Services

We currently offer different types of services for internal and external users:

Basic services

High-throughput data analysis of genomics, transcriptomics, epigenetics and proteomics datasets

Next-Gen data analysis. The unit has invested time and effort in establishing several pipelines dedicated to the analysis of Deep-sequencing data. Currently, the unit has experience analyzing different types of deep-sequencing data:

1) ChIP-Seq

· Transcription factor binding site detection / motif discovery

· Analysis of histone modifications

· Identification of target genes

· Data Visualization

2) High-resolution nucleosome positioning

3) Detection of Chromosomal Interactions (5C)

4) RNA-Seq

· Differential expression at the gene and transcript level

· Detection of rare, or novel transcripts

· Identification of alternative splicing and report of isoform abundance

· microRNA / Small RNA analysis (profiling and discovery)

· De-novo transcriptome assembly

· Data visualization

5) Variation Detection

· SNP calling

· Indel calling

· Variation filtration

· Functional impact assessment

· Data visualization

6) De novo genome assembly

· Downstream analysis for the interpretation of gene lists, including gene set enrichment, GO and pathway analysis, orthology prediction

Identification of functional elements in the genomes:
- Automatic gene annotation (including non-coding genes)
- Regulatory sequences: DNA motif analysis (novel and known)

Database design and development
Web interface development
Development of versatile ticketing and project management systems based on wiki technologies
Implementation of integrative bioinformatics web applications
Implementation of customized Genome browsers
Support for submission of raw data to public repositories (ENA, SRA, GEO..)