LINDI Miner

LINDI Miner

• Goal– Investigate causes of high cholesterol to inform

new research directions

• Use Scenario– User loads a collection of Medline abstracts for

mining– User explores documents containing the string

cholesterol

LINDI Text Miner File Project Window Help

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LINDI Text Miner

Create a new project usingText File(s)

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More Files…tobacco.lpf\…\cancerdata.lpf\\share\…\water.lpf

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Project Files

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IncludeSubfolders

Look in: medline

Q1Q2Q3Q4

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File name:

Files of type: Text Files(*.txt)

Files in Project:


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Project Options

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Exclude During ParsingStop WordsNamed Entities

Include During ParsingMetadataSynonyms

Indexing

Term Log termFrequency:

None InverseScaling: Entropy 1 Norm

None 1 NormNormalization:

Independent term and document normalization

Inclusion Range: of documents


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x x

a c u y m z

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Save Project As

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Look in: medline

Q1Q2Q3Q4

File name:

Save as type: LINDI Project(*.lpf)

medline.lpf



Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History


Project Setup

Status: Processing file 99459448.txt


Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History

All docs (12793): .*

- medline.lpf

View topics


Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History

All docs (12793): .*

- medline.lpf

Topics – Step 1 of 2

Use document setsAll docs (12793)

Apply term setsNo term sets available

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Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History

All docs (12793): .*

- medline.lpf

Terms Documents

Yes No

Topics – Step 2 of 2

Map Creation

Algorithm: Self-organizing map

Number of Topics: 40

Display Options

Color Coding:Display Map: Yes No

Topic Labels:

Display Table: Yes No

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Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History

All docs (12793): .*

- medline.lpf

Topic Map (All terms (7944); Cholesterol docs)

Topic Size Actionarterial 123.73fluvastatin 29.18diabetic 29.01association 18.81triglycerides 17.61uptake 15.73data 11.50tgf 11.18chinese 11.08mediated 9.80

Search for:

Status: map creation completed

arterial fluvastatindiabetic

triglyceridestgf

chinese

association

mediatedvldl

uptake

data

methylglutaryl

nephropathy

detection

ambulatory

cisplatin

shock

antihypersentive

separation

glycosylphos-phatidylinositol

estimates

hemoglobine

implicated

edcfepa

lcfa

subcutaneous

compartments

cycle

establish

haemostatic

start

synthetic

released

radicalscavenge

describes

vldl 7.94methylglutaryl 7.54nephropathy 6.89describes 6.81detection 6.02ambulatory 5.35cisplatin 5.17shock 5.03antihypertensive 4.91separation 4.69glycosylphosphati… 4.31estimates 4.31epa 4.19lcfa 3.97hemoglobine 3.94

Topics (All docs)

data determined decrease presence suggest treated

Select All | Clear All | Save Terms | Save Docs

Options Find


Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History

All docs (12793): .*

- medline.lpf



Search for:



triglyceridestgf

chinese

association

mediatedvldl

uptake

data

methylglutaryl

nephropathy

detection

ambulatory

cisplatin

shock

antihypersentive

separation


estimates

hemoglobine

implicated

edcfepa

lcfa

subcutaneous

compartments

cycle

establish

haemostatic

start

synthetic

released

radicalscavenge

describes


Topics (All docs)

arterial early hemodialysis artherogenisis arthrogenic


Options Find


Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History

All docs (12793): .*

- medline.lpf



Search for:



triglyceridestgf

chinese

association

mediatedvldl

uptake

data

methylglutaryl

nephropathy

detection

ambulatory

cisplatin

shock

antihypersentive

separation


estimates

hemoglobine

implicated

edcfepa

lcfa

subcutaneous

compartments

cycle

establish

haemostatic

start

synthetic

released

radicalscavenge

describes


Topics (All docs)


Options Find

View topic


Summary

Query

Analysis

Term Sets

Document Sets

x x

a c u y m z

History

All docs (12793): .*

- medline.lpf



Search for:



triglyceridestgf

chinese

association

mediatedvldl

uptake

data

methylglutaryl

nephropathy

detection

ambulatory

cisplatin

shock

antihypersentive

separation


estimates

hemoglobine

implicated

edcfepa

lcfa

subcutaneous

compartments

cycle

establish

haemostatic

start

synthetic

released

radicalscavenge

describes


Topics (All docs)

Select All | Clear All | Sav e Terms | Sav e Docs

Options Find



Search for:



triglyceridestgf

chinese

association

mediatedvldl

uptake

data

methylglutaryl

nephropathy

detection

ambulatory

cisplatin

shock

antihypersentive

separation


estimates

hemoglobine

implicated

edcfepa

lcfa

subcutaneous

compartments

cycle

establish

haemostatic

start

synthetic

released

radicalscavenge

describes


Topics (All docs)Topics (All docs)

Select All | Clear All | Sav e Terms | Sav e Docs

Options Find

Topic ExplorerTopic: arterial (65 terms, 557 docs)

arterialearlyhemodialysisatherogenesisatherogenicdevelopmentbackgroundarterytherapyformation

Term Action

Search for:Select All | Clear All | Save Terms

Find

View Terms | View Docs