Other Services


Other services

Providers offering Other Services (found 22)

CD Genomics

NGS provider United States of America 21 years in service Other Services: Inquire
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We specialize in the services of DNA sequencing, genotyping, DNA library construction and aptamer development. Shotgun Library Sequencing, cDNA Library Sequencing, SAGE Library Sequencing, Whole Genome Sequencing and Primer Walking Sequencing. we offer high quality Re-sequencing & SNP Discovery Services. Quite a few of our staff scientists once participated in the International HapMap Project too.

extensive experience in whole genome shotgun sequencing services. Beginning from bacterial cells or genomic DNA, we provide you with accurate genome consensus sequences. We are also experienced in genome annotation and comparative genomics research. Notably our staff scientists have finished a number of whole microbial genome sequencing projects, such as the genomes of Pseudomonas bathycetes, Bacillus thuringiensis, Thermoanaerobacter tengcongensis, Streptococcus suis, and quite a few virus genomes. In addition, our in-house Laboratory Information Management System (LIMS) as well as manual basecalling ensures the highest service quality.

CD Genomics has been offering professional DNA library construction services for over 5 years. Hundreds of various cDNA libraries (such as standard cDNA library, large insert cDNA library, normalized cDNA library and subtracted cDNA library) and genomic DNA libraries (including short-insert plasmid shotgun library, large-insert plasmid shotgun library, whole genome shotgun library, Fosmid library, Cosmid library, MiniBAC and BAC library) have been constructed in our lab

CD Genomics has been dedicated to provide a full range of services to develop high quality customized aptamers for research, diagnostic and therapeutic applications. Services offered by CD Genomics include aptamer synthesis, aptamer generation, cell aptamer selection, aptamer design and modification, negative selection and so on.

Years in service: 21

Bioinformatics services offered by CD Genomics:

Service Description Price
Metagenomic Analysis Key Features and Advantages Longest average read lengths, with~50% of reads longer than 50kb, which exceeds the size of repetitive elements in the average bacterial genome. No DNA amplification. Highest consensus accuracy, low sequencing-context bias Novel bioinformatics analysis programs and pipelines Well-experienced personnel Sample Requirements: gDNA≥5 ug Sequencing Strategy: PacBio Platfo… 120.00
Other Services We provide statistical and bioinformatic data analysis services that help explain the large amounts of data commonly generated by next generation sequencing and genotyping experiments. Our bioinformatic staff consists of all PhD-level scientists trained in bioinformatics, biology and statistics. The software infrastructure for analysis is a combination of custom-built and open-source software. O… Inquire
SNP / Indel Mapping CD genomics can help you analyze genetic variation efficiently to meet diverse research needs. By utilizing Affymetrix and Illumina array platforms, we support high-throughput and multiplex processing to meet diverse research needs, delivering high-quality data at a low per-sample cost. Advantages of SNP Microarray Custom, flexible, and scalable; High call rates (> 99%) and high accuracy; Cost-… $80.00 USD (per sample)

Kovid BioAnalytics Pvt. Ltd.

India 13 years in service Other Services: $16.57 USD (per hour)
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Kovid BioAnalytics is an Informatics and Analytics company based in India. We specialize in building software, web-based or standalone applications for various bioinformatics projects, data curation and analysis services, etc. With a team of Bioinformatics experts and Software Developers we provide the following services: 1) Bioinformatics Software Development 2) Website Design and Maintenance for Bioinformatics Services 3) Curation of Genomics/Proteomics Data 4) Manual annotation of bioinformatics data and data mining 5) Technical writing services 6) Significance Analysis of micro-array data

Years in service: 13

Bioinformatics services offered by Kovid BioAnalytics Pvt. Ltd.:

Service Description Price
ChIP-Seq Analysis $20.00 USD (per hour)
Differential Gene Expression Analysis We have experience in performing Differential Gene Expression Analysis for various researchers from institutes like Washington University at St. Louis, West Mead Hospital (Australia), Spain Cancer Center and Bar Ilan University (Israel), etc. $16.57 USD (per hour)
Genome Annotation $15.00 USD (per hour)
Metagenomic Analysis We provide Metagenomic Analysis services including data curation as well as analysis. $15.57 USD (per hour)
Other Services We have a team of 5 experienced Bioinformatics Experts and 2 web developers, that can built custom pipelines for NGS data analysis, web applications, data mining tools, websites, etc. $16.57 USD (per hour)
Variant Annotation We provide variant annotation services that include manual annotation of variants using public databases as well as annotation through automated pipelines/tools like GEMINI. $16.57 USD (per hour)

KCCG Sequencing Laboratory, Garvan Institute of Medical Research

NGS provider Australia 14 years in service Other Services: $275.00 USD (per sample)
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For more than 50 years, the Garvan Institute of Medical Research has led scientific discovery and pioneered insights in the areas of cancer, metabolic, neurological, immunological and bone disease.

We were one of the first sites in the world to acquire the Illumina HiSeq X Ten sequencing platform, which provides the opportunity for low cost and large scale whole human genome sequencing.

Garvan was uniquely positioned to leverage its advanced sequencing infrastructure, comprehensive computational architecture, innovative data analysis and archiving solutions. Garvan has become a world-leading hub of expertise in generation, analysis, interpretation and application of genomic data.

The laboratory operates with a dual purpose; • providing the global research community access to best-in-class WGS technology and data analysis • offering Australia’s first accredited (ISO 15189) WGS-based pathology service to the clinical community

We have sequenced and delivered >16,000 human and non-human genomes on the X Ten platform to date and have the capacity to run ~1200 genomes per month. Please see below for our deliverables for this service:

Deliverables • Clinically accredited laboratory (ISO 15189) • Human and non-human whole genome sequencing • TruSeq Nano DNA or PCR-Free library preparation • Includes DNA and library QC • Flexible choice of 15x (TruSeq Nano) or 30x coverage for human DNA (as defined by Illumina^) • Flexible choice of ≥50Gb (TruSeq Nano) or ≥100 Gb raw data • 150bp paired-end read length • ≥75% bases above Q30 • Delivery of FASTQ data via online portal DNAnexus with clinical-grade security and privacy

Options • Precision FDA award-winning bioinformatics analysis using gold-standard alignment software GATK and variant calling software BWA to generate best practice BAM and VCF files • Hard drive delivery

^ in line with Illumina’s ‘Sequencing Coverage Calculation Methods for Human WGS’ documentation

Years in service: 14

Bioinformatics services offered by KCCG Sequencing Laboratory, Garvan Institute of Medical Research:

Service Description Price
Other Services Precision FDA award-winning bioinformatics analysis using gold-standard alignment software GATK and variant calling software BWA to generate best practice BAM and VCF files Our team achieved the highest overall precision in detecting SNPs in the unknown genome, in an international competition designed to test the performance of genome informatics pipelines worldwide. The team’s precision level o… $275.00 USD (per sample)

intelliseq

Poland Other Services: Inquire
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Bioinformatics services offered by intelliseq:

Service Description Price
ChIP-Seq Analysis Inquire
Custom scripting and special projects Inquire
Differential Gene Expression Analysis Inquire
Genome Annotation Inquire
Metagenomic Analysis Inquire
Methylation Analysis Inquire
Other Services Inquire
Read Filtering and Cleaning Inquire
Small RNA Mapping Inquire
SNP / Indel Calling Inquire
SNP / Indel Mapping Inquire
Transcriptome Annotation Inquire
Transcriptome Mapping Inquire
Variant Annotation Inquire

Genevia Technologies

Finland Other Services: Inquire
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Bioinformatics services offered by Genevia Technologies:

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
Metagenomic Analysis Inquire
Methylation Analysis Inquire
Other Services 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

Gringene Bioinformatics

New Zealand Other Services: 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

Next Generation Intelligence

NGS provider Italy Other Services: Inquire
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Bioinformatics services offered by Next Generation Intelligence:

Service Description Price
Base Calling Inquire
ChIP-Seq Analysis Inquire
Custom scripting and special projects Inquire
Differential Gene Expression Analysis Inquire
Exome Analysis Inquire
Genome Annotation Inquire
Genome Mapping Inquire
Methylation Analysis Inquire
Other Services 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

Station X

United States of America 15 years in service Other Services: $300.00 USD (per hour)
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We offer a powerful genomics software platform that makes various bioinformatics tasks fairly straightforward to perform and deliver to customers. We also wrap this product with various service offerings for folks interested in one-off projects that deliver results rather than just subscribing to a software solution and then do the work themselves. We are comfortable with both scenarios. We are well versed in working with RNA-Seq, Genomes, Exomes, targeted panels, miRNA-Seq, Copy Number, Gene Expression, Protein Expression, and DNA Methylation from the level of raw sequencing reads or chip data all the way through to statistically-driven and knowledge-driven interpretations.

Expertise:

We are experienced in developing bioinformatics pipelines, providing data management solutions, analyzing the data using statistical methods and knowledge driven methods, and delivering professional-grade results. We are most familiar with human genomics projects, but have experience with other organisms as well. We are most focused on supporting sequencing projects, but are very capable of supporting array and PCR-based projects as well.

Infrastructure:

We leverage Amazon Web Services for most of our storage (EBS & S3) and computational resources (EC2). We are not frivolous about security, and we can provide you with security documentation to demonstrate how we leverage cloud resources while keeping best-in-class security. We also have powerful 16-core machines in our own private cloud that we leverage for service projects as well.

Years in service: 15

Bioinformatics services offered by Station X:

Service Description Price
Comparative Genome Analysis $2500.00 USD (flat price)
Custom scripting and special projects $275.00 USD (per hour)
Differential Gene Expression Analysis $1655.00 USD (flat price)
Exome Analysis $2500.00 USD (flat price)
Genome Annotation $85.00 USD (per sample)
Other Services Visualizations, Report Generation, Customizations to our platform, Training, Scientific support, Presentation support, etc. $300.00 USD (per hour)
Read Filtering and Cleaning $115.00 USD (per sample)
Small RNA Annotation $85.00 USD (per sample)
Small RNA Mapping $100.00 USD (per sample)
SNP / Indel Calling $100.00 USD (per sample)
SNP / Indel Mapping $100.00 USD (per sample)
SNP/SV/CNV Discovery $100.00 USD (per sample)
Transcriptome Annotation $85.00 USD (per sample)
Transcriptome Mapping $100.00 USD (per sample)
Variant Annotation $85.00 USD (per sample)

Computomics

Germany 14 years in service Other Services: 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 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
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 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
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

UCLA Technology Center for Genomics & Bioinformatics (TCGB)

NGS provider United States of America 19 years in service Other Services: $321.56 USD (per sample)
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UCLA Technology Center for Genomics & Bioinformatics (UCLA TCGB) (http://pathology.ucla.edu/tcgb), directed by Dr. Xinmin Li, has 9 Ph.D. level scientists and a total staff of 12, who together have 76 years combined genomics experience. This high throughput genomic Center equipped with all major next generation sequencing instruments, sophisticated bioinformatics tools and big data management systems . The TCGB has Miseq, Nextse, Hiseq, Novaseq, GridION, 10x single cell Chromium system, 10X connect system, Nanostring GeoMx DSP system, automated NGS library construction system, which allow us offering comprehensive services including WGS, WES, RNAseq, Chipseq, Methyseq, 10X single cell sequencings, GeoMx DSP spatial transcriptome sequencing and so on. The TCGB provides these services in a cost-effective and timely manner with guaranteed quality.

Years in service: 19

Bioinformatics services offered by UCLA Technology Center for Genomics & Bioinformatics (TCGB):

Service Description Price
Other Services NGS Full Data Analysis - Genome Alignment, Gene Count Quantification, Gene Count Normalization, Differential Expression Analysis, Gene Ontology & Pathway Analysis $321.56 USD (per sample)
Other Services Data Analysis - Single Cell or Spatial Transcriptomics Analysis $477.36 USD (per sample)
Other Services Data Analysis Partial, NGS - Genome Alignment, Gene Count Quantification, Gene Count Normalization $202.22 USD (per sample)
Other Services Data Analysis - Custom Project $122.66 USD (per hour)

HybridStat Predictive Analytics

Greece 12 years in service Other Services: $70.00 USD (per hour)
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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. $70.00 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. $100.00 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. $150.00 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. $200.00 USD (per sample)
Genome Mapping $25.00 USD (per sample)
Genome Mapping $20.00 USD (per sample)
Genome Mapping $30.00 USD (per sample)
Other Services $70.00 USD (per hour)
Read Filtering and Cleaning $25.00 USD (per sample)
Read Filtering and Cleaning $30.00 USD (per sample)
Read Filtering and Cleaning $20.00 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 $25.00 USD (per sample)
SNP / Indel Mapping $40.00 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)

World Fusion US

United States of America 20 years in service Other Services: Inquire
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World Fusion is a well-established bioinformatics and cheminformatics software developer and services supplier with offices in Japan and the US. We have been at the forefront of developing genomic and drug discovery research tools since our early work on the Human Genome Project, and offer unparalleled reliability and expertise in our services.

Our customizable services include NGS data analysis, in-silico research services, and we are annotation specialists offering the most comprehensive correlations between genes, proteins, diseases, and chemicals.

The majority of the information is generated from our proprietary genomic and drug discovery research platform and knowledge base that we have been upgrading and building upon for over 10 years. It is comprised of original in-house data, curated information from over 60 top public data sets, and a chemical dictionary containing over 75 million non-redundant chemical compounds.

Our more recently added metagenomic and metaranscriptomic analysis services are carried out using state-of-the-art, original in-house software applications.

We offer MANY additional services, please contact us about your specific needs.

Years in service: 20

Bioinformatics services offered by World Fusion US:

Service Description Price
Genome Annotation Gene/Protein Annotation Services: • Identify relationships beween genes and proteins or diseases • Cite connections between genes or proteins and chemicals • Extract bind/inhibit chemicals from proteins or genes • Examine SNP information and association with disease • Find bind/inhibit compounds and therapeutic targets from associated disease • Gene expression prioritization from RNAseq dat… Inquire
Metagenomic Analysis Analysis of the transcripts present in the RNA-seq data through frequency analysis of functional categories from the selected protein DB (such as COG). Result files include annotations from ligand information with related chemical compounds, pathways, and iPath. •Biological function information •Metabolic compound info from proteins •Multiple sample analysis •Bar charts, pie charts, and fr… Inquire
Metagenomic Analysis 16S/28S/ITS rRNA metagenomic data analysis of the composition and diversity of microbial or fungal species from natural environments. Interactive HTML report with taxonomically classified charts & graphs, read counts, 2D, 3D, and interactive PCA plots, heat clustering maps, and self-organizing maps. •Metagenomic analysis of bacteria from species classification of taxonomic rank •Fungal metag… Inquire
Other Services Target Prioritization helps with the selection of gene/proteins for your research, from gene expression/SNV data - the analysis provides information about compounds and the activities, assays, SNPs, diseases, domains, pathways, and references. Inquire
Other Services In-silico target exploration from disease - therapeutic targets, related drugs, gene and protein targets, etc. Includes an extensive annotation table with information about the disease and related diseases, SNPs, compounds, drugs, genes, proteins, and tissues. Inquire
Other Services Target prediction from chemical structure - prediction of target proteins which is based on: 1.5M compounds, 5500 protein, and 5M interactions. Inquire
Transcriptome Annotation Expression data analysis includes over 20 kinds of annotation such as: genes (ontology, pathways), proteins, diseases, domains, ligands, and compounds. Prioritization of genes and proteins can be executed from a variety of directions. •Statistical processing from expression values •Conversion and active compound information from proteins •Inhibitor compounds and inhibitory active compounds … Inquire
Variant Annotation Analysis focuses on the SNP variant amino acid change and includes annotations of related diseases, genes, proteins, assays, ligands, SNPs, domains, and chemical compounds (active compound information, crystal structure, chemical formula, activities, etc.). •Non-synonomous SNPs and chemicals influenced by mutation location •Information about the compounds and proteins affected by the amino a… Inquire

Geno-plex Bioinformatics Services

Switzerland 12 years in service Other Services: Inquire
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We offer tailored bioinformatics services (mainly NGS data analysis) to academic and private organizations. We have a strong academic background with a focus on cutting edge, open source software.

We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses independently.

We replicate recommended analysis pipelines (best practice) or develop novel ones but we always emphasize biological interpretation of your data.

Years in service: 12

Bioinformatics services offered by Geno-plex Bioinformatics Services:

Service Description Price
Custom scripting and special projects We replicate recommended analysis pipelines (best practice) or develop novel ones according to your specifications using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses ind… Inquire
Exome Analysis We replicate recommended analysis pipelines (best practice) or develop novel ones according to your specifications using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses ind… $150.00 USD (per sample)
Genome Mapping We replicate recommended analysis pipelines (best practice) using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses independently. Inquire
Other Services Primer design for efficient multiplex PCR reactions Inquire
SNP / Indel Calling We replicate recommended analysis pipelines (best practice) or develop novel ones according to your specifications using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses ind… $150.00 USD (per sample)
SNP/SV/CNV Discovery We replicate recommended analysis pipelines (best practice) or develop novel ones according to your specifications using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses ind… $150.00 USD (per sample)
Targeted Capture Analysis We replicate recommended analysis pipelines (best practice) or develop novel ones according to your specifications using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses ind… $150.00 USD (per sample)
Transcriptome Mapping We replicate recommended analysis pipelines (best practice) or develop novel ones according to your specifications using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses ind… $150.00 USD (per sample)
Variant Annotation We replicate recommended analysis pipelines (best practice) or develop novel ones according to your specifications using open source software. We build up your in house bioinformatics capacity in 2 ways: First, we provide you with the code underlying the analysis you requested. Second, we can help you to set up (cloud) computing solutions that will allow you to run and extend your analyses ind… $150.00 USD (per sample)

Insightomics

Portugal Other Services: Inquire
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Bioinformatics services offered by Insightomics:

Service Description Price
Custom scripting and special projects Contact us to discuss your specific project or data analysis needs. Consult with our bioinformatics software development experts and data scientists. Inquire
Differential Gene Expression Analysis Contact us to discuss your specific project or data analysis needs. Inquire
Other Services Survival analysis. Analyse censored time-to-event data with tools such as Cox regression and log-rank testing. Inquire
Other Services Statistical hypothesis testing. Parametric and nonparametric tests applicable in a wide variety of contexts. Multiple hypothesis testing (Bonferroni correction, false discovery rate). Inquire
Other Services Deep learning. Apply state-of-the-art neural network methodologies in multiple bioinformatics contexts. Inquire
Other Services Machine learning – Supervised learning. Machine learning models for discriminating data, for instance logistic regression, K-nearest neighbors, Support Vector Machines. Inquire
Other Services Exploratory data analysis. Graphical techniques to uncover the data structure and gain insights. Let the data speak for itself. Inquire
Other Services Rapid BioApp Delivery. Development of new bioinformatics apps, accelerated by Insightomics Platform and powered by Insightomics Rapid BioApp Delivery methodology. Inquire
Other Services Dimensionality reduction. Feature selection and mapping of data to a lower dimensionality. Principal Component Analysis (PCA), multidimensional scaling. Inquire
Other Services Scientific Consulting. Advisory on statistical and machine learning methods applied to specific research goals in the life sciences. Technology alignment. Inquire
Other Services Machine learning – Unsupervised learning. Models for clustering data, for instance K-means, hierarchical clustering, mixture models. Inquire
Other Services Bioinformatics pipeline alignment. Choose the most appropriate data analysis pipeline. Inquire
Other Services Admixture modelling and phylogenetics. Infer the structure and evolutionary history of populations from genetic data. Inquire
Other Services Data validation and preprocessing. Quality control, missing value imputation, data transformation and normalization. Inquire
Other Services Other Services. Contact us to discuss your specific project or data analysis needs. Inquire
Other Services Probabilistic Bayesian modelling. State-of-the-art robust modelling for specific bioinformatics problems. Inquire
Other Services Network and pathway analysis. Statistical overrepresentation testing. Gene set enrichment analysis. Molecular and genetic interaction graph analysis and visualization. Inquire
Other Services Principal Component Analysis (PCA) $250.00 USD (flat price)

ContigExpress, LLC

United States of America 16 years in service Other Services: 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

The Africa Genomics Centre and Consultancy (TAGCC) ltd

Kenya 12 years in service Other Services: $225.00 USD (per hour)
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TAGCC is an African company offering services in next generation sequence data analysis and consultancy in genomics. We have implemented a wide range of pipelines to analyse NGS data from various platforms including Illumina and 454. We support design and implementation of genomics and NGS based projects.

Years in service: 12

Bioinformatics services offered by The Africa Genomics Centre and Consultancy (TAGCC) ltd:

Service Description Price
Base Calling Demultiplex data and convert BCL or SFF files to FASTQ files. (Time is dependent on file size) $120.00 USD (per hour)
Differential Gene Expression Analysis We Identify differentially expressed and significant genes from RNA-seq data. Our workflow includes QC clean up, removal of ribosomal RNA contamination followed by denovo or reference based mapping. RPKM/FPKM-based quantitation. $80.00 USD (per sample)
Exome Analysis We analyse full exomes from raw sequence data through the process of cleaning, alignment, variant calling to analysis ready vcf file with variants effects summary. $125.00 USD (per sample)
Genome Mapping Alignment of NGS data to reference genome and generate mapping statistics $60.00 USD (per sample)
Metagenomic Analysis Generating publication ready Phylogenetic trees, Alpha and beta-diversity, rarefactions, rank abundance plots, relative abundance bar plots, with integration of meta-data, etc. Inquire
Other Services Admixture modelling and SNP phylogenetics. Use genetic data to infer the structure and evolutionary history of populations (Time is dependent on VCF/PED file size) $225.00 USD (per hour)
Read Filtering and Cleaning QC analysis, trimming and low quality reads removal. Both Raw and QC trimmed Fastq files will be made available. $24.00 USD (per sample)
SNP / Indel Calling Identify and qualify SNPs and Indels. $110.00 USD (per sample)
SNP / Indel Mapping Map SNPs and Indels. $110.00 USD (per sample)
Transcriptome Mapping Map mRNAs to either the reference or the assembled genome. $110.00 USD (per sample)

ideas4biology Ltd.

Poland 13 years in service Other Services: $50.00 USD (per hour)
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DATA ANALYSIS Routine NGS data analysis in the area of genomics and transcriptomics, such as: - Gene expression and differential expression analysis - De novo and ab initio transcriptome assembly - Small RNA analysis - Genome variant calling and annotation

Customized tasks, including: - Identification of long noncoding RNAs - Identification of ta-siRNAs - Isomir and miRNA editing analysis - Annotation of non-model organisms - Building transcriptome-wide maps of RNA-RNA interactions

WORKSHOPS We offer workshops in a broad spectrum of bioinformatics applications, including: - RNA-Seq data analysis (4 days) - NGS in medical research (4 days)

EXPERIENCE We’ve been in the market since 2013 and came into collaboration with hundreds of customers. We’ve been working on model and non-model organisms, including viruses, bacteria, fungi, plants, animals, and human. We are part of research consortium aiming at development of personalized medicine services for diagnosis and treatment of lung cancers. We are also actively conducting research projects in different areas of genomics and transcriptomics, which gives us expertise in standard and up-to-date bioinformatics solutions.

INFRASTRUCTURE We have access to dedicated file storage and computational servers, with virtually unlimited (on demand) capacity.

Years in service: 13

Bioinformatics services offered by ideas4biology Ltd.:

Service Description Price
Differential Gene Expression Analysis This includes: - quality filtering - adapter trimming - optionally: discarding rRNA-mapping reads or other contaminants - read mapping - expression estimation - differential expression analysis - a report, result data files and diagnostic plots Differential expression analysis itself, with expression estimations from customer: $30. $185.00 USD (per sample)
Genome Mapping This includes: - quality check and filtering - adapter trimming - optionally: discarding rRNA-mapping reads or other contaminants - read mapping with varied tools and settings - accomodated to customer's needs - quality report $85.00 USD (per sample)
Methylation Analysis This includes: - quality check and filtering - adapter trimming - read mapping - calling methylated and unmethylated cytosines - differential methylation analysis: finding differentially methylated bases and regions $250.00 USD (per sample)
Other Services Identification of long noncoding RNAs in animals and plants. This includes: - assessment of protein-coding potential with at least two independent methods - sequence length filtering - discarding of known, coding transcripts - discarding known noncoding RNAs other than lncRNAs - optionally: genomic context-driven filters - other filtering steps, depending on data availability, such as tran… $50.00 USD (per hour)
Read Filtering and Cleaning This includes: - Quality report - Quality filtering - Adapter trimming - Optionally: discarding rRNA-mapping reads or other contaminants $46.00 USD (per sample)
Small RNA Annotation This includes: - quality check and filtering - adapter trimming - read mapping to databases of noncoding RNAs, such as miRBase, DASHR or RFAM - annotation report $150.00 USD (per sample)
Small RNA Mapping This includes: - quality check and filtering - adapter trimming - read mapping to custom sequences (genome, transcriptome) - read mapping quality assessment - read mapping report This may be followed by miRNA identification or similar tasks, priced separately. $130.00 USD (per sample)
SNP / Indel Calling This includes: - quality check and filtering - adapter trimming - read mapping and further processing of mapping results - SNP / Indel calling Both somatic and germline variants may be called. There is possibility to call structural variants as well, priced separately. $165.00 USD (per sample)
Transcriptome Annotation This includes: - BLAST searches against databases of proteins and noncoding RNAs, including miRBase, RFAM, UniProt (Swiss-Prot) - hmmscan search against PFAM protein domains - assignment of GO terms to genes - assignment of KEGG pathways to genes - a report and annotation files with per gene details $125.00 USD (per sample)
Transcriptome de novo Assembly This includes: - quality check and filtering - adapter trimming - optionally: discarding rRNA-mapping reads or other contaminants - transcriptome de novo assembly - a quality report and a transcriptome in FASTA format For further annotation of the transcriptome, please see our offer for "Transcriptome annotation". $250.00 USD (per sample)
Transcriptome Mapping This includes: - quality check and filtering - adapter trimming - optional: discarding rRNA-mapping reads and other contaminants - read mapping (default or customized settings) - read mapping report and result files $100.00 USD (per sample)
Variant Annotation This includes: - prediction of possible consequences associated with predicted variants, such as affecting splicing of protein coding capacity - comparison with known variants from public databases - a report and result files $150.00 USD (per sample)

The Bioinformatics CRO

United States of America 8 years in service Other Services: Inquire
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The Bioinformatics CRO is a scalable, globally distributed contract research organization and consultancy that provides high quality customized bioinformatics and genomics support to academics, biotechs, and pharmaceutical companies.

Years in service: 8

Bioinformatics services offered by The Bioinformatics CRO:

Service Description Price
ChIP-Seq Analysis Reveal the regulatory landscape of your genome. Our ChIP-seq experts identify binding sites, motifs, and epigenetic modifications with precision, linking protein-DNA interactions to transcriptional outcomes. We provide high-quality, publication-ready figures and data interpretation. Inquire
Comparative Genome Analysis See the bigger genomic picture. Our comparative genomics services uncover evolutionary relationships, genetic variation, and structural differences across species or strains. Clients trust us to translate raw sequence data into meaningful discoveries and competitive insights. Inquire
Custom scripting and special projects Your data, your vision, our expertise. Whether you need a bespoke analysis pipeline, multi-omics integration, or complete workflow automation, we design and implement solutions tailored to your research goals. Bring us your toughest challenge; we’ll turn it into results. Inquire
Differential Gene Expression Analysis Discover the genes that matter most. Our experts use industry-leading tools to pinpoint differential expression patterns and generate publication-ready insights. We go beyond basic outputs, delivering clear visualizations and biological interpretation that drive decision-making. Inquire
Other Services Find the genes that drive your system. We apply advanced co-expression network analysis (WGCNA and related methods) to identify hub genes, key modules, and regulatory networks. Perfect for biomarker discovery, drug target identification, and pathway prioritization. Inquire
Other Services Understand biology one cell at a time. From QC and clustering to cell-type annotation and trajectory inference, we deliver end-to-end single-cell RNA-seq and ATAC-seq analysis. Our team helps you uncover hidden cell populations and molecular programs that define disease or treatment response. Inquire
Transcriptome Annotation Bring biological meaning to your sequences. We integrate multiple databases and ortholog mapping strategies to deliver comprehensive, ready-to-publish transcriptome annotations. Our annotations enhance gene discovery, comparative analyses, and downstream functional studies. Inquire
Transcriptome de novo Assembly We reconstruct full transcriptomes from RNA-seq data to deliver high-confidence gene assemblies, even for non-model species. Expect accurate contigs, complete functional annotation, and differential expression analysis built on a solid foundation. Inquire
Transcriptome Mapping Turn your RNA-seq data into actionable results. We perform high-accuracy transcriptome mapping with optimized pipelines that maximize alignment efficiency and data quality. Reliable expression quantification and seamless integration with downstream analyses like DEG, splicing, and pathway enrichment. Inquire

genexa Ltd

Switzerland 11 years in service Other Services: 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

RealSeq Biosciences Inc.

NGS provider United States of America 8 years in service Other Services: Inquire
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RealSeq Biosciences has an exceptionally fast turnaround time- typically one week. We are especially experienced in library construction from small RNAs. Small RNA libraries are prepared using our proprietary RealSeq® technology, the leader in bias reduction for small RNAs as shown by a core-facility comparison (ABRF). The starting input requirement for total RNA is as low as 1ng (RealSeq®-AC technology) or may be isolated from as little as 50ul of biofluid samples (RealSeq®-biofluids technology). We are experienced working with exosomes, plasma, serum, and whole blood samples. RealSeq Biosciences delivers fast and cost-effective mRNA sequencing services using either Nugen or NEB sequencing library preparation.

Years in service: 8

Bioinformatics services offered by RealSeq Biosciences Inc.:

Service Description Price
Differential Gene Expression Analysis Reads processing and alignment. For each sequenced library: - Trimming of adapters - Alignment to the correspondent genome - We will provide raw files and processed (fastq and SAM files) mRNAs quantification - Align reads to reference transcriptome - We will provide mRNA reads counts (raw reads) Differential expression analysis (up to six groups) - Must have more than one sample 'per group' - S… $50.00 USD (per sample)
Differential Gene Expression Analysis Reads processing and alignment. For each sequenced library: - Trimming of adapters - Alignment to the correspondent genome - We will provide raw files and processed (fastq and SAM files) mRNAs quantification - Align reads to reference transcriptome - We will provide mRNA reads counts (raw reads) Differential expression analysis (up to six groups) - Must have more than one sample 'per group' - S… Inquire
Other Services Reads processing and alignment. For each sequenced library: - Trimming of adapters - Alignment to the correspondent genome - We will provide raw files and processed (fastq and SAM files) miRNAs quantification - Align reads to miRBase - We will provide miRNA reads counts (raw reads) Differential expression analysis (up to six groups) - Must have more than one sample 'per group' - Spreadsheet incl… Inquire
Other Services Reads processing and alignment. For each sequenced library: - Trimming of adapters - Alignment to the correspondent genome - We will provide raw files and processed (fastq and SAM files) miRNAs quantification - Align reads to miRBase - We will provide miRNA reads counts (raw reads) Differential expression analysis (up to six groups) - Must have more than one sample 'per group' - Spreadsheet incl… $50.00 USD (per sample)
Small RNA Annotation For organisms with a reference genome; or closely related species, we can run your FASTQ data through the miRdeep2 pipeline and give you the output files and a report that helps guide you in the organization of these files. Note, this is a freely available program and must be cited if used: (https://github.com/rajewsky-lab/mirdeep2) Cite: Marc R. Friedländer, Sebastian D. Mackowiak, Na Li, Wei Ch… $975.00 USD (flat price)

Diagenode

NGS provider 11 years in service Other Services: Inquire
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The Service at Diagenode are specialized in Epigenomics so we focused on Chromatin, DNa methylation and RNA studies. For chromatin we perform ChIP-seq (-qPCR) and ATAC-seq. In terms of DNA methylation we offer WGBS, RRBS, MeDIP-seq, Targeted DNA methylation, Illumina 850K EPIC Array and Mouse Methylation Array. Concerning RNA-seq we perform Total RNA-seq (rRNA depeltion), mRNA-seq (Poly-A selection), 3'RNA-seq, sncRNA-seq and miRNA-seq. We have a wide range experien,ce in terms of species and samples type, with special focus in biofluids (plasma/serum/urine cfDNA, circulating RNA, etc)

Years in service: 11

Bioinformatics services offered by Diagenode:

Service Description Price
ChIP-Seq Analysis Inquire
Differential Gene Expression Analysis Inquire
Methylation Analysis Inquire
Other Services Inquire

TAXON Bioinformatics Solutions S.A.

NGS provider 3 years in service Other Services: $110.00 USD (per hour)
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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 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
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)
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 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 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 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)