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Upcoming Conferences

A Global Community

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    The ISCB Affiliates program is designed to forge links between ISCB and regional non-profit membership groups, centers, institutes and networks that involve researchers from various institutions and/or organizations within a defined geographic region involved in the advancement of bioinformatics. Such groups have regular meetings either in person or online, and an organizing body in the form of a board of directors or steering committee. If you are interested in affiliating your regional membership group, center, institute or network with ISCB, please review these guidelines (.pdf) and send your exploratory questions to Diane E. Kovats, ISCB Chief Executive Officer (This email address is being protected from spambots. You need JavaScript enabled to view it.).  For information about the Affilliates Committee click here.

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COMMITTEES


Conference Scientific Program Chairs
- Grégoire Altan-Bonnet, Center for Cancer Research, National Cancer Institute
- Richard Boneau, New York University
- Christina Leslie, Memorial Sloan Kettering Cancer Center
- Pablo Meyer, IBM Research
- Saurabh Sinha, University of Illinois at Urbana-Champaign
- Gustavo Stolovitzky, IBM Research


Steering Committee:
Chairs:
- Christina Leslie, Memorial Sloan Kettering Cancer Center
- Saurabh Sinha, University of Illinois at Urbana-Champaign
- Pablo Meyer, IBM Research
- Gustavo Stolovitzky, IBM Research

- Grégoire Altan-Bonnet, Center for Cancer Research, National Cancer Institute
- Andrea Califano, Columbia University
- Michael Berens, TGen
- Bonnie Berger, MIT
- Elise Blaese, IBM Research
- Barry Demchak, University of California, San Diego
- Belinda Hanson, Conference Logistics Manager, ISCB
- Manolis Kellis, MIT
- Diane Kovats, Executive Director, ISCB
- Alexander Pico, Gladstone Institutes
- Lonnie Welch, Ohio University

Program Committe
- Stein Aerts, Katholieke Universiteit Leuven
- Grégoire Altan-Bonnet, NCI  
- Miguel Angel Pujana, IDIBELL
- Nicholas Banovich, Translational Genomics Research Institute
- Mark Biggin, Lawrence Berkeley National Laboratory
- Richard Boneau, New York University
- Serdar Bozdag, Marquette University
- Harmen Bussemaker, Columbia University
- Barry Demchak, University of California San Diego
- Finn Drablos, Norwegian University of Science and Technology
- Ja son Ernst, University of California, Los Angeles   
- Anthony Gitter, University of Wisconsin-Madison
- Raluca Gordan, Duke University
- Rebecca Halperin, TGen  
- Xin He, University of Chicago
- Anshul Kundaje, Stanford University
- Su-In Lee, University of Washington
- Christina Leslie, Memorial Sloan-Kettering Cancer Center
- T. M. Murali, Virginia Tech
- Avi Ma'Ayan, Mount Sinai School of Medicine
- Shaun Mahony, The Pennsylvania State University
- Pablo Meyer, IBM  
- Satoru Miyano, The University of Tokyo
- Theodore Perkins, Ottawa Health Research Institute
- Yanjun Qi, University of Virginia.edu
- Michael R. Brent, wustl
- Sushmita Roy, University of Wisconsin-Madison
- Ron Shamir, School of Computer ScienceTel Aviv University
- Saurabh Sinha, University of Illinois at Urbana-Champaign
- Gustavo Stolovitzky, IBM  
- Pavel Sumazin, Baylor College of Medicine
- Wei Wang, University of California San Diego
- Weixiong Zhang, Washington University in St. Louis


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CONTACT


Circle Line 2 Hour Semi-Circle Cruise Tour. © NYC & Company/Marley White.
Circle Line 2 Hour Semi-Circle Cruise Tour.
© NYC & Company/Marley White.
For web site use, www.nycgo.com.

RSG and DREAM General Questions

Bel Hanson
Conference Manager
This email address is being protected from spambots. You need JavaScript enabled to view it.
Tel: 1-315-767-5568

Welcome to the 10th Annual RECOMB/ISCB Conference on Regulatory & Systems Genomics, with DREAM Challenges


Lower Manhattan.  © NYC & Company/Kate Glicksberg.
Lower Manhattan. © NYC & Company/Kate Glicksberg.
For web site use, www.nycgo.com.

Now in its tenth year, the RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges is one of the premier annual meetings in the fields of regulatory genomics, systems biology, and network visualization. This multidisciplinary conference brings together both computational and experimental researchers from across the world to discuss recent discoveries about genomic and molecular regulatory networks as well as innovative, integrative methods for developing a systems-level understanding of biological activity.

The conference will be held at the Memorial Sloan Kettering Cancer Center, 417 E 68th Street, in New York City, New York. Program activities will begin on Sunday, November 19 and conclude on Tuesday, November 21, 2017.

......................................................................................................................................

New this year!
Special Session on Systems Immunology


The RSG 2017 conference program will include a broad interest special session on systems biology methods in immunology. The objective is to complement the regular program and provide a focused discussion on a new or emerging topic of particular interest to the community. The aim of the special session is provide an overview of the current technology and also to highlight challenges and future directions in the field of systems immunology. We are particularly interested in applications to cancer immunology and immunotherapy.

......................................................................................................................................

KEYNOTE SPEAKERS:

DREAM CHALLENGES
   
Joel Dudley, PhD
Icahn School
of Medicine
at Mount Sinai
New York, USA
Henry Rodriguez
PhD, MS, MBA
National Cancer
Institute, NIH
Maryland, USA
         
 
SYSTEMS IMMUNOLOGY SPECIAL SESSION
   
  Nir Hacohen, PhD
Massachusetts
General Hospital
Massachusetts, USA
Dana Pe'er, PhD
Memorial Sloan
Kettering Cancer Center
New York, USA
Jedd D. Wolchok
MD, PhD

Ludwig Center
for Cancer
Immunotherapy
New York, USA
 
         
 
REGULATORY GENOMICS & SYSTEMS BIOLOGY
Jef Boeke, PhD
NYU School
of Medicine
New York, USA
Manolis Kellis, PhD
Broad Institute
of MIT
and Harvard
Massachusetts, USA
Erez Lieberman-Aiden, PhD
Baylor College
of Medicine
& Rice University
Texas, USA
Debora Marks, PhD
Harvard
Medical School
Massachusetts, USA
Laxmi Parida, PhD
IBM Research
New York, USA

......................................................................................................................................

TOPIC CATEGORIES:

  • Network visualization and analysis
  • Regulatory motifs and modules
  • Epigenomics and chromatin state
  • Non-coding RNAs
  • Regulatory networks
  • Co-transcriptional, post-transcriptional, and translational regulation
  • Signal transduction networks
  • Genetic, molecular, and phenotypic variation and human disease
  • Cellular signatures of biological responses and disease states
  • Mathematical modeling and simulation of biological systems
  • Methods for systematic validation of high-throughput biological predictions
  • Single-cell transcriptomics
  • Single-cell proteomics
  • Metabolomics
  • Microbiome
  • Machine learning methods for systems biology
  • Translational systems biology

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CODE OF CONDUCT


ISCB Conferences


The International Society for Computational Biology, Inc. (ISCB) assumes that most people are intelligent and well-intended, and we're not inclined to tell people what to do. However, we want every ISCB conference to be a safe and productive environment for everyone. Attendees should respect common sense rules for public behavior, personal interaction, common courtesy, and respect for private property.

ISCB doesn’t condone harassment or offensive behavior, at our conference venues or anywhere. It's counter to our organization values. More importantly, it's counter to our values as human beings.

Abusive, racist, sexist, harassing, or threatening behavior towards any other participant or directed at any organizer, student volunteer, ISCB staff, convention center staff, or security will not be tolerated.

We invite you to help us make each ISCB conference a place that is welcoming and respectful to all participants, regardless of race, gender, age, sexual orientation, disability, physical appearance, national origin, ethnicity, or religion. This allows everyone the opportunity to focus on the conference itself, and the great networking and community richness that happens when we get together in person. Please report any incidents in which an attendee of the meeting is abusive, insulting, intimidating, bothersome, or acting in an unsafe or illegal manner to ISCB staff or security immediately.

We expect all participants to follow the Code of Conduct during the conference. This includes conference-related social events at off-site locations, and in related online communities and social media. Participants asked to stop any harassing behavior are expected to comply immediately. Conference participants violating this Code of Conduct may be expelled from the conference without a refund.

Please bring any concerns to the immediate attention of the event staff, or contact our Executive Director, Diane Kovats, at This email address is being protected from spambots. You need JavaScript enabled to view it.. We thank our participants for your help in keeping the event welcoming, respectful, and friendly to all participants.


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GETTING AROUND NYC


Links within this page: - Subway - Buses - Taxi - Car - Tram - Bike - Ferry - Helicopter - Cruise - Traveling with Pets

MTA—Subways and Buses

If you can't walk to your destination, mass transit is the next-best way to get around. The City's rail and bus system is run by the Metropolitan Transportation Authority (MTA) and known as MTA New York City Transit. It's inexpensive, environmentally friendly and a great way to see sights throughout the five boroughs—and it operates 24 hours a day, seven days a week.

The system is accessible to passengers with visual, hearing and mobility disabilities. For more information, consult the MTA's accessibility guide and its list of accessible subway stations.

Purchasing a MetroCard is your first step to getting around on subways and buses; you must put a minimum value of $5.50 on the card when initially buying it. You can do so at subway stations, from either automated machines (which accept cash, ATM bank cards and regular credit cards) or booth attendants (cash only). When you use a pay-per-ride MetroCard, a single subway or bus ride costs $2.75. An Express Bus ride costs $6.50. Riders can buy a pay-per-ride card, an unlimited MetroCard or a SingleRide card—the last of these costs $3, is sold at vending machines only, doesn't allow transfers and must be used within two hours of purchase. An unlimited MetroCard allows users to ride as often as they like within a fixed time period: options include unlimited cards that last for seven days ($31) or 30 days ($116.50). There's also a $1 surcharge on the purchase of a new MetroCard. To avoid the charge, customers can refill an existing card. The MTA offers discounts for seniors (over age 65) and disabled riders, as well as a "bonus" credit of 11% for purchases of $5.50 or more on pay-per-ride cards. Also, up to three children with a maximum height of 44 inches each can get on subways and buses for free when they are traveling with a fare-paying adult. For the most up-to-date information on MetroCard prices, visit mta.info.

Subway
The easiest and quickest way to travel around NYC is by public subway train. Riding the subway is also a fantastic way to feel like a local during your stay in New York.

Fast facts:
• Subway trains operate 24 hours a day, seven days a week.
• For $2.75 (the cost of a single ride when using a pay-per-ride MetroCard), you can use the system citywide and transfer to other subway lines as many times as you need, as long as you don't exit the system through a turnstile.
• You can transfer from bus to subway or vice versa within two hours of using your MetroCard. (The free transfer does not apply if you leave a subway station through a turnstile and want to get on another subway line.)
• Subway stations on the same line are generally about 8 to 10 blocks apart.
• The subway does not travel to Staten Island. To get there, board the free Staten Island Ferry or take a bus.
You can get a free subway map from booth attendants or at any Official NYC Information Center, or download one from our Maps & Guides section. You can also visit the MTA's Trip Planner for a customized route (but it's still a good idea to carry a subway map when you're out and about). The Trip Planner offers routes for MTA bus lines as well. Subway lines sometimes change routes or temporarily stop running—especially on weekends and late nights during weekdays—so be sure to check for up-to-date MTA service information at mta.info or by calling 718-330-1234.

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Buses
Public buses are a scenic way to see the City and reach destinations not convenient to a subway stop. It's also worth noting that mass transit is central to New York City's efforts to become more environmentally friendly, and a growing number of NYC's buses are hybrid-electric models.

Fast facts:

• All City buses accept the MetroCard and exact coin change (no pennies or paper money).
• Check the route sign on the front of the bus before boarding to ensure it's the bus you want, and make sure you know if it's making all stops or only "limited" stops (the limited buses don't make all stops along the route).
• Enter and pay at the front of the bus. The exception to this is on SBS (Select Bus Service) routes, where payment kiosks are on the sidewalk next to the bus stop.
• A single fare will take you any distance until the end of the route.
• Many buses are available 24 hours a day, seven days a week, but be sure to check whether your route offers overnight service. A schedule and route map posted at the bus stop indicate when the bus should arrive and where it will go.
• Buses run about every 5 to 15 minutes, or at longer intervals, depending on the time of day.
• If you have a smartphone, you can scan the QR code at the bus stop to receive information about when the next bus is expected to arrive.
• Buses generally stop every other block on avenue routes and every block on cross-street routes. Late at night, from 11pm to 5am, bus drivers will stop wherever you ask them to—as long as they feel it's safe.
• MTA service information is available at mta.info or by calling 718-330-1234.

The MTA website tripplanner.mta.info is the most reliable source for up-to-date information about routes and fares.

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The Roosevelt Island Tram
With the swipe of a MetroCard, the Roosevelt Island Tram gives you an aerial view of Midtown East along its path from 59th Street and Second Avenue in Manhattan to Roosevelt Island, located in the East River between Manhattan and Queens. The tram got its start in the early 1900s, taking passengers halfway across the Queensboro Bridge, where an elevator would then transport them down to the island. Today, it provides direct service for more than 2 million riders seven days a week (Sunday–Thursday, 6am–2am; Friday–Saturday, 6am–3:30am), with transfers available to MTA subways and buses. For more information, visit rioc.ny.gov.

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Taxi
The City's fleet of yellow taxicabs and green Boro Taxis is regulated by the Taxi and Limousine Commission. Grabbing a cab can be ideal when tired feet, heavy luggage or shopping bags weigh you down.

Fast facts:
• Taxis are available 24 hours a day.
• Hail taxis whose numbers are illuminated on top—they're on duty.
• Board and exit the cab curbside.
• Hotel doormen can hail a cab for you; a $1 tip is customary for this service.
• Minimum metered fare is $2.50, which increases 50 cents every fifth of a mile or every minute, depending on how fast you're traveling; there is also a New York State tax surcharge of 50 cents per ride.
• An additional $1 surcharge is added to the meter Monday–Friday, 4–8pm, and a 50-cent surcharge is added at night, 8pm–6am.
• All taxis accept cash and most accept credit cards.
• Tip 15–20% at the end of a trip; tolls are extra and added to the metered fare.
• Dial 311 in NYC to inquire about lost items or other concerns; visit the Taxi and Limousine Commission website for more info and the organization's fare information page for additional fare details as well as specifics regarding different destinations.

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Car
If you're planning to drive around the City, use Google Maps to help you navigate New York City roads. Also, make sure you know where to park. You may want to use a site like bestparking.com to compare parking rates and locations from a number of companies or an app like SpotHero where you can book a parking spot in advance. Be aware, though, that the site's listings are not complete. If you need to rent a car, it may be worth considering Zipcar and Enterprise which offer car-share programs that allow members to book vehicles for as little as an hour and as long as a week, 24 hours a day.

Other
Walking and public transit are excellent ways to get around New York, but you can also travel the City by bike, pedicab, ferry or even helicopter if you so desire. Take a different route, and you just might see the City from a whole new angle.

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NYC by Bike

Biking the City is good for the environment and your body, and can often be faster and cheaper than fuel-powered transportation. Cycling hotspots like Central, Riverside and Prospect Parks are great options for hitting the City on two wheels, as are bike paths along the Hudson and East Rivers and on many bridges—but all of NYC is bikeable. Check out Ride the City to find the safest route from point A to point B and Transportation Alternatives for NYC biking resources. In addition, the NYC Department of Transportation publishes a downloadable bike map and a guide to biking in the City.

Citi Bike is New York City's bike-sharing system, and it has gained a quick adoption since its inception in May 2013. There are thousands of bikes at hundreds of stations, available 24/7 every day of the year. Unlock a bike at any station, ride wherever you want and check in the bike at any other station. Daily, weekly and annual passes are available.

Plenty of operations rent bikes by the half day and full day, with many such places located near the major biking destinations mentioned above. Some, like Bike and Roll New York and Blazing Saddles, also offer guided tours or suggested itineraries for independent exploration.

If you want someone else to do the pedaling for you, hop in a pedicab (sometimes called a "bike taxi" or "bicycle rickshaw"). You won't have to look too hard in the busier parts of Manhattan—the drivers aren't shy about offering their services.

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NYC by Ferry
As a waterfront city, New York is home to an extensive ferry system that can get you uptown, downtown and across the rivers to Staten Island, Brooklyn, Queens, the Bronx and New Jersey.

  • The Staten Island Ferry is a staple of many morning commutes—and taking a ride on it is a must-do on any sightseeing itinerary. In use since 1905, the route between Staten Island and Manhattan's Whitehall Ferry Terminal is a glorious 5-mile, 25-minute mini-cruise with great views of the Statue of Liberty, New York Harbor and Lower Manhattan—and it's free.
  • New York Water Taxi is another popular aquatic shuttle. Hop-on and hop-off stops include Pier 84 (at West 44th Street), Christopher Street, the World Financial Center and Pier 1 in DUMBO. Check nywatertaxi.com for information on schedules and package deals.
  • NY Waterway operates commuter ferries between points in Manhattan and New Jersey, and harbor and sightseeing cruises. The East River Ferry also provides a refreshing alternative to more traditional public transportation in the City (and breathtaking skyline views), with regular service to seven locations across three boroughs. A 74-foot ferry departs every 20 to 30 minutes from approximately 7am to 8:30pm on weekdays and every 45 minutes from approximately 9:30am to 9pm on weekends. Check the official schedule to confirm, as departure times vary in different seasons.

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NYC by Helicopter
Seeing New York by air is an unforgettable experience, and the City offers helicopter tours for the adventurous and just plain curious. Here are some choices:

Liberty Helicopters (800-542-9933) runs several tours of the City; Helicopter Flight Services, Inc. (212-355-0801), will personalize sightseeing tours and charters; and New York Helicopter Charter, Inc. (212-361-6060), allows you to choose from three options: the Liberty Tour, the Central Park Tour and the Grand Tour, which combines the first two tours and also flies over many other essential NYC attractions.

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NYC Cruise Information
New York City is one of America's top cruise ports. Passengers from New York City can cruise to the Caribbean year-round and may also cruise to the Northeast, Canada, Bermuda, England and many other destinations around the world.

Recent infrastructure improvements ensure smooth sailing for the cruise passengers who pass through New York City. In Manhattan, the renovated Manhattan Cruise Terminal welcomes some of the world's most prestigious ships, while the state-of-the-art Brooklyn Cruise Terminal in Red Hook is the port for Cunard and Princess Cruise ships, including the luxurious Queen Mary 2 and the Royal Princess. Below is a listing of information for each terminal.

  • New York Cruise Terminal
    Piers 88, 90 and 92
    711 Twelfth Ave. (at W. 55th St.)
    212-246-5450
  • Brooklyn Cruise Terminal
    Pier 12 at Clinton Wharf
    72 Bowne St. (bet. Van Brunt and Imlay Sts.)

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Traveling with Pets
If you're bringing a dog or cat along on your NYC adventure, you'll have no trouble getting around—but it's important to know the rules.

Only small-size pets in carriers are allowed on MTA buses, subways and trains, as well as in taxis. Properly harnessed service animals are also permitted on mass transit. Taxi drivers may, at their discretion, pick up dogs without carry cases. The City is also home to several pet-taxi companies that can help transport pets that are not allowed on ordinary public transit.

  • Pet Chauffeur: 212-696-9744
  • K9 Cars: 718-683-2152

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RSG and DREAM General Questions

Bel Hanson, Conference Manager

Tel: 1-315-767-5568

Source: NYC The Official Guide


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AGENDAS - RSG CONFERENCE & DREAM


Links within this page*: Conference Agenda | DREAM Agenda | Download Mobile App

*Proposed Programs. Agendas subject to change.

CONFERENCE AGENDA
Go directly to: Monday, Nov 20Tuesday, Nov 21 (DREAM)Download Mobile App
SUNDAY – DAY 1 – November 19, 2017
START TIME END TIME SESSION TYPE
Registration with continental breakfast (7:30am to 9:30am)
8:00am - 5:00pm
Location: MSK Lobby
9:00 am 9:15 am Welcome
9:15 am 10:00 am Keynote - Dana Pe'er
A single cell lens into development and disease
10:00 am 10:15 am Ryan Peckner
Linear deconvolution unlocks next-generation mass spectrometry data to enable systems-level analysis of gene regulation by protein phosphorylation networks
10:15 am 10:30 am Dayanne M. Castro, Nick De Veaux, Emily Miraldi and Richard Bonneau
Adaptive Multiple Sparse Regression for Gene Regulatory Network Inference
10:30 am 10:45 am Charles Blatti, Casey Hanson, Bryce Kille and Saurabh Sinha
Modeling changes in transcriptomic state from a massive library of cellular signatures
10:45 am 11:15 am Coffee Break
Location: MSK Lobby & RM 105
11:15 am 11:30 am Yuning Zhang and Raluca Gordan
Why ChIP-seq data is not the ‘absolute truth’ about where and how strongly TFs bind in vivo, and what can we do about it?
11:30 am 11:45 am Fadia Ibrahim, Manolis Maragkakis, Panagiotis Alexiou and Zissimos Mourelatos
Ribothrypsis mediates widespread, ribosome-phased, endonucleolytic decay of canonical mRNAs
11:45 am 12:30 pm Keynote - Laxmi Parida
Precision Oncology: Are we there yet?
12:30 pm 2:00 pm Lunch Break (on-own)
2:00 pm 2:45 pm Keynote - Debbie Marks
Learning the Secrets of Sequences with Generative Models
2:45 pm 3:00 pm Alon Diament, Anna Feldman, Elisheva Schochet, Martin Kupiec, Yoav Arava and Tamir Tuller
The extent of ribosome queuing in budding yeast
3:00 pm 3:15 pm Genevieve Stein-O'Brien, Luciane Kagohara, Sijia Li, Manjusha Thakar, Ruchira Ranaweera, Hiroyuki Ozawa, Haixia Cheng, Michael Considine, Alexander Favorov, Ludmila Danilova, Joseph Califano, Evgeny Izumchenko, Daria Gaykalova, Christine Chung and Elana Fertig
Integrated time-course omics analysis distinguishes immediate therapeutic response from acquired resistance
3:15 pm 3:30 pm Liying Chen, Gabriela Alexe, Neekesh V. Dharia, Linda Ross, Amanda Balboni Iniguez, Amy Saur Conway, Emily Jue Wang, Veronica Veschi, Norris Lam, Jun Qi, W. Clay Gustafson, Nicole Nasholm, Francisca Vazquez, Barbara A. Weir, Glenn S. Cowley, Robin M. Meyers, Aviad Tsherniak, David E. Root, James E. Bradner, Todd R. Golub, Charles W. M. Roberts, William C. Hahn, William A. Weiss, Carol J. Thiele and Kimberly Stegmaier
Functional Deconvolution Strategies for the Identification of Druggable Dependencies in Pediatric Tumors
3:30 pm 4:00 pm Coffee Break
Location: MSK Lobby & RM 105
4:00 pm 4:15 pm Antonio Gomes, Nathan Johns, Anthony Yang, Sriram Kosuri, Christopher S. Smillie, Mark B. Smith, Eric J. Alm and Harris Wang
Promiscuity in gene expression of horizontally acquired DNA
4:15 pm 4:30 pm Francesco Asnicar, Luca Masera, Serena Manara, Nicola Segata and Enrico Blanzieri
Large-scale microbial ecological interaction networks from shotgun metagenomics with the NESRA algorithm
4:30 pm 5:15 pm Keynote - Jef Boeke
Writing genomes
5:30 pm 7:00 pm Reception with poster viewing
Location: MSK Lobby & RM 105
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MONDAY – DAY 2 – November 20, 2017
START TIME END TIME SESSION TYPE
Registration with continental breakfast (7:30am to 9:30am)
8:00am - 5:00pm
Location: MSK Lobby
9:00 am 9:15 am Special Session Welcome
9:15 am 9:30 am Duygu Ucar
The chromatin accessibility signature of human immune aging stems from CD8+ T cells
9:30 am 10:15 am Keynote - Jedd Wolchok
Immunologic Checkpoint Blockade: Exploring Combinations and Mechanisms
10:15 am 10:30 am Bojan Losic, Amanda Craig, Sebatiao Martins-Filho, Carlos Villacorta-Martin, Swan Thung, Myron Schwartz, Gustavo Stolovitzky and Augusto Villanueva
Network view of immune editing in liver cancer clonal evolution
10:30 am 10:45 am Yuri Pritykin, Mary Philip, Edison Chiu, Varintra Krisnawan, Pete Sabo, John Stamatoyannopoulos, Philip Greenberg, Christina Leslie and Andrea Schietinger
Integrative analysis of genome-wide chromatin accessibility and gene expression data to characterize T cell self-tolerance
10:45 am 11:15 am Coffee Break
Location: MSK Lobby & RM 105
11:15 am 11:30 am Andrew Martins, Manikandan Narayanan, Thorsten Prüstel, Bethany Fixsen, Kyemyung Park, Rachel Gottschalk, Yong Lu, Cynthia Andrews-Pfannkoch, William Lau, Katherine Wendelsdorf and John Tsang
Do differences from cell to cell make a difference? Network of propagated single-cell variations tuned by macrophage environments
11:30 am 11:45 am Joshua Pan, Robin Meyers, Brittany Michel, Nazar Mashtalir, Ann Sizemore, Jonathan Wells, Seth Cassel, Francisca Vazquez, Barbara Weir, William Hahn, Joseph Marsh, Aviad Tsherniak and Cigall Kadoch
Functional analysis of mammalian protein complexes using genome-scale fitness screens
11:45 am 12:30 pm Keynote - Nir Hacohen
Explaining, predicting and generating immune responses against cancer
12:30 pm 12:45 pm Sponsored Tech Talk: Recursion Pharmaceuticals
AI and Cellular Images for Universal Drug Discovery
12:45 pm 2:00 pm Lunch Break (on-own)
2:00 pm 2:45 pm Keynote - Erez Leiberman-Aiden
A 3D Code in the Human Genome
2:45 pm 3:00 pm Alexander Shanku, Cindy Kalita, Anthony Findley, Heejung Shim, Francesca Luca and Roger Pique-Regi
circuitSNPs: Predicting Effects Of Genetic Regulatory Variants Using Deep Neural Networks
3:00 pm 3:15 pm Déborah Gerard, Florian Schmidt, Aurélien Ginolhac, Martine Schmitz, Rashi Halder, Peter Ebert, Marcel Schulz, Thomas Sauter and Lasse Sinkkonen
Temporal epigenomic profiling identifies AHR as dynamic super-enhancer controlled regulator of mesenchymal multipotency
3:15 pm 3:30 pm Justin Finkle, Behnam Nabet, Jonathan Licht and Neda Bagheri
Pairing gene expression dynamics with in silico simulations produces novel layers of mechanistic insight into Sprouty transcription programs
3:30 pm 4:00 pm Coffee Break
Location: MSK Lobby & RM 105
4:00 pm 4:15 pm Daniel Kim, Viviana Risca, Arwa Kathiria, James Chappell, Zhixin Zhao, Adam Rubin, Dana Pe'Er, Howard Chang, Michael Snyder, Will Greenleaf, Paul Khavari and Anshul Kundaje
Decoding regulatory sequence across skin differentiation
4:15 pm 4:30 pm Dongwon Lee, Ashish Kapoor, Alexias Safi, Lingyun Song, Marc Halushka, Gregory Crawford and Aravinda Chakravarti
Mapping human cardiac cis-regulatory elements, their functional sequence variants and their cognate transcription factors
4:30 pm 5:15 pm Keynote - Manolis Kellis
From Genetics To Therapeutics: Uncovering And Manipulating The Circuitry Of Non-coding Disease Variants
5:30 pm 7:00 pm Reception with poster viewing
Location: MSK Lobby & RM 105
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DREAM AGENDA - Tuesday – November 21, 2017
START TIME END TIME SESSION TYPE
Registration with continental breakfast (7:30 to 9:30am)
8:00am - 12:00pm
Location: MSK Lobby
8:40 am 9:00 am DREAM 11: Welcome and Introductory Remarks - Gustavo Stolovitzky
9:00 am 9:40 am Keynote Presentation - Henry Rodriguez
Omics Convergence (Proteogenomics) in Cancer Research: Advances in Precision Medicine
CPTAC CHALLENGE - Paul Boutros, Chair
9:40 am 10:00 am Invited Talk - David Fenyo
Cancer Proteogenomics
10:00 am 10:20 am Challenge Overview Talk: The CPTAC Challenge - Julio Saez Rodriguez
The NCI-CPTAC DREAM Proteogenomics Challenge
10:20 am 10:40 am Best Performer Talk - Xinzhou Ge
The CPTAC Challenge: Imputation of Protein Abundances by Iterative Matrix Completion Algorithms with Bagging
10:40 am 11:00 am Best Performer Talk - Hongyang Li
Predicting Cell Line-Specific Protein and Phosphoprotein Abundances
11:00 am 11:30 am Coffee Break with Posters
Location: MSK Lobby & RM 105
CHALLENGES UPDATE - Jim Costello, Chair
11:30 am 11:45 am Challenge Update: Respiratory Viral DREAM Challenge - Solly Sieberts
Respiratory Viral DREAM Challenge: Discovering dynamic molecular signatures in response to viral exposure
11:45 am 12:00 pm Challenge Update: SMC-Het and SMC-RNA Challenges - Paul Boutros
SMC-Het and SMC-RNA Challenge Update
12:00 pm 12:15 pm Challenge Update: DREAM Workflow Execution/Multiple Myeloma - Justin Guinney
Crowdsourcing a High-risk Classifier for Multiple Myeloma Patients
12:15 pm 12:45 pm Feedback:  The Good, Bad, and Ugly of DREAM Challenges - Gustavo Stolovitzky
12:45 pm 2:00 pm Lunch with Posters
Location: MSK Lobby & RM 105
Digital Mammography - Gustavo Stolovitzky, Chair
2:00 pm 2:20 pm Challenge Overview Talk: Digital Mammography Challenge- Thomas Schaffter
The Digital Mammography DREAM Challenge: Design and Results
2:20 pm 2:40 pm Best Performer Talk - Yaroslav Nikulin
Digital Mammography DREAM Challenge: Deep Learning vs Breast Cancer
2:40 pm 3:00 pm Best Performer Talk - Dezso Ribli
Computer aided detection of cancerous lesions on mammograms with the Faster R-CNN object detection framework
3:00 pm 3:30 pm Panel Discussion: Members of the collaborative Team
3:30 pm 4:00 pm Coffee Break with Posters
Location: MSK Lobby & RM 105
4:00 pm 4:40 pm Keynote Presentation - Joel Dudley
Moving from Precision Medicine to Next Generation Healthcare
DIGITAL BIOMARKER - Larsson Omberg, Chair
4:40 pm 5:00 pm Challenge Overview Talk: The need for Digital Biomarkers in Parkinson's Disease - Mark Frasier
The Need for Digital Biomarkers in Parkinson's Disease
5:00 pm 5:20 pm Challenge Overview Talk: Digital Biomarker Challenge - Solly Sieberts
The Parkinson’s Disease Digital Biomarker DREAM Challenge: Understanding mobile sensor features that predict disease
5:20 pm 5:40 pm Best Performer Talk - Yuanfang Guan
Augmentation techniques for data from mobile sensors
5:40 pm 6:00 pm Best Performer Talk - Patrick Schwab
Automated Extraction of Digital Biomarkers for Parkinson's Disease using A Hierarchy of Convolutional Recurrent Attentive Neural Networks
6:00 pm 7:00 pm DREAM Reception and Posters
Location: MSK Lobby & RM 105
7:00pm   Adjourn
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