeting Hosts:

Dr. Dokyoon Kim
Biomedical and Translational Informatics
Geisinger Health System

Kim

Dr. Marylyn Ritchie
Biomedical and Translational Informatics
Geisinger Health System

Ritchie

Meeting Coordinators:

 

 

 

 

Jen Gange
Senior Administrative Assistant
Geisinger Health System

 

J.Gange Headshot

Kristin Smith
Lead Research Administrative Coordinator
Geisinger Health System

Smith

Suzy Unger
Research Project Manager
Geisinger Health System

 

SGU Headshot

 

Organizing Committee Members
Kim2

 

Ju Han Kim, M.D., Ph.D. (Korea)

Professor and Chair, Div. of Biomedical Informatics
Director, Systems Biomedical Informatics Research Center
Seoul National University College of Medicine

Butte

 

Atul Butte, M.D., Ph.D. (U.S.A.)

Director of the Institute of Computational Health Sciences (ICHS) 
University of California, San Francisco

Luonan Chen

 

Luonan Chen, Ph.D. (China)

Key Laboratory of Systems Biology, 
Shanghai Institute for Biological Sciences, China

 eskin headshot

 

Eleazar Eskin (U.S.A.)

Professor, Computer Science, Human Genetics
University of California, Los Angeles

Indira Ghosh

 

Indira Ghosh, Ph.D. (India)

Dean and Professor, School of Informatics Technology, 
Jawaharlal Nehru University, New Delhi, India

mkann

 

Maricel G. Kann, Ph.D. (U.S.A.)

University of Maryland Baltimore County 

Yves Lussier

 

Yves A. Lussier, M.D. (U.S.A.)

Prof. of Medicine, Associate Vice President of Health Sciences 
University of Arizona Attended Columbia University

lucila ohno machado

 

Lucila Ohno-Machado, M.D., Ph.D. (U.S.A.)

Founding Chief, Division of Biomedical Informatics, UC San Diego
Director, Biomedical Research Informatics for Global Health Program

RILow Marylyn Ritchie 1256

 

Marylyn D. Ritchie, Ph.D. (U.S.A.)

Director, Biomedical and Translational Informatics 
Geisinger Health System

Tomohiro Sawa

 

Tomohiro Sawa, M.D., Ph.D. (Japan) 

Chief Information Officer, Headquarters, Teikyo University 
Dept. of Anesthesiology, Teikyo University

 WeiWang

 

Wei Wang, Ph.D. (U.S.A.) 

Professor, Department of Computer Science
University of California, Los Angeles

Scientific Program Committee Members:

A. Grant Schissler University of Arizona
Alison Motsinger North Carolina State University
Anna Basile Pennsylvania State University
Anne Justice Geisinger Health System
Anurag Verma Geisinger Health System
Bongsoo Park Johns Hopkins University
Brett Beaulieu-Jones University of Pennsylvania
Celine Han Dana-Faber Cancer Institute
Christopher Bauer Geisinger Health System
Dana Crawford Case Western
David Reif North Carolina State University
Dexter Hadley University of California, San Francisco
Francesca Vitali University of Arizona
Gwan-Su Yi Korea Advanced Institute of Science and Technology (KAIST)
Haiquan Li University of Arizona
Ho-Jin Choi Korea Advanced Institute of Science and Technology (KAIST)
Hyeoneui Kim University of California, San Diego
Hyojung Paik Korea Institute of Science and Technology Information (KISTI)
Hyunju Lee Gwangju Institute of Science and Technology
Hyunjung Shin Ajou University
Hyunwook Han Ajou University
James Chen Ohio State University
Jason Miller Geisinger Health System
Joanne Berghout University of Arizona
Joshua Swamidass Washington University in St. Louis
Kye Hwa Lee Seoul National University
Kyoung Jae Won University of Pennsylvania
Maricel Kann University of Maryland
Marina Sirota University of California, San Francisco
Mariusz Butkiewicz Geisinger Health System
Marta Byrskabishop Geisinger Health System
Matthew Oetjens Geisinger Health System
Mike Lee Geisinger Health System
Mina Rho Hanyang University
Miryung Han The Catholic University of Korea
Nicole Restrepo Geisinger Health System
Ruowang Li University of Pennsylvania
Ryan Urbanowicz University of Pennsylvania
Sael Lee Stony Brook University
Sangwoo Kim Yonsei University College of Medicine
Shefali Verma Geisinger Health System
Shwan Lee University of Michigan
Sun Kim Seoul National University
Tao Zeng Chinese Academy of Sciences
Tomohiro Sawa Teikyo University
Vida Abedi Geisinger Health System
Wendy Ingram Geisinger Health System
Xiangmei Chen Chinese Academy of Sciences
Yogasudha Veturi Geisinger Health System
Young Soo Song Hanyang University College of Medicine
Younghee Lee University of Utah
Zhiping Liu Chinese Academy of Sciences

tbchome

   

Moore Lab and Ritchie Lab Reunion

Saturday, February 11, 2017

Key West, Florida

 

  Agenda:  last updated 1/25/17
9:30 am Introductions and Opening Remarks Salon C
  Dr. Jason Moore, University of Pennsylvania
Dr. Marylyn Ritchie, Geisinger Health System
 
10:00 am Science Flash Talks (5 minute max) Salon C
  Brett Beaulieu-Jones, Moore, University of Pennsylvania
Marta, Byrska-Bishop, Ritchie lab, Geisinger Health System
Brian, Cole, Moore Lab, University of Pennsylvania
Christian Darabos, Moore Lab, Dartmouth College
Britney Graham, Williams Lab, Case Western Reserve University
Emily Holzigner, Joan Bailey-Wilson Lab, NHGRI/NIH
Dokyoon Kim, Kim Lab, Geisinger Health System
Bill La Cava, Moore Lab, University of Pennsylvania
Victoria Li, Ritchie Lab, Pennsylvania State University
Ruowang Li, Moore lab, University of Pennsylvania
Jason Miller, Ritchie and Kim labs, Geisinger Health System
Alena Orlenko, Moore Lab, University of Pennsylvania
Patryk Orzechowski, Moore LabUniversity of Pennsylvania
Sarah Pendergrass, Pendergrass Lab, Geisinger Health System
Eli Piette, Moore Lab, University of Pennsylvania
Ryan Urbanowicz, Moore Lab, University of Pennsylvania
Anurag Verma, Ritchie Lab, Geisinger Health System
Shefali Verma, Ritchie lab, Geisinger Health System
Sudha Veturi, Ritchie lab, Geisinger Health System
Blair Zhang, Ritchie Lab, Pennsylvania State University
 
12:00 pm   Lunch Terrace
1:00 pm Networking Activity - Science Speed Dating! Salon C
2:00 pm Scavenger Hunt Hotel Grounds 
4:00 pm Closing remarks Salon C
6:00 pm Dinner Banquet Salon C
9:00 pm Adjourn  

 

 

Venue:

Marriott Key West Beachside Hotel
3841N. Roosevelt Blvd, Key West, FL(305) 296-8100

http://www.beachsidekeywest.com/index.php

gallery img 01     gallery img 02 

gallery img 20     gallery img 16

Local Airport:

  1. Key West International Airport is two miles east of Key West, in Monroe County, Florida. 
  2. Address3491 S Roosevelt Blvd, Key West, FL 33040
  3. Airport CodeEYW

..

Local Favorite Restaurants:

  • Tavern and Town – Key West Marriott Beachside Resort –Key West’s premiere restaurant, delicious, imaginative dishes, perfect steaks and seafood.  Tapas specials on Tuesdays and Thursdays.
  • Ambrosia Japanese Restaurant –1401 Simonton St. Outstanding sushi and innovative dishes served in their new home in the brand new Santa Maria Suites.  Lunch and Dinner daily.
  • Mangia Mangia – 900 Southard – Mouthwatering pasta made fresh every day.  Nestled in an old town neighborhood.
  • Michael’s – 532 Margaret –  famous for it’s steaks, but everything on the menu is wonderful.  The locals favorite steak house.
  • Square One – 1075 Duval in Duval Square – Fine Dining Elegant American
  • Alfonso  –700 Front St. – Beautiful harbor view, great steaks and seafood,Maine lobster.
  • La Trattoria/Virgilio’s  524 Duval– Northern Italian, another local favorite with a great nightclub, Virgilio’s Martini Bar – that has music, dancing.
  • Antonia’s 615 Duval St – Southern Italian Excellent homemade pasta and fine wines an excellent choice.
  • El Meson De Pepe’s  410 Wall Street- Real Cuban- Conch Cuisine with Latin Music Nightly located just offMallory Square
  • Grand Café 314 Duval St American Cuisine with Global Influences Fresh seafood and Steak
  • Commodores white table cloths fine dinning excellent, one second floor on boardwalk
  • Nine One Five 915 Duval St Tapas style dinning
  • CASUAL Dinning
  • Half Shell Raw Bar Lands endMarina end ofMargaret St, sandwiches, fresh seafood, on the water
  • BO’s Fish Wagon Carolyn andWilliam St small but very good and very casual
  • Conch Republic Seafood Restaurant 631 Green St Causal open air on the docks
  • Boathouse on the boardwalk under Commodores Restaurant, great happy hour and food.

Epistasis Discovery in Genetics and Epidemiology


The Epistasis Discovery in Genetics and Epidemiology (EDGE) conference focuses on the discussion and exploration of the impact of genetic interactions on complex traits and outcomes. The EDGE meeting yearly invites a varying group of experts in epistasis across multiple disciplines from animal models to biostatistics, providing a unique and synergistic environment for sharing ideas, identifying new topics of research, as well as the development of novel methodologies for understanding the impact of genetic interactions on complex traits and outcomes. As a result of EDGE, new manuscripts and algorithms have been developed and shared with the scientific community.

Publications as a result of meeting collaborations:

Ciesielski TH, Pendergrass SA, White MJ, Kodaman N, Sobota RS, Huang M, Bartlett J, Li J, Pan Q, Gui J, Selleck SB, Amos CI, Ritchie MD, Moore JH, Williams SM. Diverse convergent evidence in the genetic analysis of complex disease: coordinating omic, informatic, and experimental evidence to better identify and validate risk factors. BioData Min. 2014 Jun 30;7:10. doi: 10.1186/1756-0381-7-10. PM 25071867, PMC 4112852

Full Article Available Here: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4112852/

Hosts/Sponsors

moore
Jason Moore

Professor and Director 
Institute of Biomedical Informatics
University of Pennsylvania

 RILow Marylyn Ritchie 1256
Marylyn D Ritchie

Professor and Chair 
Biomedical and Translational Informatics
Chief Research Informatics Officer 
Geisinger Health System

Meeting Coordinator

Sallie Headshot

Sallie Ellison
EDGE Meeting Coordinator 

Contact: 

Sallie Ellison
Administrative Coordinator, Division of Informatics
Department of Biostatistics, Epidemiology and Informatics
University of Pennsylvania
T: 215-573-3105
This email address is being protected from spambots. You need JavaScript enabled to view it.

   

 

 

5th Annual Epistasis Discovery in Genetics and Epidemiology (EDGE) Conference

 February 9-10, 2017
Marriott Beach Side - Key West, Florida
 
 
 
Meeting Basics: 
Our Meeting is in Salon C. Head to the main building where you checked in, and take the stair case on your right or elevator on your left when you walk into the building. We are on the second floor in the meeting room closest to the elevator. Look for the Registration table! 
Meals are on the Terrace, and the Friday post conference Cocktail Hour is Poolside!
 
Hotel Shuttle Information:  If you call the hotel (phone number (305) 296-8100) once you have arrived at the airport, have your bags and are ready to go. They will send a shuttle for you (it’s a very short drive)However, please keep in mind that the majority of our attendees are arriving on Wednesday so there may be a wait for the hotel shuttle or it may already be onsite. There will be numerous taxi's available at the airport as well.

Keynote Speakers:

 

Joan E. Bailey-Wilson, Ph.D.
Head, Statistical Genetics Section
Co-Branch Chief, Computational and Statistical Genomics Branch
National Human Genome Research Institute
National Institutes of Health

 

Alon Keinan, PhD
Associate Professor
Department of Biological Statistics & Computational Biology
Cornell University - Ithaca, NY

Trudy F. C. Mackay, PhD, FRS
William Neal Reynolds and Distinguished University Professor of Genetics
Director, Program in Genetics
Associate Director, Comparative Medicine Institute
Department of Biological Sciences
North Carolina State University

 

James Malley
Research Mathematical Statistician
Center for Information Technology
National Institutes of Health

 

Daniel R. Weinberger, M.D.
Director and CEO, Lieber Institute for Brain Development
Professor, Departments of Psychiatry, Neurology, Neuroscience and The Institute of Genetic Medicine
Johns Hopkins University School of Medicine

4th Annual Epistasis Discovery in Genetics and Epidemiology (EDGE) Conference

 February 4-5, 2016
Marriott Beach Side - Key West, Florida
 
 
 
Meeting Basics: 
Our Meeting is in Salon B again! Head to the main building where you checked in, and take the stair case on your right when you walk into the building. We are on the second floor in the center meeting room. Look for the Registration table! 
Meals are on the Terrace across from Salon B, and the Friday post conference Cocktail Hour is Poolside!
 
Hotel Shuttle Information:  If you call the hotel (phone number (305) 296-8100) once you have arrived at the airport, have your bags and are ready to go. They will send a shuttle for you (it’s a very short drive)However, please keep in mind that the majority of our attendees are arriving on Wednesday so there may be a wait for the hotel shuttle or it may already be onsite. There will be numerous taxi's available at the airport as well.

Registration is now closed. Please contact Suzy Unger with any questions.

 

Rooming Confirmations can be found here:

First Name Last Name  Arrival Date Departure Date Confirmation Number
Emily Holzinger Feb-03-2016 Feb-06-2016 92977729
Joan Bailey-Wilson
Qin Li
Brett Beaulieau Feb-03-2016 Feb-06-2016 92977360
Ryan Urbanoqicz
Alicia Cutillo
Brian  Cole Feb-03-2016 Feb-07-2016 92976806
Randal Olson
Peter Andrews
Sallie Ellison Feb-03-2016 Feb-06-2016 92973166
Casey Greene Feb-03-2016 Feb-06-2016 92972802
Trudy Mackay Feb-03-2016 Feb-06-2016 92976411
Robert Anholt
Elisabetta Manduchi Feb-03-2016 Feb-06-2016 92978332
Elizabeth Piette
Yancy Lo
Kevin Mitchell Feb-03-2016 Feb-06-2016 92974235
Jason Moore Feb-03-2016 Feb-06-2016 92973883
Sarah Pendergrass Feb-03-2016 Feb-06-2016 92976111
Marylyn Ritchie
Shefali Setia Feb-03-2016 Feb-06-2016 92978604
Anastasia Lucas
Anna Basile
Suzy Unger Jan-31-2016 Feb-06-2016 92975628
James Malley Feb-03-2016 Feb-06-2016

81203846

Scott Williams Feb-03-2016 Feb-06-2016 92972988

Marriott Key West Beachside Hotel
3841N. Roosevelt Blvd, Key West, FL(305) 296-8100

http://www.beachsidekeywest.com/index.php

gallery img 01     gallery img 02 

gallery img 20     gallery img 16

Local Airport:

  1. Key West International Airport is two miles east of Key West, in Monroe County, Florida. 
  2. Address3491 S Roosevelt Blvd, Key West, FL 33040
  3. Airport CodeEYW

..

Local Favorite Restaurants:

  • Tavern and Town – Key West Marriott Beachside Resort –Key West’s premiere restaurant, delicious, imaginative dishes, perfect steaks and seafood.  Tapas specials on Tuesdays and Thursdays.
  • Ambrosia Japanese Restaurant –1401 Simonton St. Outstanding sushi and innovative dishes served in their new home in the brand new Santa Maria Suites.  Lunch and Dinner daily.
  • Mangia Mangia – 900 Southard – Mouthwatering pasta made fresh every day.  Nestled in an old town neighborhood.
  • Michael’s – 532 Margaret –  famous for it’s steaks, but everything on the menu is wonderful.  The locals favorite steak house.
  • Square One – 1075 Duval in Duval Square – Fine Dining Elegant American
  • Alfonso  –700 Front St. – Beautiful harbor view, great steaks and seafood,Maine lobster.
  • La Trattoria/Virgilio’s  524 Duval– Northern Italian, another local favorite with a great nightclub, Virgilio’s Martini Bar – that has music, dancing.
  • Antonia’s 615 Duval St – Southern Italian Excellent homemade pasta and fine wines an excellent choice.
  • El Meson De Pepe’s  410 Wall Street- Real Cuban- Conch Cuisine with Latin Music Nightly located just offMallory Square
  • Grand Café 314 Duval St American Cuisine with Global Influences Fresh seafood and Steak
  • Commodores white table cloths fine dinning excellent, one second floor on boardwalk
  • Nine One Five 915 Duval St Tapas style dinning
  • CASUAL Dinning
  • Half Shell Raw Bar Lands endMarina end ofMargaret St, sandwiches, fresh seafood, on the water
  • BO’s Fish Wagon Carolyn andWilliam St small but very good and very casual
  • Conch Republic Seafood Restaurant 631 Green St Causal open air on the docks
  • Boathouse on the boardwalk under Commodores Restaurant, great happy hour and food.

Keynote Speakers:

Dr. Trudy F. C. Mackay
Professor of Genetics and Associate Member of Entomology
North Carolina State University

Dr. Joan Bailey-Wilson
Head, Statistical Genetics Section
National Institutes of Health

Dr. Casey S. Greene
Assistant Professor, Department of Systems Pharmacology and Translational Therapeutics
Perelman School of Medicine, University of Pennsylvania

 Dr. Kevin Mitchell,
Developmental Neurogenetics, Smurfit Institute of Genetics,
University of Dublin,Trinity College,Dublin

 

Invited Guests:

Dr. James Malley
National Institutes of Health

EDGE 2016 Agenda:

   ** last updated 2/4/2016**

  Wednesday, February 3, 2016

  Arrivals

 

Thursday, February 4, 2016

 

**Note: Our meeting has moved to Salon C near the elevator**

8:30 AM   Breakfast and Registration   Terrace 

9:00 AM

Welcome and Scientific Remarks by Drs. Jason Moore & Marylyn Ritchie Salon C

9:30 AM

Dr. Casey S. Greene - Invited Guest

Network-based approaches for the analysis of gene-disease associations

 

10:00 AM

Ryan Urbanowicz, Moore Lab

New ‘fronts’ in rule-based machine learning for modeling epistasis and heterogeneity

 

10:30 AM

Break  
10:45 AM

Dr. Jason Moore

Epistasis Analysis as a Service

 
11:15 AM

Randal Olson, Moore Lab

Automating biomedical data science through tree-based pipeline optimization

 
11:45 AM Discussion  
12:00 PM Catered Lunch Terrace
1:00 PM

Dr. Kevin Mitchell - Invited Guest

Epistasis in neurodevelopmental disorders – all background and no foreground?

Salon C
1:30 PM

Anna Okula-Baisle, Ritchie Lab

Knowledge Driven Binning using BioBin

 
2:00 PM Discussion  
2:30 PM Break  
2:45 PM

 Dr. Trudy Mackay - Invited Guest

The Genetic Architecture of Quantitative Traits Cannot Be Inferred From Variance Component Analysis

 
3:15 PM

Discussion

 
4:00 PM Adjourn for the day (Dinner on your own)  

Friday, February 5, 2016

8:30 AM  Breakfast   Terrace 
9:00 AM

Dr. Joan Bailey-Wilson - Invited Guest

Statistical Genetics Methods in the Genomics Era

Salon C
9:30 AM

Sarah Pendergrass, Pendergrass Lab

Geisinger Health Systems

 
10:00 AM Break  
10:30 AM Discussion  
11:00 AM

Dr. Scott Williams - Williams Lab

Pleiotropy and the disparity of fibroproliferative diseases

 
11:30 AM

Mini Poster Session: Bailey-Wilson Lab

Emily Holzinger - r2VIM: A variable selection method for identifying complex genetic models associated with human traits

Qing Li - Trio Random Forest: Post Analysis of Tree Structure To Reveal Interactions

 
12:00 PM Catered Lunch Terrace
1:00 PM Group Discussion Salon C
3:00 PM Workshop Concludes  
4:00 PM Cocktail Hour Poolside
6:00 PM Dinner on your own  

 Saturday, February 6, 2016

 Departures

3rd Annual Epistasis Discovery in Genetics and Epidemiology (EDGE) Conference

 February 4-7, 2015
Marriott Beach Side - Key West, Florida
 
Find your hotel confirmation number here!
 
 
Meeting Basics: 
Our Meeting is in Salon B again! Head to the main building where you checked in, and take the stair case on your right when you walk into the building. We are on the second floor in the center meeting room. Look for the Registration table! 
Meals are on the Terrace across from Salon B, and the Friday post conference Cocktail Hour is Poolside!
 
Keynote speakers:                                                                  Special Guest Speaker:
Dr. Brett A. McKinney, University of Tulsa                                     Dr. Trudy F. C. Mackay, North Carolina State University
Dr. Gregory W. Carter, The Jackson Laboratory
Dr. Brendan Keating, The University of Pennsylvania
Dr. James Malley, National Institutes of Health (Supporting Material)
 
Hotel Information:
Marriott Key West Beachside Hotel
3841 N. Roosevelt Blvd, Key West, FL
(305) 296-8100 
 
Hotel Shuttle Information: 
From the airport: If you call the hotel once you have arrived at the airport, have your bags and are ready to go, they will send a shuttle for you (it’s a very short drive, and the van is commonly on location at the airport) (305) 296-8100 is the hotel number. There are also numerous taxi's available at the airport as well. 
To/From Downtown: 
The Shuttle leaves the hotel on the hour, every hour between 8:00 am and 11:00 pm and drops off downtown at Margaritaville.
Picks up at Margaritaville at 20 past the hour every hour between 8:20 am and 11:20 pm.
                                          
Agenda:
 Wednesday, February 4, 2015
 Arrivals
   

Thursday, February 5, 2015

8:30 am - Breakfast & Registration– Terrace

9:00 am – Welcome and scientific remarks: Jason Moore

9:30 am – Gregory Carter - Invited Guest

10:00am - discussion

10:30 am - Break

10:45 am – Ryan Urbanowicz - Moore Lab

11:15 am – John Wallace/Molly Hall - Ritchie Lab

11:45 am - discussion

12:00 pm - Catered lunch - Terrace

1:00 pm – Brett McKinney - Invited Guest

1:30 pm – Scott Williams (or someone from his group)

2:00 pm - discussion

2:30 pm - Break

2:45 pm – Jim Malley - Invited Guest

3:15 pm - Brendan Keating - Invited Guest

3:45 pm - discussion

4:00 pm - Adjourn for the day (Dinner on your own)

 

Friday, February 6, 2015

8:30 am Breakfast – Terrace

9:00 am – Trudy Mackay - Invited Guest

9:30 am – Will/Alex - Bush Lab

10:00am - discussion

10:30 am - Break

10:45 am – Elizabeth Piette - Moore Lab

11:15 am – Jing Li - Moore Lab

11:45 am - discussion

12:00 pm - Catered lunch - Terrace

1:00 pm – group discussion

3:00 pm - Workshop Concludes

4:00 pm – Poolside Cocktail Hour

6:00 pm - Dinner on your own
 
Saturday, February 7, 2015
 Departures
 
 

Local Favorite Restaurants:
Tavern and Town – Key West Marriott Beachside Resort –Key West’s premiere restaurant, delicious, imaginative dishes, perfect steaks and seafood.  Tapas specials on Tuesdays and Thursdays.
Ambrosia Japanese Restaurant –1401 Simonton St. Outstanding sushi and innovative dishes served in their new home in the brand new Santa Maria Suites.  Lunch and Dinner daily.
Mangia Mangia – 900 Southard – Mouthwatering pasta made fresh every day.  Nestled in an old town neighborhood.
Michael’s – 532 Margaret –  famous for it’s steaks, but everything on the menu is wonderful.  The locals favorite steak house.
Square One – 1075 Duval in Duval Square – Fine Dining Elegant American
Alfonso  –700 Front St. – Beautiful harbor view, great steaks and seafood,Maine lobster.
La Trattoria/Virgilio’s  524 Duval– Northern Italian, another local favorite with a great nightclub, Virgilio’s Martini Bar – that has music, dancing.
Antonia’s 615 Duval St – Southern Italian Excellent homemade pasta and fine wines an excellent choice.
El Meson De Pepe’s  410 Wall Street- Real Cuban- Conch Cuisine with Latin Music Nightly located just offMallory Square
Grand Café 314 Duval St American Cuisine with Global Influences Fresh seafood and Steak
Commodores white table cloths fine dinning excellent, one second floor on boardwalk
Nine One Five 915 Duval St Tapas style dinning
 
CASUAL Dinning
Half Shell Raw Bar Lands endMarina end ofMargaret St, sandwiches, fresh seafood, on the water
BO’s Fish Wagon Carolyn andWilliam St small but very good and very casual
Conch Republic Seafood Restaurant 631 Green St Causal open air on the docks
Boathouse on the boardwalk under Commodores Restaurant, great happy hour and food.

EDGE Conference 2014

End Survey

Attendee List

Note Pad Pages

 February 5th -7th, 2014

Key West, Florida

Our Meeting is in Salon B. Head to the main building where you checked in, and take the stair case on your right when you walk into the building. We are on the second floor in the center meeting room. Look for Suzy at the Registration table! Meals are on the Terrace across from Salon B, and Cocktail Hours are Poolside!

Check the Rooming list for your confirmation number!

Keynote Speakers: Please fill out/sign this form and email it to Suzy! 

Hotel Shuttle Information:  If you call the hotel once you have arrived at the airport, have your bags and are ready to go. They will send a shuttle for you (it’s a very short drive)(305) 296-8100 is the hotel number. However, please keep in mind that the majority of our 32 attendees are arriving on Wednesday so there may be a wait for the hotel shuttle. There will be numerous taxi's available at the airport as well.

Agenda     :     Hotel Information     :     Local Resturants


Keynote Speakers:

Dr. Trudy F. C. Mackay
Professor of Genetics and Associate Member of Entomology
North Carolina State University

Dr. Kristel Van Steen
University of Liège, Montefiore Institute

Dr. Joan Bailey-Wilson
Head, Statistical Genetics Section
National Institutes of Health

  

Special Guest:
James Malley (NIH)
Presentation Slides | Supporting Material

 

AGENDA:  (printable version here)

 Wednesday, February 5, 2014

Arrivals

5:00 pm            Poolside Cocktail Hour (optional)

7:00 pm            Dinner on your own

 

Thursday, February 6, 2014

8:30 am            Breakfast – Terrace

8:55 am            Jason Moore – introduction and welcome

9:00-9:30          Jason Moore

9:30-9:45          Discussion

9:45-10:15        Trudy Mackay

10:15-10:30      Discussion        

10:30-11:00      Break

11:00-12:00      Open discussion

12:00-1:00        Catered lunch - Terrace

1:00-1:45          Open discussion

1:45-2:15          Kristel VanSteen

2:15-2:30          Discussion

2:30-3:00          Break

3:00-3:30          Joan Bailey-Wilson    

3:30-3:45          Discussion

3:45-4:15          Poster Presentations: Emily Holzinger & Qing Li

4:15-4:30          Discussion

4:30 pm -          Adjourn for the day (Dinner on your own)

Friday, February 7, 2014

 8:30 am            Breakfast - Terrace

 9:00-9:30          James Malley

 9:30-9:45          Discussion

 9:45-10:15        Marylyn Ritchie

 10:15-10:30      Discussion

 10:30 am          Break

 11:00-11:30      Folkert Asselbergs

 11:30-11:45      Discussion

 11:45-12:00      Open discussion

 12:00 pm          Catered lunch - Terrace

 1:00-1:30          Scott Williams

 1:30-1:45          Discussion

 1:45-3:00          Open discussion (workshop deliverables, EDGE 2015)

 3:00 pm            Workshop Concludes

 4:00 pm –         Poolside Cocktail Hour

 6:00 pm -          Dinner on your own

 

Saturday, February 8th, 2014

 Departures



Hotel Information:

 Marriott Key West Beachside Hotel

 http://www.beachsidekeywest.com/index.php

 3841 N. Roosevelt Blvd, Key West, FL

 (305) 296-8100 

 Rooming List is here: http://goo.gl/Twl2gn

 


Local Favorite Restaurants:

Tavern and Town – Key West Marriott Beachside Resort –Key West’s premiere restaurant, delicious, imaginative dishes, perfect steaks and seafood.  Tapas specials on Tuesdays and Thursdays.

Ambrosia Japanese Restaurant –1401 Simonton St. Outstanding sushi and innovative dishes served in their new home in the brand new Santa Maria Suites.  Lunch and Dinner daily.

Mangia Mangia – 900 Southard – Mouthwatering pasta made fresh every day.  Nestled in an old town neighborhood.

Michael’s – 532 Margaret –  famous for it’s steaks, but everything on the menu is wonderful.  The locals favorite steak house.

Square One – 1075 Duval in Duval Square – Fine Dining Elegant American

Alfonso  –700 Front St. – Beautiful harbor view, great steaks and seafood,Maine lobster.

La Trattoria/Virgilio’s  524 Duval– Northern Italian, another local favorite with a great nightclub, Virgilio’s Martini Bar – that has music, dancing.

Antonia’s 615 Duval St – Southern Italian Excellent homemade pasta and fine wines an excellent choice.

El Meson De Pepe’s  410 Wall Street- Real Cuban- Conch Cuisine with Latin Music Nightly located just offMallory Square

Grand Café 314 Duval St American Cuisine with Global Influences Fresh seafood and Steak

Commodores white table cloths fine dinning excellent, one second floor on boardwalk

Nine One Five 915 Duval St Tapas style dinning

 

CASUAL Dinning

Half Shell Raw Bar Lands endMarina end ofMargaret St, sandwiches, fresh seafood, on the water

BO’s Fish Wagon Carolyn andWilliam St small but very good and very casual

Conch Republic Seafood Restaurant 631 Green St Causal open air on the docks

Boathouse on the boardwalk under Commodores Restaurant, great happy hour and food.

EDGE conference

January 31st – February 1st, 2013

 Welcome to the first edition of the Epistasis Discovery in Genetic Epidemiology (EDGE) conference!  Below you will find the current Agenda, the hotel information and a listing of local restaurants.

We are in Salon B! Go to the main building (where you checked in) and up to the second floor.

Thanks for attending! Take the end survey here!

Agenda

Hotel Information

Local Resturants

 

Agenda:

Wednesday, January 30th

Arrival at the Marriott Key West Beachside Hotel (3841 N. Roosevelt Blvd)

Thursday, January 31st

7:00 am           Breakfast

8:00 am           30 Minute Presentations: (in no particular order)

Dr. Jason Moore

Dr. Chris Amos

Dr. Marylyn Ritchie

Ruowang Li – Ritchie Lab

Claire Reynolds – Selleck Lab

Ryan Urbanowicz – Moore Lab

Ting Hu – Moore Lab

12:00 pm        Lunch and Discussion

1:00 pm          Definition and refinement of questions for discussion

3:00 pm          Break

3:15 pm          Discussion

5:00 pm          Break

6:00 pm          Dinner Out

Friday, February 1st                                                                                 

7:00 am           Breakfast

8:00 am           Discussion of questions

10:00 am         Outline two papers to write in 2013

11:00 am         Discussion

12:00 pm        Lunch and Wrap up

1:00 pm          Free time

6:00 pm          Dinner out

Saturday, February 2nd

Departure

Hotel Information:

Marriott Key West Beachside Hotel

http://www.beachsidekeywest.com/index.php

3841 N. Roosevelt Blvd, Key West, FL

(305) 296-8100

** Please refer to the email that was sent previously for your confirmation number, If you cannot find this information, the front desk should be able to locate your reservation by name. **

 

Local Favorite Restaurants

Tavern and Town – Key West Marriott Beachside Resort –Key West’s premiere restaurant, delicious, imaginative dishes, perfect steaks and seafood.  Tapas specials on Tuesdays and Thursdays.

Ambrosia Japanese Restaurant –1401 Simonton St. Outstanding sushi and innovative dishes served in their new home in the brand new Santa Maria Suites.  Lunch and Dinner daily.

Mangia Mangia – 900 Southard – Mouthwatering pasta made fresh every day.  Nestled in an old town neighborhood.

Michael’s – 532 Margaret –  famous for it’s steaks, but everything on the menu is wonderful.  The locals favorite steak house.

Square One – 1075 Duval in Duval Square – Fine Dining Elegant American

Alfonso  –700 Front St. – Beautiful harbor view, great steaks and seafood,Maine lobster.

La Trattoria/Virgilio’s  524 Duval– Northern Italian, another local favorite with a great nightclub, Virgilio’s Martini Bar – that has music, dancing.

Antonia’s 615 Duval St – Southern Italian Excellent homemade pasta and fine wines an excellent choice.

El Meson De Pepe’s  410 Wall Street- Real Cuban- Conch Cuisine with Latin Music Nightly located just offMallory Square

Grand Café 314 Duval St American Cuisine with Global Influences Fresh seafood and Steak

Commodores white table cloths fine dinning excellent, one second floor on boardwalk

Nine One Five 915 Duval St Tapas style dinning

CASUAL Dinning

Half Shell Raw Bar Lands endMarina end ofMargaret St, sandwiches, fresh seafood, on the water

BO’s Fish Wagon Carolyn andWilliam St small but very good and very casual

Conch Republic Seafood Restaurant 631 Green St Causal open air on the docks

Boathouse on the boardwalk under Commodores Restaurant, great happy hour and food.

Supplementary Data

IDENTIFICATION OF GENETIC INTERACTION NETWORKS VIA AN EVOLUTIONARY ALGORITHM EVOLVED BAYESIAN NETWORK

Ruowang Li, Scott M. Dudek, Dokyoon Kim, Molly A. Hall, Yuki Bradford, Peggy L. Peissig, Murray H. Brilliant, James G. Linneman, Catherine A. McCarty, Le BaO and Marylyn D. Ritchie

Supplementary files:

Supplemtary Data

eMERGE Phenome-Wide Association Study (PheWAS) Identifies Clinical Associations and Pleiotropy for Stop-Gain Variants

Anurag Verma*, Shefali S. Verma*, Sarah A. Pendergrass, Dana C. Crawford, David R. Crosslin, Helena Kuivaniemi, William S. Bush, Yuki Bradford, Iftikhar Kullo, Suzette J. Bielinski, Rongling Li, Joshua C. Denny, Peggy Peissig, Scott Hebbring, Mariza de Andrade, Marylyn D. Ritchie, Gerard Tromp

Supplementart data files: 

 

Supplementary Data

PHENOME-WIDE INTERACTION STUDY (PheWIS) IN AIDS CLINICAL TRIALS GROUP DATA (ACTG)
Shefali S. Verma, Alex T. Frase, Anurag Verma, Sarah A. Pendergrass, Shaun Mahony, David W. Haas, Marylyn D. Ritchie

Supplementary files:

Supplemental Data

Contrasting Association Results between Existing PheWAS Phenotype Definition Methods and Five Validated Electronic Phenotypes
Joseph B Leader, Sarah A Pendergrass, Anurag Verma, David J Carey, Dustin N Hartzel, Marylyn D Ritchie, H. Lester Kirchner

Supplementary data files:

 

 

 

 

 

Supplementary Data

Phenome-wide Associations Study (PheWAS) Relating Pre-treatment Laboratory Parameters with Human Genetic Variants in AIDS Clinical Trials Group Protocols
Carrie B. Moore, Anurag Verma, Sarah Pendergrass PhD, Shefali Setia,Daniel H. Johnson, MD, MPH, Eric S. Daar, MD, Roy M. Gulick, MD,Richard Haubrich, MD, Gregory K. Robbins, MD,Marylyn D. Ritchie, PhD, and David W. Haas, MD

Supplementary Data File: 

Research Areas


The theme of the Ritchie Lab is the development of methodologies, tools, and analysis strategies toward improving our understanding of the genetic architecture of complex traits.  We pursue this through a combination of methodology projects and applied projects that work in synchrony such that challenges brought about by real data analysis applications drive the methodologies that we develop.

 

 

 

 

 

 

Our ultimate goals are to :

  • Develop diagnostic predictors of disease.
  • Learn new biology to better understand disease ecology and treatment.
  • Determine genetic and enviornmental risk factors that can be altered for disease prevention.

 

BioBin

Method Description:

With the recent decreasing cost of genome sequence data, there has been increasing interest in rare variants and methods to detect their association to disease. We developed BioBin, a flexible collapsing method inspired by biological knowledge that can be used to automate the binning of low frequency variants for association testing. We also built the Library of Knowledge Integration (LOKI), a repository of data assembled from public databases, which contains resources such as: dbSNP and gene Entrez database information from the National Center for Biotechnology (NCBI), pathway information from Gene Ontology (GO), Protein families database (Pfam), Kyoto Encyclopedia of Genes and Genomes (KEGG), Reactome, NetPath - signal transduction pathways, Open Regulatory Annotation Database (ORegAnno), Biological General Repository for Interaction Datasets (BioGrid), Pharmacogenomics Knowledge Base (PharmGKB), Molecular INTeraction database (MINT), and evolutionary conserved regions (ECRs) from UCSC Genome Browser. The novelty of BioBin is access to comprehensive knowledge-guided multi-level binning. For example, bin boundaries can be formed using genomic locations from: functional regions, evolutionary conserved regions, genes, and/or pathways.

 

We tested BioBin using simulated data and 1000 Genomes Project low coverage data to test our method with simulated causative variants and a pairwise comparison of rare variant (MAF < 0.03) burden differences between Yoruba individuals (YRI) and individuals of European descent (CEU). Lastly, we analyzed the NHLBI GO Exome Sequencing Project Kabuki dataset, a congenital disorder affecting multiple organs and often intellectual disability, contrasted with Complete Genomics data as controls.

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Related Publications:

  • Using BioBin to explore rare variant population stratification. Carrie B. Moore, John R. Wallace, Alex T. Frase, Sarah A. Pendergrass, Marylyn D. Ritchie, 332-343, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 2013, PMID: 23424138 PMCID: PMC3638724
  • BioBin: a bioinformatics tool for automating the binning of rare variants using publicly available biological knowledge. Carrie B. Moore, John R. Wallace, Alex T. Frase, Sarah A. Pendergrass, Marylyn D. Ritchie, 6 Suppl 2, BMC medical genomics, 2013, PMID: 23819467 PMCID: PMC3654874

 

Tomasz Dobrzanski

Undergrauate Student
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