Li101 enterprise class_systems

Enterprise Class SystemsIn the Laboratory Ecosystem

The Place to Go

• http://limswiki.org

• A free encyclopedia of Laboratory Informatics terminology, vendors, etc.

• Started in 2011, already has 412 content pages.

LIMS

• Laboratory Information Management

• Initial Goal of LIMS was sample management

• Test definition and test results were part of the early scope

• Systems quickly expanded to include other functions - sample inventory, storage, stability, batch management, plate management and much more

Clinical Laboratory Systems

• Currently differentiated at LIMSWiki

• Patient Centric

• Accessioning capabilities

Key Points about LIMS

Sample Centric

Simple Sample/Result Relationship

Facilitates cross-sample statistical comparison

More Complex Data

• Analytical methods grew increasingly complex

• Each sample could generate a complex intertwining data set, also involving other samples

• Single value results are not always the goal

• Drove the need for a different tool

SDMS

• A Document Management system for laboratory data. (http://limswiki.org/index.php/SDMS)

• The forté of these systems is handling unstructured, heterogenous data.

• Includes raw data files as well as printed reports

SDMS Functions

SDMS Functions

Analysis

SDMS Functions

Analysis

Printed Output

SDMS Functions

Analysis

Raw Data Files

Printed Output

SDMS Functions

Analysis

Raw Data Files

Printed Output

Meta

data

Ext

racti

on

SDMS Functions

Analysis

SDMS

Raw Data Files

Printed Output

Meta

data

Ext

racti

on

SDMS Data Types

• Metadata = Structure Data

• Printed Data and Raw Data Files = Unstructured Data

• Structured data permits queries and connectivity to other systems

Electronic Laboratory Notebook

Electronic Laboratory Notebook

• Simplest definition is an electronic version of the traditional paper notebook

Electronic Laboratory Notebook

• Simplest definition is an electronic version of the traditional paper notebook

• However, notebooks come in very different flavors...

Electronic Laboratory Notebook

• Simplest definition is an electronic version of the traditional paper notebook

• However, notebooks come in very different flavors...

Free-form ResearchAlexander Graham Bell’s Notebook

Electronic Laboratory Notebook

• Simplest definition is an electronic version of the traditional paper notebook

• However, notebooks come in very different flavors...

Free-form ResearchAlexander Graham Bell’s Notebook

Electronic Laboratory Notebook

• Simplest definition is an electronic version of the traditional paper notebook

• However, notebooks come in very different flavors...

Free-form ResearchAlexander Graham Bell’s Notebook

Standardized Forms

Notebooks or Portals?

Notebooks or Portals?

• Confusion exists as to whether the ELN is a data collection tool or a portal

Notebooks or Portals?

• Confusion exists as to whether the ELN is a data collection tool or a portal

• The answer to the question is ...

Notebooks or Portals?

• Confusion exists as to whether the ELN is a data collection tool or a portal

• The answer to the question is ...

• Yes

Notebooks or Portals?

• Confusion exists as to whether the ELN is a data collection tool or a portal

• The answer to the question is ...

• Yes

• That is, it depends on your needs

Chromatography Data Systems

• Systems for controlling multiple instruments (not strictly chromatography instruments any longer)

• Generally provides an rdbms backend with sample information, instrument information, run method information, and frequently data (although this is sometimes maintained as separate files)

Nomenclature Challenges

• Each of the system discussed can contain duplicate information, and they generally do

• This duplication leads to lack of clarity about which system is doing what

• LIMSWiki.org hopes to bring some order to this

Thinking to Avoid

Thinking to Avoid

• Normalization is king

Thinking to Avoid

• Normalization is king

• There must be one defined hub in this network(see http://www.starlims.com/AL-Wood-Reprint-9-07.pdf)

Thinking to Avoid

• Normalization is king

• There must be one defined hub in this network(see http://www.starlims.com/AL-Wood-Reprint-9-07.pdf)

• LIMS is intended to handle all laboratory information