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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
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Analysis tools for mass spectrometry proteomics data, including spectra-to-peptide mapping, protein quantification and differential expression analysis along with biomarker development.
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Integrated suites of sequence analysis tools for the detection and characterization of microbial pathogen sequence reads from clinical samples.
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Techniques for the comparison of normal and cancer samples, within and among patient cohorts, for the identification of causative mutations and potential druggable targets.
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Methods for the detection and characterization of rare, penetrant and highly deleterious mutations that cause Mendelian and syndromic disease.
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Analytical methods for the large scale comparison of genome sequences between case-control cohorts for the detection of mutations implicated in common diseases/conditions.
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Microarray and RNA-seq based analysis methods – including quantification, normalization and differential expression – for high-throughput gene expression studies.
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Analysis tools for mass spectrometry proteomics data, including spectra-to-peptide mapping, protein quantification and differential expression analysis along with biomarker development.
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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
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Sequence-based techniques for the temporal and geospatial surveillance of microbial pathogens and outbreak analysis.
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Automated suite of tools for the analysis of MLST data from a wide variety of bacterial pathogens.
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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.
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Annotation and comparison of whole genome sequences for the development of novel SNP- or gene-based typing schemes at different levels of resolution.
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Comparison and multi-dimensional clustering of whole genome sequences to infer the genetic basis of clinically relevant phenotypes.
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Candidate gene-based and genome-wide approaches to inferring the genetic basis of antibiotic resistance for a wide variety of chemotherapeutics and species.
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A wide variety of computational techniques for the comparison of whole genome sequences, within and between species, for the interrogation of specific biological questions.
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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
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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.
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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.
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Access to the HPC software and hardware infrastructure needed for big data management and analysis.
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Development and application of machine learning and data mining algorithms for the modeling, classification and prediction of high-dimensional data.
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Expertise in a wide variety of statistical techniques and experimental design methods for bioinformatics and genomics studies.
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