Genomics Core Price List / Orders
To order services from the GMBSR, please click on the Radar button below.
Service List and Pricing - 2019/2020
Prices shown reflect internal Dartmouth rates. External users and those with large projects should contact the core directly for pricing information.
All services provided by the GMBSR are supported by an NCI Cancer Center Support Grant (5P30CA023108) which MUST be cited in any publications or other materials using data generated in the core.
Single cell sequencing services are provided through the Single Cell Genomics Core and are subsidized by a COBRE grant (P20GM130454). This grant MUST be cited in all publications and materials using single cell data generated in the core.
FFPE Cells/Tissues: $82/sample
Extraction of DNA and/or RNA from FFPE treated samples. Note: Yields from DNA + RNA extraction are expected to be lower than DNA or RNA extraction alone.
Non-FFPE Cells/Tissues: $56/sample
Extraction of DNA and/or RNA from cell pellets or tissue chunks. Samples should either be snap frozen on dry ice, or homogenized in Qiagen RLT buffer and stored at -80C prior to processing. Cell input range: 1,000 - 10,000,000 cells. Tissue input range: 1-10mg.
Qubit Fluormeter: $3/sample
Specific and accurate quantification of DNA or RNA. Minimum 3ul sample required.
Fragment Analyzer: $10/sample
High resolution sizing of DNA and RNA fragments. DNA size range: 20bp-50Kb. RNA size range: 15nt - 6000nt. Sensitivity down to 200pg/ul.
To assist user in determining the most appropriate RNA-seq workflow for their project we have created tool that can be accessed HERE. It is always recommended to consult with core staff (free-of-charge) before finalizing an RNA-seq experimental design.
Uses DNA probes and RNaseH digestion to remove ribosomal RNAs from input RNA. Provides full-length sequencing coverage for mRNAs as well as long non-coding (lnc) RNAs. Ideal for full transcriptome characterization and is the only RNA-seq option available for prokaryotic samples. Recommended sequencing depth ~30M reads per sample for typical mammalian genomes. Less coverage required for small prokaryotic genomes. Up to 96 samples can be uniquely barcoded for pooled sequencing.
Uses oligo dT primer and magnetic beads to capture polyadenylated transcripts. Provides full length sequencing coverage for mRNAs. Not suitable for prokaryotic samples. Recommended sequencing depth 15-20M reads per sample. Up to 96 samples can be uniquely barcoded for pooled sequencing.
3' End-Counting: $141/sample
Cost-effective option for simple differential expression analysis from eukaryotic samples. oligo dT probes are used to capture polyadenylated RNA. Captured RNA is fragmented and the 3' end is selectively amplified by PCR. As most of the reads are associated with 3' UTR sequences, this approach is best suited for organisms with well-annotated genomes (Human, Mouse and Rat). This method cannot be used to identify splice isoforms. Recommended sequencing depth 10M reads per sample. Up to 96 samples can be uniquely barcoded for pooled sequencing.
miRNAs/smRNAs are too small to be captured by the Ribodepletion, Poly-A and 3' End-Counting workflows described above. This method uses direct ligation of RNA adapters to attach universal sequences to the miRNA/smRNA molecules. These sequences serve as priming sites for PCR amplification and sample barcoding. miRNA/smRNA libraries include Universal Molecular Identifiers (UMIs) to accurately count miRNA/smRNA molecules and minimize PCR bias. Recommended sequencing depth is 1-5M reads per sample. Up to 48 samples can be uniquely barcoded for pooled sequencing.
Used to prepare sequencing libraries from intact genomic DNA (whole genome sequencing) or sheared DNA (ChIP). For intact gDNA, samples are fragmented using a combination of Mg2+ and heat treatment. Adapters are ligated to fragmented DNA molecules and amplified prior to sequencing. Up to 96 samples can be uniquely barcoded for pooled sequencing. Recommended sequencing depth is dependent on application, genome size and desired coverage. Please consult with the core to determine your sequencing requirements. A sequencing coverage calculator is also available HERE.
Uses Illumina's AmpliSeq workflow to perform targeted amplification and sequencing of DNA and/or RNA molecules. Illumina supplies off-the-shelf panels or can design custom panels based on user's specifications. Users are responsible for purchasing the primer sets from Illumina while the core supplies reagents for library preparation and QC. Custom panels can be designed and purchased using Illumina's DesignStudio software, while ready-to-order panels are available HERE.
Target Capture (Exome Sequencing): $271($371)/sample
For large targeted sequencing studies, including whole exome sequencing, target capture methods are preferred over PCR-based approaches. This is due to the challenge of designing large pools of primers with minimal off-target amplification and coverage bias. We use IDT xGen target capture reagents to provide custom target capture as well as whole exome solutions to our users. For custom panels, users should use the IDT Design Tool to create and order their panels. IDT's Exome v2 panel is stocked by the core and is included in the price listed above.
Single cell genomics experiments are complex and require tight coordination between the researcher and our core. Consultation with core staff is required before projects are accepted and is provided free-of-charge. Services listed include the cost of sample QC using an automated cell counter (Nexcellom K2) as well as all downstream library preparation and QC steps.
For all 10x genomics workflows, a "sample" is equivalent to one lane on the 10x instrument. Each lane can capture between 100-10,000 cells, depending on the concentration loaded onto the instrument.
A cost calculator is provided HERE to help budget for single cell experiments.
10x 3'/5' RNA-seq: $1,550/sample
Uses the 10x Genomics workflows for 3' and 5'-End RNA-seq. For standard gene expression measurements, 3' RNA-seq is the standard in the field. 5' RNA-seq is required where TCR and/or BCR (i.e. V(D)J) sequencing is performed. Up to 96 unique barcodes are available for pooled sequencing. Recommended sequencing depth is 50,000 reads per cell, but will vary depending on the RNA content of the cell type(s) to be analyzed. Libraries are sequenced on NextSeq500 High Output 75 cycle kits, allowing up to 10,000 cells to be sequenced per run at the recommended sequencing depth.
10x Library Add-On: $96/library
Additional -omics modalities can be applied to 10x RNA-seq samples to generate multi-omics datasets at single cell resolution. These include TCR/IgG sequencing, proteomic analyses (i.e. CITE-seq), sample multiplexing (via MULTI-seq) and other custom assays. For each additional modality, a Library Add-On is required per sample. Additional sequencing is also required, typically 5,000 reads per cell per library type.
10x ATAC-seq: $1,675/sample
The 10x ATAC-seq workflow allows the user to interrogate regions of open chromatin at single cell resolution. As for all single cell experiments, users provide a viable single cell suspension and the core performs all downstream processing steps. For ATAC-seq, this includes sample QC, nuclei isolation/permeabilization, DNA transposition, cell capture and library preparation. Up to 96 unique barcodes are available for pooled sequencing. Recommended sequencing depth is 25,000 reads per sample.
10x Instrument Training: $434/session
The genomics core staff are available between 8am and 5pm, Monday-Friday to perform 10x experiments. Should users need access to the instrument outside these hours, they can be trained to operate the instrument independently. Training takes ~4 hours and includes a discussion of the principles of the 10x workflow as well as hands on time with the instrument using "dummy" reagents. Trained users will be provided access to the lab as well as the instrument reservation calendar via RaDar.
Illumina Methylation EPIC: $390/sample
The Illumina Methylation EPIC array profiles over 850,000 CpG and non-CpG sites throughout the human genome to provide quantitative DNA methylation data for differential methylation analysis. Service includes input DNA quantification, bisulfite conversion array labeling, scanning and data delivery. Arrays consist of 8 samples each and must be in full.
FFPE Restoration for Illumina Methylation EPIC: $144/sample
Analysis of FFPE samples on the Illumina Methylation EPIC arrays requires DNA restoration to provide sufficient DNA quality and quantity for analysis. A qPCR assay is used to generate a quality score for all FFPE DNA samples submitted for this service. Samples with acceptable quality scores proceed to restoration and the remainder of the array preparation workflow. Samples with low quality scores will be reviewed with the user to determine the best course of action.
Preparation of Customer-Ordered Illumina Infinium Arrays: $108/sample
Illumina manufactures arrays for targeted genomic profiling of samples from a wide variety of species. A complete list of available arrays can be found HERE. Users are responsible for ordering arrays from Illumina and the core will perform DNA quantification, array labeling, scanning and data delivery.
Affymetrix Arrays: $150-$220/sample
While the GMBSR still has the capability to process Affymetrix arrays, this service is being phased out in favor of sequencing-based approaches. If you are interested in these services please contact us.
Prices for Illumina sequencing include library normalization, pooling, sequencing and raw data storage for 5 years. FASTQ files are stored on Dartmouth's DartFS storage system which is accessible to the entire Dartmouth community. If you need a DartFS account, please contact Research Computing. Please let us know if you need to share data with an external collaborator and we can make the data available for secure download via a web server.
All Illumina sequencing kits can be run in single-end or paired-end configurations. Prices are listed per run, but we will accommodate users who would like to share a run with another compatible project.
NextSeq High Output 300 cycle: $5,656/run
Exome sequencing, large targeted panels
NextSeq High Output 150 cycle: $3,667/run
Paired-end RNA-seq, 10x ATAC-seq, ChIP-seq
NextSeq High Output 75 cycle: $2,095/run
Single-end RNA-seq, 10x 3'/5' RNA-seq
NextSeq Mid Output 300 cycle: $2,395/run
Large AmpliSeq projects, 10x V(D)J sequencing
NextSeq Mid Output 150 cycle: $1,630/run
Small paired-end RNA-seq, ChIP-seq projects
MiniSeq High Output 300 cycle: $1,891/run
Small AmpliSeq panels, CIRCLEseq, prokaryotic genomes
MiniSeq High Output 150 cycle: $1,220/run
MiniSeq High Output 75 cycle: $ 1056/run
MiniSeq Mid Output 300 cycle: $741/run
Prokaryotic genomes, CIRCLEseq, custom amplicons (i.e. CRISPR screens)