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

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.

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

At Insightomics we specialize in bioinformatics data analysis services. Our team is able to deliver state-of-the-art bioinformatics methodologies to support Life Sciences R&D involving clinical and omics data.

We have experience working with human data and bacterial (S. pneumoniae) data.

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)

I approach analytic challenges creatively with the result being novel, statistically significant and reproducible. I have high expertise on differential expression using RNA-seq.

Expertise:

I've been working with whole genome experiments for the last 10 years. I analysed more than 1000 gene expression microarrays (Illumina and Affymetrix, Human, Mouse, Rat and Pig). I analysed RNA-seq samples (total RNA and polyA RNA) from SOLiD 5500xl and Ion Proton, ChIP-seq samples from Illumina HiSEQ and DNA-seq (Exome) samples from Illumina HiSEQ. I developed several tools for functional analysis (see cremag.org) of gene lists.

Infrastructure:

I have almost unlimited access to Amazon EC2 and large server on site (two 8x core Xeon with 216 GB RAM 64GB of SAS disks)

EarlyDx is committed to providing cutting-edge non-invasive genomics technologies and best-in-class early disease diagnostics. Our proprietary cfDNA-based technologies, in combination with powerful AI algorithms, have shown great potential to transform non-invasive biomarker discovery, diagnostics, and precision medicine for almost any diseases, including cancers, aging, metabolic diseases, autoimmune diseases, imprinting diseases, and neurological diseases.

Our key cfDNA-based best-in-class technologies include:

1. cfMethyl-seq: a powerful and cost-effective NGS solution to profile the cfDNA methylome
2. cfSNV: a cutting-edge computational tool to accurately call mutations directly from blood
3. cfTrack: for non-invasive monitoring of cancer MRD, recurrence, and evolution
4. EarlyDx-Cloud: a comprehensive bioinformatics data analysis platform for liquid biopsy

Please check out our relevant publications in details: https://earlydx.com/technologies/publications/

Genevia Technologies provides a wide range of microarray and next generation sequencing data analyses, and bioinformatics services to life science companies and academia. In addition, we offer bioinformatics consulting projects at a fixed price, and genome-wide experiments done in collaboration with the top service providers.

Expertise:

Our expertise is in handling multiple microarray (expression, copy number, ChIP, methylation, etc) and next-gen sequencing (DNA-seq, RNA-seq, MeDIP-seq, ChIP-seq, GRO-seq, etc) data simultaneously and effectively, and combining them with other data such as clinical variables or pathway information. We have experience in most common mammalian systems, but especially in multiple human cancers. We have also worked on data from multiple species of lower eucaryotes and bacteria.

Infrastructure:

We have access to dedicated file storage servers, a computing cluster, a computing grid (of over 1000 CPUs), and cloud computing capabilities.

Visit our homepage to read more about us and our bioinformatics as a service: www.genevia.fi

Gringene Bioinformatics provides workflow optimisation services for research that involves the use of computers, enabling researchers to carry out their research faster, cheaper, and better. It is frequently the case that a repetitive task using computers can be sped up 5-10 times by the application of computing methods that are more appropriate to the task at hand.

Gringene Bioinformatics has particular skills in the following areas:

• Theoretical Genetics
• Next-Generation Sequencing
• Computational scripting
• Large-scale data analysis
• Program language translation (porting)
• Debugging / bug reporting

Expertise:

• Homo sapiens (genome mapping, methylation analysis, SNP analysis, STR analysis, population clustering, haplotype analysis, differential expression analysis)
• Environmental samples (16s rRNA mapping, large-scale BLAST analysis, taxonomy analysis)
• Schmidtea mediterranea (transcriptome assembly, genome mapping, transcriptome mapping, differential expression analysis)
• Saccharomyces cerevisiae (codon analysis, gradient peak analysis, genome mapping, transcriptome mapping)
• Drosophila melanogaster (quantitative phenotyping, differential expression analysis)
• Neisseria meningitidis (genome mapping, differential expression analysis)

Infrastructure:

Main processing workstation: 12-thread Intel "desktop" with 64GB memory and 3TB hard drive space (expandable as necessary). I encourage clients to purchase their own bioinformatics servers / workstations, and will use remote systems for analysis when available.

NGI is a platform for Next Generation Sequencing data analysis. We offer a wide range of bioinformatics tools and an experienced and professional collaboration service for any type of biological data analysis. We provide both standard and customized analysis, custom softwares and pipelines development and post-sequencing support. We'll enhance and make easier your discovery process.

Expertise:

Our expertise is in the epigenetics field in mouse and human organisms.

Infrastructure:

we will provide FTP access to our storage server to upload raw data and download analyzed data.

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!

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.

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.

The OMRF Genomics facility is a universally accessible resource able to provide investigators with massive amounts of sequencing, genotyping, or gene expression data in a relatively short period of time. Our NovaSeq X Plus, NovaSeq 6000, and NextSeq 2000 instruments combine to provide researchers extreme flexibility in a very cost-efficient manner.

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.

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.

We offer computational analyses of Next-Generation Sequencing data (Illumina and Ion Torrent platforms), including RNA-seq, small RNA-seq, DNA-seq, Bisulfite-seq and ChIP-seq. Our bioinformatics support can be fully customized for your research needs, the scope and objectives of the study. We apply only up-to-data well-proven software and pipelines working under Unix/Linux environment. Optionally, our experts can help to interpret the obtained results from the scientific point of view, provided some of them are working in a close research field.

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.

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.

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.

Privately held, Wyzer Biosciences, Inc. was founded in 2011 and is located in dynamic Cambridge, MA, the home of Harvard, MIT and many other world-class educational and biotech institutions. Through our expertise in molecular biology we provide services to our partners and collaborators in industry and academia that will aid them in their ongoing research. Currently we are focusing on providing the Sanger, NGS (Illumina, Complete Genomics), Third-Generation (Nanopore) DNA sequencing and DNA prep services. Our company is ideally suited to solve your simple and complex sequencing needs. Over the years we have perfected all stages of Sanger sequencing workflow and are particularly well-equipped to deal with many types of difficult templates. Our strength is in fast and reliable double-strand sequence finishing, which includes primer design, contig assembly with editing and rudimentary data analysis. We provide inexpensive plasmid confirmation sequencing service that may be run on one or two platforms to get though difficult motifs and provide high quality data for the entire molecule. We provide various one-of-a-kind services along with the standard sequencing services. Our NGS and TGS services may include secondary bioinformatics analysis like data alignment to references and generation of consensus sequences. If you have some unique sequencing needs on small and medium scale, ask us. We will do our best to accommodate you. In the future we plan to expand our services and offer even wider choice of sequencing platforms and processes to better suit our customer’s needs.

One Codex provides a web-based data platform for identifying microbes in mixed or isolate samples using state-of-the-art metagenomic algorithms. Our technology delivers powerful and accurate microbial characterization while eliminating the need for locally-housed servers or command-line access.

One Codex empowers microbiologists, epidemiologists, and clinical researchers to access the wealth of data provided by modern genome sequencing technology.

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.

Dreamgenics is a biotech company that offers bioinformatics analysis services for genomic, transcriptomic and metagenomic NGS data using our Genome One software. Genome One (CE-IVD certified) is an advanced tool that allows the integration of all the bioinformatics solutions required for the study, including read alignment, variant calling and annotation. Our analyses identify high-quality genomic variants through high sensitivity and specificity standards, extracting important biological information and reducing validation costs. The services that we offer are the following: WGS, WES, Gene panels, Transcriptomics (RNA-Seq) and Metagenomics. Additionally, we hand in the results using our web viewer Genome One Reports (https://www.dreamgenics.com/en/genome-one/).

The use of our bioinformatics tools allows us to offer you high-quality results in a fast and simple way. By using our analysis services, you considerably reduce costs and the investment in technological devices, informatics and qualified professionals.

Lastly, we are an ISO 9001:2015, UNE-EN ISO 13485:2018 and UNE-ISO/IEC 27001:2017 certified company which represents our commitment to provide our customers with products and services that meet the most demanding quality standards.

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.

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

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.

Established in 2014, CEN4GEN® Institute for Genomics and Molecular Diagnostics is a Canadian owned, award winning, licensed private corporation, which excels as a leader in providing diverse services for genomics applications: DNA testing / Genetic testing / Precision Medicine / Personalized Medicine / Preventive Medicine / Genome Medicine. Our distinguished team comprises of highly qualified clinicians, medical scientists, scientists, customer support personnel, product manufacturing and quality control personnel who are experienced in the services and products that we provide. CEN4GEN is proud to provide its cutting edge services so far to clients in Canada, as well as overseas countries in North America, Central America, South America, the Caribbean, Africa, Asia, Europe and the Oceania (specifically Australia and New Zealand). Our clients are from hospitals, universities, clinics, government agencies, commercial entities and private individuals.

CEN4GEN® is committed to providing you with outstanding quality, vital, cost-effective, comprehensive and cutting-edge services using leading-edge technologies.