The KED Genomics Core, a sequencing facility at Arizona State University, has been in operation since 2009, offering scientists and researchers within ASU and worldwide the opportunity to perform a full range of genomic applications, such as Whole Genome Sequencing (WGS), RNA sequencing (including options for poly(A) selection, ribosomal depletion, and degraded/FFPE RNA),library preparation of ChIP samples, de novo sequencing, metagenomics sequencing, single-cell sequencing, and traditional Sanger sequencing.
All next generation sequencing applications are performed on the Illumina platform with the MiSeq and NextSeq instruments, using the principle of “sequencing by synthesis” to generate millions of sequence fragments that can then be assembled into a genome, transcriptome, exome, or amplicon library as relevant. The two sequencers in the core provide data output ranging from 1 million reads to 400 million reads in varying read lengths, enabling the core to sequence projects ranging from proof-of-concept to genome assembly. Learn more about the Illumina platform.
Recently, the core acquired a 10X Genomics instrument for sample partitioning and molecular barcoding prior to sequencing, and is pleased to be able to offer single-cell sequencing pipelines to the ASU community through this platform. Learn more about the 10X Genomics platform.
For metagenomics sequencing, 16S, 18S, or ITS regions can be isolated and sequenced as relevant and are sequenced on the MiSeq instrument, allowing researchers to characterize and study microbial communities from various environments such as soils, freshwater, seawater, waste water, and host-microbe associations. More information about the primer sets used for targeted metagenomics can be found on our Information and Resources tab.
The Genomics Core also maintains a close partnership with the ASU Bioinformatics Core, providing researchers with access to a Ph.D level informatics team experienced with NGS sample processing for downstream informatics needs. Learn more about the Bioinformatics Core.
The core has also made several instruments available for researchers to use independently. Currently, an Agilent Tapestation, a Quantstudio 5, a Covaris M220, and a Qubit4 are open for scheduled use following training by a member of the core’s staff. Please visit our Equipment tab for more details about our instruments, or contact us to schedule training.
In addition, the expertise of the Genomics Core staff is available for researchers at any point in the experimental process. Please contact the core to set up a consultation for any questions!
Joy Blain, Ph.D
Genomics Core Manager
joy.blain@asu.edu
(480) 965-4998
Kristina Buss
Bioinformatics Core Manager
kristina.buss@asu.edu
Anna Engelbrektson
NGS Principal Research Specialist
aengelb3@asu.edu
Dee Plueard
Research Technician
dee.plueard@asu.edu
Hours | Location |
Monday - Friday 8 am to 4:30 pm |
Biodesign Institute 1001 S. McAllister Ave Tempe, AZ 85287 |
Name | Role | Phone | Location | |
---|---|---|---|---|
Genomics |
(480) 965-4998
|
genomicshelp@asu.edu
|
||
Bioinformatics |
asubioinformatics@asu.edu
|
Services List |
► NGS Bioinformatics Analysis (14) | |||
Name | Description | Price | |
---|---|---|---|
ChIP-Seq: Peak Calling and Annotation/DRG Analysis |
ASU Standard
$165.00
Sample
Academic/Non-Profit $175.00 Sample |
||
Single-Cell Sequencing Analysis |
Single-Cell Sequencing Analysis include: single-cell RNAseq and ATACseq. |
ASU Standard
$346.50
Sample
Academic/Non-Profit $462.00 Sample |
|
Custom Bioinformatics and Biostatistics Analysis or Consultation |
Customized service to be discussed with the bioinformatics team Price based on time spent for analysis or consultation outside time covered by a separate bioinformatics project ($80/hour) Type of projects example: Bioinformaticcs: Microarray analysis, GWAS, Population genetics & genomics, Demultiplexing Biostatistics: Machine learning/ Statistical learning application, Power analysis, Survival Analysis, ANOVA, Rgression analysis, Dimensional reduction, mixed model, Biomarker identification, and etc |
ASU Standard
$88.00
/hr
Academic/Non-Profit $88.00 /hr |
|
RNA-Sequencing - Standard: Transcript Quantification/DEG Analysis/Pathway Analysis |
Transcript quantification involves QA/QC, read alignment, peak calling, quantification and normalization. The output file contains information on the identity and quantity of each detected isoform of known transcript as annotated in the NCBI RefSeq or ENSEMBL database. DEG analysis is performed on each transcript with appropriate statistical test and correction for multiple comparisons. Pathway analysis includes enrichment analysis that reports statistical significance for common pathways (e.g., KEGG pathways). |
ASU Standard
$140.00
each
Academic/Non-Profit $140.00 each |
|
RNA-Sequencing - Novel Transcripts: Novel Transcript Quantification/DEG Analysis/Pathway Analysis |
Transcript quantification involves QA/QC, read alignment, peak calling, quantification and normalization. The output file contains information on the identity and quantity of each detected isoform of known transcript as annotated in the NCBI RefSeq or ENSEMBL database. Novel transcripts that are detected in the samples but not annotated in the NCBI/ENSEMBLdatabase are also included in the output file. DEG analysis is performed on each transcript with appropriate statistical test and correction for multiple comparisons. Pathway analysis includes enrichment analysis that reports statistical significance for common pathways (e.g., KEGG pathways). |
ASU Standard
$180.00
each
Academic/Non-Profit $180.00 each |
|
RNA-Sequencing: Dual RNA-Seq |
Same service as RNA-Sequencing (Standard) with both host and pathogen detected |
ASU Standard
$160.00
Sample
Academic/Non-Profit $160.00 Sample |
|
Whole Genome Re-sequencing - Variants Calling: SNP/INDEL/SV/Somatic/CNV/Annotation |
Call variants involves QA/QC, read alignment, and mutation detection. SNPs include substitutions, insertions and deletions. INDELs include small insertions and deletions (<50bp). SVs include copy number variants, translocations and other types of variants with length >50bps. The output file contains information on the reference allele, alternative allele, read counts and quality score for each called mutation on nucleotide level. Functional annotations include information on amino acid changes, functional significance predicted by SnpEff. |
ASU Standard
$175.00
each
Academic/Non-Profit $175.00 each |
|
Metagenomics - WGS: Taxonomical Analysis/Denovo Genome Assembly and Annotation |
Taxonomical analysis includes taxomony profiling and statistical analysis of biodiversity on species taxonomies or operational taxonomic units. De novo genome assembly involves QA/QC and construction of draft genomes/contigs. Gene annotation includes gene prediction (e.g., coordinates of exons and coding regions) and functional annotation (e.g. gene identity and function). |
ASU Standard
$380.00
Sample
Academic/Non-Profit $440.00 Sample |
|
Microbiome Sequencing Demultiplexing |
ASU Standard
$80.00
each
Academic/Non-Profit $85.00 each |
||
Microbiome 16S rRNA Sequencing Analysis: 1-20 Samples |
Microbiome Analysis for 16S rRNA sequencing, including taxonomic profiling, phylogenetic reconstruction, Alpha / Beta diversity, PCA plots and etc.. price: per sample |
ASU Standard
$16.50
Sample
Academic/Non-Profit $16.50 Sample |
|
Microbiome 16S rRNA Sequencing Analysis: 21-49 Samples |
Microbiome Analysis for 16S rRNA sequencing, including taxonomic profiling, phylogenetic reconstruction, Alpha / Beta diversity, PCA plots and etc.. |
ASU Standard
$14.50
Sample
Academic/Non-Profit $14.50 Sample |
|
Microbiome 16S rRNA sequencing Analysis 50-280 samples |
Microbiome Analysis for 16S rRNA sequencing, including taxonomic profiling, phylogenetic reconstruction, Alpha / Beta diversity, PCA plots and etc. |
ASU Standard
$12.50
Sample
Academic/Non-Profit $12.50 Sample |
|
Whole-Exome-Sequencing - WES: Variants calling and annotation |
Exons & 5’-UTR, resequencing a single eurokaryotic species, call mutations involve QA/QC, read alignment, and germinal/somatic mutation detection. The output file contains information on position, reference allele, alternative allele, read counts, allele fraction and quality score for each called mutation on nucleotide level. Exons & 5’-UTR, resequencing a single eurokaryotic species, functional annotations include information on amino acid changes, functional significance predicted by SnpEff, ANNOVAR (including PolyPhen-2, SIFT and MutAssessor) and CHASM, frequency in the 1000 Genomes Project, COSMIC, TCGA and ICGC database, GeneOntology, pathways and potential bioassays and compounds in PubChem. |
ASU Standard
$175.00
each
Academic/Non-Profit $175.00 each |
|
Demultiplexing, Standard FastQ file Generation for QC and DataReturn |
Demultiplexing FastQ file generation from NextSeq run for QC DataReturn Price per project |
ASU Standard
$77.00
lane
Academic/Non-Profit $82.50 lane |
|
► NGS Run Modules - MiSeq (6) | |||
Name | Description | Price | |
MiSeq 2x150 Nano |
Academic/Non-Profit
$572.00
Run
ASU Standard $572.00 Run |
||
MiSeq 2x250 Nano |
Academic/Non-Profit
$750.75
Run
ASU Standard $750.75 Run |
||
MiSeq 2x75 |
Academic/Non-Profit
$1,531.00
Run
ASU Standard $1,531.00 Run |
||
MiSeq v2 2x150 Cycles |
Academic/Non-Profit
$1,765.50
Run
ASU Standard $1,765.50 Run |
||
MiSeq v2 2x250 Cycles |
Academic/Non-Profit
$1,963.50
Run
ASU Standard $1,963.50 Run |
||
MiSeq v3 2x300 Cycles |
Academic/Non-Profit
$2,744.50
Run
ASU Standard $2,744.50 Run |
||
► NGS Sample Prep - DNA (3) | |||
Name | Description | Price | |
DNA Library Preparation 1-12 Samples |
ASU Standard
$192.00
Sample
Academic/Non-Profit $208.00 Sample |
||
DNA Library Preparation 13-96 Samples |
ASU Standard
$172.00
Sample
Academic/Non-Profit $188.00 Sample |
||
DNA Library Preparation 97+ Samples |
ASU Standard
$152.00
Sample
Academic/Non-Profit $168.00 Sample |
||
► NGS Sample Prep - Microbiome (4) | |||
Name | Description | Price | |
Microbiome DNA Library Preparation 1-20 Samples |
ASU Standard
$90.00
Sample
Academic/Non-Profit $97.00 Sample |
||
Microbiome Library Prep 21-49 Samples |
ASU Standard
$84.00
Sample
Academic/Non-Profit $91.00 Sample |
||
Microbiome Library Prep 50-95 Samples |
ASU Standard
$73.00
Sample
Academic/Non-Profit $80.00 Sample |
||
Microbiome Library Prep 96+ Samples |
ASU Standard
$53.00
Sample
Academic/Non-Profit $60.00 Sample |
||
► NGS Sample Prep - RNA (7) | |||
Name | Description | Price | |
Bacterial Ribodepletion |
ASU Standard
$70.00
Sample
Academic/Non-Profit $75.00 Sample |
||
Human/Mouse/Rat Ribodepletion |
ASU Standard
$105.00
Sample
Academic/Non-Profit $110.00 Sample |
||
mRNA Pulldown |
ASU Standard
$64.00
Sample
Academic/Non-Profit $71.50 Sample |
||
RNA Library Construction, 1-8 Samples |
ASU Standard
$160.00
Sample
Academic/Non-Profit $173.00 Sample |
||
RNA Library Construction, 9-24 Samples |
ASU Standard
$130.00
Sample
Academic/Non-Profit $143.00 Sample |
||
RNA Library Construction 25+ Samples |
ASU Standard
$105.00
Sample
Academic/Non-Profit $112.00 Sample |
||
Single Cell Library Prep |
ASU Standard
$3,500.00
Sample
Academic/Non-Profit $3,850.00 Sample |
||
► Nucleic Acid Extraction (2) | |||
Name | Description | Price | |
DNA Extraction |
ASU Standard
$18.00
Sample
Academic/Non-Profit $20.00 Sample |
||
RNA Extraction |
ASU Standard
$30.00
Sample
Academic/Non-Profit $32.00 Sample |
||
► Quality Control (6) | |||
Name | Description | Price | |
FLX800TBI Fluorescent Plate Reader |
ASU Standard
$30.00
plate
Academic/Non-Profit $32.00 plate |
||
Qubit DNA Analysis |
ASU Standard
$3.00
Sample
Academic/Non-Profit $3.50 Sample |
||
Qubit RNA Analysis |
ASU Standard
$4.00
Sample
Academic/Non-Profit $4.50 Sample |
||
Staff Labor |
ASU Standard
$65.00
/hr
Academic/Non-Profit $93.50 /hr |
||
Tapestation DNA Analysis |
ASU Standard
$18.00
Sample
Academic/Non-Profit $20.00 Sample |
||
TapeStation RNA Analysis |
ASU Standard
$18.00
Sample
Academic/Non-Profit $20.00 Sample |
||
► Sanger Sequencing (5) | |||
Name | Description | Price | |
Post PCR Clean Only |
ASU Standard
$145.00
plate
Academic/Non-Profit $154.00 plate |
||
Post-PCR Clean and Sequence, 1-48 samples |
The "Post-PCR Clean and Sequence" service is for end users that wish to send CRUDE PCR samples. This charge is for PCR purification and one primer reaction. For additional primers on the the same construct, please use "purified DNA for Sanger seqeuncing". |
ASU Standard
$5.75
Sample
Academic/Non-Profit $6.50 Sample |
|
Post-PCR Clean and Sequence, 49+ samples |
The "Post-PCR Clean and Sequence" service is for end users that wish to send CRUDE PCR samples. This charge is for PCR purification and one primer reaction. For additional primers on the the same construct, please use "purified DNA for Sanger seqeuncing". |
ASU Standard
$5.00
Sample
Academic/Non-Profit $5.75 Sample |
|
Purified DNA for Sanger Sequencing, 1-48 samples |
ASU Standard
$5.00
Sample
Academic/Non-Profit $5.75 Sample |
||
Purified DNA for Sanger Sequencing, 49+ samples |
ASU Standard
$4.25
Sample
Academic/Non-Profit $5.00 Sample |
||
► Training (1) | |||
Name | Description | Price | |
Training Fee |
ASU Standard
$105.00
/hr
Academic/Non-Profit $105.00 /hr |
||
► NGS TGen Sequencing (4) | |||
Name | Description | Price | |
NGS TGEN Sequencing- PacBio Revio SMRTCell |
ASU Standard
$2,255.00
Run
|
||
NovaSeqX - 1.5B (300 Cycle) - Lane (800 million reads) | Inquire | ||
NovaSeqX - 10B (300 Cycle) - Lane (1.25 billion reads) |
ASU Standard
$1,950.00
each
Academic/Non-Profit $1,950.00 each |
||
NovaSeqX - 25B (300 Cycle) - Lane (3.25 billion reads) |
ASU Standard
$3,250.00
each
Academic/Non-Profit $3,250.00 each |
||
► NextSeq (7) | |||
Name | Description | Price | |
NextSeq 2000- P1 – 300 cycle (100 Million Reads) |
ASU Standard
$1,485.00
Run
Academic/Non-Profit $1,600.00 Run |
||
NextSeq 2000- P1 – 600 cycle (100 Million Reads) |
ASU Standard
$2,057.00
Run
Academic/Non-Profit $2,200.00 Run |
||
NextSeq 2000- P2 – 100 cycle (400 Million Reads) |
ASU Standard
$1,732.50
Run
Academic/Non-Profit $1,800.00 Run |
||
NextSeq 2000- P2 – 300 cycle (400 Million Reads) |
ASU Standard
$3,200.00
Run
Academic/Non-Profit $3,400.00 Run |
||
NextSeq 2000- P2 – 600 cycle (400 Million Reads) |
ASU Standard
$3,644.00
Run
|
||
NextSeq 2000- P3 – 300 cycle (1.2 Billion Reads) |
ASU Standard
$4,800.00
Run
|
||
NextSeq 2000- P4 – 300 cycle (1.8 Billion Reads) |
ASU Standard
$5,731.00
Run
|
Name | Price | |
---|---|---|
FLX800TBI Fluorescent Plate Reader | ||
FLX800TBI Fluorescent Plate Reader Sun-Sat 12:00 AM - 12:00 AM
|
ASU Standard
$12.00
/hr
Academic/Non-Profit $15.00 /hr |
|
QuantStudio 7 Flex | ||
Trained Sun-Sat 12:00 AM - 12:00 AM
|
ASU Standard
$18.00
/hr
Academic/Non-Profit $20.00 /hr |