Bioinformatics

RAPiD Genomics has extensive expertise in bioinformatic and quantitative genetic analyses.

 

A team of dedicated bioinformaticians are available to assist with:

- Designing your new project

- Planning your experiment

- Analyzing your data.

Wherever your data came from, perform your analysis with RAPiD Genomics!

Data Analysis

• Bioinformatics Services

• RNA-seq Analyses
• Variant Calling
• Transcriptome Assembly
• Genome Assembly
• ChIP-Seq
• Bisulfite-Seq

• Genetic Analyses

• Genetic Mapping
• QTL Analysis
• Genomic Selection
• Association studies
• Matte-pair allocation
• Prediction of hybrid values
• Prediction of genetic gains
• Heritability estimation
• Breeding Values estimation
• Estimation of GxE and genetic correlations

Transcriptome Assembly

• Quality assessment.
• Trimming of low quality and sequencing adapters.
• De novo assembly.
• Reference genome guided assembly.
• Hybrid assembly of transcritptome sequences from multiple sequencing platforms like Sanger, 454, Illumina, etc.
• Alternative splicing identification and characterization.
• Functional annotation of assembled transcripts.
• Comprehensive report containing analyses summary which includes metric tables, and figures.

Genome Assembly

• Quality assessment.
• Trimming of low quality and sequencing adapters.
• De novo assembly.
• Reference guided genome assembly for genome re-sequencing projects.
• Hybrid assembly of genomic sequences from multiple sequencing platforms like Sanger, 454, Illumina, etc.
• Integration of long insert paired-end data, physical maps, genetic maps, optical maps, etc. for genome assembly super-scaffolding.
• Genome annotation.
• Comprehensive report containing analyses summary which includes metric tables, and figures.

RNA-Seq Analysis

• Quality assessment.
• Trimming of low quality and sequencing adapters.
• Sequence mapping to reference genome or transcriptome.
• De novo or reference guided transcriptome assembly.
• Identification of novel genes, and isoforms, and their functional annotation.
• Differential expression of genes and isoforms.
• Differential splicing, promoter usage, and CDS analysis.
• Differential expression of alternative splicing events.
• SNP detection (RNA editing).
• Alternative splicing identification and characterization.
• Comprehensive report containing analyses summary which includes publishable quality metric tables, and figures.

Variant Calling

• Quality assessment.
• Trimming of low quality and sequencing adapters.
• Sequence mapping to reference genome or transcriptome.
• SNP, InDel, and CNV discovery.
• Comprehensive report containing analyses summary which includes metric tables, and figures.

Bisulfite-Seq Analysis

• Quality assessment.
• Trimming of low quality and sequencing adapters.
• Bisulfite sequence mapping to reference genome.
• Identify Methylome profile.
• Discover hypo and hyper methylated regions.
• Differential methylation analyses.
• Comprehensive report containing analyses summary which includes metric tables, and figures.

ChIP-Seq and HITS-CLIP

• Quality assessment.
• Trimming of low quality and sequencing adapters.
• Sequence mapping to reference genome.
• Annotation of peaks.
• Motif identification and functional analyses.
• Comprehensive report containing analyses summary which includes metric tables, and figures.

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