Whole Genome de novo Assembly


De novo whole genome analysis involves analyzing data from a genome that has been sequenced for the first time, and assembling it without any reference. Assembling typically begins with a series of short sequencing reads that are joined together to form contigs by an assembler. These contigs are joined together to form a scaffold. When analyzing a de novo genome, no map is available to guide the assembly. The four basic steps to assembly include:

1) preprocessing filtering - detecting and correcting erroneous reads before the assembly can begin

2) a graph construction process - organizes short read sequences into a compact form to create longer reads during assembly

3) graph simplification - reduction of graph nodes and edges

4) post processing filtering - contig building and extending contigs into scaffolds

Providers offering Whole Genome de novo Assembly (found 20)

DNA Link Inc.

NGS provider United States of America 26 years in service Whole Genome de novo Assembly: Inquire
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DNA Link was founded in 2000. In the beginning, we offered genome analysis for Universities and Government Institutes supporting a lot of joint research projects. Later we became involved in larger research projects funded by the government and expanded our market to all research, Biotech, Pharmaceutical, foreign institutes and companies. Based on our 20 year-experiences, DNA Link provides options and services in Next generation sequencing, Genotyping, Microarray, Forensics and also personal genomics. Our expertise in research on SNP discovery has lead DNA Link to develop novel personal identification systems called AccuID. DNALink USA, Inc, is based in Los Angeles, CA

Years in service: 26

Bioinformatics services offered by DNA Link Inc.:

Service Description Price
ChIP-Seq Analysis 1. Basic bioinformatics analysis  Sequencing Summary  Alignment Summary  List of peak positions identified by ChIP-seq tools  Input data is transformed into applicable bam or wig format, as needed for visualization by commonly used genome browsers (e.g. IGV or UCSC Genome Browser) 2. Advanced bioinformatics analysis (optional)  Medip  Peak analyzer  Customized Analysis(Client… Inquire
Exome Analysis 1. Basic bioinformatics analysis: Analysis using GATK(2.7) best practices guideline  Sequencing Summary Alignment Summary Depth Coverage Plot Genotype Calling and SNP detection Germline & Somatic Variant Summary and Annotation ○ Prediction Amino acid substitution and risk score(SIFT, PolyPhen, Phylop, mutationTaster and so on) ○ Frequency estimation using 1000genome and ESP4500 2.… Inquire
Genome Mapping 1. Basic bioinformatics analysis  Analysis using GATK(2.7) best practices guideline  Sequencing Summary  Alignment Summary  Depth Coverage Plot  Genotype Calling and SNP detection  Germline & Somatic Variant Summary and Annotation ○ Prediction Amino acid substitution and risk score(SIFT, PolyPhen, Phylop, mutationTaster and so on) ○ Frequency estimation using 1000genome and ESP450… Inquire
Methylation Analysis 1. Basic bioinformatics analysis  Sequencing Summary  Alignment Summary  List of peak positions identified by ChIP-seq tools  Input data is transformed into applicable bam or wig format, as needed for visualization by commonly used genome browsers (e.g. IGV or UCSC Genome Browser) 2. Advanced bioinformatics analysis (optional)  Medip  Peak analyzer  Customized Analysis(Cli… Inquire
Small RNA Mapping 1. Basic bioinformatics analysis  Sequencing Summary  Alignment Summary  Visualization plot o Density plot, Box plot, GSEA, Scatter plot, Volcano plot 2. Advanced bioinformatics analysis (optional)  Target scan Analysis (limited to specific species)  Pathway Analysis  Customized Analysis(Client Support) Inquire
Targeted Capture Analysis  Analysis using GATK(2.7) best practices guideline  Sequencing Summary  Alignment Summary  Depth Coverage Plot  Genotype Calling and SNP detection  Variant Summary and Annotation ○ Prediction Amino acid substitution and risk score(SIFT, PolyPhen, Phylop, mutationTaster and so on) ○ Frequency estimation using 1000genome and ESP4500 2. Advanced bioinformatics analysis (optional)… Inquire
Transcriptome Mapping 1. Basic bioinformatics analysis  Sequencing Summary  Alignment Summary  Summarizing plots o Density plot, Box plot, GSEA, Scatter plot, Volcano plot  List of genes expressed differentially between given classes  List of transcripts expressed differentially between given classes  Pathway analysis using DAVID 2. Advanced bioinformatics analysis (optional)  Fusion gene analysi… Inquire
Whole Genome de novo Assembly  Sequencing Summary  Pre-Assemble ( Error correction )  De novo Assembly ( contig, scaffold )  Consensus Polishing  Gene prediction ( need RNA-seq data for Eukaryotes )  Genome plot 2. Advanced bioinformatics analysis (optional)  De novo Assembly ( contig, scaffold )  Gene Annotation ( Gene Ontology )  Customized Analysis (Client Support) Inquire

VIB Nucleomics Core

NGS provider Belgium 26 years in service Whole Genome de novo Assembly: $75.00 USD (per hour)
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VIB Nucleomics Core started off in 1999 as the VIB MicroArray Facility (MAF), a service facility to provide expert services in expression analysis. In the early days, in-house developed and spotted arrays were used in addition to arrays from commercial providers. With commercial providers improving on array quality and offering custom array content, the microarray facility stopped producing its own arrays in 2008. It was decided to broaden the spectrum of platform technologies offered to the life science community. Since then the facility is offering expert services in nCounter technology and sequencing. To reflect this expanded portfolio, the microarray facility was renamed to VIB Nucleomics Core, reflecting the (bioinformatic) analysis of both RNA and DNA. The latest addition to the portfolio of technologies offered is genome mapping from BioNano Genomics.

Years in service: 26

Bioinformatics services offered by VIB Nucleomics Core:

Service Description Price
Base Calling $75.00 USD (per hour)
Differential Gene Expression Analysis $75.00 USD (per hour)
Genome Mapping $75.00 USD (per hour)
Read Filtering and Cleaning $75.00 USD (per hour)
Small RNA Mapping $75.00 USD (per hour)
Targeted Capture Analysis includes PCR based enrichment $75.00 USD (per hour)
Transcriptome Mapping $75.00 USD (per hour)
Whole Genome de novo Assembly $75.00 USD (per hour)

Igenbio, Inc.

United States of America 13 years in service Whole Genome de novo Assembly: Inquire
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Expertise:

Igenbio, Inc. develops genome analysis products and services for the life science industry. Our scientists have broad experience in both in silico and wet lab sequencing, research and development with more than 100 relevant publications in these areas. Igenbio has a proven track record of delivering scientific results for academic, governmental, and industrial institutions for two decades.

Our expertise includes, but is not limited to:

  • Whole Genome Sequencing
  • RNA-Sequencing
  • Metatranscriptomics Sequencing
  • Metagenome Sequencing
  • Common and custom amplicon sequencing
  • Genome Assembly & Annotation
  • RNA-Seq Analysis
  • Amplicon Sequencing Analysis
  • Metagenome Analysis
  • Genome ORF calling: Eukaryotes and Prokaryote Genomes
  • Pathway Analysis
  • Metabolic Reconstruction
  • SNP Discovery & Analysis
  • Comparative Genomics
  • Available for all organisms, including humans, animals, plants, bacteria, and viruses.
  • Haploid, diploid or polyploid assemblies

Infrastructure:

Igenbio has a large, secure cloud infrastructure that can expand to meet any project demands you may have - from large number of samples to quick turnaround times. Please inquire for more information.

At Igenbio, Inc. security of your data is a top priority. Your data is protected by best practices in physical and data security measures. This includes 24/7 physical security and monitoring, and the best available encryption for storage and transmission. Our employees are trained and knowledgeable in data security best practices.

Years in service: 13

Bioinformatics services offered by Igenbio, Inc.:

Service Description Price
Base Calling Inquire
Comparative Genome Analysis Inquire
Differential Gene Expression Analysis Inquire
Genome Annotation Gene Annotation and Functional Assignments placing genes into their functional or metabolic context utilizing KEGG Pathways, Gene Ontology, and the ERGO database. Optional - Identification of Antibiotic Resistance - including the genes, pathways, and specific drugs Inquire
Metagenomic Analysis - Quality analytics of sequence reads - State of the art sample processing using academically-proven tools such as DADA2 and Kraken2 that work on all sequencing platforms such as Illumina & Pacific Biosciences. - Fast and accurate taxa identification using state-of-the-art machine learning algorithms that can identify taxa down to the species level. - Supports public databases (such as Silva,… Inquire
Microbiome Analysis - Quality analytics of sequence reads - State of the art sample processing using academically-proven tools such as DADA2 or Kraken2 that work on all sequencing platforms such as Illumina & Pacific Biosciences. - Fast and accurate taxa identification using state-of-the-art machine learning algorithms that can identify taxa down to the species level. - Supports public databases (such as Silva, Gree… Inquire
SNP / Indel Calling Inquire
SNP/SV/CNV Discovery Inquire
Transcriptome Annotation Inquire
Transcriptome Annotation Inquire
Transcriptome de novo Assembly Inquire
Variant Annotation Inquire
Whole Genome de novo Assembly 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. Inquire

Bionivid Technology Private Limited

NGS provider India 15 years in service Whole Genome de novo Assembly: Inquire
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Whole Genome Sequencing, Transcriptome Sequencing (RNASEQ /miRNA), Metagenomics, Epigenomics, etc. to our credit; with 100+ co-authorship articles, highest in Indian industry. Recent past, we have also optimized multi-omics Single Cell Genomics solutions to cater to various research needs.

Years in service: 15

Bioinformatics services offered by Bionivid Technology Private Limited:

Service Description Price
Base Calling Inquire
ChIP-Seq Analysis Inquire
Comparative Genome Analysis Inquire
Custom scripting and special projects Inquire
Differential Gene Expression Analysis Inquire
Genome Annotation Inquire
Genome Mapping Inquire
Methylation Analysis Inquire
Read Filtering and Cleaning Inquire
Small RNA Annotation Inquire
Small RNA Mapping Inquire
SNP / Indel Calling Inquire
SNP / Indel Mapping Inquire
SNP/SV/CNV Discovery Inquire
Targeted Capture Analysis Inquire
Transcriptome Annotation Inquire
Transcriptome de novo Assembly Inquire
Transcriptome Mapping Inquire
Variant Annotation Inquire
Whole Genome de novo Assembly Inquire

Biosof LLC

United States of America Whole Genome de novo Assembly: Inquire
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Bioinformatics services offered by Biosof LLC:

Service Description Price
Comparative Genome Analysis Inquire
Custom scripting and special projects Inquire
Differential Gene Expression Analysis Inquire
Genome Annotation Inquire
Genome Mapping Inquire
Read Filtering and Cleaning Inquire
SNP / Indel Calling Inquire
SNP / Indel Mapping Inquire
SNP/SV/CNV Discovery Inquire
Transcriptome Annotation Inquire
Transcriptome de novo Assembly Inquire
Variant Annotation Inquire
Whole Genome de novo Assembly Inquire

Gringene Bioinformatics

New Zealand Whole Genome de novo Assembly: Inquire
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Bioinformatics services offered by Gringene Bioinformatics:

Service Description Price
Custom scripting and special projects Inquire
Differential Gene Expression Analysis Inquire
Genome Mapping Inquire
Other Services Inquire
Transcriptome de novo Assembly Inquire
Transcriptome Mapping Inquire
Whole Genome de novo Assembly Inquire

STAB VIDA

NGS provider Portugal 13 years in service Whole Genome de novo Assembly: $100.00 USD (per sample)
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Bioinformatics services offered by STAB VIDA:

Service Description Price
Differential Gene Expression Analysis Deliverables include the raw data fastq seq files, transcriptome mapping, gene expression analysis and a report (including Q score, number of reads, coverage, etc) $100.00 USD (per sample)
Genome Mapping Deliverables include the raw data fastq seq files, consensus sequence and a report (including Q score, number of reads, coverage, etc) $100.00 USD (per sample)
SNP / Indel Mapping Deliverables include the raw data fastq seq files, consensus sequence, list of genetic variants and a report (including Q score, number of reads, coverage, etc) $100.00 USD (per sample)
Whole Genome de novo Assembly Deliverables include the raw data fastq seq files, list of contigs and a report with results (including Q score, number of reads, coverage etc) $100.00 USD (per sample)

Computomics

Germany 14 years in service Whole Genome de novo Assembly: Inquire
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Bioinformatics Services for Plant Scientists and Breeders by Computomics

At Computomics.com, we deliver in-depth NGS analyses. We start by identifying your breeding or research goals, devise a sequencing strategy to achieve them and define the project deliverables and timeline through an initial consultation. Our methods include the latest algorithms from the bioinformatics community.

We protect the security of your data. We use high-performance servers in a high-security data center with two-factor access control mechanisms. During the analysis, we use transparent, reliable processes and quickly deliver highly reproducible results in constant feedback with you, via virtual or onsite meetings at your location.

Our NGS products are exclusively focusing on plant species and their interacting microbes, and include: 

  • Reference genome assembly: experience with polyploids and genomes up to 22 Gbp
  • Genome annotation: ab initio gene and transcript isoform prediction, protein function, ncRNA annotation
  • Genomic variance analysis and comparison: for marker development, phylogenetic studies, and comparative genomics
  • Bulk segregation analysis, genotyping, marker development
  • Differential gene expression, de novo transcriptome assembly
  • World’s fastest, most accurate metagenomics
  • Statistically sound epigenetics
  • Genomic selection with continuous model improvement

Computomics collaborates with world-leading scientists, opening up an unprecedented opportunity for breeders and plant scientists. We provide data of the highest possible quality that expedite your crop improvement programs.

Years in service: 14

Bioinformatics services offered by Computomics:

Service Description Price
Comparative Genome Analysis We excel at managing complex crop genomic variance studies. Our analysis can help you obtain a set of genomic markers to enhance rational and controlled breeding procedures. Markers may include single nucleotide polymorphisms (SNPs), insertions and deletions (InDels), copy number variations (CNVs) or structural variants (SVs). Taking into account the properties of your plant of interest and the … Inquire
Differential Gene Expression Analysis Gene expression studies, or RNAseq allow you to sequence the entire transcriptome of a plant, and provide valuable applications in crop improvement programs We and our collaborators have published peer reviewed methods for accurate gene expression analysis. Our RNAseq analyses can determine exact gene expression levels including splice variants. Using machine learning techniques, we identify dif… Inquire
Genome Annotation We perform de novo genome annotation using the latest in silico predictive approaches and RNAseq reads. We offer two machine learning-based gene prediction methods that can be trained to recognise biological features in your crop’s genome. The resources we use to build an annotation map include existing annotations for related organisms, RNAseq data, and PacBio complete isoforms. We use all avai… Inquire
Metagenomic Analysis World’s Fastest, Most Accurate Metagenomics Plants interacts constantly with soil-borne microbes. These interactions vary from symbiotic to pathogenic. In a metagenomics study of the rhizosphere, DNA or RNA are sequenced using next generation sequencing instruments. Sequences that do not originate from the plant host are analysed to identify genes and species contained within the sample. A tax… Inquire
Methylation Analysis Statistically Sound Epigenetics Non-genetic factors affect crops traits and phenotypes. Identifying epigenetic patterns allow breeders and plant scientists to uncover expression correlations and non-genetically inherited gene regulation patterns. We specialize in crop epigenetics. Methylation of cytosine residues is a known mechanism for gene silencing and gene expression regulation. We use bi… Inquire
Other Services Bioinformatics Consulting In addition to our next-generation sequencing (NGS) products and services, We also offer individual consulting services. With a team of scientists and partners who are thought leaders in crop genomics, we give impartial advice, independent of any sequencing platform, technology or tool suite. Each consultation is unique, please contact us to receive a quote for your sp… Inquire
Other Services Introgression and Insertion Delineation Next-generation sequencing is a great tool for molecular characterisation of seeds with genetic modifications or introgressions. We can provide answers to many regulatory and safety related questions, such as: At how many sites was the DNA integrated into the plant genome? What is the exact sequence of each insert? Is the sequence rearranged with respect t… Inquire
Other Services Genomic Selection with Continuous Model Improvement Genomic Selection with Continuous Model Improvement Genomic selection is a highly successful strategy to predict breeding values in plants. Advances in sequencing and high-throughput variant discovery enable the collection of tens of thousands of markers for hundreds of plants, providing exciting opportunities for unleashing the full power of g… Inquire
Read Filtering and Cleaning Inquire
Whole Genome de novo Assembly We have a deep understanding of both de novo and reference-based genome assembly of large crop genomes. It is crucial to first develop an effective strategy before selecting the appropriate sequencing technology and bioinformatics tools. A de novo genome assembly project must address sources of error up front, like sequence bias and read quality. A crucial point is quality control. We compare o… Inquire

Girihlet Inc.

NGS provider United States of America 11 years in service Whole Genome de novo Assembly: $350.00 USD (per sample)
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We specialize in esoteric parts of the genome offering services (sample prep, sequencing and analyses) in areas such as 1) mitochondrial DNA sequencing, 2) TCR repertoire sequencing and 3) small RNA sequencing.

We also perform routine services such as 4) mRNA-seq and 5) whole-exome sequencing. We have prepared samples from mouse, human, drosophila, as well as organisms such as zebrafish and Bats. We have developed novel, custom analytical pipelines for data analysis from each species.

Years in service: 11

Bioinformatics services offered by Girihlet Inc.:

Service Description Price
Differential Gene Expression Analysis 1. Gene-level expression estimation (NCBI RefSeq gene set) with annotation for each sample. 2. Transcript-level expression estimation (NCBI RefSeq transcript set) with annotation for each sample. 3. Gene-level differential expression assessment with annotation for one pairwise comparison. 4. Transcript-level differential expression assessment with annotation for one pairwise comparison. 5. En… $225.00 USD (per sample)
Small RNA Mapping mapping and differential expression assessment with annotation for one pairwise comparison. $225.00 USD (per sample)
SNP / Indel Calling novel custom made pipelines (published) to call SNPs and INDEL effectively. $225.00 USD (per sample)
Whole Genome de novo Assembly $350.00 USD (per sample)

Labindia-GPOD

India 16 years in service Whole Genome de novo Assembly: $500.00 USD (per sample)
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We provide NGS data analysis services using public domain tools as well as CLC bio workbenches. Our services include primary, secondary and tertiary data analysis of NGs data from all platforms. Data analysis steps include read QC check, Assembly and metrics, Annotation, Variant detection, and annotation and biological interpretations. We also enter in to joint projects as industry partners.

Years in service: 16

Bioinformatics services offered by Labindia-GPOD:

Service Description Price
Exome Analysis Exome analysis at our facility is performed using CLC bio Cancer workbench which helps in find and annotate variants more accurately. $200.00 USD (per sample)
Genome Annotation We perform Genome annotation using BLAST and BLAST2Go tools. We have FPGA based local facility which speeds up the BLAST process $500.00 USD (per sample)
Genome Mapping We perform reference genome mapping using CLC bio Genomic recent version and also available public domain tools to benchmark the results. CLc bio has currently released faster genome mapper. We perform post assembly metrics to check correctness of reference assembly. $150.00 USD (per sample)
Transcriptome de novo Assembly Transcriptome de novo assembly and read map back is performed using CLC bio genomic workbench and other public domain tools. This analysis is followed by transcriptome annotation and tertiary analysis like pathaway findings. $500.00 USD (per sample)
Variant Annotation Variant annotation is performed using CLC bio Cancer Research Workbench. $600.00 USD (per sample)
Whole Genome de novo Assembly WGS de novo assembly is performed using latest version of the CLC bio Genomic Workbench and available public domain tools. End analysis helps to benchmark the results and robustness of the assembly. Post assembly metrics are performed to check the quality of the assembly $500.00 USD (per sample)

HybridStat Predictive Analytics

Greece 12 years in service Whole Genome de novo Assembly: $1000.00 USD (flat price)
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HybridStat is a company bringing together a team of highly qualified and motivated scientists and developers, whose expertise spans a variety of statistics and computer science domains. Main HybridStat’s services are centered on bioinformatics, biostatistics and analytics of high-throughput data derived from modern biological technologies such as Next Generation Sequencing (NGS), DNA microarrays and Mass Spectrometry. In addition, HybridStat offers customized software solutions regarding the above.

Regarding NGS, HybridStat offers a variety of one-stop shop data analysis and analytics services, spanning from genome alignments and preprocessing of raw short read fragments, up to analytical and specialized reports and figures describing the results of various NGS protocols including RNA-Seq (quality control, differential expression and splicing analysis, biochemical pathway enrichments etc.), ChIP-Seq (data normalization and peak calling, gene-binding site associations, methylation profiles, motif finding etc.), Whole Exome and Whole Genome Sequencing (data preprocessing, variant calling, filtering, annotation and interpretation, etc.) and Single Cell Sequencing data analysis, using both open source and optimized proprietary pipelines.

HybridStat, can also offer complete support to your organization through its advanced Whole Exome Sequencing analytics platform Clingon (www.clingon-mds.com). Clingon is a complete, integrated one-stop clinical genomics and medical decision support platform which performs data analysis from raw data up to the generation of clinical reports. It uniquely integrates and curates a handful of resources regarding gene-disease and gene product-drug associations as well as curated variant annotation data towards more timely and accurate results and the optimal design of personalized treatment plans.

Years in service: 12

Bioinformatics services offered by HybridStat Predictive Analytics:

Service Description Price
ChIP-Seq Analysis ChIP-Seq analysis includes alignment to the reference genome, quality control, enriched region (peak) calling and association of enriched regions with nearby genes. $100.00 USD (per sample)
ChIP-Seq Analysis ChIP-Seq analysis includes alignment to the reference genome, quality control, enriched region (peak) calling and association of enriched regions with nearby genes. $85.00 USD (per sample)
ChIP-Seq Analysis ChIP-Seq analysis includes alignment to the reference genome, quality control, enriched region (peak) calling and association of enriched regions with nearby genes. $70.00 USD (per sample)
Comparative Genome Analysis $60.00 USD (per hour)
Custom scripting and special projects $70.00 USD (per hour)
Differential Gene Expression Analysis A fully descriptive and interactive report is provided. $300.00 USD (flat price)
Exome Analysis Exome analysis includes quality control, alignment to the reference genome, alignment statistics, variant calling, variant annotation with our proprietary annotation pipeline which guarantees better results especially in indels and gene-disease association reports. $200.00 USD (per sample)
Exome Analysis Exome analysis includes quality control, alignment to the reference genome, alignment statistics, variant calling, variant annotation with our proprietary annotation pipeline which guarantees better results especially in indels and gene-disease association reports. $170.00 USD (per sample)
Exome Analysis Exome analysis includes quality control, alignment to the reference genome, alignment statistics, variant calling, variant annotation with our proprietary annotation pipeline which guarantees better results especially in indels and gene-disease association reports. $150.00 USD (per sample)
Genome Mapping $20.00 USD (per sample)
Genome Mapping $30.00 USD (per sample)
Genome Mapping $25.00 USD (per sample)
Other Services $70.00 USD (per hour)
Read Filtering and Cleaning $30.00 USD (per sample)
Read Filtering and Cleaning $20.00 USD (per sample)
Read Filtering and Cleaning $25.00 USD (per sample)
SNP / Indel Calling $40.00 USD (per sample)
SNP / Indel Calling $50.00 USD (per sample)
SNP / Indel Calling $45.00 USD (per sample)
SNP / Indel Mapping $30.00 USD (per sample)
SNP / Indel Mapping $40.00 USD (per sample)
SNP / Indel Mapping $25.00 USD (per sample)
Variant Annotation Variant annotation is performed with our proprietary annotation pipeline which guarantees better results especially in indels. $60.00 USD (per sample)
Variant Annotation Variant annotation is performed with our proprietary annotation pipeline which guarantees better results especially in indels. $50.00 USD (per sample)
Variant Annotation Variant annotation is performed with our proprietary annotation pipeline which guarantees better results especially in indels. $40.00 USD (per sample)
Whole Genome de novo Assembly $1000.00 USD (flat price)

Omega Bioservices

NGS provider United States of America 14 years in service Whole Genome de novo Assembly: $3315.00 USD (per sample)
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Our facility is unique because we offer the full range of NGS service from sample extraction through to data analysis. Sample extraction capabilities and expertise cover the entire spectrum of both environmental and clinical sample types.

Years in service: 14

Bioinformatics services offered by Omega Bioservices:

Service Description Price
Base Calling Demultiplex data and convert BCL files to FASTQ files $110.00 USD (per sample)
ChIP-Seq Analysis ChIP-Seq is a technique to identify DNA loci bound by a specific protein. The standard output of ChIP-seq analysis includes peak call and motif enrichment at binidng sites. $332.00 USD (per sample)
Custom scripting and special projects We provide study specific bioinformatics analysis (known as tertiary analysis). such as (not limited to) 1) process secondary sequencing data analysis for a variety of platforms such as Nanostring, Nanopore, single cell expression. 2) integrative analysis across sequencing platforms (such as DNA-seq, RNA-seq, Chip-seq) 3) integrate meta/clinical information, perform association study and build p… $60.00 USD (per hour)
Differential Gene Expression Analysis Custom bioinformatics for non-model organisms, or other unusual cases. Does not include setup fee. $110.00 USD (per sample)
Differential Gene Expression Analysis Identify differentially expressed genes among samples using RNA-seq technique. Human, mouse, rat, fruit fly, cattle, pig, chicken, zebrafish, C. elegans, maize, thale cress, Japonica rice (Oryza sativa) and yeast, up to 7.5gb/sample. $56.00 USD (per sample)
Exome Analysis Whole exome sequencing involves capturing the coding region of the genome, or exons (EXpressed regiONS). SNVs and indels are the most important and abundant types of variation in exons. Human exome analysis provided free of charge with sequencing service. $332.00 USD (per sample)
Genome Annotation Annotation is the process by which pertinent information about these raw DNA sequences is added to the genome databases. This involves describing different regions of the sequence and identifying which regions can be called genes. $221.00 USD (per sample)
Genome Mapping Genome mapping is a technique used to assign the location of a particular gene on a chromosome and measure their relative locations and distances between genes. Mapping to many model organisms provided free of charge with sequencing service. $110.00 USD (per sample)
Metagenomic Analysis Metagenomic analysis involves the identification and quantification of genetic material from environmental, uncultured microorganisms. Analysis involving only 16S rRNA amplicon sequences are provided free of charge with sequencing service. $551.00 USD (per sample)
Methylation Analysis The processing of bisulfite sequencing data includes sequence alignment and the quantification of absolute DNA methylation at base resolution. Methylation analysis for data generated from the Illumina TruSeq kit are provided free of charge with sequencing service. $553.00 USD (per sample)
Read Filtering and Cleaning Examination of sequencing quality and removal of low quality reads prior to downstream analysis provided free of charge with sequencing service if desired. $110.00 USD (per sample)
Small RNA Annotation Small RNA (miRNA, lincRNA, snoRNA, snRNA, tRNA) libraries will be mapped to the reference genome and annotated using public databases e.g. miRBase. $332.00 USD (per sample)
Small RNA Mapping Small RNA (miRNA, lincRNA, snoRNA, snRNA, tRNA) libraries will be mapped to the reference genome and annotated using public databases e.g. miRBase. $221.00 USD (per sample)
SNP / Indel Calling Identify SNPs and Indels in the region of interested, using DNA sequencing. Analysis for human, mouse, and rat provided free of charge with sequencing service. $332.00 USD (per sample)
SNP / Indel Mapping Mapped to the reference genome and annotated using public database. Analysis for human, mouse, and rat provided free of charge with sequencing service. $332.00 USD (per sample)
SNP/SV/CNV Discovery Variants discovery. Analysis for human, mouse, and rat provided free of charge with sequencing service. $332.00 USD (per sample)
Targeted Capture Analysis Variant call, gene annotation. Provided free of charge with sequencing service. $332.00 USD (per sample)
Transcriptome Annotation Annotate or predict functions of transcribed genes using well know gene ontology tools. $332.00 USD (per sample)
Transcriptome de novo Assembly Identify and quantify putative mRNA transcripts using RNA-seq data for unannotated species. $553.00 USD (per sample)
Transcriptome Mapping Map mRNAs to either the reference or the assembled genome. $332.00 USD (per sample)
Variant Annotation Identified variants will be mapped to the reference genome and annotated using public database. Analysis for human sequences provided free of charge with sequencing service. $332.00 USD (per sample)
Whole Genome de novo Assembly Prices vary according to genome type. Please contact our Science Project Team. Some small genome assembly provided free of charge with sequencing service. $3315.00 USD (per sample)

Minnesota Informatics

United States of America 15 years in service Whole Genome de novo Assembly: Inquire
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Minnesota Informatics specializes in the analysis of genomic and expression data for reference and non-reference species. We are experienced in the QC, mapping/assembly, quantification and evaluation of NGS data for RNA-Seq, SNP and Single Cell sequencing projects. We have worked with human and model mammal organisms as well as plant and bacterial genomes.

We distill the large NGS datasets down to manageble tables and graphics of significant, differentially expressed or variant genes/loci.

Years in service: 15

Bioinformatics services offered by Minnesota Informatics:

Service Description Price
ChIP-Seq Analysis Inquire
Differential Gene Expression Analysis Identify significant genes for RNA-seq or expression data. May be included with mapping projects and price will vary with project size. Inquire
Read Filtering and Cleaning QC analysis, trimming and low quality masking/removal. Inquire
SNP / Indel Calling Identify and qualify SNPs based on transcriptome or regions of interest. Pricing negotiable by project or by the sample. Inquire
SNP/SV/CNV Discovery Inquire
Transcriptome Annotation Inquire
Transcriptome de novo Assembly Inquire
Transcriptome Mapping Inquire
Whole Genome de novo Assembly Bid will vary with type and size of genome. Inquire

Arizona Genomics Institute

NGS provider United States of America 21 years in service Whole Genome de novo Assembly: Inquire
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The Arizona Genomics Institute (AGI) offers DNA extraction, sequencing, and bioinformatic analyses. AGI has a two-decade long experience with isolation and purification of high-molecular weight DNA from plants and many other organisms. Since 2015, AGI is a PacBio Certified Service Provider, and currently operates the Sequel IIe instrument. Since the beginning of the genomics era, AGI has been a leader in genome analyses (BAC libraries, WGS sequencing, physical mapping) to the plant research realm, being the major lead in the rice and maize genome sequencing projects. So far, AGI's Service Center has developed more than 800 projects. Most of them are whole-genome shotgun sequencing projects, but a relevant part consists in Iso-Seq and amplicon sequencing projects. AGI has extensive experience in extracting high-molecular weight, highly-pure DNA for any sequencing application, from difficult plant, fungal, and metagenomic samples.

Years in service: 21

Bioinformatics services offered by Arizona Genomics Institute:

Service Description Price
Genome Annotation inquire for details Inquire
Whole Genome de novo Assembly inquire for details Inquire

Genotypic Technology

NGS provider India 28 years in service Whole Genome de novo Assembly: $2900.00 USD (per sample)
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Genotypic Technology is the first genomics company based in India with a state-of-the-art, ISO 9001:2008 accredited, SAP-enabled, 12,000 square feet facility in Bangalore. Our high-throughput facility enables us to offer customized services for experiment design consultation, protocol optimization, microarray and probe designing, next-generation sequencing (NGS), and bioinformatics solutions to clients from academia, biotech, and pharma sectors worldwide.

We have been providing high-quality sequencing services, including whole-genome sequencing (WGS), transcriptome sequencing, shotgun metagenome sequencing, and de-novo assembly since 2000. Our skilled team has experience in working with genomes of all sizes and nucleic acids from various sources on Illumina, Oxford Nanopore, and other platforms. We have developed targeted panels for various viruses like Adenovirus, KFDV, SARS-CoV-2, Dengue, and pipelines for predicting virulent strains that may be difficult to treat with conventional antibiotics.

Our broad range of metagenome services includes targeted and whole-genome metagenome and metatranscriptome sequencing. Our long amplicon metagenome approach provides the best resolution of microbes up to the sub-species level, while whole-genome metagenome sequencing enables the identification of gene clusters, resistome, and novel pathways in a given environment. We also specialize in Ribo-footprinting and RNA immunoprecipitation sequencing, ChIP sequencing, and targeted methylation sequencing.

Years in service: 28

Bioinformatics services offered by Genotypic Technology:

Service Description Price
Base Calling $20.00 USD (per hour)
ChIP-Seq Analysis $250.00 USD (per sample)
Custom scripting and special projects Bioinformatics support for 1 day - includes skype/webex consultation with detailed report. 120.00
Differential Gene Expression Analysis Differential Gene expressions, SNP variants and annotations with known reference, SSR discovery $69.00 USD (per sample)
Exome Analysis Exome analysis - from raw data to VCF files and annotations from dbSNP, 1000 genome, COSMIC, SIFT, Polyphen2 and more $45.00 USD (per sample)
Metagenomic Analysis $25.00 USD (per sample)
Read Filtering and Cleaning $2.00 USD (per sample)
Transcriptome de novo Assembly Denovo transcriptome assembly with differential gene expression values. $600.00 USD (per sample)
Transcriptome Mapping $25.00 USD (per sample)
Whole Genome de novo Assembly $2900.00 USD (per sample)

TACGenomics

United States of America 11 years in service Whole Genome de novo Assembly: $1000.00 USD (per sample)
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TACGenomics has a team composed of bioinformatician, molecular biologist and computer scientist who are all at Ph.D. level. Our team has the experience of hundreds of NGS data analysis projects from all over the world. The mission of TACGenomics is to help our customer to solve the biological questions. After computation analysis completed by the bioinformatician, our molecular biologist will interpret the analyzed data carefully, provide more insight into your project and help the publication of the project in the high impact journal.

Years in service: 11

Bioinformatics services offered by TACGenomics:

Service Description Price
ChIP-Seq Analysis $80.00 USD (per sample)
Custom scripting and special projects $50.00 USD (per hour)
Differential Gene Expression Analysis Differentially expressed genes were identified using the edgeR program. Genes showing altered expression with p < 0.05 and more than 1.5 fold changes were considered differentially expressed. Goseq was used to perform the GO enrichment analysis and Kobas was used to performed the pathway analysis. $50.00 USD (per sample)
Exome Analysis Our team has successfully discovered a causal variant which lead to a mendelian disorder through analyzing 20 samples in three-generation family. The error rate of genotype we called in this family is only 0.2% which indicate that our pipeline detect all the SNV very accurately. $80.00 USD (per sample)
Genome Mapping $50.00 USD (per sample)
Metagenomic Analysis $100.00 USD (per sample)
Methylation Analysis $100.00 USD (per sample)
Microbiome Analysis $50.00 USD (per sample)
Transcriptome de novo Assembly $100.00 USD (per sample)
Transcriptome Mapping The reads were first mapped to the latest UCSC transcript set using Bowtie2 version 2.1.0 and the gene expression level was estimated using RSEM v1.2.15. TMM (trimmed mean of M-values) was used to normalize the gene expression. $50.00 USD (per sample)
Whole Genome de novo Assembly $1000.00 USD (per sample)

ContigExpress, LLC

United States of America 16 years in service Whole Genome de novo Assembly: Inquire
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ContigExpress is the leading integrated genomics data service provider. We offer genomic project management, data analysis, and bio-IT consulting services. Our unique value to our clients lies in our deep understanding of both biology and informatics. From project consultation, bio-IT infrastructure implementation, to data analysis, our experienced scientists deliver not only cost-effective customized informatic solutions but also their expert insights.

Our team consists of Ph.D.-level computational biologists with extensive training and professional practice in bioinformatics and genomic research. We understand both your cutting-edge research and your informatics challenges. We enable you and your team to extract actionable information from the vast amount of genomic data in a cost-effective and timely fashion.

We at ContigExpress strive to deliver affordable expert genomic data solutions to researchers and clinicians. We place the utmost emphasis on information confidentiality, data security, and data integrity. Please schedule a complimentary project discussion with one of our expert bioinformaticians to discover how we can help you move your genomics research forward!

Years in service: 16

Bioinformatics services offered by ContigExpress, LLC:

Service Description Price
ChIP-Seq Analysis Following is a list of common analysis items for ChIP-Seq. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Alignment to a reference with mapping statistics 4) Peaking calling with or without control samples 5) Gene assignment and peak annotation 6)… Inquire
Differential Gene Expression Analysis Following is a list of common analysis items for RNA-Seq. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Alignment to a reference with mapping statistics 4) Gene and transcript-based quantitation, RPKM/FPKM-based quantitation, Raw hit count-based … Inquire
Exome Analysis Following is a list of common analysis items for Targeted Resequencing and Exome Sequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Alignment to a reference with mapping statistics 4) Local realignment 5) SNP and small indel calling 6) SNP… Inquire
Genome Annotation Following is a list of common analysis items for Genome Annotation. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Gene prediction with or without RNASeq data 3) BLAST-based gene function annotation 4) Written project report with analysis methods, publication-ready graph… Inquire
Genome Mapping Following is a list of common analysis items for Whole Genome Resequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Alignment to a reference with mapping statistics 4) Local realignment 5) SNP and small indel calling 6) SNP/small indel char… Inquire
Metagenomic Analysis Following is a list of common analysis items for Metagenomics Sequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Sequence assembly 4) Biodiversity analysis and binning 5) Gene predication and functional annotation 6) Gene Ontology and path… Inquire
Methylation Analysis Following is a list of common analysis items for Methylation Sequencing, including MeDIP-Seq, hMeDIP-Seq, RRBS / Targeted Bisulfite-Seq, WGBS, and 5-mc RNA-Seq. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Methylation state-sensitive mapping 4) … Inquire
Other Services We are a professional bioinformatics service provider and we are happy to provide customized informatic solutions to your unique research and business needs. Please feel free to reach out to us to discuss how we can help you. Inquire
Small RNA Annotation Following is a list of common analysis items for small RNA-Seq. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC, adaptor removal, and size selection 3) Read characterization by mapping to a reference genome sequence, known RNA families (e.g., Rfam), and known micr… Inquire
Small RNA Mapping Following is a list of common analysis items for small RNA-Seq. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC, adaptor removal, and size selection 3) Read characterization by mapping to a reference genome sequence, known RNA families (e.g., Rfam), and known micr… Inquire
SNP/SV/CNV Discovery Following is a list of common analysis items for Whole Genome Resequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Alignment to a reference with mapping statistics 4) Local realignment 5) SNP and small indel calling 6) SNP/small indel char… Inquire
Targeted Capture Analysis Following is a list of common analysis items for Targeted Resequencing and Exome Sequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Alignment to a reference with mapping statistics 4) Local realignment 5) SNP and small indel calling 6) SNP… Inquire
Transcriptome Annotation Following is a list of common analysis items for De Novo Sequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Project consultation 2) Transcriptome annotation (molecular functions, Gene Ontology and pathway) 3) Written project report with analysis methods, publication-ready graphics, and references Inquire
Transcriptome de novo Assembly Following is a list of common analysis items for De Novo Sequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Transcriptome assembly, scaffolding and gap closure 4) Gene annotation (molecular function, Gene Ontology and pathways) 5) SNP disc… Inquire
Whole Genome de novo Assembly Following is a list of common analysis items for De Novo Sequencing. One of our expert bioinformaticians will work closely with you to identify a custom analysis workflow most appropriate for your project. 1) Experiment design consultation 2) Data QC and clean up 3) Contig assembly 4) Scaffolding and gap closure 5) Gene/ORF prediction 6) Gene annotation and classification via database search and… Inquire

genexa Ltd

Switzerland 11 years in service Whole Genome de novo Assembly: Inquire
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genexa is a genomic data analysis provider located in Switzerland. Our bioinformatics services are centered around de novo assembly of genomes and metagenomes. We focus on processing, analysis, and interpretation of your genomics data. For all our fields of expertise, we offer to perform the entire analysis workflow from raw data to documentation, but also consulting and troubleshooting if required. genexa also provides resources to run computationally demanding tasks for specific jobs if you have an existing analysis workflow, but lack the computational resources to run it on large amounts of data. For further information check: genexa.ch

Years in service: 11

Bioinformatics services offered by genexa Ltd:

Service Description Price
Base Calling Inquire
Comparative Genome Analysis Inquire
Custom scripting and special projects Inquire
Differential Gene Expression Analysis Inquire
Genome Annotation Inquire
Metagenomic Analysis Inquire
Microbiome Analysis Inquire
Other Services We offer bioinformatics services using long-read sequencing (PacBio & Oxford Nanopore Technologies). We have several years of experience using third-gen. technologies, mainly applying these technologies for de novo assembly of individual genomes and metagenomes. We also offer transcriptomic analyses using long-read technologies. If you want to start using PacBio or Oxford Nanopore Technologies,… Inquire
Read Filtering and Cleaning Inquire
SNP / Indel Calling Inquire
Transcriptome Annotation Inquire
Variant Annotation Inquire
Whole Genome de novo Assembly Inquire

Genome Explorations

NGS provider United States of America 11 years in service Whole Genome de novo Assembly: Inquire
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Genome Explorations, Inc. is a premier research institution providing global genomic profiling and molecular diagnostics services to academic centers, pharmaceutical and biotech industry, oncologists, and pathologists with innovative diagnostic, prognostic, predictive, and personalized testing.

Our ‘Complete Solution’ requires you, our client, to only provide us with your biological samples (DNA, RNA, Cells, Tissue or Blood). Our highly trained staff subsequently process these samples to completion and analyze them using the latest advanced bioinformatics solutions. This model, combined with the one-on-one interactions we have with our investigators, allows us to generate the highest quality data sets in the industry.

We believe that the combination of unparalleled quality diagnostics, industry-leading innovation, and exceptional service enable us to help a range of clients develop and implement a personalized approach to healthcare and, ultimately, eradicate the most malicious disease states.

Years in service: 11

Bioinformatics services offered by Genome Explorations:

Service Description Price
Differential Gene Expression Analysis Inquire
Whole Genome de novo Assembly Inquire

TAXON Bioinformatics Solutions S.A.

NGS provider 3 years in service Whole Genome de novo Assembly: $199.00 USD (per sample)
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We are TAXON, a data-driven bioinformatics team, specializing in high-confidence downstream analysis and client-ready delivery (not just raw outputs). What makes us unique is that we package sequencing data into actionable, decision-oriented results using reproducible pipelines, ML-ready datasets, and regulatory-grade reporting when needed.

What we specialize

Plasmid-focused analysis: assembly/curation support (incl. circularization checks), plasmid typing/replicons, mobility elements, gene-level annotation, and optional AMR/virulence marker screening when needed.

Microbial genomics & taxonomy: strain identification, ANI/phylogenomics, contamination/QC, comparative genomics, and traceability/fingerprinting.

Metagenomics: end-to-end processing and interpretation for complex communities, including soil metagenomes and waste / residue-derived samples (taxonomic + functional profiling, group comparisons, biomarkers, ML-ready tables).

Yeast & fungal genomics: assembly/QC, annotation, comparative analyses, and applied interpretation for R&D.

Biosynthetic potential (BGC mining): detection, annotation, prioritization, novelty assessment, and clear "what to test next" guidance.

Scientific & regulatory-ready writing: structured, audit-friendly documentation and reports when clients operate in regulated markets.

Custom ML & data science (on request): we develop and productionize ML models for biological/biotech use cases (bioinformatics, AgTech), including feature engineering from omics data, biomarker discovery, predictive modeling, and deployment-ready datasets/pipelines.

Organisms & systems we've worked with

Bacteria and plasmids, including deep expertise in the Bacillus subtilis group and Bacillus cereus group, with published work on taxonomy across related species.

Yeasts and fungi, including Komagataella phaffii, Pichia pastoris and Trichoderma.

Mixed microbial communities (microbiomes), especially from soil and natural environments.

Years in service: 3

Bioinformatics services offered by TAXON Bioinformatics Solutions S.A.:

Service Description Price
Base Calling Conversion of raw sequencing signal data into FASTQ files. Includes base calling, basic read quality assessment, and organized FASTQ delivery. Demultiplexing or additional QC can be included if specified in the project scope. 170.00
Comparative Genome Analysis Comprehensive comparative genome analysis across strains, species, or reference datasets. This service may include comparative gene content analysis, functional clustering, broader gene presence/absence screening, antiSMASH/BGC comparison, selected phylogenomic analyses, figures, summary tables, and a detailed technical report. Recommended for projects requiring biological interpretation beyond a… $665.00 USD (per sample)
Comparative Genome Analysis Comparative analysis of genomes or selected genomic features across strains, species, or reference datasets. This service may include ANI analysis, selected BLAST comparisons, gene presence/absence screening, basic phylogenetic placement, and summary tables. It is intended for focused comparisons with a limited number of genomes or predefined targets. Price per comparison 450.00
Custom scripting and special projects Custom bioinformatic scripting, workflow development, data parsing, figure generation, file conversion, automation, or ad hoc analysis not covered by standard services. Turnaround depends on scope and data complexity. $110.00 USD (per hour)
Differential Gene Expression Analysis Differential expression analysis between experimental conditions from a count matrix or normalized expression table. Includes statistical analysis, fold-change and significance tables, volcano/MA plots, PCA or clustering plots when appropriate, and a concise report. FASTQ processing and transcriptome mapping are quoted separately. Price per comparison 335.00
Genome Annotation Structural and functional annotation of prokaryotic genomes. Includes gene prediction, CDS annotation, rRNA/tRNA detection, functional assignment, GFF/GenBank/FASTA output files, annotation tables, and a concise technical report. $199.00 USD (per sample)
Genome Annotation Basic structural and functional annotation of simple eukaryotic genomes, such as yeasts or small fungal genomes. Includes gene prediction/annotation when suitable input data are available, functional assignment, GFF/GenBank/FASTA output files, annotation tables, and a concise technical report. Complex eukaryotic genomes, large genomes, or projects requiring transcriptome-guided/manual annotation … $399.00 USD (per sample)
Genome Mapping Alignment of genomic sequencing reads to a reference genome. Includes read mapping, alignment quality metrics, coverage summary, sorted/indexed alignment files, and a brief report. Variant calling or biological interpretation is not included unless requested separately. $220.00 USD (per sample)
Metagenomic Analysis Bioinformatic analysis of previously generated metagenomic sequencing data. Includes read quality control, filtering, taxonomic profiling, abundance tables, diversity summaries when applicable, and a concise report. Functional profiling may be included depending on data type and sequencing depth. $280.00 USD (per sample)
Microbiome Analysis Bioinformatic analysis of amplicon-based microbiome data, such as 16S, ITS, or similar marker-gene sequencing. Includes quality filtering, denoising/ASV or OTU inference, taxonomic assignment, abundance tables, alpha/beta diversity summaries, plots, and a brief report. $280.00 USD (per sample)
Other Services Bioinformatic consulting or custom analysis outside the listed service categories. Scope, deliverables, and turnaround are defined before project start. $110.00 USD (per hour)
Read Filtering and Cleaning Quality control and preprocessing of sequencing reads. Includes adapter trimming, low-quality read filtering, quality reports, cleaned FASTQ files, and a brief QC summary. Host/contaminant removal can be included if reference files are provided or specified. $110.00 USD (per sample)
SNP / Indel Calling Detection of SNPs and small insertions/deletions relative to a reference genome. Includes mapping review, variant calling, basic filtering, VCF file generation, variant summary tables, and a short technical report. $335.00 USD (per sample)
SNP / Indel Mapping Mapping of sequencing reads against a reference genome for downstream SNP and small indel analysis. Includes read alignment, sorting/indexing, basic alignment quality control, and delivery of BAM/CRAM files plus a short QC summary. $220.00 USD (per sample)
SNP/SV/CNV Discovery Discovery of SNPs, indels, structural variants, and/or copy number variation depending on the available sequencing data and reference genome quality. Includes variant tables, filtered output files, summary statistics, and a technical report. $450.00 USD (per sample)
Transcriptome Annotation Functional annotation of assembled eukaryotic transcripts or transcript sequences. Includes ORF prediction when applicable, similarity searches, domain/function assignment, annotation tables, and a concise technical report. Complex transcriptomes, non-model organisms, or large datasets may require custom pricing. $399.00 USD (per sample)
Transcriptome Annotation Functional annotation of assembled prokaryotic transcripts or transcript sequences. Includes ORF prediction when applicable, similarity searches, domain/function assignment, annotation tables, and a concise technical report. $199.00 USD (per sample)
Transcriptome de novo Assembly De novo assembly of transcriptomic reads without a reference genome. Includes read QC, transcript assembly, assembly quality statistics, transcript FASTA files, and a technical summary. Annotation is not included unless requested separately. $250.00 USD (per sample)
Transcriptome Mapping Mapping of RNA-seq reads to a reference genome or transcriptome. Includes read alignment, alignment QC, gene/transcript quantification when annotation is available, count/TPM tables, BAM files, and a short technical summary. $225.00 USD (per sample)
Whole Genome de novo Assembly De novo genome assembly from sequencing reads. Includes read QC, assembly generation, assembly quality statistics, contamination/quality checks when applicable, FASTA output, and a brief technical report. Complex eukaryotic genomes or hybrid assemblies may require custom pricing. $199.00 USD (per sample)