SERVICES
ABiL scientists work collaboratively with partners from government, academic, non-profit, and industry sectors to provide custom-designed and turn-key bioinformatics solutions for a variety of data analysis challenges. Our services include end-to-end project management including conception, planning and execution.
Omics Analysis
Analysis tools for mass spectrometry proteomics data, including spectra-to-peptide mapping, protein quantification and differential expression analysis along with biomarker development.
Integrated suites of sequence analysis tools for the detection and characterization of microbial pathogen sequence reads from clinical samples.
Techniques for the comparison of normal and cancer samples, within and among patient cohorts, for the identification of causative mutations and potential druggable targets.
Methods for the detection and characterization of rare, penetrant and highly deleterious mutations that cause Mendelian and syndromic disease.
Analytical methods for the large scale comparison of genome sequences between case-control cohorts for the detection of mutations implicated in common diseases/conditions.
Microarray and RNA-seq based analysis methods – including quantification, normalization and differential expression – for high-throughput gene expression studies.
Analysis tools for mass spectrometry proteomics data, including spectra-to-peptide mapping, protein quantification and differential expression analysis along with biomarker development.
Methods for the analysis of DNA-methylation, nucleosome mapping and histone modification data including peak calling, modification clustering, chromatin state determination and combinatoric histone modification pattern analysis. Network- and enrichment-based techniques for evaluating the functional affinities of gene/protein sets of interest identified in transcriptomic, proteomic or epigenomic studies as well as tools for genome-wide co-locating sequence and functional features.
Molecular Typing
Sequence-based techniques for the temporal and geospatial surveillance of microbial pathogens and outbreak analysis.
Automated suite of tools for the analysis of MLST data from a wide variety of bacterial pathogens.
Development and application of multi-scale methods for typing microbial pathogens, e.g. SNP-typing, k-mer based approaches, multi-locus typing, average nucleotide identity and whole genome comparisons.
Annotation and comparison of whole genome sequences for the development of novel SNP- or gene-based typing schemes at different levels of resolution.
Comparison and multi-dimensional clustering of whole genome sequences to infer the genetic basis of clinically relevant phenotypes.
Candidate gene-based and genome-wide approaches to inferring the genetic basis of antibiotic resistance for a wide variety of chemotherapeutics and species.
A wide variety of computational techniques for the comparison of whole genome sequences, within and between species, for the interrogation of specific biological questions.
Numerous software packages for making inferences about the action of evolutionary forces on gene/protein sequences along with tools for inferring evolutionary relationships among sequences.
Big Data & Analytics
Processing, analysis and interpretation of NGS data from a variety of sequencing platforms (Illumina, PacBio, Ion Torrent/Proton and Roche 454) including Hierarchical Genome Assembly Process (HGAP) analysis.
Creation of species- or system-specific genome browsers and/or data repositories along with the web-services tools used to access, query and modify the data.
Access to the HPC software and hardware infrastructure needed for big data management and analysis.
Development and application of machine learning and data mining algorithms for the modeling, classification and prediction of high-dimensional data.
Expertise in a wide variety of statistical techniques and experimental design methods for bioinformatics and genomics studies.