The UTD Genome Center will offer a high level of expertise in next generation sequencing technology to support research at the University of Texas at Dallas and across the North Dallas area. We will provide sample QC, as well as library preparation and sequencing service, for Next Generation Sequencing using Nextseq 500 sequencer. We are equipped with the state-of-art instruments for preparing high quality of samples for NGS, including a Fragment analyzer, Qubit 3.0 Fluorometer, and QuantStudio 6. Also, a Fluidigm C1 system is available for single-cell sequencing and QuantStudio 6 is available for multiplexing PCR in 384-well block format.
- Illumina Nextseq 500 is an Illumina’s bench top sequencer offering widest ranges of applications, including RNA and whole genome sequencing, as well as target array of up to 30 hours of running time. It offers 120 to 300 million reads with maximum read length of 300 bp in single-end sequencing. We will utilize BaseSpace Cloud for convenient data transfer.
- AATI Fragment Analyzer is an automated capillary-electrophoresis instrument. It resolves double-stranded nucleotide, RNA, and genomic DNA from 10 bp to 40,000 bp with a resolution of 3 bp for fragments. The Fragment analyzer offers a high sensitivity with lowest detecting concentration at 5 pg/ul.
- Fluidigm C1 prepares single cells templates for mRNA and DNA sequencing, miRNA expression, or epigenetics. This instrument separates and captures single cells into an individual reaction chambers in the exclusive Fluidigm integrated fluidic circuit (IFC). The optically clear IFC enables automatically stain the captured cells and exam them by microscopy for viability, surface markers, or reporter genes. After staining, the cells will be lysed and template is quickly prepared for qPCR or sequencing analysis.
- Lifetechnology QuantStudio 6 is a quantitative PCR machine with interchangeable blocks of 96-well fast and 384-well. Although the instrument is mainly for the Center service use, it is offered to GC users for their need of multiple applications upon initial consultation.
- Qubit 3.0 Fluorometer offers an accurate measurement of DNA and RNA concentration based on highly sensitive fluorescence quantification assays. The fluorescent dyes used in the assays emit signals only when bound on specific target molecules, which gives a far more accurate measurement than UV-based quantification.
For instrument reservations, see the Lab Resources Scheduler.
For UTD users, please login to view UTD rates.
Sample QC service
|AATI fragment analyzer||$4||Per sample, min. 6 samples.|
|qPCR quantification||$50||Per run, max. 12 samples per run.|
|Stranded total RNA + rRNA removal||$256||$300|
|High-Output||75 cycles; SE (1×75)/PE (2×35)||$1772||$2003|
|150 cycles; SE (1×150)/PE (2×75)||$3229||$3650|
|300 cycles; SE (1×300)/PE (2×150)||$5084||$5747|
|Mid-Output||150 cycles; SE (1×150)/PE (2x75bp)||$1415||$1599|
|300 cycles; SE (1x300bp)/PE (2×150)||$2203||$2491|
- We would recommend submitting aliquots of your samples.
a. NGS Libraries prepared by you
- Submit libraries at 10-20 nM in a volume of at least 10ul.
- Submit index information of your libraries and how your libraries were made.
b. DNA & RNA For Illumina library preparations
- It is recommended to use a fluorescence-based quantification for your nucleic acid. Nanodrop can be used to measure the ratio of A260/280 and A260/230.
- Dilute your RNA in nuclease-free water or your DNA in elution buffer.
- If possible, please check quality of your DNA by high molecule weight on 1% agarose gel or your RNA by checking RNA integrity number on Agelient Bioanalyzer.
- RNA must be treated with DNase I to remove any DNA contamination.
- Please refer the required quantity and quality of nucleic acid in the table;
|Sample type||Conc. (ng/ul)||Minimum vol. (ul)||A260/280||RNA Integrity Number|
Please complete sample submission form using the link; UTDGC Sample Submission Form. Once the form is reviewed, you’ll be contacted to bring the samples to the UTD Genome Center (BSB 12.610).