Addressing future challenges for visualising genomic dataAlberto Labarga – Dec 2015Addressing future challenges for visualising genomic dataAlberto Labarga – Dec 2015

(visual)

exploration

analysis

presentation

data insights

visualization

interpretation

comparison

exploration

integration

?

Comparative genomics

Comparative genomics

Sequence (DNA/RNA) & phylogeny

Sequence (DNA/RNA) & phylogeny

Regulation of gene expression; transcription

factors & micro RNAs

Regulation of gene expression; transcription

factors & micro RNAs

Protein sequence analysis &evolution

Protein sequence analysis &evolution

Protein families, motifs and domains

Protein families, motifs and domains

Protein structure & function: computational crystallography

Protein structure & function: computational crystallography

Protein interactions & complexes: modelling and predictionProtein interactions & complexes: modelling and prediction

Chemical biologyChemical biology

Pathway analysisPathway analysis

Systems modelling

Systems modelling

Image analysisImage analysis

Data integration & literature miningData integration & literature mining

reimagine the genome browser?

<img>

<div>

<svg>

<canvas>

A grammar of graphics

ggplot

D3.js

bioJS

pViz

Everything is a platform

Service that make it easy to find data from a range of secondary data sources, then consume the data in a usable and unified format. Several of these services are trying to create marketplaces for data, envisioning that data providers can offer their data sets for sale to data seekers

a place where weencourage...support...enable...our communities

adquisition

visualizationanalysis

Usability

Chr5: 133,876,119 – 134,876,119

Genes

Transcription

Mouse orthology

TF bindingHistone mods

SNPs

Repeats

Density of biological information in the human genome

Base position

Gene model

Transcription

Repeats

SNPs

TF binding

Which gene annotation to use?

Integrating different types of annotation data

PromoterProximal enhancer

progressive disclosure

semantic zooming

resolution dependent data smoothing

attention routing

cartoDBwhat-if

customizationlayersfilters

complex operations

SQLcartoCSS

New layouts

http://mlg.hit.edu.cn/FGB/

http://bam.iobio.io/

http://gene.iobio.io/

http://vcf.iobio.io/

New charts

Hive plot

Space maps

curve maps

GA4GH

Genome browser in a box

Docker, spark, avro, etc