Network Biology: Large-scale integration of data and text

•Als PPT, PDF herunterladen•

1 gefällt mir•107 views

Lars Juhl Jensen

Network Biology: Large-scale integration of data and text

Lars Juhl Jensen
Network Biology
Large-scale integration of data and
text

group leader

cofounder

disease systems biology

proteomics data

mass spectrometry

protein networks

Hendriks et al., NSMB, 2017

medical data

Jensen et al., Nature Reviews Genetics, 2012

disease networks

Jensen et al., Nature Communications, 2014

association networks

guilt by association

protein networks

string-db.org

international collaboration

9.6 million proteins

2000+ genomes

genomic context

gene fusion

Korbel et al., Nature Biotechnology, 2004

experimental data

coexpression

physical interactions

Jensen & Bork, Science, 2008

curated knowledge

pathways

Letunic & Bork, Trends in Biochemical Sciences, 2008

many databases

different formats

different identifiers

variable quality

not comparable

hard work

quality scores

affinity purification

von Mering et al., Nucleic Acids Research, 2005

score calibration

gold standard

von Mering et al., Nucleic Acids Research, 2005

implicit weighting by quality

common scale

missing most of the data

text mining

>10 km

too much to read

computer

as smart as a dog

teach it specific tricks

named entity recognition

dictionary

cyclin dependent kinase 1

CDC2

orthographic variation

spaces and hyphens

cyclin dependent kinase 1

cyclin-dependent kinase 1

prefixes and suffixes

CDC2

hCdc2

“black list”

SDS

co-mentioning

counting

scoring scheme

score calibration

medical data

Jensen et al., Nature Reviews Genetics, 2012

structured data

Jensen et al., Nature Reviews Genetics, 2012

unstructured data

Danish

busy doctors

abbreviations

misspellings

adverse drug reactions

drugs

Clozapine

Clozapine
clozapi
n
clossapi
n
klozapin
e
chlosapi
n
chlosapi
ne
chlozapi
n
chlozapi
ne
klossapi
n
closapin
e
klozapi
nklosapi
n

Eriksson et al., Drug Safety, 2014
Drug introduction Drug discontinuation
Adverse eventNegative modifier Indication Pre-existing
condition
Adverse drug reaction Possible
adverse drug reaction
Adverse event
ADR of
additional drug
Identification start

country-wide registries

119 million diagnoses

6.2 million patients

comorbidity

confounding factors

“known knowns”

gender

age

type of hospital encounter

Jensen et al., Nature Communications, 2014

“known unknowns”

smoking

diet

“unknown unknowns”

reporting biases

matched controls

temporal correlations

diagnosis trajectories

Jensen et al., Nature Communications, 2014

direct implications

summary

highly collaborative

within the group

between CPR groups

internationally

lines of research

proteome analysis

community resources

text mining

medical data mining

Network Biology: Large-scale integration of data and text

Empfohlen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

STRING - Protein networks from data and text mining

STRING - Protein networks from data and text mining

STRING - Protein networks from data and text miningLars Juhl Jensen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text miningLars Juhl Jensen

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseasesLars Juhl Jensen

One tagger, many uses - Illustrating the power of ontologies in named entity ...

One tagger, many uses - Illustrating the power of ontologies in named entity ...

One tagger, many uses - Illustrating the power of ontologies in named entity ...Lars Juhl Jensen

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text miningLars Juhl Jensen

STRING/STITCH tutorial

STRING/STITCH tutorial

STRING/STITCH tutorialbiocs

Empfohlen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

STRING - Protein networks from data and text mining

STRING - Protein networks from data and text mining

STRING - Protein networks from data and text miningLars Juhl Jensen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text miningLars Juhl Jensen

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseasesLars Juhl Jensen

One tagger, many uses - Illustrating the power of ontologies in named entity ...

One tagger, many uses - Illustrating the power of ontologies in named entity ...

One tagger, many uses - Illustrating the power of ontologies in named entity ...Lars Juhl Jensen

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text mining

Network biology: Large-scale data integration and text miningLars Juhl Jensen

STRING/STITCH tutorial

STRING/STITCH tutorial

STRING/STITCH tutorialbiocs

Protein association networks: Large-scale integration of data and text

Protein association networks: Large-scale integration of data and text

Protein association networks: Large-scale integration of data and textLars Juhl Jensen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and textLars Juhl Jensen

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and textLars Juhl Jensen

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and textLars Juhl Jensen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and textLars Juhl Jensen

Network biology - Large-scale integration of data and text

Network biology - Large-scale integration of data and text

Network biology - Large-scale integration of data and textLars Juhl Jensen

Gene Association Networks: Large-scale integration of data and text

Gene Association Networks: Large-scale integration of data and text

Gene Association Networks: Large-scale integration of data and textLars Juhl Jensen

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text miningLars Juhl Jensen

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and textLars Juhl Jensen

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and textLars Juhl Jensen

Introduction to STRING

Introduction to STRING

Introduction to STRINGLars Juhl Jensen

STRING: Large-scale data and text mining

STRING: Large-scale data and text mining

STRING: Large-scale data and text miningLars Juhl Jensen

Network Biology: A crash course on STRING and Cytoscape

Network Biology: A crash course on STRING and Cytoscape

Network Biology: A crash course on STRING and CytoscapeLars Juhl Jensen

STRING: Protein networks from data and text mining

STRING: Protein networks from data and text mining

STRING: Protein networks from data and text miningLars Juhl Jensen

Cellular network biology: Proteome-wide analysis of heterogeneous data

Cellular network biology: Proteome-wide analysis of heterogeneous data

Cellular network biology: Proteome-wide analysis of heterogeneous dataLars Juhl Jensen

In silico and Text-Based Analysis of Cellular Networks

In silico and Text-Based Analysis of Cellular Networks

In silico and Text-Based Analysis of Cellular NetworksLars Juhl Jensen

Large-scale data and text mining

Large-scale data and text mining

Large-scale data and text miningLars Juhl Jensen

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text miningLars Juhl Jensen

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseasesLars Juhl Jensen

Cellular Network Biology

Cellular Network Biology

Cellular Network BiologyLars Juhl Jensen

Weitere ähnliche Inhalte

Was ist angesagt?

Protein association networks: Large-scale integration of data and text

Protein association networks: Large-scale integration of data and text

Protein association networks: Large-scale integration of data and textLars Juhl Jensen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and textLars Juhl Jensen

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and textLars Juhl Jensen

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and textLars Juhl Jensen

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and textLars Juhl Jensen

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and textLars Juhl Jensen

Network biology - Large-scale integration of data and text

Network biology - Large-scale integration of data and text

Network biology - Large-scale integration of data and textLars Juhl Jensen

Gene Association Networks: Large-scale integration of data and text

Gene Association Networks: Large-scale integration of data and text

Gene Association Networks: Large-scale integration of data and textLars Juhl Jensen

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text miningLars Juhl Jensen

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and textLars Juhl Jensen

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and textLars Juhl Jensen

Introduction to STRING

Introduction to STRING

Introduction to STRINGLars Juhl Jensen

STRING: Large-scale data and text mining

STRING: Large-scale data and text mining

STRING: Large-scale data and text miningLars Juhl Jensen

Network Biology: A crash course on STRING and Cytoscape

Network Biology: A crash course on STRING and Cytoscape

Network Biology: A crash course on STRING and CytoscapeLars Juhl Jensen

STRING: Protein networks from data and text mining

STRING: Protein networks from data and text mining

STRING: Protein networks from data and text miningLars Juhl Jensen

Cellular network biology: Proteome-wide analysis of heterogeneous data

Cellular network biology: Proteome-wide analysis of heterogeneous data

Cellular network biology: Proteome-wide analysis of heterogeneous dataLars Juhl Jensen

In silico and Text-Based Analysis of Cellular Networks

In silico and Text-Based Analysis of Cellular Networks

In silico and Text-Based Analysis of Cellular NetworksLars Juhl Jensen

Large-scale data and text mining

Large-scale data and text mining

Large-scale data and text miningLars Juhl Jensen

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text miningLars Juhl Jensen

Was ist angesagt? (20)

Protein association networks: Large-scale integration of data and text

Protein association networks: Large-scale integration of data and text

Protein association networks: Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

Gene association networks - Large-scale integration of data and text

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and text

Network biology - Large-scale integration of data and text

Network biology - Large-scale integration of data and text

Network biology - Large-scale integration of data and text

Gene Association Networks: Large-scale integration of data and text

Gene Association Networks: Large-scale integration of data and text

Gene Association Networks: Large-scale integration of data and text

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Gene association networks: Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

Introduction to STRING

Introduction to STRING

Introduction to STRING

STRING: Large-scale data and text mining

STRING: Large-scale data and text mining

STRING: Large-scale data and text mining

Network Biology: A crash course on STRING and Cytoscape

Network Biology: A crash course on STRING and Cytoscape

Network Biology: A crash course on STRING and Cytoscape

STRING: Protein networks from data and text mining

STRING: Protein networks from data and text mining

STRING: Protein networks from data and text mining

Cellular network biology: Proteome-wide analysis of heterogeneous data

Cellular network biology: Proteome-wide analysis of heterogeneous data

Cellular network biology: Proteome-wide analysis of heterogeneous data

In silico and Text-Based Analysis of Cellular Networks

In silico and Text-Based Analysis of Cellular Networks

In silico and Text-Based Analysis of Cellular Networks

Large-scale data and text mining

Large-scale data and text mining

Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Ähnlich wie Network Biology: Large-scale integration of data and text

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseasesLars Juhl Jensen

Cellular Network Biology

Cellular Network Biology

Cellular Network BiologyLars Juhl Jensen

Network biology

Network biology

Network biologyLars Juhl Jensen

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and textLars Juhl Jensen

Integration of heterogeneous data

Integration of heterogeneous data

Integration of heterogeneous dataLars Juhl Jensen

Making gene networks through data integration

Making gene networks through data integration

Making gene networks through data integrationLars Juhl Jensen

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseasesLars Juhl Jensen

Data integration with STRING

Data integration with STRING

Data integration with STRINGLars Juhl Jensen

The STRING database and related tools

The STRING database and related tools

The STRING database and related toolsLars Juhl Jensen

STRING & STITCH: Network integration of heterogeneous data

STRING & STITCH: Network integration of heterogeneous data

STRING & STITCH: Network integration of heterogeneous dataLars Juhl Jensen

Turning big data and text collections into web resrouces

Turning big data and text collections into web resrouces

Turning big data and text collections into web resroucesLars Juhl Jensen

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and textLars Juhl Jensen

Integration of heterogeneous data

Integration of heterogeneous data

Integration of heterogeneous dataLars Juhl Jensen

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological systemLars Juhl Jensen

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systemsLars Juhl Jensen

Ähnlich wie Network Biology: Large-scale integration of data and text (15)

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseases

Cellular Network Biology

Cellular Network Biology

Cellular Network Biology

Network biology

Network biology

Network biology

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

Integration of heterogeneous data

Integration of heterogeneous data

Integration of heterogeneous data

Making gene networks through data integration

Making gene networks through data integration

Making gene networks through data integration

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseases

Data integration with STRING

Data integration with STRING

Data integration with STRING

The STRING database and related tools

The STRING database and related tools

The STRING database and related tools

STRING & STITCH: Network integration of heterogeneous data

STRING & STITCH: Network integration of heterogeneous data

STRING & STITCH: Network integration of heterogeneous data

Turning big data and text collections into web resrouces

Turning big data and text collections into web resrouces

Turning big data and text collections into web resrouces

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

Integration of heterogeneous data

Integration of heterogeneous data

Integration of heterogeneous data

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systems

Mehr von Lars Juhl Jensen

One tagger, many uses: Illustrating the power of dictionary-based named entit...

One tagger, many uses: Illustrating the power of dictionary-based named entit...

One tagger, many uses: Illustrating the power of dictionary-based named entit...Lars Juhl Jensen

One tagger, many uses: Simple text-mining strategies for biomedicine

One tagger, many uses: Simple text-mining strategies for biomedicine

One tagger, many uses: Simple text-mining strategies for biomedicineLars Juhl Jensen

Extract 2.0: Text-mining-assisted interactive annotation

Extract 2.0: Text-mining-assisted interactive annotation

Extract 2.0: Text-mining-assisted interactive annotationLars Juhl Jensen

Network visualization: A crash course on using Cytoscape

Network visualization: A crash course on using Cytoscape

Network visualization: A crash course on using CytoscapeLars Juhl Jensen

Biomedical text mining: Automatic processing of unstructured text

Biomedical text mining: Automatic processing of unstructured text

Biomedical text mining: Automatic processing of unstructured textLars Juhl Jensen

Medical network analysis: Linking diseases and genes through data and text mi...

Medical network analysis: Linking diseases and genes through data and text mi...

Medical network analysis: Linking diseases and genes through data and text mi...Lars Juhl Jensen

Cellular networks

Cellular networks

Cellular networksLars Juhl Jensen

Cellular Network Biology: Large-scale integration of data and text

Cellular Network Biology: Large-scale integration of data and text

Cellular Network Biology: Large-scale integration of data and textLars Juhl Jensen

Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...

Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...

Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...Lars Juhl Jensen

STRING & related databases: Large-scale integration of heterogeneous data

STRING & related databases: Large-scale integration of heterogeneous data

STRING & related databases: Large-scale integration of heterogeneous dataLars Juhl Jensen

Tagger: Rapid dictionary-based named entity recognition

Tagger: Rapid dictionary-based named entity recognition

Tagger: Rapid dictionary-based named entity recognitionLars Juhl Jensen

Medical text mining: Linking diseases, drugs, and adverse reactions

Medical text mining: Linking diseases, drugs, and adverse reactions

Medical text mining: Linking diseases, drugs, and adverse reactionsLars Juhl Jensen

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and textLars Juhl Jensen

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactionsLars Juhl Jensen

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and textLars Juhl Jensen

Biomarker bioinformatics: Network-based candidate prioritization

Biomarker bioinformatics: Network-based candidate prioritization

Biomarker bioinformatics: Network-based candidate prioritizationLars Juhl Jensen

The Art of Counting: Scoring and ranking co-occurrences in literature

The Art of Counting: Scoring and ranking co-occurrences in literature

The Art of Counting: Scoring and ranking co-occurrences in literatureLars Juhl Jensen

Text-mining-based retrieval of protein networks

Text-mining-based retrieval of protein networks

Text-mining-based retrieval of protein networksLars Juhl Jensen

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactionsLars Juhl Jensen

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactionsLars Juhl Jensen

Mehr von Lars Juhl Jensen (20)

One tagger, many uses: Illustrating the power of dictionary-based named entit...

One tagger, many uses: Illustrating the power of dictionary-based named entit...

One tagger, many uses: Illustrating the power of dictionary-based named entit...

One tagger, many uses: Simple text-mining strategies for biomedicine

One tagger, many uses: Simple text-mining strategies for biomedicine

One tagger, many uses: Simple text-mining strategies for biomedicine

Extract 2.0: Text-mining-assisted interactive annotation

Extract 2.0: Text-mining-assisted interactive annotation

Extract 2.0: Text-mining-assisted interactive annotation

Network visualization: A crash course on using Cytoscape

Network visualization: A crash course on using Cytoscape

Network visualization: A crash course on using Cytoscape

Biomedical text mining: Automatic processing of unstructured text

Biomedical text mining: Automatic processing of unstructured text

Biomedical text mining: Automatic processing of unstructured text

Medical network analysis: Linking diseases and genes through data and text mi...

Medical network analysis: Linking diseases and genes through data and text mi...

Medical network analysis: Linking diseases and genes through data and text mi...

Cellular networks

Cellular networks

Cellular networks

Cellular Network Biology: Large-scale integration of data and text

Cellular Network Biology: Large-scale integration of data and text

Cellular Network Biology: Large-scale integration of data and text

Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...

Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...

Statistics on big biomedical data: Methods and pitfalls when analyzing high-t...

STRING & related databases: Large-scale integration of heterogeneous data

STRING & related databases: Large-scale integration of heterogeneous data

STRING & related databases: Large-scale integration of heterogeneous data

Tagger: Rapid dictionary-based named entity recognition

Tagger: Rapid dictionary-based named entity recognition

Tagger: Rapid dictionary-based named entity recognition

Medical text mining: Linking diseases, drugs, and adverse reactions

Medical text mining: Linking diseases, drugs, and adverse reactions

Medical text mining: Linking diseases, drugs, and adverse reactions

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and text

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and text

Network biology: Large-scale integration of data and text

Biomarker bioinformatics: Network-based candidate prioritization

Biomarker bioinformatics: Network-based candidate prioritization

Biomarker bioinformatics: Network-based candidate prioritization

The Art of Counting: Scoring and ranking co-occurrences in literature

The Art of Counting: Scoring and ranking co-occurrences in literature

The Art of Counting: Scoring and ranking co-occurrences in literature

Text-mining-based retrieval of protein networks

Text-mining-based retrieval of protein networks

Text-mining-based retrieval of protein networks

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Medical data and text mining: Linking diseases, drugs, and adverse reactions

Kürzlich hochgeladen

LAMP PCR.pptx by Dr. Chayanika Das, Ph.D, Veterinary Microbiology

LAMP PCR.pptx by Dr. Chayanika Das, Ph.D, Veterinary Microbiology

LAMP PCR.pptx by Dr. Chayanika Das, Ph.D, Veterinary MicrobiologyChayanika Das

CHROMATOGRAPHY PALLAVI RAWAT.pptx

CHROMATOGRAPHY PALLAVI RAWAT.pptx

CHROMATOGRAPHY PALLAVI RAWAT.pptxpallavirawat456

Interferons.pptx.

Interferons.pptx.

Interferons.pptx.Govt. N.P.G College of Science Raipur (C.G)

Total Legal: A “Joint” Journey into the Chemistry of Cannabinoids

Total Legal: A “Joint” Journey into the Chemistry of Cannabinoids

Total Legal: A “Joint” Journey into the Chemistry of CannabinoidsMarkus Roggen

Loudspeaker- direct radiating type and horn type.pptx

Loudspeaker- direct radiating type and horn type.pptx

Loudspeaker- direct radiating type and horn type.pptxpriyankatabhane

Measures of Central Tendency.pptx for UG

Measures of Central Tendency.pptx for UG

Measures of Central Tendency.pptx for UGSoniaBajaj10

GenAI talk for Young at Wageningen University & Research (WUR) March 2024

GenAI talk for Young at Wageningen University & Research (WUR) March 2024

GenAI talk for Young at Wageningen University & Research (WUR) March 2024Jene van der Heide

6.2 Pests of Sesame_Identification_Binomics_Dr.UPR

6.2 Pests of Sesame_Identification_Binomics_Dr.UPR

6.2 Pests of Sesame_Identification_Binomics_Dr.UPRPirithiRaju

The Sensory Organs, Anatomy and Function

The Sensory Organs, Anatomy and Function

The Sensory Organs, Anatomy and FunctionJadeNovelo1

Q4-Mod-1c-Quiz-Projectile-333344444.pptx

Q4-Mod-1c-Quiz-Projectile-333344444.pptx

Q4-Mod-1c-Quiz-Projectile-333344444.pptxtuking87

Introduction Classification Of Alkaloids

Introduction Classification Of Alkaloids

Introduction Classification Of AlkaloidsNandakishor Bhaurao Deshmukh

Science (Communication) and Wikipedia - Potentials and Pitfalls

Science (Communication) and Wikipedia - Potentials and Pitfalls

Science (Communication) and Wikipedia - Potentials and PitfallsDobusch Leonhard

GENERAL PHYSICS 2 REFRACTION OF LIGHT SENIOR HIGH SCHOOL GENPHYS2.pptx

GENERAL PHYSICS 2 REFRACTION OF LIGHT SENIOR HIGH SCHOOL GENPHYS2.pptx

GENERAL PHYSICS 2 REFRACTION OF LIGHT SENIOR HIGH SCHOOL GENPHYS2.pptxRitchAndruAgustin

Introduction of Human Body & Structure of cell.pptx

Introduction of Human Body & Structure of cell.pptx

Introduction of Human Body & Structure of cell.pptxMedical College

Observational constraints on mergers creating magnetism in massive stars

Observational constraints on mergers creating magnetism in massive stars

Observational constraints on mergers creating magnetism in massive starsSérgio Sacani

ESSENTIAL FEATURES REQUIRED FOR ESTABLISHING FOUR TYPES OF BIOSAFETY LABORATO...

ESSENTIAL FEATURES REQUIRED FOR ESTABLISHING FOUR TYPES OF BIOSAFETY LABORATO...

ESSENTIAL FEATURES REQUIRED FOR ESTABLISHING FOUR TYPES OF BIOSAFETY LABORATO...Chayanika Das

cybrids.pptx production_advanges_limitation

cybrids.pptx production_advanges_limitation

cybrids.pptx production_advanges_limitationSanghamitraMohapatra5

BACTERIAL SECRETION SYSTEM by Dr. Chayanika Das

BACTERIAL SECRETION SYSTEM by Dr. Chayanika Das

BACTERIAL SECRETION SYSTEM by Dr. Chayanika DasChayanika Das

Abnormal LFTs rate of deco and NAFLD.pptx

Abnormal LFTs rate of deco and NAFLD.pptx

Abnormal LFTs rate of deco and NAFLD.pptxzeus70441

Oxo-Acids of Halogens and their Salts.pptx

Oxo-Acids of Halogens and their Salts.pptx

Oxo-Acids of Halogens and their Salts.pptxfarhanvvdk

Kürzlich hochgeladen (20)

LAMP PCR.pptx by Dr. Chayanika Das, Ph.D, Veterinary Microbiology

LAMP PCR.pptx by Dr. Chayanika Das, Ph.D, Veterinary Microbiology

LAMP PCR.pptx by Dr. Chayanika Das, Ph.D, Veterinary Microbiology

CHROMATOGRAPHY PALLAVI RAWAT.pptx

CHROMATOGRAPHY PALLAVI RAWAT.pptx

CHROMATOGRAPHY PALLAVI RAWAT.pptx

Interferons.pptx.

Interferons.pptx.

Interferons.pptx.

Total Legal: A “Joint” Journey into the Chemistry of Cannabinoids

Total Legal: A “Joint” Journey into the Chemistry of Cannabinoids

Total Legal: A “Joint” Journey into the Chemistry of Cannabinoids

Loudspeaker- direct radiating type and horn type.pptx

Loudspeaker- direct radiating type and horn type.pptx

Loudspeaker- direct radiating type and horn type.pptx

Measures of Central Tendency.pptx for UG

Measures of Central Tendency.pptx for UG

Measures of Central Tendency.pptx for UG

GenAI talk for Young at Wageningen University & Research (WUR) March 2024

GenAI talk for Young at Wageningen University & Research (WUR) March 2024

GenAI talk for Young at Wageningen University & Research (WUR) March 2024

6.2 Pests of Sesame_Identification_Binomics_Dr.UPR

6.2 Pests of Sesame_Identification_Binomics_Dr.UPR

6.2 Pests of Sesame_Identification_Binomics_Dr.UPR

The Sensory Organs, Anatomy and Function

The Sensory Organs, Anatomy and Function

The Sensory Organs, Anatomy and Function

Q4-Mod-1c-Quiz-Projectile-333344444.pptx

Q4-Mod-1c-Quiz-Projectile-333344444.pptx

Q4-Mod-1c-Quiz-Projectile-333344444.pptx

Introduction Classification Of Alkaloids

Introduction Classification Of Alkaloids

Introduction Classification Of Alkaloids

Science (Communication) and Wikipedia - Potentials and Pitfalls

Science (Communication) and Wikipedia - Potentials and Pitfalls

Science (Communication) and Wikipedia - Potentials and Pitfalls

GENERAL PHYSICS 2 REFRACTION OF LIGHT SENIOR HIGH SCHOOL GENPHYS2.pptx

GENERAL PHYSICS 2 REFRACTION OF LIGHT SENIOR HIGH SCHOOL GENPHYS2.pptx

GENERAL PHYSICS 2 REFRACTION OF LIGHT SENIOR HIGH SCHOOL GENPHYS2.pptx

Introduction of Human Body & Structure of cell.pptx

Introduction of Human Body & Structure of cell.pptx

Introduction of Human Body & Structure of cell.pptx

Observational constraints on mergers creating magnetism in massive stars

Observational constraints on mergers creating magnetism in massive stars

Observational constraints on mergers creating magnetism in massive stars

ESSENTIAL FEATURES REQUIRED FOR ESTABLISHING FOUR TYPES OF BIOSAFETY LABORATO...

ESSENTIAL FEATURES REQUIRED FOR ESTABLISHING FOUR TYPES OF BIOSAFETY LABORATO...

ESSENTIAL FEATURES REQUIRED FOR ESTABLISHING FOUR TYPES OF BIOSAFETY LABORATO...

cybrids.pptx production_advanges_limitation

cybrids.pptx production_advanges_limitation

cybrids.pptx production_advanges_limitation

BACTERIAL SECRETION SYSTEM by Dr. Chayanika Das

BACTERIAL SECRETION SYSTEM by Dr. Chayanika Das

BACTERIAL SECRETION SYSTEM by Dr. Chayanika Das

Abnormal LFTs rate of deco and NAFLD.pptx

Abnormal LFTs rate of deco and NAFLD.pptx

Abnormal LFTs rate of deco and NAFLD.pptx

Oxo-Acids of Halogens and their Salts.pptx

Oxo-Acids of Halogens and their Salts.pptx

Oxo-Acids of Halogens and their Salts.pptx

Network Biology: Large-scale integration of data and text

1. Lars Juhl Jensen Network Biology Large-scale integration of data and text

3. group leader

4.

6.

7. disease systems biology

8.

9. proteomics data

10. mass spectrometry

11.

12. protein networks

13. Hendriks et al., NSMB, 2017

14. medical data

15. Jensen et al., Nature Reviews Genetics, 2012

16. disease networks

17. Jensen et al., Nature Communications, 2014

18. association networks

19. guilt by association

20.

21. protein networks

22. string-db.org

23. international collaboration

24. 9.6 million proteins

25. 2000+ genomes

26. genomic context

27. gene fusion

28. Korbel et al., Nature Biotechnology, 2004

29. experimental data

30. coexpression

31. physical interactions

32. Jensen & Bork, Science, 2008

33. curated knowledge

35. Letunic & Bork, Trends in Biochemical Sciences, 2008

36. many databases

37. different formats

38. different identifiers

39. variable quality

40. not comparable

42. quality scores

43. affinity purification

44. von Mering et al., Nucleic Acids Research, 2005

45. score calibration

46. gold standard

47. von Mering et al., Nucleic Acids Research, 2005

48. implicit weighting by quality

49. common scale

50. missing most of the data

51. text mining

53. too much to read

55. as smart as a dog

56. teach it specific tricks

57.

58.

59. named entity recognition

61. cyclin dependent kinase 1

63. orthographic variation

64. spaces and hyphens

65. cyclin dependent kinase 1

66. cyclin-dependent kinase 1

67. prefixes and suffixes

70. “black list”

72. co-mentioning

74. scoring scheme

75. score calibration

76. medical data

77. Jensen et al., Nature Reviews Genetics, 2012

78. structured data

79. Jensen et al., Nature Reviews Genetics, 2012

80. unstructured data

81.

83. busy doctors

84. abbreviations

85. misspellings

86. adverse drug reactions

89. Clozapine clozapi n clossapi n klozapin e chlosapi n chlosapi ne chlozapi n chlozapi ne klossapi n closapin e klozapi nklosapi n

90. Eriksson et al., Drug Safety, 2014 Drug introduction Drug discontinuation Adverse eventNegative modifier Indication Pre-existing condition Adverse drug reaction Possible adverse drug reaction Adverse event ADR of additional drug Identification start

91. country-wide registries

92. 119 million diagnoses

93. 6.2 million patients

94. comorbidity

95. confounding factors

96. “known knowns”

99. type of hospital encounter

100. Jensen et al., Nature Communications, 2014

101. “known unknowns”

104. “unknown unknowns”

105. reporting biases

106. matched controls

107. temporal correlations

108. diagnosis trajectories

109. Jensen et al., Nature Communications, 2014

110. direct implications

112. highly collaborative

113. within the group

114. between CPR groups

115. internationally

116. lines of research

117. proteome analysis

118. community resources

119. text mining

120. medical data mining