Products

Axiom™ Rice Genotyping Array Applied Biosystems™

Axiom Rice Genotyping Array offers comprehensive genomic coverage, which allows researchers to easily assay the natural variation of rice varieties worldwide to identify genes underlying important phenotypic traits (e.g., high yields), to understand genetic sources of variation, and to differentiate cultivars for fingerprinting and classification purposes.

Axiom Rice Genotyping Array includes 42,961 markers from GeneChip™ Rice 44K Genotyping Arrayand 5,499 markers from a whole-genome SNP array (RICE6K) for genomic breeding in rice.

Highlights:
Content
   - Backwards compatibility with older data based on 44,000 makers from GeneChip Rice 44K SNP Genotyping Array
   - Detection of common genetic variants within and between the major subpopulations of rice, including indica, aus, tropical japonica, temperate japonica, and group V ('aromatic')
   - Efficient progeny screening in rice breeding with markers identified by Yu et al.

Applications:
Complex-trait research
   - Flexible and fast identification and classification of germplasm
   - Identification of high-yield variants
   - Genome-wide association mapping and tracking of disease genes
Molecular breeding
   - Allows for fingerprinting rice germplasm, genotyping bulked segregating pools, checking seed authenticity, and selecting genetic background
   - Enables genetic variation analysis of any O. sativa strain
   - Offers information for polymorphisms between indica and japonica subspecies as well as varieties within indica and japonica groups

Required Products
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Exome 319 Array Plate Applied Biosystems™

Streamline your causal variant studies by enriching genome-wide association studies (GWAS) datasets with an extensive set of novel, rare, putative functional variants. The content was discovered in 16 major exome sequencing projects spanning a total of 12,000 samples.

With the Axiom Exome 319 Array Plate, you get:
Comprehensive content for highest discovery power
   - More than 300,000 coding SNPs including non-synonymous and synonymous SNPs as well as variants in splice and stop codons.
   - Approximately 30,000 single-base and complex indels from the draft Phase 1 1000 Genomes Project exome calls.
Informative markers to enable integrated data analysis
   - AIMs: Ancestry informative markers to measure Latino and African American ancestry. All markers have low linkage disequilibrium (LD) and span all autosomes and chromosome X.
   - >GWAS tags: Includes over 5,000 SNPs reported in the NHGRI Catalog of Published Associations (August 2011) and additional unpublished hits from scientific collaborations.
   - High value: Contains other markers of interest, including DNA fingerprinting SNPs, human leukocyte antigen (HLA) genes, chromosome Y, mitochondrial DNA, and microRNA sequences.
Customization to include your candidate genes
   - Include an additional 100,000 SNPs from your own candidate genes to meet your research needs. Choose from the Axiom Genomic Database of 11M genotype-tested markers, or include variants of your own choosing.
Proven performance
   - The panel has been fully genotype-tested against stringent QC criteria to ensure high-quality data.
   - Every marker has been tested against approximately 1,200 samples to ensure high sample pass, call rate, and reproducibility.

Axiom Exome Genotyping Array Plates include:
   - Axiom 2.0 Reagent Kit for automated or manual processing of up to 96 samples per array plate.
   - A fully automated workflow with validated robotics methods for target preparation and array processing, based on the Beckman Biomek™ FXP Target Prep Express System and the GeneTitan™ MC Instrument.
   - A manual target preparation protocol for lower-throughput users.
   - Axiom Analysis Suite for automated allele calling and easier quality assessment of called genotypes.

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Wheat Breeder's Genotyping Array Applied Biosystems™

Axiom Wheat HD Genotyping Arrays were designed through Affymetrix Expert Design Program in a collaboration led by Dr. Keith Edwards, project leader and professor of Cereal Functional Genomics at the School of Biological Sciences and member of the Cabot Institute, University of Bristol.*

The arrays were designed through a public sector pre-breeding program dedicated to accelerating the genetic improvement of modern wheat varieties. Select from one of two formats:
• Axiom; Wheat HD Genotyping Array, a high-density research tool with 817,000 SNPs in a two-array set in the 96-array plate format
• Axiom; Wheat Breeder's Genotyping Array, which includes 35,000 SNPs for worldwide elite wheat lines in the 384-array plate format

Markers on these arrays can be queried on the CerealsDB website (http://www.cerealsdb.uk.net/). This is a searchable database that was created by the Functional Genomics group at the University of Bristol, UK for the purpose of making SNP information available to the worldwide wheat community. It is updated regularly and contains:

• SNP statistics: Map location or contig code, 120 bp flanking sequences. MAF and PIC score are provided for SNPs on Axiom Wheat Breeder's Genotyping Array
• Variety comparison: Select two or more varieties of wheat to see the SNPs in common or SNPs that are different between them

*Expert Design Arrays are designed by key opinion leaders in the plant and animal genomics community and made available to the public for the purpose of advancing research and breeding programs. These arrays contain genetic markers and annotations that are provided by the original customer who designed the array and are therefore not updated by Affymetrix in the same manner as other catalog products. Through the program, Affymetrix continually provides agrigenomics researchers access to genotyping arrays that have been utilized by their peers in the research community.

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Transplant Genotyping Array Applied Biosystems™

Axiom™ Transplant Genotyping Array, one of the Axiom™ Biobank Genotyping Arrays, is designed for high-powered, genome-wide genotyping of large sample collections such as those screened at biobanks, genome centers, and core labs.

Axiom Transplant Genotyping Array was designed by and for thought leaders in the human genetics community for high-throughput, high-value genotyping of large sample cohorts to explore the genetics of complex diseases and translational research with a single comprehensive low-cost solution.

GWAS

•Intelligent marker selection enables imputation of millions of additional SNPs
•The genomic content module of each array is optimized for specific populations and is customizable to any 1000 Genomes population study by adding additional markers of your choosing

Transplant

•Content specific for transplantation research including functional variants, loss-of-function markers, and copy number
•Immune function, including content covering the major histocompatibility complex (MHC), human leukocyte antigen (HLA), and killer-cell immunoglobulin-like receptors (KIR)

Pharmacogenomic markers

•Markers were selected to represent phases of absorption, distribution, metabolism, and excretion (ADME)

Inflammation and HLA

•Contains markers with evidence for association with autoimmune and inflammation
•Covers variants in genes in the HLA and KIR regions known to be important in immune response

Exome

•Rare, non-synonymous coding SNPs and indels in protein coding regions of the genome
•A majority of variants are rare with minor allele frequency (MAF) <1%
•Newly discovered loss-of-function content
•SNPs and indels identified from a sequencing initiative of 26,000 individuals
•Known disease-causing mutations

eQTLs

•Markers that have known associations to RNA expression traits
•Captures unique eQTLs contained in the NCBI Genotype-Tissue Expression (GTEx) eQTL database, GEUVIDAS project, and several other discovery projects

Human disease

•Alzheimer's disease, including coverage of ApoE
•Blood phenotypes
•Cancer common variants
•Cardiometabolic

Choose your content

•Order the pre-designed array and customize it with markers of your choice
•Custom markers may be de novo or selected from the Axiom™ Genomic Database of genotype-tested markers

Please note: Reagent kits do not include plastic consumables required to run the assay on the Beckman Biomek™ FXP Target Prep Express System. For a list of required Beckman consumables, please see the Axiom™ 2.0 Automated Assay User Guide below.


Axiom™ Bovine-Ovine-Caprine Genotyping Array Applied Biosystems™

Axiom Bovine-Ovine-Caprine Genotyping Array (Axiom Ovicap Array) for animal genotyping was designed through the Affymetrix Expert Design Program. The array includes single nucleotide polymorphisms (SNPs) that were identified by the United States Department of Agriculture Agricultural Research Service (USDA ARS), International Sheep Genomics Consortium (ISGC), and the International Goat Genome Consortium for each of the three different species (bovine, ovine, and caprine, respectively. The content for caprine includes SNPs located within the four casein genes implicated in milk production.The array also includes markers for ovine and bovine parentage analysis.

Highlights
• Expert design: developed by key opinion leaders in the community
• Informative, including parentage markers from existing in-market arrays, allowing compatibility with previous studies
• A singe array for three species:
   - Bovine: 54,560 markers.
   - Ovine: 54,236 markers.
   - Caprine: 60,034 markers.

Applications
• Construction of high-resolution genetic maps
• Genetic improvement of pure lines
• Fine mapping of quantitative trait loci (QTL)
• Calculating breeding values
• Parentage analysis

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Genome-Wide CHB 2 Array Plate Applied Biosystems™

Axiom Genome-Wide Population-Optimized Human Arrays are genotyping panels that offer the best genetic coverage of rare and common variants for genome-wide disease association studies.

The Axiom Genome-Wide CHB 2 Array Plate is designed to target rare variants (MAF 2-5%) as a complement to Axiom Genome-Wide CHB 1 Array Plate. The Axiom Genome-Wide CHB 1 and CHB 2 Array Set Bundle enables the most comprehensive commercially available genome-wide coverage in CHB populations.

Benefits of Axiom Genome-Wide Population-Optimized Arrays
Each array plate was designed to achieve ˜90% genomic coverage (r2 >0.8) in each target population, while covering markers with MAF of 1-5% in areas such as:
• Critical biological categories (e.g., coding SNPs)
• Biological processes (e.g., drug metabolizing genes)
• Disease categories (e.g., cardiovascular disease, cancer, immunity/inflammation, MHC, and CNS)
• Common and rare SNPs and insertions/deletions (indels) from the International HapMap Project, 1000 Genomes Project, and published disease associations
• Genotype-tested genomic content proven to give informative and reliable results
• Markers preselected for coverage in critical biological categories, such as coding SNPs, and biological pathways, such as drug metabolizing or cardiovascular genes
• High sample pass rate, call rate, and reproducibility
• Compatible with the Axiom 2.0 Reagent Kit, GeneTitan™ MC Instrument, automated or manual workflow, and Genotyping Console™ Software

Other Maximum Genome-Wide Coverage Arrays
These array plates are designed to maximize whole-genome coverage of common and rare alleles, including SNPs within 10 kb of genes.
Axiom Genome-Wide CEU 1 Array Plate - The first cost-effective array to maximize coverage of rare variants (MAF >1%) for European populations
Axiom Genome-Wide ASI 1 Array Plate - The first array designed to maximize genomic coverage of rare alleles (MAF >1%) of a consensus East Asian (JPT+CHB) genome
The Axiom Genome-Wide CHB 1 and CHB 2 Array Set Bundle - This set bundle contains the Axiom Genome-Wide CHB 1 Array Plate and the Axiom Genome-Wide CHB 2 Array Plate. The Axiom Genome-Wide CHB 1 Array Plate maximizes genomic coverage of common alleles (MAF >5%) of the Han Chinese genome. The Axiom Genome-Wide CHB 2 Array Plate is designed to target rare variants (MAF 2-5%) as a complement to Axiom Genome-Wide CHB 1 Array Plate. The Axiom Genome-Wide CHB 1 Array Plate designed to target common variants (MAF >5%) can be accessed at 901764.
Axiom Genome-Wide PanAFR Array Plate Set - The first array to offer pan-African genomic coverage, with ≥90% genetic coverage of common and rare variants (MAF >2%) of the Yoruba (West African) genome and >85% coverage of common and rare variants (MAF >2%) of the Luhya and Maasi (East African) genomes. This array set also offers high genomic coverage (>85%) in admixed populations with West African ancestry.

Please visit our
NetAffx Analysis Center for more information on microarray analysis

Don't see what you're looking for? Learn how to create an Axiom myDesign™ Array Plate tailored for your study.

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Multispecies Plant Genotyping Array, (384HT format) Applied Biosystems&trade

The Axiom Multispecies Plant Genotyping Array was designed in collaboration with Drs. Dario Grattapaglia and Orzenil B. Silva Junior, research scientists connected to Embrapa and Universidade Catolica de Brasilia, Brazil, with funding from CNPq grants. This array is also available in mini-96 format.

The array contains markers from multiple plant species:
  • Anacardium occidentale (Cashew nut tree): 16,504 SNPs
    • SNP discovery was conducted from whole-genome individual resequencing of 25 diverse accessions
  • Manihot esculenta (Cassava): 3,417 SNPs
    • SNP discovery was obtained from 20 resequenced accessions by JGI (NCBI data)
  • Araucaria angustifolia (Brazilian pine): 3,400 SNPs
    • SNP discovery was obtained from reduced representations of RAD and RNAseq data
  • Eucalyptus grandis (Eucalyptus tree): 2,000 SNPs
    • Current validated markers from the public domain
Required products
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument
Axiom Analysis Suite Software
Axiom Long Export Format Software

Axiom™ HLA Typing Analysis Services Applied Biosystems™

High-resolution HLA typing on large-scale sample sets over thousands of markers
The human leukocyte antigen (HLA) complex is the human version of the major histocompatibility complex (MHC); this complex includes genes responsible for immune function. Variations in these genes affect immune response, including transplant rejection as well as disease susceptibility.

The highly polymorphic nature of this region and the prevalence of pseudogenes create challenges in traditional genotyping methods. Combining the use of direct genotyping with advanced imputation methods over the extended MHC region allows accurate HLA typing from SNP genotype data.

4-digit HLA types for 11 major loci
•With Axiom HLA Analysis 1.2, you will now be able to produce accurate HLA types from any genotyping data set from Affymetrix containing high-quality genotypes of a select number of predetermined markers.

Coverage of major HLA genes
•Determine the HLA type of 11 major MHC Class I and Class II loci (see Fig. 1) with 2-digit and 4-digit resolution.
•Integrate HLA typing with genotyping data for insight into immune system variation associations with genome-wide association studies (GWAS).

Direct genotyping and imputation
•Utilize an ancestry-enriched reference panel (see Fig. 2) for populations of interest to improve accuracy of HLA typing. The current reference panel is enriched for Caucasian populations.
•Leverage allele frequency patterns and linkage disequilibrium through imputation and direct genotyping in the extended MHC region to generate accurate HLA haplotypes.
•Overcome challenges in multi-ethnic populations for high-accuracy typing of HLA loci, see the publication on Multi-Population Classical HLA Type Imputation.

Easy-to-use software
•Select and import a genotyping file in the Axiom HLA Analysis window (see Fig. 3). The software supports our array genotyping output files in .vcf format.
•Analyze HLA loci of interest: select from 11 major MHC Class I and Class II HLA loci.
•Export selected loci results for all samples in 'Full Report' for 4-digit or 2-digit resolution or for selected samples in 'Per Sample Report.'

HLA analysis of genotyping data from systems other than our genotyping arrays
Affymetrix Research Service Laboratory (ARSL) provides direct HLA analysis of any high-quality genotyping data set with sufficient coverage of markers within the extended MHC region. Please inquire for more information.

Download information and instructions
Download the latest version of the Axiom HLA Analysis 1.2 (64-bit) and install the software by following the installation instructions found in the Axiom™ HLA Analysis User Guide. This version is supported on Microsoft Windows®7 Professional (SP 1) with Quad Core Processor and can be used for analyzing data from Axiom™ Human Genotyping Solution and Genome-Wide Human SNP Array 6.0 genotyping arrays.

Please note that while any population can be analyzed with this software, lower accuracy may be observed for some loci and alleles depending on their frequency in the reference panel. The current reference panel is optimized for Caucasian populations; we are continuing to improve coverage of additional ethnicities to improve call rates and accuracy.

For a list of features and system requirements, please download the latest release notes.

Click here to download a copy of Axiom™ HLA Analysis software.
Download software

Additional software files and analysis solutions from Affymetrix
Axiom™ Analysis Suite
Affymetrix Power Tools (APT)
Genotyping Console™ (GTC) Software
SNPolisher

Axiom™ Genome-Wide ASI 1 Array Plate Applied Biosystems™

Axiom Genome-Wide Population-Optimized Human Arrays are genotyping panels that offer the best genetic coverage of rare and common variants for genome-wide disease association studies.

The Axiom Genome-Wide ASI 1 Array Plate is the first array designed to maximize genomic coverage of rare alleles (MAF >1%) of a consensus East Asian (JPT+CHB) genome

Benefits of Axiom Genome-Wide Population-Optimized Arrays
Each array plate was designed to achieve ˜90% genomic coverage (r2 >0.8) in each target population, while covering markers with MAF of 1-5% in areas such as:
• Critical biological categories (e.g., coding SNPs)
• Biological processes (e.g., drug metabolizing genes)
• Disease categories (e.g., cardiovascular disease, cancer, immunity/inflammation, MHC, and CNS)
• Common and rare SNPs and insertions/deletions (indels) from the International HapMap Project, 1000 Genomes Project, and published disease associations
• Genotype-tested genomic content proven to give informative and reliable results
• Markers preselected for coverage in critical biological categories, such as coding SNPs, and biological pathways, such as drug metabolizing or cardiovascular genes
• High sample pass rate, call rate, and reproducibility
• Compatible with the Axiom 2.0 Reagent Kit, GeneTitan™ MC Instrument, automated or manual workflow, and Genotyping Console™ Software

Other Maximum Genome-Wide Coverage Arrays
These array plates are designed to maximize whole-genome coverage of common and rare alleles, including SNPs within 10 kb of genes.
Axiom Genome-Wide CEU 1 Array Plate - The first cost-effective array to maximize coverage of rare variants (MAF >1%) for European populations
The Axiom Genome-Wide CHB 1 and CHB 2 Array Set Bundle - This set bundle contains the Axiom Genome-Wide CHB 1 Array Plate and the Axiom Genome-Wide CHB 2 Array Plate. The Axiom Genome-Wide CHB 1 Array Plate maximizes genomic coverage of common alleles (MAF >5%) of the Han Chinese genome. The Axiom Genome-Wide CHB 2 Array Plate is designed to target rare variants (MAF 2-5%) as a complement to Axiom Genome-Wide CHB 1 Array Plate
The Axiom Genome-Wide CHB 2 Array Plate - This array is designed to target rare variants (MAF 2-5%) as a complement to Axiom Genome-Wide CHB 1 Array Plate. The Axiom Genome-Wide CHB 1 and CHB 2 Array Set Bundle enables the most comprehensive commercially available genome-wide coverage in CHB populations.

• The Axiom Genome-Wide PanAFR Array Plate Set - The first array to offer pan-African genomic coverage, with ≥90% genetic coverage of common and rare variants (MAF >2%) of the Yoruba (West African) genome and >85% coverage of common and rare variants (MAF >2%) of the Luhya and Maasi (East African) genomes. This array set also offers high genomic coverage (>85%) in admixed populations with West African ancestry.

Please visit our NetAffx Analysis Center for more information on microarray analysis

Don't see what you're looking for? Learn how to create an Axiom myDesign™ Array Plate tailored for your study.

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ BreedWheat 35K Genotyping Array (384HT format) Applied Biosystems™

The Axiom BreedWheat 35K Genotyping Array (Axiom TaBW35K) was designed in the framework of the BreedWheat Project in collaboration with Dr. Etienne Paux, project leader at the National Institute for Agricultural Research, Clermont-Ferrand, France. The BreedWheat Project, a French public-private partnership, aims at strengthening the competitiveness of the French wheat-breeding sector, as well as to address the societal demands for sustainability, quality, and safety in agricultural production. This array is also available in mini-96 format.

The 34,746 SNPs on this array were derived from the Axiom TaBW280K Genotyping Array (1). Several selection criteria were applied, including clustering profiles, even distribution (based on linkage disequilibrium data rather than physical positions), and known position on the IWGSC RefSeq v1.0.

Information on the SNPs, including physical and genetic positions, context sequences, and statistics derived from a panel of 96 wheat lines representative of the worldwide diversity are also provided.

Required products
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument
Axiom Analysis Suite Software

Reference
1. Rimbert H, Darrier B, Navarro J, Kitt J, Choulet F, et al. (2018) High throughput SNP discovery and genotyping in hexaploid wheat. PLOS ONE 13(1): e0186329.

Axiom™ Genome-Wide CHB 1 & CHB 2 Array Set Bundle Applied Biosystems™

Axiom Genome-Wide Population-Optimized Human Arrays are genotyping panels that offer the best genetic coverage of rare and common variants for genome-wide disease association studies.

The Axiom Genome-Wide CHB 1 and CHB 2 Array Set Bundle contains the Axiom Genome-Wide CHB 1 Array Plate and the Axiom Genome-Wide CHB 2 Array Plate. The Axiom Genome-Wide CHB 1 Array Plate maximizes genomic coverage of common alleles (MAF >5%) of the Han Chinese genome. The Axiom Genome-Wide CHB 2 Array Plate is designed to target rare variants (MAF 2-5%) as a complement to Axiom Genome-Wide CHB 1 Array Plate. The Axiom Genome-Wide CHB 1 and CHB 2 Array Set Bundle enables the most comprehensive commercially available genome-wide coverage in CHB populations.

Benefits of Axiom Genome-Wide Population-Optimized Arrays
Each array plate was designed to achieve ˜90% genomic coverage (r2 >0.8) in each target population, while covering markers with MAF of 1-5% in areas such as:
• Critical biological categories (e.g., coding SNPs)
• Biological processes (e.g., drug metabolizing genes)
• Disease categories (e.g., cardiovascular disease, cancer, immunity/inflammation, MHC, and CNS)
• Common and rare SNPs and insertions/deletions (indels) from the International HapMap Project, 1000 Genomes Project, and published disease associations
• Genotype-tested genomic content proven to give informative and reliable results
• Markers preselected for coverage in critical biological categories, such as coding SNPs, and biological pathways, such as drug metabolizing or cardiovascular genes
• High sample pass rate, call rate, and reproducibility
• Compatible with the Axiom 2.0 Reagent Kit, GeneTitan™ MC Instrument, automated or manual workflow, and Genotyping Console™ Software

Other Maximum Genome-Wide Coverage Arrays
These array plates are designed to maximize whole-genome coverage of common and rare alleles, including SNPs within 10 kb of genes.
Axiom Genome-Wide CEU 1 Array Plate - The first cost-effective array to maximize coverage of rare variants (MAF >1%) for European populations
Axiom Genome-Wide ASI 1 Array Plate - The first array designed to maximize genomic coverage of rare alleles (MAF >1%) of a consensus East Asian (JPT+CHB) genome
Axiom Genome-Wide PanAFR Array Plate Set - The first array to offer pan-African genomic coverage, with ≥90% genetic coverage of common and rare variants (MAF >2%) of the Yoruba (West African) genome and >85% coverage of common and rare variants (MAF >2%) of the Luhya and Maasi (East African) genomes. This array set also offers high genomic coverage (>85%) in admixed populations with West African ancestry.

Please visit our NetAffx Analysis Center for more information on microarray analysis

Don't see what you're looking for? Learn how to create an Axiom myDesign™ Array Plate tailored for your study.

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Human Genotyping SARS-CoV-2 Research Array, 96 format Thermo Scientific™

The Axiom Human Genotyping SARS-CoV-2 Research Array is a comprehensive whole-genome genotyping tool designed for epidemiological research of host genetics in relation to SARS-CoV-2 infectious disease. The array offers >820,000 markers prioritized for dense coverage of genes implicated in underlying conditions that may influence disease susceptibility, severity, and outcome, including coronary artery disease, chronic obstructive pulmonary disease, diabetes, and high blood pressure. The array also offers dense coverage of the ACE2 and TMPRSS2 genes associated with viral entry points, as well as coverage of relevant pharmacogenes.

The Axiom Human Genotyping SARS-CoV-2 Research Array, along with the Axiom Genotyping Solution, delivers an impactful research solution that converts samples to whole-genome data for multi-ethnic populations. The array can be used to perform both prospective studies and retrospective studies with previously generated data.

Features of the Axiom Human Genotyping SARS CoV-2 Research Array include:
• Large GWAS module (>820,000) that includes variants for the research of key underlying health conditions for association studies and meta-analyses of previously generated data
• Research markers associated with underlying conditions such as lung disease, diabetes, cardiovascular disease, and respiratory distress
• A SARS-CoV-2-specific research module that includes markers for:
    --Various cytokines and pathway (e.g., NOTCH signaling pathways, RAAS ) associated with immunology, inflammation, and respiratory distress
    --ACE2 and TMPRSS2 genes associated with cell surface receptors and virus entry facilitators
    --Structural and non-structural proteins predicted or observed to interact with viral proteins
• Pharmacogenomic markers for research into druggable targets and adverse drug reactions
• Variants covering various blood groups including ABO
• Over 18,000 markers from the UK Biobank Axiom Array for the research of cardio-vascular disease and diabetes

Required products
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument
Axiom Analysis Suite Software
Axiom Long Export Format Software

Axiom™ Wheat HD Genotyping Arrays Applied Biosystems™

Axiom Wheat HD Genotyping Arrays were designed through Affymetrix Expert Design Program in a collaboration led by Dr. Keith Edwards, project leader and professor of Cereal Functional Genomics at the School of Biological Sciences and member of the Cabot Institute, University of Bristol.*

This product is part of a two array set. Array Plate B can be accessed at 550492 Axiom™ Wheat HD Genotyping Arrays.

The arrays were designed through a public sector pre-breeding program dedicated to accelerating the genetic improvement of modern wheat varieties. Select from one of two formats:
• Axiom; Wheat HD Genotyping Array, a high-density research tool with 817,000 SNPs in a two-array set in the 96-array plate format
• Axiom; Wheat Breeder's Genotyping Array, which includes 35,000 SNPs for worldwide elite wheat lines in the 384-array plate format

Markers on these arrays can be queried on the CerealsDB website (http://www.cerealsdb.uk.net/). This is a searchable database that was created by the Functional Genomics group at the University of Bristol, UK for the purpose of making SNP information available to the worldwide wheat community. It is updated regularly and contains:

• SNP statistics: Map location or contig code, 120 bp flanking sequences. MAF and PIC score are provided for SNPs on Axiom Wheat Breeder's Genotyping Array
• Variety comparison: Select two or more varieties of wheat to see the SNPs in common or SNPs that are different between them

*Expert Design Arrays are designed by key opinion leaders in the plant and animal genomics community and made available to the public for the purpose of advancing research and breeding programs. These arrays contain genetic markers and annotations that are provided by the original customer who designed the array and are therefore not updated by Affymetrix in the same manner as other catalog products. Through the program, Affymetrix continually provides agrigenomics researchers access to genotyping arrays that have been utilized by their peers in the research community.

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Trout Genotyping Array (96 format) Applied Biosystems™

Axiom Trout Genotyping Array (96 format) was designed under the Affymetrix Expert Design Program in collaboration with the National Center for Cool and Cold Water Aquaculture, USDA-ARS, USA, and AquaGen, Trondheim, Norway. The array includes 57,501 markers and is available in both 96 format and 384 format.

Axiom Trout Genotyping Array offers a standard high-throughput, cost-effective, and robust genotyping technology to conduct genome-wide association studies (GWAS), to study genetic architecture, perform marker-trait association, and to increase accuracy of breeding programs. The high marker density on the array ensures a broad coverage of the trout genome to provide representation of all regions in the genome.

Features of Axiom Trout Genotyping Array
Comprehensive content: The array includes 57,501 markers spaced across the genome as follows:
    - 17,000 markers that are unique to SNPs discovered in a previous USDA study1
    - 20,000 markers unique to an outbred Norwegian commercial population
    - Amino acid shifting SNPs
    - SNPs preferentially located within a gene and with minor allele frequency (MAF) >0.2
    - Y chromosome-specific SNPs near the sdY gene (male-specific in rainbow trout)2

Applications of Axiom Trout Genotyping Array
Complex trait research and molecular breeding
    - GWAS and quantitative trait locus (QTL) mapping
    - Identification of economically important traits
    - Improved accuracy in aquaculture breeding programs through genomic selection

Population and evolutionary genetics
    - Development of new breeding populations
    - Differentiation between fish of different origins
    - Gender determination via sdY chromosome-specific probes
    - Differentiation of farmed and wild populations

Required Products
Axiom Analysis Suite
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument

Axiom™ Genotyping Services, Non-Human Catalog 96 Applied Biosystems™

Axiom™ Services non-Human Catalog 96
Our service lab has genotyped more than one million samples and called about 650 billion genotypes, enabling our customers to complete their genotyping studies quickly and affordably. Our staff uses expert knowledge of best practices to process and analyze your samples, manage your Axiom Genotyping Services project from start to finish, and meet your crucial deadlines. Descriptions of the variety of Axiom Genotyping Services offered are listed below.

Axiom Catalog Array Genotyping Services
Our Axiom Catalog Array Genotyping Services offer hassle-free, high quality data for any existing Axiom Genome-Wide Array Plates or pre-designed arrays. This includes genotyping services using arrays for a variety of organisms and for a range in number of SNPs from 675,000 to two million.

myDesign™ Array Genotyping Services
myDesign Array Genotyping Services enable you to create fully or semi-customized genotyping arrays containing 1,500 to 2.6 million markers and then have them processed by our Research Services Laboratory with the same high-quality and fast turnaround time we provide for our catalog arrays.

For any of the above services, Please inquire for more information.

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