transforming science through data -driven discovery ... · transforming science through data-driven...

TransformingScienceThroughData-drivenDiscovery

CyVerseOverviewNationalAcademiesSpecialTopicsSummerInstitute

onQuantitativeBiologyJasonWilliams– Lead,CyVerse– Education,Outreach,Training

ColdSpringHarborLaboratorywilliams@cshl.edu [@JasonWilliamsNY]

DownloadSlidesandFollowAlong

cyverse-qubes.readthedocs.io

CyVerseEvolution

iPlant2008EmpoweringaNewPlant

Biology

iPlant2013CyberinfrastructureforLife

Science

CyVerse2016TransformingScienceThroughData-Driven

Discovery

WearefundedbytheNationalScienceFoundation

• Weareyourcolleaguesandcollaborators!• $100Millionininvestment• Freelyavailabletothecommunity• Spurnational/internationalcollaboration• CiteCyVerse:

CyVerse.org/acknowledge-cite-cyverse

DBI-0735191andDBI-1265383

CyVerseEvolution

CyVerseEvolution

CyVerse2016TransformingScienceThroughData-Driven

Discovery

Vision:Transformingsciencethroughdata-drivendiscovery

Mission:Design,develop,deploy,andexpandanationalcyberinfrastructure forlifescienceresearch,andtrainscientistsinitsuse

Morethan30Kusers,PBofdata,andhundredsofpublications,courses,anddiscoveries

WhatisCyberinfrastructure?

•Datastorage•Software•High-performancecomputing•People

organizedintosystemsthatsolveproblemsofsizeandscopethatwouldnototherwisebesolvable.

WhatisCyberinfrastructure?

Platforms,tools,datasets Storageandcompute Trainingandsupport

CyVersesupportsalldomainsoflifescience

Plant/MicrobialAnimal BiomedicalEcological/Climate

CyVerseisbuiltforData

CyVerseproductstackReadytousePlatforms

FoundationalCapabilities

EstablishedCIComponents

ExtensibleServices

EaseofU

se

HowwasCyVersebuilt?

Genomicdataandanalysis:• Referenceguidedassembly• Denovoassembly• RNA-Seq(expression;gene/isoformdiscovery)• Variantcalling• Genome/Transcriptomeannotation• ChIP-Seq/Integrationofepigeneticinformation• Multiplesequencingplatforms• Newandevolvingtechnologies

CyVerseCommunityPriorities

Genomicdata

Environmentaldata

Phenotypedata

Phylogenetic Inferences

EcologicalModels

EvolutionaryModels

AssociationStudies

PathwayAnalysis

Predictiveandsynthetic

Knowledgegathering

Retrodictiveinsights

CyVerseCommunityPriorities

CyVerse is a collaborative virtual organization

CyVerseInstitutions

CyVerseUK

• WestrivetobetheCILegoblocks• Danish'leggodt'- 'playwell’• Alsotranslatesas'Iputtogether'inLatin• IfasolutionisnotavailableyoucancraftyourownusingCyVerseCIcomponents

CyVerseProducts

Data Store

ü Initial100GBallocation– TBallocationsavailable

ü Automaticdatabackup

ü Easyupload/downloadandsharing

Theresourcesyouneedtoshareandmanagedatawithyourlab,colleaguesandcommunity

Discovery EnvironmentHundredsofbioinformaticsAppsinaneasy-to-useinterface

ü Aplatform thatcanrunalmostanybioinformaticsapplication

ü Seamlesslyintegratedwithdataandhighperformancecomputing

ü Userextensible– addyourownapplications

AtmosphereCloudcomputingforthelifesciences

ü Simple:One-clickaccesstomorethan200virtualmachineimages

ü Flexible:Fullycustomizeyoursoftwaresetup

ü Powerful:IntegratedwithiPlantcomputinganddataresources

Science APIsFullycustomizeiPlant resources

ü Science-as-a-serviceplatform

ü Defineyourowncompute,andstorageresources(localandiPlant)

ü Buildyourownappstoreofscientificcodesandworkflows

DNA SubwayEducationalworkflowsforGenomes,DNABarcoding,RNA-Seq

ü Commonlyusedbioinformaticstoolsinstreamlinedworkflows

ü Teachimportantconceptsinbiologyandbioinformatics

ü Inquiry-basedexperimentsfornoveldiscoveryandpublicationofdata

BisqueImageanalysis,management,andmetadata

ü Secureimagestorage,analysis,anddatamanagement

ü Integrateexistingapplicationsorcreatenewones

ü CustomvisualizationandimagehandlingroutinesandAPIs

TransformingScienceThrough Data-drivenDiscovery

ParkerAntinNiravMerchant

EricLyons

MattVaughn DoreenWareDaveMicklos

CyVerseissupported bytheNationalScienceFoundation underGrantNo.DBI-0735191andDBI-1265383.

CyVerseExecutiveTeam