Pricing
Oxford Nanopore Library Preparation
High Molecular Weight Genomic DNA Extraction
Illumina-Compatible Library Preparation
TapeStation and Bioanalyzer Analysis
Qubit Fluorometric Quantitation
Oxford Nanopore Library Preparation
Nanopore library preparations that are offered by the Genomics Core are listed below. Descriptions of these library kits can be found on the Nanopore Sequencing Technology page. One library preparation is required for each sequencing flow cell, and flow cell prices are listed below. Sequencing yields with current Nanopore library kits and the current flow cells is highly dependent on sample quality. The Nanopore Sequencing Technology page has some guidance on yields. Also see the Nanopore Sample Requirements page for information about submission requirements. Please contact the Genomics Core if you have questions.
| Library Kit Name | Nanopore Kit ID | Sequencing Target | Price Per Library* |
|---|---|---|---|
| 1D Ligation Sequencing Kit | LSK109 | Genomic DNA | $417 |
| Rapid Barcoding Kit (up to 12 samples) |
RBK004 | Multiplexed Genomic DNA (small genomes) | $297 |
| Direct RNA Sequencing Kit | RNA002 | Full Length RNA | $319 |
| cDNA-PCR Sequencing Kit (no barcoding) | PCS109 | Full Length cDNA | $455 |
| cDNA-PCR Sequencing Kit with barcoding (up to 12 samples) | PCS109, PBK004 | Multiplexing Full Length cDNA for a single flow cell | $377 + $105/barcode |
| Direct cDNA Sequencing Kit | DCS109 | Full Length cDNA | $411 |
*When two or more libraries of the same type are submitted, a 10% discount will be applied to those library preparations.
Oxford Nanopore Flow Cells
The Genomics Core offers three different flow cells from Oxford Nanopore. The FLO-FLG001 flow cells are appropriate for small amplicon projects, very small genomes or test projects. The FLO-MIN106D flow cells are well suited for fungal or other small genomes. The FLO-MIN110 flow cell generate sslightly more accurate reads but with slightly less yield than the FLO-MIN106D. The FLO-PRO002 flow cells are the highest yielding flow cells from Oxford Nanopore, and they use the same pore chemistry as the FLO-MIN106D flow cells.
Researchers may submit their own libraries for sequencing in the Genomics Core, but it is necessary to contact the Genomics Core before submission in order to coordinate with us. One library preparation is required for each sequencing flow cell, and library preparation prices are listed above. Flow cells are not available for sale directly to researchers. Please contact the Genomics Core if you have questions.
| Flow Cell Name | Version | Instrument | Price |
|---|---|---|---|
| FLO-FLG001* | R9.4.1 | GridION | $143 |
| FLO‑MIN106D | R9.4.1 | GridION | $632 |
| FLO‑MIN111 | R10.3 | GridION | $632 |
| FLO-PRO002 | R9.4.1 | PromethION | $1,656 |
*Please contact the Genomics Core (gtsf@msu.edu) to discuss availability of FLO-FLG001 flow cells.
High Molecular Weight Genomic DNA Extraction
Nanopore genomic DNA sequencing requires highly purified high molecular weight DNA for successful library preparation and sequencing. Genomic DNA extractions are performed with Qiagen Genomic Tips with enzymatic digestions to help eliminate cell wall components. Typical yields are 10 to 30 µg. Contact us at gtsf@msu.edu for details about how to prepare tissue before sending samples to us for extraction and sequencing.
| Sample Type | Price Per Extraction 1 sample submitted |
Price Per Extraction 2 samples submitted |
Price Per Extraction 3 samples submitted |
Price Per Extraction 4 samples submitted |
|---|---|---|---|---|
| Plant, Fungal, or Oomycete | $158 | $122 | $111 | $105 |
Illumina-Compatible Library Preparation
Standard library preparation is performed using the following library preparation kits. Alternatives may be available for low-input or low-quality starting material. Please contact the Genomics Core for more information.
| Library Kit Name | Use | Price Per Library |
|---|---|---|
| Illumina TruSeq Nano DNA | Shotgun DNA Library Preparation | $84 |
| TakaraBio SMARTer ThruPLEX DNA‑Seq | Low Input DNA Library Preparation or ChIP-seq Library Preparation | $81 |
| Illumina TruSeq Stranded mRNA Library1 | Library preparation of poly-adenylated mRNA | $113 |
| Qiagen QIAseq FastSelect rRNA depletion with TruSeq Stranded Total RNA Library2 | Library preparation of ribosomal RNA depleted total RNA | $177 |
| Illumina TruSeq Small RNA Library | Library preparation of microRNA from 22 - 30 nt. Libraries can also be made from small RNAs > 30 nt, contact the Genomics Core to discuss project. | $237 |
1 Appropriate for high quality, eukaryotic RNA samples.
2 These kits are species specific, please contact the Genomics Core for more information about availability.
Lexogen QuantSeq Library Preparation
Quant-seq generates highly strand-specific libraries of reads from the 3' end of each mRNA in your samples. Only one read is created from each mRNA, and many fewer reads are required for gene expression analysis.
| Library Kit Name | Price Per Library (up to 47 samples) | Price Per Library (48-71 samples) | Price Per Library (≥72 samples) |
|---|---|---|---|
| Lexogen QuantSeq 3'mRNA‑Seq Library Prep Kit FWD with Unique Molecular Indentifiers (UMIs) | $62 | $56 | $53 |
3UMIs are included in the library prep so that PCR duplicates can be identified and eliminated before read analysis. Contact the Genomics Core if you do not want the UMIs to be included in your library prep.
Swift Methyl-Seq Library Preparation
Methyl‑Seq DNA Library Preparation. Whole Genome Bisulfite Sequencing (WGBS) and Reduced Representation Bisulfite Sequencing (RRBS) are possible. Contact the Genomics Core to discuss RRBS. Bisulfite conversion is performed using Zymo EZ DNA Methylation- Gold Kit.
| Library Kit Name | Price Per Library |
|---|---|
|
Swift BioSciences Accel‑NGS Methyl‑Seq DNA Library |
$178 |
Amplicon Library Services
| Service | Use | Price per Library |
|---|---|---|
| 16S V4 Amplicon Library |
Amplicon library preparation of the 16S V4 region. |
$8 |
| 16S V3V4 Amplicon Library | Amplicon library preparation of the 16S V3V4 region. | $8 |
| Amplicon barcoding4 | Barcoding of user-prepared primary PCR products such as ITS or other regions of interest. | $8 |
| QC of amplicon library pool | QC includes Qubit dsDNA, Agilent 4200 TapeStation D1000 HS, and Kapa qPCR assays. | $38 |
4 For amplicon barcoding, a two-step PCR approach is used. The user-prepared PCR uses target-specific primers with tags on the 5' ends that allow the addition of barcodes during the secondary PCR step. Our sample requirements page describes the sequences that must be added to your target-specific primers in order to allow barcoding during the secondary PCR step.
Library QC Services
| Service | Use | Price |
|---|---|---|
| Kapa qPCR of Genomics Core prepared library pool |
Kapa qPCR quantification of a pool of libraries that have been prepared by the Genomics Core. |
$27/pool |
| QC of submitter prepared library or pool | QC of submitter-prepared library or pool of submitter-prepared libraries. QC includes Qubit dsDNA, Agilent 4200 TapeStation D1000 HS, and Kapa qPCR assays. | $38/library or pool |
Illumina Sequencing
HiSeq 4000
HiSeq 4000 services are purchased on a per lane basis for single end 50 bp sequencing or paired end 150 bp sequencing. Other sequencing formats are available (SE100, SE150, PE75), but require the researcher to purchase the entire flow cell (8 lanes). Output per lane: Illumina's Specs: 264-312 million clusters passing filter (CPF); Genomics Core's frequent output: 320-400 million CPF. For single end sequencing, each cluster will generate one forward read. For paired end sequencing, each cluster will generate one forward read and one reverse read.
| Sequence Format5 | Price Per Lane | Approximate Output Per Lane (Gbp) |
|---|---|---|
| Single End 1 x 50bp | $1,050 | 17.5 |
| Paired End 2 x 150bp | $2,715 | 105 |
5 Other sequencing formats may be possible but would require the purchase of the entire flow cell (8 lanes). Please contact gtsf@msu.edu for more information.
NextSeq 500
Output per flow cell: Illumina specs: High output flow cells will generate up to 400 million clusters passing filter (CPF) and Mid output flow cells will generate up to 130 million CPF. For single end sequencing, each cluster will generate one forward read. For paired end sequencing, each cluster will generate one forward read and one reverse read.
| Kit Type/Size | Sequence Format | Per Run | Approximate Output (Gbp) |
|---|---|---|---|
| High Output 75 cycle | 1 x 75bp single end or 2 x 35bp paired end |
$1,927 | 30 |
| High Output 150 cycle | 1 x 150bp single end or 2 x 75bp paired end |
$3,629 | 60 |
| High Output 300 cycle | 2 x 150bp paired end | $5,964 | 120 |
| Mid Output 150 cycle |
1 x 150bp single end or |
$1,764 | 20 |
| Mid Output 300 cycle | 2 x 150bp paired end | $2,989 | 39 |
MiSeq
| Kit Type/Size | Sequence Format | Per Lane | Approximate Output (Gbp)6 |
Reads (M) |
|---|---|---|---|---|
| v2 Standard 50 cycle | 1 x 50bp single end | $971 | 0.6-0.75 | 12-15 |
| v2 Standard 300 cycle | 2 x 150bp paired end | $1,275 | 3.6-4.5 | 12-15 |
| v2 Standard 500 cycle | 2 x 250bp paired end | $1,381 | 6.0-7.5 | 12-15 |
| v2 Micro 300 cycle | 2 x 150bp paired end | $630 | 1.2 | 4 |
| v2 Nano 300 cycle | 2 x 150bp paired end | $475 | 0.3 | 1 |
| v2 Nano 500 cycle | 2 x 250bp paired end | $582 | 0.5 | 1 |
| v3 150 cycle | 2 x 75bp paired or 1 x 150bp single end |
$1,089 | 3.3-3.8 | 22-25 |
| v3 600 cycle | 2 x 300bp paired end | $1,860 | 13-15 |
22-25 |
6When sequencing low diversity libraries, e.g. amplicon libraries for metagenomics, output will be reduced by ~20%.
Sanger Sequencing
| Service | Description | Standard Reaction | 1st Tier10 | Genomic11 | GTP12 |
|---|---|---|---|---|---|
| Sanger Sequencing - Low throughput (recommended for ≤8 samples)7,8 | Submit in individual tubes | $7/sample | $8/sample | $12/sample | $13/sample |
| Sanger Sequencing - High throughput (9-16 samples)8,9 | Submit in 96 well plates (arrange by column) or 8-strip PCR tubes | $5/sample | $6/sample | $12/sample | $13/sample |
| Sanger Sequencing - High throughput (≥17 samples)8,9 | Submit in 96 well plates (arrange by column) | $3.50/sample | $4.50/sample | $12/sample | $13/sample |
7Low throughput submission: DNA in 12µl, you may add a custom primer or Genomics Core will add standard primer.
8Submission of more than 8 samples in individual tubes will be charged the low throughput price.
9High throughput submission: DNA in 6µl, you may add a custom primer or Genomics Core will add standard primer.
10DMSO added to reaction, appropriate for high GC DNA or plasmids > 10 kbp.
11Samples which are high molecular weight genomic DNA
12DMSO, betaine, and dGTPS added to reaction, appropriate for samples with hairpins or significant secondary structure.
Genotyping/Fragment Analysis
| Service | Description | Per Sample |
|---|---|---|
| Fragment Analysis | AFLP DNA fingerprinting or Short Tandem Repeat (STR) | $1.50 |
QuantStudio 7 Flex qPCR Services
The QuantStudio 7 Flex qPCR instrument is calibrated for the following dyes: FAM, SYBR, VIC, HEX, TAMRA, NED, ROX, ABY, JUN, and Mustang Purple. Users submit completely assembled reactions in 96- or 384-well plates.
| Service | Submission | Per Run |
|---|---|---|
| Absolute Quantitation14 | 1 x 96 well plate | $45 |
| 2 x 96 well plate | $60 | |
| 3 x 96 well plate | $75 | |
| 4 x 96 well plate | $90 | |
| 1 x 384 well plate | $40 | |
| Dissociation Curve | Cost in addition to Absolute Quantitation above | $8.50 |
14Price includes transfer from 96-well plate(s) to 384-well plate and processing on QuantStudio 7 Flex.
qPCR Supplies Available for Purchase
| Item | Price |
|---|---|
| 384 well optical plate | The Genomics Core is not currently selling qPCR plates. |
| Optical sealing film | The Genomics Core is not currently selling optical sealing film. |
Other Expression Analysis Services
| Service | Description | Price |
|---|---|---|
| SmartChip RT-qPCR (Takarabio/Wafergen) | Flexible, very high-throughput RT-qPCR with 5,184 qPCR reactions | $499 per basic run (user supplies prepared 384-well plates) |
| $590 per basic run (Genomics Core assembles 384-well assay and sample plates) | ||
| NanoString nCounter15 | mRNA assays with Gene Expression Panels, Custom CodeSets or Elements TagSets | mRNA $419/12 sample cassette |
| miRNA assays with NanoString miRNA Panels | miRNA $471/12 sample cassette | |
| Multiplexed mRNA assays with nCounter PlexSets | PlexSet $515/96 samples in 12 well cassette |
15Price does not include reagents from NanoString. The listed prices are for sample processing only.
TapeStation & Bioanalyzer Analysis Services
The Genomics Core has an Agilent 4200 TapeStation and an Agilent 2100 Bioanalyzer. Both instruments use automated electrophoresis to assess the quality and quantity of DNA and RNA.
All samples will be processed on the TapeStation, unless otherwise requested. The only exception is total RNA that will be used for small RNA or micro RNA library preparation; these samples will be analyzed on the Bioanalyzer because it is more sensitive to small RNA and micro RNA species.
The 4200 TapeStation analysis is performed on a ScreenTape that has individually addressable lanes, where 1 sample is run per lane. This allows for analysis of 1 or more samples at a time. The TapeStation analysis is sold on a per sample basis.
The 2100 Bioanalyzer analysis is performed on a chip containing 11 wells, which allows for analysis of 1 to 11 samples. With the 2100 Bioanalyzer, reagents for 11 samples are used even if fewer than 11 samples are analyzed. Therefore, the Bioanalyzer analysis is sold on a per chip basis (1 to 11 samples).
Please see the TapeStation & Bioanalyzer Sample Requirements webpage for information regarding sample requirements and submission.
TapeStation Analysis Services
| Instrument | Assay | Price |
|---|---|---|
| TapeStation |
High Sensitivity RNA ScreenTape Assay. For analysis of total RNA. |
$8/sample |
| TapeStation |
High Sensitivity D1000 ScreenTape Assay or High Sensitivity D5000 ScreenTape Assay For analysis of prepared libraries, dsDNA PCR products, or fragmented DNA. Assay used depends on size of submitted product. |
$8.50/sample |
| TapeStation |
Genomic DNA ScreenTape Assay For analysis of high molecular weight genomic DNA. |
$10/sample |
Bioanalyzer Analysis Services
| Instrument | Assay | Price |
|---|---|---|
| Bioanalyzer |
RNA 6000 Pico Assay For analysis of total RNA. Eleven (11) samples can be analyzed per chip. |
$126/chip |
| Bioanalyzer |
High Sensitivity DNA Assay For analysis of prepared libraries, dsDNA PCR products, or fragmented DNA. Eleven (11) samples can be analyzed per chip. |
$137/chip |
Qubit Fluorometric Quantification
The Genomics Core has a Qubit 1.0 available for researchers to use for fluorometric quantitation of double-stranded DNA and total RNA. The Qubit is a self-service instrument. Users must receive training by Genomics Core staff prior to using this equipment. Please contact the Genomics Core (gtsf@msu.edu) to schedule a training session. See the Resource Calendar webpage to make a reservation.
| Qubit Kit Name | Description | Price per sample or standard |
|---|---|---|
| Qubit dsDNA BR (Broad Range) Assay |
Fluorometric quantitation of double-stranded DNA. Quantitation range: 2 - 1000 ng. |
$1.40 |
| Qubit dsDNA HS (High Sensitivity) Assay |
Fluorometric quantitation of double-stranded DNA. Quantitation range: 0.2 - 100 ng. |
$1.40 |
| Qubit RNA BR (Broad Range) Assay |
Fluorometric quantitation of total RNA. Quantitation range: 20 - 1000 ng. |
$1.40 |
| Qubit RNA HS (High Sensitivity) Assay |
Fluorometric quantitation of total RNA. Quantitation range: 5 - 100 ng. |
$1.40 |
Covaris Sonicator
The Genomics Core has a Covaris m220 focused-ultrasonicator available for researchers to use for fragmentation of DNA. The Covaris is a self-service instrument. The Genomics Core stocks small tubes (130 µl tube, p/n 520077) and large tubes (1 ml tube, p/n 520135) for purchase. Users must receive training by Genomics Core staff prior to using this equipment. Please contact the Genomics Core (gtsf@msu.edu) to schedule a training session. See the Resource Calendar webpage to make a reservation.
| Description | Price |
|---|---|
| Sample Shearing | $1.50/sample |
| Small Tube (130 µl tube, p/n 520077) | $5/tube |
| Large Tube (1 ml tube, p/n 520135) | $7/tube |