NCATS,NIHIDGF2F,March2017

Entitybrowsing(filterable&linked)Search(fulltext,auto-suggest)

Detailedviewofentities BuiltontopofarobustRESTAPI

AnInterfacetotheKMC

RecentUpdates

• SyncedwithlatestTCRD• Updateddossierfunctionality• APIdocumentationusingSwagger• UpdatestoKAScalculationandvisualization• IMPClandingpage• Revampedsupportandhelpdocumentation• ExtensiveUI/UXupdates• Improvedperformance• PublishedinNguyen&Mathiasetal,NAR,2017

CurrentStatus

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191 facets

17.8 GB database

30 GB Lucene indexes

36K LoC (Java)

14K LoC (Scala)

Image available

Source code available

PharosUsage

• Usagestatisticsoverthelastoneyeararegenerallyincreasing• 89Kpageviews• 14Ksessions• 7.5Kusers

PharosIndexing

NowincludeshitsinpartnerdatabasessuchasKEGGandChEMBL

Drug Target Ontology

TCRD

DISEASE

TIN-X

Interactionsinside&outsidetheIDG

TargetAudience

Biologists&ClinicalResearcher

• Characterize&validatenoveltargets

• Identifykeysmallmoleculesorbiologics

InformaticsScientists

• Datamining• Supporttargetvalidationprojects

ProgramStaff

• Exploretheresearchlandscape

• Newdirectionsforresearch &funding

DifferentWaystoUsePharos

Random Access

Direct Access

Manual Interaction Programmatic Interaction

Search Entity Info

Precomputation convertsanalysisintobrowsing

SupportingBothTypesofUsers

• Efficientfulltextsearch,coupledtorelevantauto-suggestion• Primaryentrypointwhenexploringandforhypothesisgeneration

• Extensivelistoffacets• Supportseasyconstructionofcomplexfilteringrules

• Extensivedetailsforeachtarget• Linkedtoexternalandinternal resources

Visualization

• Keyrequirementforefficientexploration,summary• Increaseinformationdensityinlimitedscreenrealestate,takecontextintoaccount• Interactivityisdesirable,highqualityforeasyinclusionindocuments• Simpleisbetterthanfancybutprettypictureshavevalue,makeforabetterexperience• Integrateandlinktoexternalvisualization• TinX,Harmonizome

VisualizationHighlightsVisualizationdashboard– filtersappropriatelyrepresented,plotsactasfilters

Inlinevisualizationtoincreaseinformationdensity

Summaryvisualizationsoverlaymultipledimensionsandcanbecontextaware

IntegratingExternalVisualization

Tclin,Kinase

Tdark,GPCR

Pharos

TinX

UpdatedDocumentation

EntityDossier

Multipledossiers

SetoperationsVisualizationtools

Download

Longerterm,dossierswillbeautomaticallyenrichedwithlinkeditemsandrecommendations

DossiersasContext

Overlaydatafromtargetsinadossier

TargetSimilarity• Computetargetsimilarityin“Harmonizome space”• Supportsrecommendations,prioritization• CurrentlyextendingtoageneralizedTargetKnowledgeVectorapproach

Tdark targetswhosemostsimilartargetisnotTdark

Outreach&DisseminationActivities

User Feedback Deployment

Webinars Documentation

NER API for targets & diseases

@idg_pharos

RecentpaperstoPharoslinksviaTweets

TheLongTermVision

• Incorporatedependenciesbetweendatatypestosupportinferenceandsophisticatedfilters• Frompresentationtosummarization• Useexplicitlinks&computationalinferencetogenerate(semi-)naturallanguagesummaryusingallknowndata• Influencedbythequery

• Theresultisabiologicaldashboard,customizedfortheuserandthequery

Target X has been implicated in 3 diseases related to skeletal, urological and nervous systems. It has been investigated in 5 in vitro assay, 2 in vivo assays. There are 4 compounds active against this target, 3 of which are in clinical trials.

Feedback

• ExploretheUI,tryit,breakit,andletusknowwhatworksandwhatdoesn’t• Aretheredatatypesandrelationsthatwouldhelpyoubutarenotavailable?

https://pharos.nih.govhttps://spotlite.nih.gov/pharospharos@nih.gov@idg_pharos

Acknowledgements

• Dac-Trung Nguyen,KyleBrinacombe,TimothySheils,Geetha Mandava,NoelSouthall,Ajit Jadhav• SteveMathias,OlegUrsu,JeremyYang,ChristianBologa,DanielCanon,TudorOprea• NicholasFernandez,AndrewRouillard,Avi Mayan• Finkbeiner lab,TomitaLab• AjayPillai,AaronPawlyk,ChristineColvis