Transcriptome analysis (RNA-Seq)
A broad report is provided to the client, replete of graphics detailing all essential results. All input and output files created during our processing pipeline are also provided, such as:
- Aligned reads (BAM format);
- Complete list of genes differentially expressed;
- List of ontology terms and their related genes.
Variant call for oncologic panels
The results are provided through a variant viewer (ViVa – Viewer of Variants), which is an advanced tool that allows the user to manage the variants and execute complex filterings and/or sample comparisons. A small report is also provided to the user, showing general quality metrics regarding the analyzed samples.
Bioinformatics applied to proteomic analysis
Our proteomics pipeline uses the best practices for the identification of know and new proteins. Our proprietary dataset of proteins comprehends almost all known alternative splicing variants without affecting the MS/MS search probabilities, and the results are extensively annotated using exclusive softwares we developed along the years (REFs do Splooce, Peer J e PV).
The results are presented using an innovative interface, called Proteogenomics Viewer (REF), which allows the inspection of each peptide and protein (see figures below). It indexes the sequences to the reference genome, making it easier to spot any kind of variation, such as those resulted from alternative splicing. Proteogenomics Viewer also provides links to external services, such as PFam, which allows the analysis of functional domains, useful for a better data interpretation. A small report is also provided, showing general quality metrics regarding the analyzed samples.
High-performance computing applied to bioinformatics
Development of customized bioinformatics pipelines
In-silico analysis for rational drug design
Parent and molecular markers analysis for genetic enhancement
Development of computational protocols to analyze biological data
Although BioME does not provide sequencing services, we have a strong interaction with teh genomics core facility of UFRN. For more details, please se the text below.