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Leaders in Genome Analysis and Services
Informatics Leader
ERGO is a leading informatics platform that is the basis for major ground-breaking research.
Expert Scientists
Our scientists have decades of experience in biology and computer science with published results.
Trusted by Industry
Our scientists have worked with leading institutions and Fortune 500 companies from several industries.
Genomic Services
Igenbio has a proven track record of delivering scientific results for academic, governmental, and industrial institutions for two decades.
Our expert science team delivers high-quality whole genome sequencing services tailored to your project.
Illumina, PacBio, Hi-C, and Oxford Nanopore
Multiple Coverage Options (30x, 60x, >100x)
Fast Turnaround
CLIA-compliant available
From pellet to plot Igenbio scientists are experts at providing everything your organization needs to get solid scientific results from your expression studies. Our scientists are experienced in experiment design, sequencing, and providing rich analytics for your RNA-Seq, microarray, and other expression studies.
Experimental design
RNA extraction
High-quality Sequencing (PacBio, Illumina, & Nanopore)
Bioinformatics Analysis
Interactive visualizations and statistical analysis through ERGO
A high-quality assembly and accurate functional annotations must be the heart of any major genomics project. Our methods have been featured in dozens of peer-reviewed publications and are depended upon by institutions worldwide.
Assembly services for any genome including Viral, Prokaryotic, Eukaryotic, haploid, diploid or polyploid.
Annotation services for any organism including Prokaryotic, Fungal, Animals, and Plants.
All current sequencing technologies support - Illumina, PacBio, Oxford Nanopore, 10x, Hi-C, Ion Torrent, and others.
Igenbio scientists utilize a multitude of assembly strategies - denovo, reference based, hybrid, metagenomic, and others.
Gene Annotation and Functional Assignments placing genes into their functional or metabolic context utilizing KEGG Pathways, Gene Ontology, and the ERGO database.
Identification of Antibiotic Resistance - including the genes, pathways, and specific drugs
Learn more about our genome assembly and annotation services ▸
Utilizing ERGO™'s powerful analytical tools Igenbio can deduce the metabolic reconstruction of the core functionality of your organism from genome sequence data.
Consult with Igenbio scientists on creating the analysis pipelines your organization needs. We have decades of experience in designing and maintaining genomics and bioinformatics pipelines that deliver results
Learn more about our custom genomic and bioinformatics solutions ▸
Igenbio scientists are experts at growth media design for fastidious organism or slow growing strains of commercially important microorganisms. These “difficult-to-grow” microbes when sequenced and annotated by ERGO allow identification of metabolic pathways and their reactions facilitating a growth media design at the scale and efficiency needed for research or product development.
Igenbio, Inc. is a world leader in microbial metabolic engineering. Successful projects include creating and optimizing microbial production of lysine, riboflavin, coenzyme Q-10, aminoshikimate, and beta carotene. Igenbio scientists are also experts in mining the ERGO™ database for novel pathways and mechanisms that can be exploited in proprietary projects.
Our expert science team is experienced in performing Variant Analysis for all sorts of genomes from microbial to humans.
Our services provide:
• Variant identification such as: Single Nucleotide Polymorphisms (SNPs), Insertions & Deletions (INDELs), Structural Variants (SV) and others.
• Analysis performed utilizing academically proven software such a samtools, bcftools, snpEff, GATK, and others.
• Variant analysis by pathways database such as ERGO, KEGG, and Gene Ontology Terms.
We also offer interactive variant impact and analysis through our bioinformatics platform, ERGO.
Igenbio has provided support for both European Food Safety Authority (EFSA) and Food and Drug Administration (FDA) regulatory filing of Generally Recognized as Safe (GRAS) organisms, including:
• Whole Genome Sequencing using both long and short read platforms available such as Illumina, PacBio, and Oxford Nanopore.
• Genome Assembly to EFSA and FDA completion standards.
• Genome annotation including identification of Antimicrobial Resistance Genes (ARGs), Virulence factors, plasmids, phage/prophage, toxins, and more.
• Identification of strain uniqueness compared to other strains.
• Results are delivered in EFSA or FDA formatted report ready for regulatory filing.
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Easily analyze your metagenome projects using ERGO by dragging and dropping your BIOM file into ERGO. Compute the Principal Coordinates Analysis (PCoA), Richness Estimates, and Taxonomic Bar Charts at a click of a button. In addition, ERGO computes Analysis of Similarities (ANOSIM) to test the significance of group differences.
Simple, Fast, and Secure sequence analysis.
ERGO Workflows could not be easier - simply drag and drop your sequence files into ERGO and start your analyzing. There is no simpler way to perform RNA-Seq and Variant analysis.
Learn more about how ERGO Workflows can power your research needs.
Visualize genomes by functional systems or subsystems and understand the distribution of metabolic and non-metabolic pathways. Powerful visualizations facilitate not only genome sequence comparison but also metabolic comparison for greater understanding of genome plasticity, gene displacement and orthologous displacements.
Integrate your expression data with ERGO to Identify differentially expressed genes from RNA-Seq, cDNA, EST, Microarray, and other expression studies. ERGO automatically performs statistical analysis presenting the differentially expressed genes in their metabolic context. Visualize your expression data on KEGG pathway maps. No knowledge of statistical techniques or tools are necessary.
Learn more about RNA-Seq and Expression Analytics in ERGO 2.0
Explore the variation between your strains. ERGO identifies and annotates Single Nucleotide Polymorphisms (SNPs), Insertions, and Deletions (InDels). Quickly discover ablated transcripts, frameshifts, start/stop codon loss, and more.
Read more about Variant detection, annotation, and analysis in ERGO.
ERGO's incredible proprietary database and toolset is now available via a REST API. Easily integrate ERGO with your existing tools and infrastructure.
ERGO is the premier annotation platform, providing scientists and researchers with deep insight into their strains. Using a combination of proprietary algorithms, sequence similarity, gene context clustering, regulatory and expression data ERGO can deduce the core functionality of prokaryotic and eukaryotic genomes.
ERGO 2.0 deduces the core metabolic functionality of a whole organism from genome sequence data. This enables scientists to accelerate their research for strain improvement, optimization, and product development.
News & Updates
Several different software packages such as DADA2, Deblur, and UNOISE use an error-correction technique that is applied to the sequenced amplicon (usually 16S, 18S, or ITS) reads. This ‘denoising’ step is used to increase correct taxonomic assignment of the sequenced amplicons.
We’ve added to ERGO’s rich suite of tools and workflows for 16S amplicon sequencing studies to include functional metagenome prediction utilizing Picrust2.
Do the differences you see on the ordination plot represent a significant difference? This is one of the key questions researchers ask themselves. One way to determine significance is permutational multivariate analysis of variance (PERMANOVA), a statistical test commonly used in ecology settings [1]. ERGO uses the 'adonis' function in the R package vegan which provides functions for the analysis of ecology [2].
Non-metric dimensional scaling attempts to closely represent pairwise dissimilarity between samples. It is a robust unconstrained ordination method that uses rank orders commonly used in ecology studies. Unlike many other ordination techniques NMDS iterates to find a solution that fits with an optimal stress value to the number of chosen dimensions. ERGO gives you a simple interface to choose the number of attempts, dimensions, along with an option to specify a previous best stress.
Data mining and visualization just got easier in ERGO’s newest microbiome analysis update.
We’ve added to ERGO’s rich visualizations with a new plot type: the violin plot. A violin plot is a way to visualize an underlying distribution of values (in our case, log fold change). Similar in utility to a box plot, a violin plot has a few advantages. Instead of just representing the median, quartiles, minimum and maximum, a violin plot uses a kernel density estimation algorithm to visualize the distribution of underlying points.
Igenbio scientists provide expert sequencing and analysis of microbial communities from both cultivable and non-cultivable microbes.
Services Include:
RNA/DNA extraction from environmental and clinical samples
Amplicon (16S rRNA, ITS, & Custom)
Whole metagenome shotgun sequencing
Metatranscriptomics
Bioinformatics & Statistical Analysis
Learn more about our Metagenomics Services ▸