DREAM Challenges

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June 18, 2019

12th Annual RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges

November 4 – 6, 2019 New York, NY

This year’s RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges will be held at Memorial Sloan Kettering Cancer Center, in New York City, New York on November 4-6, 2019.

Now in its twelfth 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.

May 30, 2019

Idea Competition Winner Announced for the CTSA Program

The CD2H Idea Competition for the CTSA Program is pleased to announce the winner of the Idea Challenge Competition: University of Alabama, Birmingham “Automated Scoring of Radiographic Damage in Rheumatoid Arthritis” (PI S. Louis Bridges). This will be developed into an upcoming DREAM Challenge. (read more)

February 26, 2019

PrecisionFDA and NCI CPTAC Announce the Best Performers in Multi-omics Sample Mislabeling Big Data Challenge

PrecisionFDA and the National Cancer Institute’s (NCI) Clinical Proteomic Tumor Analysis Consortium (CPTAC) (in coordination with DREAM Challenges) are pleased to announce the Best Performers in the first-ever Crowdsourced Multi-omics Sample Mislabeling Big Data Challenge. This unique challenge utilized proteogenomic datasets generated by CPTAC and clinical annotation information. A total of 230 submissions from participants around the globe were received and evaluated. Subchallenge 1 focused on the development of next-gen computational models for detecting mislabeled samples using proteomic and clinical data generated by CPTAC, while Subchallenge 2 took a step further, aiming to identify and correct mismatched samples with one data type mislabeled among three data types (clinical, transcriptomic, and proteomic data). Visit us to learn more about this big data computational multi-omics challenge and its best performers and come here them their findings at  DREAM Challenges@RECOMB 2019. (learn more)

January 31, 2019

Announcing Agenda for DREAM Challenges@RECOMB 2019

Join us at this years DREAM Challenges@RECOMB workshop on May 4, 2019 in Washington, DC at George Washington University.  This years’ workshop has two main objectives. The first objective is to present the final results of two recent Challenges: the FDA/NCI-CPTAC Multi-omics Enabled Sample Mislabeling Correction Challenge and the ICGC-TCGA DREAM Somatic Mutation Calling – RNA Fusion Detection Challenge. The second objective is to foster an in-depth dialogue between various big-data initiatives being carried out by different agencies in the US Federal Government (such as NCI and NASA) and the scientific community, to explore the role that crowd-sourced Challenges can play in increasing the creative use of data in big-data projects. For this we have invited administrators and scientists leading big data projects to present talks focusing on what these initiatives are doing programmatically and scientifically. This will be followed by a panel discussing how each of these initiatives could benefit by crowd-sourcing their data through scientific challenges. After the panel we will break into groups and work on potential challenges of relevance to these programs. The day should provide an incentive for large-scale data initiatives to leverage crowdsourced challenges as a strategy for enhanced data use by the community and an overview on the process of challenge organization from inception to results. (Learn more)

January 31, 2019

DREAM Challenges@RECOMB 2019

DREAM Challenges@RECOMB

The 2019 DREAM Challenges@RECOMB workshop was held on May 4, 2019 in Washington, DC at George Washington University.  This years’ DREAM Challenges@RECOMB workshop had two main objectives, first to present the final results of two recent Challenges; and second to foster an in-depth dialogue between big-data initiatives being carried out by different agencies in the US Federal Government and the scientific community and explore the role of crowd-sourced Challenges in increasing the use of their data.

January 14, 2019

2019 Publications

Ellrott, K, et al; Reproducible biomedical benchmarking in the cloud: lessons from crowd-sourced data challenges: Genome Biology: volume 20, Article number: 195 (2019): doi.org/10.1186/s13059-019-1794-0

Choobdar, S et al; Assessment of network module identification across complex diseases; Nature Methods; volume 16, pages 843–852; (2019) DOI:10.1038/s41592-019-0509-5

Menden, M, et al; Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen; Nature Communications; volume 10, Article number: 2674 (2019);  DOI: 10.1038/s41467-019-09799-2

Kueffner R et al, Stratification of amyotrophic lateral sclerosis patients: a crowdsourcing approach.; Sci Rep. 2019 Jan 24;9(1):690. doi: 10.1038/s41598-018-36873-4.

Keilwagen, J, Posch S and Grau J; Accurate prediction of cell type-specific transcription factor binding; Genome Biology; 2019; 20:9; DOI:10.1186/s13059-018-1614-y

Davis, S et al, Leveraging crowdsourcing to accelerate global health solutions; Nature Biotechnology (2019); DOI:10.1038/s41587-019-0180-5

Listing of DREAM publications on Google Scholar
https://scholar.google.com/citations?user=uGmMpmoAAAAJ&hl=en

July 30, 2018

Call for Papers for DREAM Conference in December 2018!

This year we are inviting posters and oral presentations about past DREAM Challenges. We encourage participants to submit abstracts about their published or unpublished work on DREAM Challenges, such as the SMC Challenges, ENCODE challenge, the AZ synergy Challenge, etc. Abstracts may be either original unpublished work related to challenges or work that was published or accepted for publication in a journal previously. (Submit here)

May 17, 2018

2018 Publications

Guinney J, Saez-Rodriguez J.; Alternative models for sharing confidential biomedical data.; Nat Biotechnol. 2018 May 9;36(5):391-392. doi: 10.1038/nbt.4128.

AY Lee, et al,; Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection.; Genome Biol. 2018 Nov 6;19(1):188. doi: 10.1186/s13059-018-1539-5.

CI Cooper Valection: design optimization for validation and verification studies.
BMC Bioinformatics. 2018 Sep 25;19(1):339. doi: 10.1186/s12859-018-2391-z.

Listing of DREAM publications on Google Scholar
https://scholar.google.com/citations?user=uGmMpmoAAAAJ&hl=en