Molecular Profiling

Personal Genomics

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MissionEstablish a dry lab that empowers both researcher and clinicians with state-of-the-art bioinformatics solutions in order to enable translational medicine today

ADAM = A DryLab AMsterdam

Built a portal by combining pre-existing building blocks

Communication platform

Ticketing/Service platform

Workflow platform

Creating syngery by combining building blocks

Communication platform based on wordpress

Manage contacts, calendars, events

Share educational resources

Proactive use of social media by integration RSS, Twitter

Creating syngery by combining building blocks

Ticketing platform based on Mantis

Establish a wiki type internal knowledge base

Make inventory of existing competences

Leverage/manage expectations, response times

Match expertises, prioritize most important recurring problem, distinguish urgent from important problems ...

Creating syngery by combining building blocks

Workflow platform based on Galaxy

Reuse, leverage other systems ... ensure CVS - concurrent versioning system (for the bioinformaticians) ... ensure education towards researchers

USE CASES (running project, miRNA, CRC integration work, H2G2, cervix ... other TRAIT examples)

Aim for re-use-ability of pipelines

For bioinformaticians - developers: Version Control System

Version Control SystemRevision control is any practice that tracks and provides control over changes to source code (inclusing scripting, statistical pipelines).

It has become increasingly common for a single snippet of code to be edited by a team, the members of which may be geographically dispersed and may pursue different interests.

Sophisticated revision control that tracks and accounts for ownership of changes to documents and code may be extremely helpful or even necessary in such situations.

Essential for consolidation !

implementation

Galaxy

CloudMan

BioCloudCentral

CloudBioLinux

implementation

CloudBioLinux (http://cloudbiolinux.org/quickly build-your-own suite/ready to rollgraphical and command line acces

CloudMan (http://usecloudman.org/)create a scalable and shareable processing platformorchestrates the steps required to provision and manage compute clusters on a cloud infrastructure, all through a web browser. In minutes, you can use a vanilla SGE cluster or a complete bioinformatics analysis environment.

Galaxy (http://usegalaxy.org)do exploratory analysis

BioCloudCentral (http://biocloudcentral.org)get started easily

Next StepsPlanning phase

Circulate internal within pathology PIL

Get feedback, remarks, setup implementation meeting (hardware, location)

Define KPI (key performance indicators)

Implemention phase

Deploy ADAM: Wordpress, mantis, galaxy

USE CASES

Evaluate using KPI