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[[File:EMADS_thumb5.png|thumb|340px|right]]
Welcome! This is an informational page devoted to the EMADS consortium, the exome meta-analysis of drinking and smoking.
Welcome! This is an informational page devoted to the EMADS consortium, the exome meta-analysis of drinking and smoking.
If you're looking for the analysis plan see this page: [[EMADS Primary Analysis Plan|Analysis Plan]].
If you're looking for the analysis plan see this page: [[EMADS Primary Analysis Plan|Analysis Plan]].
== Contact ==
== Contact ==
EMADS is a collaborative effort of many studies to investigate the potential role of rare exomic variation on drinking and smoking phenotypes. Through the effort we hope to extend results of previous GWAS meta-analyses of drinking and smoking as well as identify novel genetic associations. As of this writing over 20 studies plan to contribute a total of 120,000 samples. Several other studies hope to contribute but, given the novelty of the exome chip genotyping array, are awaiting completion of genotyping.
EMADS is a collaborative effort of many studies to investigate the potential role of rare exomic variation on drinking and smoking phenotypes. Through the effort we hope to extend results of previous GWAS meta-analyses of drinking and smoking as well as identify novel genetic associations. As of this writing over 20 studies plan to contribute a total of 120,000 samples. Several other studies hope to contribute but, given the novelty of the exome chip genotyping array, are awaiting completion of genotyping.
We use the exome chip as the primary genotyping technology, largely because larger samples have been genotyped on the exome chip (compared to sequencing). However, studies with sequences are more than welcome and can easily be included in our current analysis efforts.
We use the exome chip as the primary genotyping technology because larger samples have been genotyped on the exome chip (compared to sequencing). However, studies with sequences are more than welcome and can easily be included in our current analysis efforts.
== Organization ==
== Organization ==
We have a primary teleconference on a monthly basis. Senior and junior investigators from each site contribute to consortium planning.
We have a primary teleconference on a monthly basis. Senior and junior investigators from each site contribute to consortium planning.
'''The next primary call will take place on August 16 2013 at 11am EDT (4pm BST).'''
'''The next call will take place on May 16 2013'''
== Analysis Projects ==
== Analysis Projects ==
=== Exome-Wide Meta-Analysis ===
=== Exome-Wide Meta-Analysis ===
The current primary goal of the EMADS consortium is a exome-wide analysis of nonsynonymous variation in smoking and drinking phenotypes.
The current primary goal of the EMADS consortium is an exome-wide analysis of nonsynonymous variation in smoking and drinking phenotypes.
Please see the [[EMADS Primary Analysis Plan|Analysis Plan]].
Please see the [[EMADS Primary Analysis Plan|Analysis Plan]].
=== Detailed Evaluation of Chromosome 15 Region ===
=== Detailed Evaluation of Chromosome 15 Region ===
We hope to expand the list of possible projects using the data available through our consortium. These may include a project headed by Nancy Saccone and Laura Beirut on detailed analysis of the chromosome 15 region and smoking.
We hope to expand the list of possible projects using the data available through our consortium. These may include a project headed by LiShiun Chen, Nancy Saccone and Laura Bierut on detailed analysis of the chromosome 15 region and smoking.
== Guidelines for participation ==
== Guidelines for participation ==
# In alphabetical order, senior investigators who participated strongly in EMADS activities but did not strongly lead/oversee the writing and/or analysis for the paper. Typically, these might be members of the EMADS steering committee or leaders of other key EMADS activities.
# In alphabetical order, senior investigators who participated strongly in EMADS activities but did not strongly lead/oversee the writing and/or analysis for the paper. Typically, these might be members of the EMADS steering committee or leaders of other key EMADS activities.
# The senior investigators who strongly led/oversaw the writing and/or analysis of the paper, including a subset that are co-corresponding authors (usually 6 or fewer).
# The senior investigators who strongly led/oversaw the writing and/or analysis of the paper, including a subset that are co-corresponding authors (usually 6 or fewer).
== Guidelines for Handling Proposals for Additional Analysis of EMADS Data ==
In consultation with Goncalo, Scott will receive and coordinate proposals for discussion during regular conference calls.
=== Categories of Proposals ===
==== Secondary Analyses of Existing Summary Data ====
At the time of this writing (5/7/2013), all summary statistics will be protected on University of Michigan servers, and curated by Scott and Goncalo. Proposals that call for analysis of existing data will be discussed by local site principal investigators. Note that some principal investigators may have to obtain permission from committees overseeing their study before sharing summary statistics from that study (e.g., for very large and/or complex cohorts). If approved, these proposals will be granted access to selected portions of the summary statistics. Any manuscript generated from these secondary analyses must not be submitted for publication until the primary EMADS manuscript has been accepted for publication.
In general, we expect most if not all proposals for secondary analysis of existing summary data to be approved.
==== Proposal that Require Site Investigators to Perform Additional Analysis ====
Proposals that request local sites to perform additional analysis will be more difficult to implement. In the end, such proposals will be "at the mercy" of local sites, who may or may not agree to conduct the proposed analyses. Such proposals can be discussed on conference calls and local sites may volunteer to participate.
=== Authorship for Publications Resulting from Proposals ===
The EMADS consortium should be listed as an author, if possible, in any resulting publication. If listing a consortium is not possible, for example due to journal guidelines, then individual EMADS investigators may be listed. Further, depending on the level of involvement from EMADS members in facilitating fulfillment of the proposal's aims, individual investigators may be named as well.
=== Data Security ===
Summary statistics of genetic variants are not truly de-identified, as they can still be used by a sufficiently sophisticated and motivated person to re-identify individuals. This concern must be taken very seriously, and any proposal to use EMADS data, even if only summary statistics, must have a plan to assure the safety and security of the data, protect against its re-release, and must guarantee that there will be no attempt to re-identify the data.
=== Submitting Proposals ===
Please submit proposals to use EMADS summary data, or to suggest additional analysis, to [mailto:svrieze@umich.edu Scott Vrieze]. Please include the following information:
*Names of investigators, institutions, contact info, etc.
*The data you need
*Description of the experiment
*If requiring additional analysis from local sites, an analysis plan
*Timeline to completion of project
*Authorship credit for EMADS investigators
