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titleContents
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titleProject and Product Information
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titleIn Depth on the NCICB Site
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titleDocumentation
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titleFAQs

caCORE FAQs Index Page

h1.

caDSR

Overview

The

Cancer

Data

Standards

Registry

(caDSR)

consists

of

both

a

database

and

a

toolset

used

to

create,

edit,

and

deploy

data

elements

for

metadata

consumers.

The

caDSR

is

a

metadata

registry

based

upon

the

ISO/IEC

11179

standard.

The

purpose

of

this

standard

is

to

define

a

framework

for

how

such

metadata

can

be

specified,

consistently

maintained,

shared,

and

used

across

diverse

domains.

The

caDSR

is

a

conforming

implementation

of

the

ISO/IEC

11179

metadata

standard

with

NCI

extensions.

That

is,

the

caDSR

has

been

designed

to

support

the

creation,

maintenance,

registration,

and

use

of

metadata

in

accordance

with

the

metadata

standard

and

in

addition,

the

NCI

has

extended

the

standard,

most

notably

in

the

use

of

controlled

terminology.

This

enables

metadata

consumers

to

register

the

descriptive

information

needed

to

render

cancer

research

data

reusable

and

interoperable.

The

idea

of

standardizing

and

registering

metadata

addresses

a

significant

problem

in

biomedical

data

management:

the

wide

variety

of

ways

that

similar

data

are

collected

and

described.

Metadata

is

defined

as

"data

about

data"

or

more

simply,

the

description

of

a

piece

of

information.

The

fundamental

unit

of

data

in

the

ISO/IEC

11179

standard

is

called

a

_

data

element

_

.

According

to

the

ISO

metadata

standard,

any

item

represented

by

a

data

element

has

two

distinct

parts:

an

explicit

definition

that

is

independent

of

any

particular

implementation,

and

an

explicit

description

of

implementation-specific

details

regarding

how

the

item

is

represented

in

computer

storage.

Capturing

these

two

aspects

makes

it

possible

to

compare

data

elements

that

describe

the

same

thing

across

different

applications,

and

to

understand

what

data

transformation

may

be

necessary

in

order

to

make

the

data

comparable.

caCORE-like

systems

follow

an

object-oriented

paradigm

where

classes

of

data

are

described

using

UML

models.

A

UML

model,

serialized

into

XMI,

can

then

be

used

to

transform

the

UML

model

objects

into

caDSR

registered

items.

Once

registered,

the

items

in

caDSR

can

be

re-used

in

other

systems'

models.

If

different

systems

are

using

the

same

registered

terms

(metadata)

for

the

data

in

their

models,

those

systems

can

more

easily

communicate

and

share

information.

The

caDSR

itself

is

a

database

that

contains

_

Administered

Items

_

.

As

defined

in

the

ISO/IEC

11179

standard,

an

Administered

Item

is

an

item

for

which

administrative

information

must

be

recorded.

The

item

may

be

a

Data

Element

or

one

of

the

associated

components

that

comprise

a

Data

Element.

caDSR

administered

items

are

supported

by

the

use

of

externally

defined

terminologies

and

controlled

vocabularies,

such

as

the

NCI

Thesaurus.

To

support

the

database,

the

caDSR

also

has

a

suite

of

tools

for

creating,

sharing,

and

deploying

data

elements

(also

called

common

data

elements

or

CDEs).

This

suite

of

tools

includes

a

public

CDE

Browser

that

enables

you

to

search

for

data

elements,

create

forms,

and

download

CDEs,

and

a

UML

Model

Browser

viewer

that

makes

it

easier

to

find

CDEs

that

are

registered

as

part

of

UML

modeling

projects.

All

of

the

caDSR

tools

and

interfaces

connect

to

the

same

central

database.

Links

to

further

information

regarding

the

caDSR

toolset

appear

elsewhere

on

this

page.

By

complying

with

the

ISO/IEC

11179

standard,

caDSR

provides,

among

other

things,

a

semantic

bridge

between

the

data

elements

contained

in

registered

data

objects

and

standard

vocabularies

and

ontologies.

caDSR

was

originally

designed

to

support

the

development

and

deployment

of

data

elements

as

metadata

descriptors

for

NCI-sponsored

research,

but

now

supports

an

ever-widening

group

of

users

and

metadata

consumers

in

caBIG™.

_

caDSR

has

also

been

defined

as

the

"cancer

Data

Standards

Repository";

however,

the

caDSR

is

a

registry

rather

than

a

repository.

Simply

defined,

a

registry

contains

references

to

things,

whereas

a

repository

holds

things.

For

a

more

detailed

distinction,

see

_ _[

http://searchsoa.techtarget.com/tip/0,289483,sid26_gci1103660,00.html

]_. h1. caDSR Database and Implementation The caDSR is based on an Oracle database. All of the various tools and interfaces connect to the same central database. The software applications that access caDSR content are based on open source standards and are freely available for use by other government agencies and for download and use by interested parties. caDSR follows the _ISO/IEC 11179 Information Technologies: Metadata Registries (MDR)_ standard to harmonize, register and integrate user-defined UML information models with existing and new caDSR content and to represent the CDEs in the database. This standard is somewhat complex, but it offers a richly expressive model for metadata that does a good job of supporting the variations needed for biomedical applications. If you are interested in working with the caDSR, please take some time to review the [background material on the way we have implemented the ISO/IEC 11179 standard|http://ncicb.nci.nih.gov/NCICB/infrastructure/cacore_overview/cadsr/ISO11179]. In addition to implementing the ISO/IEC 11179 model, we have added a few additional types of content to the caDSR. The two most important additional items are Forms and Protocols. A Form is simply a collection of CDEs, and a Protocol is a collection of Forms. For clinical trials applications, the Forms correspond to Case Report Forms (CRFs), and Protocols correspond to a clinical trial protocol. Template forms are generic forms that can be used as the basis for creating the actual forms used in a Protocol. Templates are stored both as a collection of CDEs that comprise the form, and an MS Word or PDF file that shows the CDEs laid out. h1. caDSR Tools The caDSR and semantic tools include the following. || Tool name \\ || Wiki home page \\ || Production tool \\ || | Administration Tool \\ | [

.

caDSR Database and Implementation

The caDSR is based on an Oracle database. All of the various tools and interfaces connect to the same central database.

The software applications that access caDSR content are based on open source standards and are freely available for use by other government agencies and for download and use by interested parties.

caDSR follows the ISO/IEC 11179 Information Technologies: Metadata Registries (MDR) standard to harmonize, register and integrate user-defined UML information models with existing and new caDSR content and to represent the CDEs in the database. This standard is somewhat complex, but it offers a richly expressive model for metadata that does a good job of supporting the variations needed for biomedical applications. If you are interested in working with the caDSR, please take some time to review the background material on the way we have implemented the ISO/IEC 11179 standard.

In addition to implementing the ISO/IEC 11179 model, we have added a few additional types of content to the caDSR. The two most important additional items are Forms and Protocols.

A Form is simply a collection of CDEs, and a Protocol is a collection of Forms. For clinical trials applications, the Forms correspond to Case Report Forms (CRFs), and Protocols correspond to a clinical trial protocol.

Template forms are generic forms that can be used as the basis for creating the actual forms used in a Protocol. Templates are stored both as a collection of CDEs that comprise the form, and an MS Word or PDF file that shows the CDEs laid out.

caDSR Tools

The caDSR and semantic tools include the following.

Column
Wiki Markup

Tool name

Wiki home page

Production tool

Administration Tool

https://wiki.nci.nih.gov/x/PYEI

] | []

(Login

required)

\\ | | Sentinel Tool \\ | [] | []

(Login

required)

\\ | | CDE Browser \\ | [] | [] \\ | | Form Builder \\ | [] | [] \\ | | Freestyle Search \\ | [] | [] \\ | | UML Model Browser \\ | [] | [] \\ | | CDE Curation Tool \\ | [] | []

(Login

required)

\\ | | Semantic Integration Workbench


Semantic Integration Workbench (SIW)

\\ | [] | [] \\ | | UML Loader \\ | [] |

Contact

NCICB

Application

Support,

[mailto:]\\ | Several tools perform various tasks in creating, managing, and deploying CDEs. There are also tools that support reviewing externally generated forms to see if they are CDE-compliant, that is, are comprised of approved CDEs found in the caDSR. The [public CDE Browser|http://cdebrowser.nci.nih.gov/CDEBrowser/] lets you search for data elements, create forms and download CDEs. The [UML Model Browser|http://umlmodelbrowser.nci.nih.gov/umlmodelbrowser/] is specifically designed for browsing registered UML information models. A [CDE Tool Functionality Matrix|http://ncicb.nci.nih.gov/infrastructure/cacore_overview/cadsr/Matrix.xls] is available to help users understand the differences among the tools. Online help is available, but you will find that using the tools is easier if you have first read through the description of the [caDSR implementation of the ISO/IEC 11179 Standard|http://ncicb.nci.nih.gov/infrastructure/cacore_overview/cadsr/ISO11179]. h1. About the caDSR Wiki This is the wiki home page for *{_}caDSR{_}*. The content is grouped in several major categories: {children} The following is a list of all the pages that your permissions allow you to view: {children|all=true} You may edit pages if you are working on them with the authors. You are welcome to leave comments. {info}


Several tools perform various tasks in creating, managing, and deploying CDEs. There are also tools that support reviewing externally generated forms to see if they are CDE-compliant, that is, are comprised of approved CDEs found in the caDSR. The public CDE Browser lets you search for data elements, create forms and download CDEs. The UML Model Browser is specifically designed for browsing registered UML information models. A CDE Tool Functionality Matrix is available to help users understand the differences among the tools. Online help is available, but you will find that using the tools is easier if you have first read through the description of the caDSR implementation of the ISO/IEC 11179 Standard.

About the caDSR Wiki

This is the wiki home page for caDSR. You may edit pages if you are working on them with the authors. You are welcome to leave comments. The content is grouped in several major categories:

Children Display

The following is a list of all the pages that your permissions allow you to view:

Children Display
alltrue