DNA Array Sample Submission

Sample Submission Guidelines
Starting Amount of total RNA:100 to 500 ng (depends on sample quality)
Minimum Concentration:50 ng/ul
Volume Required for QC:3 ul (this is in addition to amount required for processing)
Volume Required for Processing:≥6 ul is requested; however, this depends on concentration
Download Submission Form (.doc)Download Submission Form (.pdf)
  • Requirements may vary depending on the protocol being used. Please check with Core staff prior to sample preparation if you are unable to meet the minimum requirements. Special kits are available to process FFPE samples and samples with limiting quantities.
  • Please fill in all information on the attached sample submission form.
  • For full services, provide only sample (total RNA) and arrays.  All reagents are provided by the Core.
  • Please do not submit your entire stock RNA sample to the Core. When eluting or re-suspending your RNA, make two aliquots for submission. This will prevent subjecting your stock RNA to unnecessary freeze-thaw cycles. Aliquot 3 ul for QC and 6-10 ul for processing.
  • Use an established isolation method that produces an intact sample, free of interfering contaminants. It is best to elute in nuclease-free water. Sample purity is important, and this assay DOES NOT TOLERATE EDTA, salts, phenol, etc.
  • In general, A260/A280 ratios should fall between 1.8-2.1; however, do not discard samples with ratios that fall outside of this range. These ratios may vary depending on tissue type, buffer content, etc.
  • An Agilent analysis will be run to assess the integrity of your total RNA prior to processing. In general, the RNA Integrity Number (RIN) generated from the Agilent analysis should be at least 8.0.
  • DNase digestion is required when using whole transcriptome arrays (HTA, MTA, Clariom). DNase digestion is not required when using 3' arrays. Please ask Core staff if you need clarification. If you must DNase-treat your samples, make sure you use a nuclease-free DNase that will not degrade your RNA, and that you deactivate the DNase appropriately.
  • Replicates (at least n=3) are recommended for differential analysis.
  • Please refer to http://www.ncbinlm.nih.gov/geo/info/MIAME.html for more information relating to microarray standards and data deposition into public repositories. The MIAME (Minimum Information About A Microarray Experiment) guidelines outline the minimum information that should be included when describing a microarray experiment.  Many journals and funding agencies require microarray data to be MIAME compliant. The GEO (Gene Expression Omnibus) repository submission procedures are designed to follow the MIAME checklist.
  • Samples are processed according to the order in which they are received. Turnaround time is typically 5 to 14 days.
  • If processing samples outside of LSUHSC-S, send total RNA overnight on dry ice to the address below. Do not ship samples for delivery on a weekend. Samples must be received Monday through Friday. Notify Core staff prior to shipping to ensure we will be available to receive your samples.

LSU Health Sciences in Shreveport

Office of Reasearch, BRI F6-15

Attn:  Wiola Luszczek or Paula Polk

1501 Kings Hwy

Shreveport, LA  71103

Samples that fail quality control measures using the Agilent TapeStation or the Qubit analyzer will be billed for the cost of the reagents associated with these analyses. In addition, samples that fail labeling or library preparation for Affymetrix microarray or library preparation for next generation sequencing will be billed for the cost of the reagents used in these procedures, if the failure is due to sample quality issues. These measures are necessary, as the RCF needs to recoup the associated consumable costs for these procedures.

Samples will be put in the queue for processing ONLY after they have been received and pass all quality control measures.

Feist-Weiller Cancer Center Services

The Feist-Weiller Cancer Center Tissue & Serum Repository (TSR) provides service for automated RNA and DNA extraction on a Qiagen QIACube.  The current fees are listed below.

ServiceFWCC CostLSUH-S Cost
RNA Isolation
Tissue or Cell Pellet$7.50$10.00
Whole Blood$7.50$10.00
FFPE Section$9.00$15.00
FFPE Core Punch$10.00$17.00
Optional DNase Treatment$2.00$3.00
Genomic DNA Isolation
Tissue or Cell Pellet$5.00$7.00
Whole Blood$5.00$7.00
FFPE Section$7.50$10.00
FFPE Core Punch$9.00$15.00
  • All prices are per sample + $10 run fee (up to 12 samples per run).
  • An additional $20 prep fee will be added to each run of FFPE samples.
  • TSR will supply all reagents necessary for isolation including tubes for sample collections.
  • Samples will be returned to the user in 1.5 ml microcentrifuge tubes in a volume of 100 ul, unless otherwie requested.
  • Extraction from other sources available on a custom basis.

For more information please contact the TSR Technical Director:

Dr. Ellen Friday
(318) 675-4327
rfrida@lsuhsc.edu