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.
New Service Offer! Updated 1/7/2020
10x Genomics Chromium single cell 3′ library service is now offered. Please see the price below and contact me for more details. Other types of 10x Genomics library can be discussed.
- 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.
- 10x Genomics Chromium controller can generate up to 100,000 barcode-containing partitions of cells rapidly and efficiently. It offers various applications of single transciptomics, single cell genomics, single cell epigenomics and linked-reads genomics.
For instrument reservations, see the Lab Resources Scheduler.
For UTD users, please login to view UTD rates.
Sample QC service
|$5.75||$6.50||Per sample, min. 6 samples.|
|qPCR quantification||$63.25||$71.50||Per run, Max. 12 samples per run.|
|Stranded total RNA + rRNA removal (Eukaryotic)||$256||$299|
|Stranded total RNA + rRNA removal (Bacterial)||$227||$256|
|10x Chromium singles cell 3′ library||$2422||$2738|
|High-Output||75 cycles; SE (1×75)/PE (2×35)||$1932||$2185|
|150 cycles; SE (1×150)/PE (2×75)||$3536||$3998|
|300 cycles; SE (1×300)/PE (2×150)||$5578||$6306|
|Mid-Output||150 cycles; SE (1×150)/PE (2x75bp)||$1529||$1728|
|300 cycles; SE (1x300bp)/PE (2×150)||$2396||$2708|
- 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 and DNA in nuclease-free water.
- 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|
c. Single cell library sample guidelines
- Consultation before submitting samples is required.
- Submit cells at 1,000 cells/ul in PBS-BSA with ideal viability of 90%.
- Submit the sample submission form 24-48 hours before your experiment.
- Sample submission deadline time is 1 pm on the day of experiment.
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).
If you used the Genome Center to generate data for your publications, posters, grant proposals, or presentations, please use the below examples for your acknowledgement section.
You may use the following examples for acknowledgment section at the end of manuscript;
- The authors acknowledge the Genome Center at The University of Texas at Dallas for their support during this course of research.
- We thank the Genome Center at The University of Texas at Dallas for the services to support our research.
You may use the following example in the Material and Method section;
_________ was prepared/performed by the Genome Center at The University of Texas at Dallas (Richardson, TX).
Please feel free to contact us if you need more detailed information about the services you used for the Material and Method.
If you need more information on acknowledging the core or co-authorship of core members, please utilize the Recommended Guidelines for Authorship on Manuscript published by the Association of Biomedical Resource Facilities (ABRF).
We would love to keep track of our contributions to the science community. Please email us when your work is published or a grant is awarded using the data we helped to generate.