Genomatix Genome Analyzer

• Extract the relevant biological knowledge from ChIP-Seq and DGE studies
• Correlate and visualize NGS results with an extended genome annotation
• All required data and hardware in one technology unit at your site

• Provides a genome wide correlation with annotation
  • Clustering of mapped sequence reads
  • Integration and visualization in today's most complete genome annotation (ElDorado™)
  • Genome wide correlation with all available genomic features
  • includes transcripts, SNPs, SMARs, CAGE tags, TSSs, UTRs, CDSs, microRNAs, repeats
  • Identification of phylogenetically conserved functional elements
  • Data meta-analysis
• Provides a complete analysis for ChIP-Seq experiments
  • Classification of clusters (promoter, exon, intron, intergenic)
  • Genome-wide chromatin modification and methylation state analysis
  • Genome-wide transcription factor (TF) analysis
  • Analysis of TF overrepresentation and TF association
  • Regulatory SNP analysis
  • Cross-Species analysis for phylogenetically conserved regions and regulatory structures
• Provides a complete analysis for transcriptome studies
  • Normalized expression values
  • Quantification of expression values
  • Identification of new transcriptional units and splice variations
  • Visualization of transcriptional units with exon/intron structure, UTRs, CDSs
• Satisfies all needs of a modern research environment
  • Full data structure access and command line driven procedures for the bio-informatician
  • Comprehensive easy-to-use web based interface for the biologist
  • Full integration into existing pipelines and network environment

Statistical analysis of overrepresented transcription factor binding sites

Genomatix' renowned MatInspector™ software is applied to find the most relevant regulatory elements for your experiment.

(e.g. in significantly enriched regions derived by ChIP-seq of estrogen receptor - output can be exported to Excel™)

Genome-wide correlation with genomic features

Quickly check your data for distance correlations to transcription start sites, promoter regions, microRNAs or against another data set from your lab.

(e.g. Correlation of histone methylation (H3K4me3) enriched regions from ChIP-seq vs. transcriptional start regions or DNase I tags vs. promoter regions)

Integration and visualization in today's most complete genome annotation

Cluster your sequence reads and instantly view them in their genomic context within Genomatix' extensive genome annotation package ElDorado™.

(e.g. DNase I sequence reads near the gene "RARA" on human chromosome 17)