Gene Expression & Genotyping

Core Resources
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Core Resources

Policies

  • Bioanlayzer/TapeStation Rerun policy

We reserve the right to fill out partial bioanalyzer chips with internal ICBR Gene Expression & Genotyping samples. ICBR will bear responsibility for the run if failure is determined to be due to bad kits, bad runs, bad reactions, or issues with the instruments. However, the client is responsible for payment of services due to incorrect concentration for the specific chosen assay even if results are not as expected or desired. ICBR cannot accept responsibility for delays in completion of projects or data delivery due to unpredictable reasons such as but not limited to: instrument failures, unavailability of vendor supplies, or university closures due to weekends, holidays or natural calamities.

  • Sample replacement policy

It is the customers’ responsibility for the QC payment for the replaced samples.

  • Sample return policy

Samples are stored for up to six months following the completion of the project. It is the customers’ responsibility to retrieve the extra samples during this six month period. An intention to pick up samples may be communicated through the “notes” section of the CrossLab (iLab) submission form. We cannot guarantee samples can be returned following this six month period.

Acknowledging Gene Expression & Genotyping

Authorship credit should be given if members of the UF ICBR Gene Expression & Genotyping staff have provided services or expertise that is critical to a manuscript. Although other circumstances may warrant authorship, authors are those that meet the items below:

  • Agrees to be accountable for accuracy and/or integrity of the work and expertise. (In all our work the person executing the work takes the fullest degree of responsibility for accuracy and integrity.)
  • Provides substantial contributions to the experimental design, acquisition, and analysis/interpretation of the work.
  • Provides input on drafting of the work (often figures) and approves of the work to be submitted/published. (If a member of the facility has made substantial contributions it is expected that s/he will be given the opportunity to review drafts of manuscripts for accuracy/fidelity and should indicate agreement before a draft is moved forward to publication.)

If a member of UF ICBR Gene Expression & Genotyping has contributed work to a manuscript, but does not meet the criteria for authorship, the corresponding author should acknowledge the UF ICBR Gene Expression & Genotyping staff member who provided the data and their contributions should be specified.

These authorship expectations were developed in accordance with several other documents that outline criteria for authorship:

https://oir.nih.gov/sites/default/files/uploads/sourcebook/documents/ethical_conduct/guidelines-conduct_research.pdf

http://www.icmje.org/recommendations/browse/roles-and-responsibilities/defining-the-role-of-authors-and-contributors.html

Proposal Support

The Gene Expression & Genotyping core provides a variety of services related to Affymetrix and Agilent array process, including whole genomic-wide gene expression arrays, miRNA arrays, DNA arrays, and Gene Regulation Analysis arrays. GE also offers RNA-Seq, SAGE, small RNA and Sequence Capture libraries construction, and cDNA normalization service for different NextGen Platforms. In addition, DNA and RNA quality assessment services are offered using an Agilent Bioanalyzer.

The core also provides a variety of basic molecular biology services such as DNA isolations, PCR reactions, and PCR purifications for sequencing. We also set up most types of fragments for analysis on the AB3730xl automated sequencer; providing the buffers and size standards. The AdvanCE FS96 is a 96 capillary instrument used to analyze fragments with greater than trinucleotide repeats. In addition, the Genotyping core designs, characterizes, and processes microsatellite loci used for individual identification, population studies, and geneflow. The core has an Illumina BeadArray Reader used to analyze SNP and gene expression samples in a high-throughput fashion.

We also provide real-time PCR services by utilizing Applied Biosystems (ABI) 7500 FAST, ABI 7900HT, and BioRad CFX96. We support both SybrGreen and TaqMan reaction chemistries. Our 7900HT system is equipped with both 96- and 384-well blocks to facilitate high-throughput analysis. Applications include quantitative gene expression analysis, pathogen detection/quantification, and allelic discrimination (SNP detection). Our walk-up self service on the AB 7500 FAST allows researchers to set-up and run their own plates, but not purchase their own machine. The QUANTSTUDIO 3d DPCR SYSTEM allows customer to do absolute quantification, rare allele detection, quantification using TaqMan SNP array, and CNV (Copy Number Variation) in a more sensitive, specific, and precise way.