Services
From Bioinformatics Core Wiki
We currently offer different types of services for internal and external users:
Contents
Basic services
· Consultation on bioinformatics methods and resources
· Software evaluation, implementation, and training
· Customization of bioinformatics resources
· Training on different bioinformatics topics
Advanced services
Data analysis
- 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:
- ChIP-Seq
- Transcription factor binding site detection / motif discovery
- Analysis of histone modifications
- Identification of target genes
- Data Visualization
- High-resolution nucleosome positioning
- Detection of Chromosomal Interactions (5C)
- 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
- Variation Detection
- SNP calling
- Indel calling
- Variation filtration
- Functional impact assessment
- Data visualization
- 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)
- Evolution of proteins:
- Multiple Sequence Alignments
- Orthology assignments
- Protein structure comparisons
- Fold Recognition
- Phylogenetic analysis
Software Development and Data Management
- 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..)
