advboardx - Research Computing

candlewhynotData Management

Jan 31, 2013 (4 years and 9 months ago)

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JAN ‘10 MGH ADVISORY BOARD




Agenda:

1.
Strategic plan


Essentials


2.
Electronic Data Capture for research studies


EDC's, databases and survey tools as central offerings.


3.
Database hosting


Adding value


4.
New grant opportunities: 12/28 RC4 RFP

The Next 3 Year Research IT Strategic plan


Objective


Take into consideration the variety of needs within the research
community


Positions Partners to support continued excellence in Research


Anticipate the unique computing requirement to fully support
genetics research


Create a high level three
-
year funding request and roadmap



Scope


Infrastructure


Clinical Research


Research Genetics IT integration


Personalized Medicine clinical integration


Pharmacovigilence

& Comparative effectiveness



Approach


Interview key members of the research community


Create working group


Select key individuals to provide input



Prior 3 year plan: FY07
-
09

Governance


Establish overall Research IT steering committee


Establish Research Administrative steering committee


Administrative Systems


Begin to retire
ReX

and implement vendor Grants and Contract module


Implement PeopleSoft Research A/R billing module


Develop and implement
eIRB


Infrastructure


Develop affordable fee
-
for
-
service data storage options


Provide data center space for departmental infrastructure


Develop expanded team to provide non
-
standard and open source support


Clinical Research


Develop a central repository for biological samples linked to the RPDR


Integrate genetic results into the RPDR


Expanded support for clinical studies (EDC/CTMS)




Completed or made significant progress
.


Ongoing efforts


No progress

3

Infrastructure

Major themes from interviews



Continue current core services while keeping pace with
growth


Storage, analytical computing, cloud computing, desktop applications


Expanded data center space with optional support



Need for expanded “fee
-
for
-
service” consulting support


IT engineering, database driven applications, cloud, HPC, etc.



Provide research
-
driven guidance and dedicated support


Data/systems security


Scientific software licensing/hosting

4

Project

FY11

FY12

FY13

Notes

Expand Support

Hire 4 FTEs

Create new Consulting Team
(seed 2 FTE’s)

Capital: $250,000

Sustained in out years through fee
-
for
-
service

Storage and Backup

Capital: Storage/Archive/Backup:
$1.17M/yr

Enterprise hosted scientific
software licensing service model

1 FTE

Operations: Software licenses $400K

Sustained in out years through chargeback

High
-
performance
computational system capacity

1 FTE

Capital: $1M

Operations: $200K/yr

Cloud

Capital: $500K / $250K

Operations: $250,000/yr

Facilities


Data Center

1 FTE

Award NIH C06 grant decision pending (scored
10)

MGH Site Team

2 FTE (2 temps currently)

Total new operating/year

$1M

$800K

$575K

Note: 9 new FTEs

Infrastructure


Roadmap and Budget


2


1


1



1

1

1

1

1

Total 3 year capital $7.5M

Clinical Research

Major themes from interviews



Need for support of tools for clinical research
studies


EDC


Electronic data capture applications for small to medium studies


Need for easy to use survey tools that provides proper security



No system exist for end
-
to
-
end management of
clinical trials


CTMS


Clinical Trials Management systems



RPDR enhancements


Need expanded support to recruit patients for clinical trials from the RPDR


Integration of Research study data (EDC) and RPDR data into i2b2 data marts


Need to be able to create patient control sets from the RPDR


Need to integrate images from clinical PACS



Need for expanded support of Genetic studies


Expanded IT and analytical support for phenotypic data


Need for integration of genetic data into project specific data marts


6

Project

FY11

FY12

FY13

Notes

Expand support of EDC

Hire 2 new FTE to expand support

Feasibility study for CTMS

$200K consulting

RPDR enhancements

2 new FTE’s: Control sets, RedCAP
Integration, etc

Integrate images into the
RPDR

$500K capital (placeholder only total
scope unclear)

Total new operating/year

$450K

$125K

$125K

Note: 4 new FTEs

Clinical Research


Roadmap and Budget

1

1

1

1

Total 3 year capital $500K

EDC’s and Surveys


New Hire: Lynn Simpson


Catalyst
-
sponsored



Offer:
REDCap

and
REDCap

Survey.



Host
StudyTrax



IRB guidance in external requests



Evaluating other hosted solutions


DatStat
,
LimeSurvey



Discussion: How to help the new investigator


DIPR Utilization


Hosted Databases


7 PostgreSQL


28 MySQL


96 Oracle


72 Hosted VM’s


350 TB utilized

Spans Enterprise initiatives, Core Facilities, Depts, Small Investigator Projects

Databases


Open Source hosted schemas


PostGres
,
MySQL



Standalone


In DIPR cloud/centrally hosted



New: Oracle hosted schemas


10/11 g instances


RAC

cluster, plenty of capacity



Discussion:


Centrally managed public/private repositories?

Response to Infrastructure Grants


High
-
Performance Biomedical Computing


Scott Weiss, PI


$2.6M HPC cluster + storage


261 Partners grant
-
funded projects identified within 48
hours by 154 investigators


Priority score: 30


C06


Data center facility for PHS research


Gary Gottlieb, PI


$10M facility improvement program


31 letters of support from center directors, div chiefs.


368 grant
-
funded projects identified which receive $144M
annually in funding.


Priority score received: 10



RFA
-
OD
-
10
-
005: NIH Director’s Opportunity for
Research in Five Thematic Areas (RC4)


multi
-
year, with high impact ideas


lay the foundation for new fields of investigation;
accelerate breakthroughs; stimulate early and
applied research on cutting
-
edge technologies;
foster new approaches to improve the interactions
among multi
-

and interdisciplinary research teams


or, advance the research enterprise in a way that
could stimulate future growth and investments and
advance public health and health care delivery.


Support either a specific research question or
propose the creation of a unique
infrastructure/resource designed to accelerate
scientific progress in the future.

5 Thematic areas: Deadline 3/15


Applying Genomics and Other High
Throughput Technologies


Translating Basic Science Discoveries into
New and Better Treatments


Using Science to Enable Health Care Reform


Focusing on Global Health


Reinvigorating the Biomedical Research
Community

Client Support: RICS & MGH RC


Non
-
Standard
desktop/laptop support


Mac Gateway/Application
Services: Mac Apps


On the rise: 4x growth
year/year


Desktop Backup


253 users, 8.5 Tb total
storage


Exchange e
-
mail


Remote secure option to
Exchange without VPN


300MB mboxes



Secure File Transfer


1000+ current users


~175 secure messages sent
per day; Avg 60 Mb


SSH Bastion:


75 users


Remote Unix/Linux access



Web Hosting & Web Proxy
Service


> 200 sites


List Server


40+ lists from 27 to 5519
members

http://rc.partners.org