Bioinformatics
Expert bioinformaticians analyze NGS data to maximize your project’s potential
NGS Data Analysis Services
Admera Health expert team with extensive experience empowers researchers with informative results with ready to review reports along with expert support. Admera Health’s accomplished bioinformaticians provide comprehensive support and customized solutions to enhance the effectiveness of our clients’ research.
Genomic Analysis
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Standard Analysis:
QC, Alignment, Duplicate Marking, Germline/Somatic Variant Detection and Functional Annotation
Optional Analysis:
Structural Variation and CNV detection
Low Pass WGS Imputation and genotyping
Tumor Fraction estimation in cell-free DNA
Host-Vector Insertion detection
PDX read cleaning
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Standard Analysis:
QC, De novo Assembly, Assembly Stats
Optional Analysis: For Bacterial Isolates Only
Taxonomy assignment, MLST, Antimicrobial resistance analysis
Pangenome analysis
Plasmid replicons screening
Serotyping (only for Escherichia and Salmonella)
fimH-Typing (only for Escherichia)
Subtyping (only for Klebsiella)
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Standard Analysis:
QC, Alignment, Duplicate Marking, Germline/Somatic Variant Detection and Functional Annotation
Optional Analysis:
Somatic Structural Variation and CNV detection
Tumor Mutation Burden (TMB) Estimates
HLA Typing
Microsatellite Instability (MSI) prediction
Neoantigen Prediction
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See Whole Exome Sequencing - WES (Hybrid Capture)
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Standard Germline Sample Anayses: Assembly Stats, Contig, Scaffolds, Intermediate files
Taxonomy assignment using The Genome Taxonomy Database (GTDB) (for microbiome only)
Scaffolds Annotation (For Genome < 10MB Only)
Other/Additional Customized Analysis
Transcriptomic Analysis
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Standard Analysis:
QC, Alignment, Gene Feature counts & Normalization
Optional Analysis:
Differential Expression Analysis
GO Enrichment & KEGG Analysis
ANNOVA Analysis
Alternative Splicing Events detection
Interaction Network Analysis
RNA Variant detection
RNAs Structures and Shapemapper Signatures analysis
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QC and trim adaptors
Mirdeep2 miRNA analysis and DE downstream analysis
COMPOSA miRNA, circRNA, snoRNA, piRNA, snRNA and tRNA quantification and DE downstream analysis
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Standard Analysis:
QC, read correction, unfixable read cleaning, Trim & Remove Overrepresented sequences, Assembly and Annotation
Optional Analysis:
Trinity assembly
Assembled transcription annotation
RSEM Analysis
DE Analysis
GO Enrichment Analysis
Epigenomic
Analysis
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Standard Analysis:
QC, Read Trimming, Alignment, Duplicate Removal (WGBS Only), Extract Methylation (CX report)
Optional Analysis:
Differential Methylation Analysis (CpG and Non-CpG)
DE gene annotation
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Standard Analysis:
QC, Read Trimming, Alignment, Duplicate Removal (WGBS Only), Extract Methylation (CX report)
Optional Analysis:
Differential Methylation Analysis (CpG and Non-CpG)
DE gene annotation
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Standard Analysis:
QC, Alignment, Duplicate Removal (WGBS), Extract Methylation (CX report)
Optional Analysis:
Differential Methylation Analysis (CpG and Non-CpG)
DE gene annotation
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Standard Analysis:
QC, Alignment, Duplicate Removal, MT reads Filtering, IQR Plots
Optional Analysis:
Peak Detections, TSS annotations and Peak enrichment analysis
Differential Binding Analysis
DB annotation
GO Enrichment and KEGG Analysis
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Standard Analysis:
QC, Alignment, Sample Correlation, Peak Detection
Optional Analysis:
Differential Binding Analysis
DB annotation
GO Enrichment and KEGG Analysis
Motif Analysis
Aggregated Density Profile Analysis
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Standard Analysis:
QC, Alignment, Spike-in Normalization, Sample Correlation, Peak Detection
Optional Analysis:
De novo Motif Identification and Motif Foot printing
Differential Binding Analysis
DB annotation
GO Enrichment and KEGG Analysis
Aggregated Density Profile Analysis
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Standard Analysis:
QC, Alignment (Juicer), Contact statistics, Contact domains
Optional Analysis:
Chromatin Loop Detection and Scaffolding analysis
Single-Cell Analysis
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Standard Cellranger Analysis: QC, Mapping, Cluster t-SNE projections, Cluster stats
Optional Analysis:
Violin plots for number of genes, UMIs, and %Mito of each cell
Single Cell vs VDJ Analysis
Cell type Analysis of Marker Genes (Dot plots, Count table, Bar Plots, t-SNE/UMAP Annotation),
GO Enrichment and KEGG Analysis
Pseudotime Analysis
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VDJ Standard Analysis:
VDJ enrichment, expression, and annotation
VDJ Optional Analysis:
Top 10 clonotype frequency and CDR3 sequences detection
VDJ Clonotypes Diversity (Bar Plots of segments vs. CDR3 length & clono-types vs. CDR3 length),
VDJ Clonotypes Overlapping (Heatmap of overlapping variable region & CDR3)
Single Cell vs VDJ Overlapping (T/B cells, Fraction Table and Barplots of TSNE/UMAP cluster with VDJ)
Cell type Analysis of Marker Genes (Dot plots, Count table, Bar Plots, t-SNE/UMAP Annotation)
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Standard Cellranger Analysis:
QC, Filtering, Barcode Counting, transposase cut size detection accessible chromatin peaks detection, cell calling, count matrix generation , dimensionality reduction, cell clustering, and cluster differential accessibility
Microbiome Analysis
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Standard Analysis:
Qiime QC, Taxonomy & Feature/OTU Tables
Optional Analysis:
Feature/OTU Heatmap & Bar plots
Alpha Diversity Analysis (Diversity indices, Rarefaction curve, Rank-abundance plot)
Beta Diversity Analysis (Distance matrix, PCA plot, UPGMA tree)
Differential Analysis (Differential heat tree, ANOSIM analysis, Meta stats analysis)
Sample Pathway Abundance prediction
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Standard Analysis: Qiime QC, Taxonomy & Feature/OTU Tables
Optional Analysis:
Feature/OTU Heatmap & Bar plots
Alpha Diversity Analysis (Diversity indices, Rarefaction curve, Rank-abundance plot)
Beta Diversity Analysis (Distance matrix, PCA plot, UPGMA tree)
Differential Analysis (Differential heat tree, ANOSIM analysis, Meta stats analysis)
Sample Pathway Abundance prediction
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Standard Analysis:
Qiime QC, Taxonomy & Feature/OTU Tables
Optional Analysis:
Feature/OTU Heatmap & Bar plots
Alpha Diversity Analysis (Diversity indices, Rarefaction curve, Rank-abundance plot)
Beta Diversity Analysis (Distance matrix, PCA plot, UPGMA tree)
Differential Analysis (Differential heat tree, ANOSIM analysis, Meta stats analysis)
Sample Pathway Abundance prediction
De novo assembly, Gene prediction and Functional annotation (Metagenomic only)
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Standard Analysis:
QC, Trimming, Alignment, rRNA sequence separation
Optional Analysis:
Taxonomy Assignment/Genus identification
Community Profiling
Diversity Analysis
Functional Annotation (KEGG)
Customized Analysis
We would love to hear about your research so our expert team of scientists can build a pipeline to meet your requirements.
Advantages of Working with Admera Health
Mature Pipelines
Carefully curated pipelines deliver reliable data in industry-leading turnaround times
Expert Scientific Support
Experienced team with mature pipelines and customizable workflows
Proven Quality Service
Technical support during analysis and after data analysis results are delivered
