Integration of heterogeneous data

•Télécharger en tant que PPT, PDF•

5 j'aime•931 vues

Lars Juhl Jensen

10th Course in Bioinformatics and Systems Biology for Molecular Biologists, Schloss Hohenkammer, Hohenkammer, Germany, March 15, 2010.

Integration of heterogeneous data Lars Juhl Jensen

data mining

text mining

interaction networks

Kuhn et al., Nucleic Acids Research , 2010

parts lists

630 genomes

2.5 million proteins

~74,000 small molecules

many databases

different formats

model organism databases

Ensembl

RefSeq

PubChem

genomic context

gene fusion

Korbel et al., Nature Biotechnology , 2004

conserved neighborhood

operons

Korbel et al., Nature Biotechnology , 2004

bidirectional promoters

Korbel et al., Nature Biotechnology , 2004

phylogenetic profiles

Korbel et al., Nature Biotechnology , 2004

experimental data

gene coexpression

protein interactions

Jensen & Bork, Science , 2008

genetic interactions

Beyer et al., Nature Reviews Genetics , 2007

small molecule interactions

in vitro binding assays

cellular activity assays

many databases

GEO Gene Expression Omnibus

BIND Biomolecular Interaction Network Database

BioGRID General Repository for Interaction Datasets

DIP Database of Interacting Proteins

IntAct

MINT Molecular Interactions Database

HPRD Human Protein Reference Database

PDB Protein Data Bank

BindingDB

CTD Comparative Toxicogenomics Database

DrugBank

GLIDA GPCR-Ligand Database

MATADOR

PDSP K i Psycoactive Drug Screening Program

PharmGKB Pharmacogenomics Knowledge Base

different formats

different identifiers

partially redundant

Campillos & Kuhn et al., Science , 2008

curated knowledge

complexes

pathways

Letunic & Bork, Trends in Biochemical Sciences , 2008

many databases

Gene Ontology

MIPS Munich Information center for Protein Sequences

KEGG Kyoto Encyclopedia of Genes and Genomes

MetaCyc

Reactome

PID NCI-Nature Pathway Interaction Database

high confidence

different formats

different identifiers

partially redundant

literature mining

>10 km

human readable

not computer readable

different names

text corpus

M EDLINE

SGD Saccharomyces Genome Database

The Interactive Fly

OMIM Online Mendelian Inheritance in Man

thesaurus

co-mentioning

statistical methods

NLP Natural Language Processing

[object Object],[object Object],[object Object],[object Object],[object Object]

restricted access

Reflect

augmented browsing

Pafilis, O’Donoghue, Jensen et al., Nature Biotechnology , 2009

integration

the easy problems

many databases

different formats

different identifiers

partially redundant

parsers

thesaurus

book keeping

the hard problems

many data types

not comparable

variable quality

raw quality scores

intergenic distances

Korbel et al., Nature Biotechnology , 2004

correlations

reproducibility

von Mering et al., Nucleic Acids Research , 2005

score calibration

gold standard

von Mering et al., Nucleic Acids Research , 2005

spread over 630 genomes

transfer by orthology

von Mering et al., Nucleic Acids Research , 2005

two modes

COG mode

von Mering et al., Nucleic Acids Research , 2005

protein mode

von Mering et al., Nucleic Acids Research , 2005

combine all evidence

P = 1-(1-P 1 )(1-P 2 )(1-P 3 ) …

visualize

Kuhn et al., Nucleic Acids Research , 2010

access

access for humans

web interfaces

access for computers

web services

REST Representational State Transfer

SOAP Simple Object Access Protocol

Acknowledgments ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

larsjuhljensen

Contenu connexe

Tendances

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and textLars Juhl Jensen

STRING - Modeling of biological systems through cross-species data integ...

STRING - Modeling of biological systems through cross-species data integ...

STRING - Modeling of biological systems through cross-species data integ...Lars 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

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

The STRING database

The STRING database

The STRING databaseLars 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

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

From phosphoproteomics to signaling networks

From phosphoproteomics to signaling networks

From phosphoproteomics to signaling networksLars 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

Protein association networks with STRING

Protein association networks with STRING

Protein association networks with STRINGLars Juhl Jensen

The STRING database - Quality scores for heterogeneous interaction data

The STRING database - Quality scores for heterogeneous interaction data

The STRING database - Quality scores for heterogeneous interaction dataLars Juhl Jensen

Systems biology - Understanding biology at the systems level

Systems biology - Understanding biology at the systems level

Systems biology - Understanding biology at the systems levelLars Juhl Jensen

Introduction to STRING

Introduction to STRING

Introduction to STRINGLars 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

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

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological systemLars Juhl Jensen

Scientific Highlights: The Reflect and NetPhorest web resources

Scientific Highlights: The Reflect and NetPhorest web resources

Scientific Highlights: The Reflect and NetPhorest web resourcesLars Juhl Jensen

Cross-species data integration

Cross-species data integration

Cross-species data integrationLars 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

Tendances (20)

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

STRING - Modeling of biological systems through cross-species data integ...

STRING - Modeling of biological systems through cross-species data integ...

STRING - Modeling of biological systems through cross-species data integ...

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

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

The STRING database

The STRING database

The STRING database

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

STRING - Protein networks from data and text mining

STRING - Protein networks from data and text mining

STRING - Protein networks from data and text mining

From phosphoproteomics to signaling networks

From phosphoproteomics to signaling networks

From phosphoproteomics to signaling networks

STRING: Large-scale data and text mining

STRING: Large-scale data and text mining

STRING: Large-scale data and text mining

Protein association networks with STRING

Protein association networks with STRING

Protein association networks with STRING

The STRING database - Quality scores for heterogeneous interaction data

The STRING database - Quality scores for heterogeneous interaction data

The STRING database - Quality scores for heterogeneous interaction data

Systems biology - Understanding biology at the systems level

Systems biology - Understanding biology at the systems level

Systems biology - Understanding biology at the systems level

Introduction to STRING

Introduction to STRING

Introduction to STRING

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

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 mining

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological system

Systems biology: Bioinformatics on complete biological system

Scientific Highlights: The Reflect and NetPhorest web resources

Scientific Highlights: The Reflect and NetPhorest web resources

Scientific Highlights: The Reflect and NetPhorest web resources

Cross-species data integration

Cross-species data integration

Cross-species data integration

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 mining

En vedette

Mining heterogeneous data: Understanding systems at the level of complexes an...

Mining heterogeneous data: Understanding systems at the level of complexes an...

Mining heterogeneous data: Understanding systems at the level of complexes an...Lars Juhl Jensen

Connecting Heterogeneous Collections using Linked Data

Connecting Heterogeneous Collections using Linked Data

Connecting Heterogeneous Collections using Linked DataVictor de Boer

Heterogeneous data fusion with multiple kernel growing self organizing maps

Heterogeneous data fusion with multiple kernel growing self organizing maps

Heterogeneous data fusion with multiple kernel growing self organizing mapsPruthuvi Maheshakya Wijewardena

Machine-Interpretable Dataset and Service Descriptions for Heterogeneous Data...

Machine-Interpretable Dataset and Service Descriptions for Heterogeneous Data...

Machine-Interpretable Dataset and Service Descriptions for Heterogeneous Data...andimou

Gulf of Mexico Hydrocarbon Database: Integrating Heterogeneous Data for Impro...

Gulf of Mexico Hydrocarbon Database: Integrating Heterogeneous Data for Impro...

Gulf of Mexico Hydrocarbon Database: Integrating Heterogeneous Data for Impro...Anne Thessen

Too Long; Didn’t Watch! Extracting Relevant Fragments from Software Developme...

Too Long; Didn’t Watch! Extracting Relevant Fragments from Software Developme...

Too Long; Didn’t Watch! Extracting Relevant Fragments from Software Developme...Luca Ponzanelli

Summarizing Complex Development Artifacts by Mining Heterogeneous Data

Summarizing Complex Development Artifacts by Mining Heterogeneous Data

Summarizing Complex Development Artifacts by Mining Heterogeneous DataLuca Ponzanelli

The Heterogeneous Data lake

The Heterogeneous Data lake

The Heterogeneous Data lakeDataWorks Summit/Hadoop Summit

En vedette (8)

Mining heterogeneous data: Understanding systems at the level of complexes an...

Mining heterogeneous data: Understanding systems at the level of complexes an...

Mining heterogeneous data: Understanding systems at the level of complexes an...

Connecting Heterogeneous Collections using Linked Data

Connecting Heterogeneous Collections using Linked Data

Connecting Heterogeneous Collections using Linked Data

Heterogeneous data fusion with multiple kernel growing self organizing maps

Heterogeneous data fusion with multiple kernel growing self organizing maps

Heterogeneous data fusion with multiple kernel growing self organizing maps

Machine-Interpretable Dataset and Service Descriptions for Heterogeneous Data...

Machine-Interpretable Dataset and Service Descriptions for Heterogeneous Data...

Machine-Interpretable Dataset and Service Descriptions for Heterogeneous Data...

Gulf of Mexico Hydrocarbon Database: Integrating Heterogeneous Data for Impro...

Gulf of Mexico Hydrocarbon Database: Integrating Heterogeneous Data for Impro...

Gulf of Mexico Hydrocarbon Database: Integrating Heterogeneous Data for Impro...

Too Long; Didn’t Watch! Extracting Relevant Fragments from Software Developme...

Too Long; Didn’t Watch! Extracting Relevant Fragments from Software Developme...

Too Long; Didn’t Watch! Extracting Relevant Fragments from Software Developme...

Summarizing Complex Development Artifacts by Mining Heterogeneous Data

Summarizing Complex Development Artifacts by Mining Heterogeneous Data

Summarizing Complex Development Artifacts by Mining Heterogeneous Data

The Heterogeneous Data lake

The Heterogeneous Data lake

The Heterogeneous Data lake

Similaire à Integration of heterogeneous data

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

Integration of heterogeneous data

Integration of heterogeneous data

Integration of heterogeneous dataLars 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

Integration of diverse large-scale datasets

Integration of diverse large-scale datasets

Integration of diverse large-scale datasetsLars Juhl Jensen

Network biology

Network biology

Network biologyLars Juhl Jensen

Protein interaction networks

Protein interaction networks

Protein interaction networksLars 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

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseasesLars Juhl Jensen

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseasesLars Juhl Jensen

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

Information integration

Information integration

Information integrationLars Juhl Jensen

Functional association networks - The STRING and STITCH web resources

Functional association networks - The STRING and STITCH web resources

Functional association networks - The STRING and STITCH web resourcesLars Juhl Jensen

Data and Text Mining

Data and Text Mining

Data and Text MiningLars 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

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 data and text mining

Large-scale data and text mining

Large-scale data and text miningLars 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

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systemsLars 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

Similaire à Integration of heterogeneous data (20)

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Network biology: Large-scale data and text mining

Integration of heterogeneous data

Integration of heterogeneous data

Integration of heterogeneous data

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

Integration of diverse large-scale datasets

Integration of diverse large-scale datasets

Integration of diverse large-scale datasets

Network biology

Network biology

Network biology

Protein interaction networks

Protein interaction networks

Protein interaction networks

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and text

STRING - Large-scale integration of data and text

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseases

Networks of proteins and diseases

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

Information integration

Information integration

Information integration

Functional association networks - The STRING and STITCH web resources

Functional association networks - The STRING and STITCH web resources

Functional association networks - The STRING and STITCH web resources

Data and Text Mining

Data and Text Mining

Data and Text Mining

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

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 data and text mining

Large-scale data and text mining

Large-scale data and text mining

STRING & STITCH: Network integration of heterogeneous data

STRING & STITCH: Network integration of heterogeneous data

STRING & STITCH: Network integration of heterogeneous data

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systems

Systems biology: Bioinformatics on complete biological systems

Large-scale integration of data and text

Large-scale integration of data and text

Large-scale integration of data and text

Plus de 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

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

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

Cellular Network Biology

Cellular Network Biology

Cellular Network BiologyLars 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

Plus de 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...

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

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

Cellular Network Biology

Cellular Network Biology

Cellular Network Biology

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

Dernier

DevoxxFR 2024 Reproducible Builds with Apache Maven

DevoxxFR 2024 Reproducible Builds with Apache Maven

DevoxxFR 2024 Reproducible Builds with Apache MavenHervé Boutemy

Gen AI in Business - Global Trends Report 2024.pdf

Gen AI in Business - Global Trends Report 2024.pdf

Gen AI in Business - Global Trends Report 2024.pdfAddepto

Search Engine Optimization SEO PDF for 2024.pdf

Search Engine Optimization SEO PDF for 2024.pdf

Search Engine Optimization SEO PDF for 2024.pdfRankYa

"Subclassing and Composition – A Pythonic Tour of Trade-Offs", Hynek Schlawack

"Subclassing and Composition – A Pythonic Tour of Trade-Offs", Hynek Schlawack

"Subclassing and Composition – A Pythonic Tour of Trade-Offs", Hynek SchlawackFwdays

Streamlining Python Development: A Guide to a Modern Project Setup

Streamlining Python Development: A Guide to a Modern Project Setup

Streamlining Python Development: A Guide to a Modern Project SetupFlorian Wilhelm

SIP trunking in Janus @ Kamailio World 2024

SIP trunking in Janus @ Kamailio World 2024

SIP trunking in Janus @ Kamailio World 2024Lorenzo Miniero

Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024

Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024

Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024BookNet Canada

AI as an Interface for Commercial Buildings

AI as an Interface for Commercial Buildings

AI as an Interface for Commercial BuildingsMemoori

CloudStudio User manual (basic edition):

CloudStudio User manual (basic edition):

CloudStudio User manual (basic edition):comworks

"ML in Production",Oleksandr Bagan

"ML in Production",Oleksandr Bagan

"ML in Production",Oleksandr BaganFwdays

Unraveling Multimodality with Large Language Models.pdf

Unraveling Multimodality with Large Language Models.pdf

Unraveling Multimodality with Large Language Models.pdfAlex Barbosa Coqueiro

"Debugging python applications inside k8s environment", Andrii Soldatenko

"Debugging python applications inside k8s environment", Andrii Soldatenko

"Debugging python applications inside k8s environment", Andrii SoldatenkoFwdays

Tampa BSides - Chef's Tour of Microsoft Security Adoption Framework (SAF)

Tampa BSides - Chef's Tour of Microsoft Security Adoption Framework (SAF)

Tampa BSides - Chef's Tour of Microsoft Security Adoption Framework (SAF)Mark Simos

Scanning the Internet for External Cloud Exposures via SSL Certs

Scanning the Internet for External Cloud Exposures via SSL Certs

Scanning the Internet for External Cloud Exposures via SSL CertsRizwan Syed

Artificial intelligence in cctv survelliance.pptx

Artificial intelligence in cctv survelliance.pptx

Artificial intelligence in cctv survelliance.pptxhariprasad279825

Are Multi-Cloud and Serverless Good or Bad?

Are Multi-Cloud and Serverless Good or Bad?

Are Multi-Cloud and Serverless Good or Bad?Mattias Andersson

Training state-of-the-art general text embedding

Training state-of-the-art general text embedding

Training state-of-the-art general text embeddingZilliz

Install Stable Diffusion in windows machine

Install Stable Diffusion in windows machine

Install Stable Diffusion in windows machinePadma Pradeep

Dev Dives: Streamline document processing with UiPath Studio Web

Dev Dives: Streamline document processing with UiPath Studio Web

Dev Dives: Streamline document processing with UiPath Studio WebUiPathCommunity

Leverage Zilliz Serverless - Up to 50X Saving for Your Vector Storage Cost

Leverage Zilliz Serverless - Up to 50X Saving for Your Vector Storage Cost

Leverage Zilliz Serverless - Up to 50X Saving for Your Vector Storage CostZilliz

Dernier (20)

DevoxxFR 2024 Reproducible Builds with Apache Maven

DevoxxFR 2024 Reproducible Builds with Apache Maven

DevoxxFR 2024 Reproducible Builds with Apache Maven

Gen AI in Business - Global Trends Report 2024.pdf

Gen AI in Business - Global Trends Report 2024.pdf

Gen AI in Business - Global Trends Report 2024.pdf

Search Engine Optimization SEO PDF for 2024.pdf

Search Engine Optimization SEO PDF for 2024.pdf

Search Engine Optimization SEO PDF for 2024.pdf

"Subclassing and Composition – A Pythonic Tour of Trade-Offs", Hynek Schlawack

"Subclassing and Composition – A Pythonic Tour of Trade-Offs", Hynek Schlawack

"Subclassing and Composition – A Pythonic Tour of Trade-Offs", Hynek Schlawack

Streamlining Python Development: A Guide to a Modern Project Setup

Streamlining Python Development: A Guide to a Modern Project Setup

Streamlining Python Development: A Guide to a Modern Project Setup

SIP trunking in Janus @ Kamailio World 2024

SIP trunking in Janus @ Kamailio World 2024

SIP trunking in Janus @ Kamailio World 2024

Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024

Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024

Transcript: New from BookNet Canada for 2024: BNC CataList - Tech Forum 2024

AI as an Interface for Commercial Buildings

AI as an Interface for Commercial Buildings

AI as an Interface for Commercial Buildings

CloudStudio User manual (basic edition):

CloudStudio User manual (basic edition):

CloudStudio User manual (basic edition):

"ML in Production",Oleksandr Bagan

"ML in Production",Oleksandr Bagan

"ML in Production",Oleksandr Bagan

Unraveling Multimodality with Large Language Models.pdf

Unraveling Multimodality with Large Language Models.pdf

Unraveling Multimodality with Large Language Models.pdf

"Debugging python applications inside k8s environment", Andrii Soldatenko

"Debugging python applications inside k8s environment", Andrii Soldatenko

"Debugging python applications inside k8s environment", Andrii Soldatenko

Tampa BSides - Chef's Tour of Microsoft Security Adoption Framework (SAF)

Tampa BSides - Chef's Tour of Microsoft Security Adoption Framework (SAF)

Tampa BSides - Chef's Tour of Microsoft Security Adoption Framework (SAF)

Scanning the Internet for External Cloud Exposures via SSL Certs

Scanning the Internet for External Cloud Exposures via SSL Certs

Scanning the Internet for External Cloud Exposures via SSL Certs

Artificial intelligence in cctv survelliance.pptx

Artificial intelligence in cctv survelliance.pptx

Artificial intelligence in cctv survelliance.pptx

Are Multi-Cloud and Serverless Good or Bad?

Are Multi-Cloud and Serverless Good or Bad?

Are Multi-Cloud and Serverless Good or Bad?

Training state-of-the-art general text embedding

Training state-of-the-art general text embedding

Training state-of-the-art general text embedding

Install Stable Diffusion in windows machine

Install Stable Diffusion in windows machine

Install Stable Diffusion in windows machine

Dev Dives: Streamline document processing with UiPath Studio Web

Dev Dives: Streamline document processing with UiPath Studio Web

Dev Dives: Streamline document processing with UiPath Studio Web

Leverage Zilliz Serverless - Up to 50X Saving for Your Vector Storage Cost

Leverage Zilliz Serverless - Up to 50X Saving for Your Vector Storage Cost

Leverage Zilliz Serverless - Up to 50X Saving for Your Vector Storage Cost

Integration of heterogeneous data

1. Integration of heterogeneous data Lars Juhl Jensen

2.

3.

4.

5.

8. interaction networks

9.

10. Kuhn et al., Nucleic Acids Research , 2010

11. parts lists

12. 630 genomes

13. 2.5 million proteins

14. ~74,000 small molecules

15. many databases

16. different formats

17. model organism databases

21. genomic context

22. gene fusion

23. Korbel et al., Nature Biotechnology , 2004

24. conserved neighborhood

26. Korbel et al., Nature Biotechnology , 2004

27. bidirectional promoters

28. Korbel et al., Nature Biotechnology , 2004

29. phylogenetic profiles

30. Korbel et al., Nature Biotechnology , 2004

31. experimental data

32. gene coexpression

33.

34. protein interactions

35. Jensen & Bork, Science , 2008

36. genetic interactions

37. Beyer et al., Nature Reviews Genetics , 2007

38. small molecule interactions

39. in vitro binding assays

40. cellular activity assays

41. many databases

42. GEO Gene Expression Omnibus

43. BIND Biomolecular Interaction Network Database

44. BioGRID General Repository for Interaction Datasets

45. DIP Database of Interacting Proteins

47. MINT Molecular Interactions Database

48. HPRD Human Protein Reference Database

49. PDB Protein Data Bank

51. CTD Comparative Toxicogenomics Database

53. GLIDA GPCR-Ligand Database

55. PDSP K i Psycoactive Drug Screening Program

56. PharmGKB Pharmacogenomics Knowledge Base

57. different formats

58. different identifiers

59. partially redundant

60. Campillos & Kuhn et al., Science , 2008

61. curated knowledge

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

65. many databases

66. Gene Ontology

67. MIPS Munich Information center for Protein Sequences

68. KEGG Kyoto Encyclopedia of Genes and Genomes

71. PID NCI-Nature Pathway Interaction Database

72. high confidence

73. different formats

74. different identifiers

75. partially redundant

76. literature mining

78. human readable

79. not computer readable

80. different names

81. text corpus

83. SGD Saccharomyces Genome Database

84. The Interactive Fly

85. OMIM Online Mendelian Inheritance in Man

87. co-mentioning

88. statistical methods

89. NLP Natural Language Processing

90.

91.

92. restricted access

94. augmented browsing

95. Pafilis, O’Donoghue, Jensen et al., Nature Biotechnology , 2009

96. integration

97. the easy problems

98. many databases

99. different formats

100. different identifiers

101. partially redundant

104. book keeping

105. the hard problems

106. many data types

107. not comparable

108. variable quality

109. raw quality scores

110. intergenic distances

111. Korbel et al., Nature Biotechnology , 2004

112. correlations

113.

114. reproducibility

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

116. score calibration

117. gold standard

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

119. spread over 630 genomes

120. transfer by orthology

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

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

125. protein mode

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

127. combine all evidence

128. P = 1-(1-P 1 )(1-P 2 )(1-P 3 ) …

130. Kuhn et al., Nucleic Acids Research , 2010

132. access for humans

133. web interfaces

134.

135.

136.

137. access for computers

138. web services

139. REST Representational State Transfer

140. SOAP Simple Object Access Protocol

141.

142. larsjuhljensen