Gene Expression & Genotyping

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GENE EXPRESSION & GENOTYPING: Home | Staff & Contact | Services | Instruments | Getting Started | Sample Requirements | Core Resources

Email: ICBR-GeneExpression@ad.ufl.edu | ICBR-Genotyping@ad.ufl.edu Phone: (352) 273-8043 | (352) 273-8036

Overview

The Gene Expression & Genotyping core provides state-of-the-art technical services and consultation on Single Cell RNA-Seq, RNA-Seq, 16s metagenomics and Affymetrix gene expression arrays. High-throughput RNA-seq libraries, 16s libraries and sequencing capture libraries can be done by using the Agilent Bravo robot. QuantiGene RNA Assays measure up to 80 gene targets directly with degraded and cross-linked RNA in FFPE tissues and blood, with no RNA purification required. The BioRad QX200 AutoDG Droplet Digital PCR System provides absolute quantification of target DNA or RNA molecules with greater precision and sensitivity than qPCR, the sensitivity off ddPCR System can facilitate expanded analysis of single cells. The Genotyping services include fragment analysis using AB3730 (96 capillary technology), development of microsatellite libraries using Illumina sequence data, and genotyping using mouse tails or ear punches. These up-to-date gene expression and genotyping analysis methods allow scientists to be on the cutting edge of research.

ICBR Gene Expression & Genotyping Services

Don't see the service you are looking for? Visit ICBR NextGen DNA Sequencing for more options.

General Services

Library Construction Services

Single Cell Analysis

Genotyping Services

Project Consultation
Antibody Sequencing
Digital PCR services
Microarray Services
Sample Prep: RNA, DNA extraction
RNA DNA QC: Bioanalyzer/TapeStation, Qubit, PicoGreen
Sanger Sequencing Load only
CRISPR services
Bravo automation
QuantiGen assays (up to 80 targets): Gene Expression and CNV

16s metagenomics library Automation
Illumina Directional RNA-Seq Library Preparation (Poly A)
Illumina Non-Directional RNA-Seq Library Preparation (Poly A)
Illumina RNA-Seq library Prep for low input, ribo-depletion or degraded RNA
Illumina Small RNA libray w/Barcode
RNA-Seq library automation
rRNAs Depletion
Agilent SureSelect Target Enrichment
IDT Exome Capture Library Construction with/without Pre-pooling
Takara Single Cell Library Construction
16s library Automation Per Sample (batch w/48 samples, 96 samples)
Illumina RNA-Seq libraries (Poly A)
Illumina RNA-Seq library Prep for low input, ribo-depletion or degraded RNA
Illumina RNA-Seq library Prep (polyA with 140 samples and up, 500 samples and up)
Illumina Small RNA-Seq library w/Barcode
NEB Directional RNA-Seq Library Preparation
NEB Non-directional RNA-Seq Library preparation
NextGen Sequencing Library Quantification
RNA-Seq library automation per sample (24 samples, 48 samples, 96 samples)
rRNAs Depletion
RNA Extraction, RNA Clean-up
Agilent SureSelect Target Enrichment
IDT Exome Capture Library Construction with Pre-pooling, without Pre-pooling

10X Genomics Chromium 3’ Single Cell RNA-Seq
10X Genomics Chromium 5’ Single Cell RNA-Seq
10X Genomics Chromium Single Cell CNV analysis
10X Genomics Single Human/Mouse T cell V(D)J Library Prep (per sample)
10X Genomics Chromium Single Cell Feature Barcode for CITE-Seq
10X Genomics Chromium Single Cell Feature Barcode for CRISPR Screening

Fragment Analysis
STR Analysis
Cell Line Authentication
Copy Number Variance
SNP analysis by qPCR or digital PCR

Please note that our library construction and sequencing services do not include data analysis. Visit ICBR Bioinformatics to request Data Analysis services.

Core News

BI associate scientist contributes to two publications

Bioinformatics associate scientist Fahong Yu, Ph.D. provided research assistance in two recent publications (2019). Oral epithelial cells (OEC) that line the oral cavity are the first line of defense against pathogenic organisms including viruses that infect the body through the oral route. The role of the OEC in triggering the immune response to viral infection is poorly understood. ICBR Bioinformatics expert Dr. Fahong Yu performed data analysis and was a key collaborator in a study performed ...

BI assistant scientist develops a tool for stratifying cancer patients

Bioinformatics assistant scientist Tongjun Gu Ph.D. has developed an advanced deep learning method to stratify cancer patients into clinically relevant subgroups and further identify the potential biomarkers between the subgroups. This will help with the development of personalized treatments and prognosis. The method can integrate multi-platform datasets like gene expression, miRNA expression, methylation, copy number alteration, and protein expression. It can also do transfer learning between ...

ICBR Proteomics & Mass Spectrometry (PM) aims to bring single-cell proteomics and metabolomics technologies to customers

The cell is the basic unit of life. For multicellular organisms like animals and plants, each cell is different. Due to limited sensitivity, conventional ‘omic analyses require the input of tissues, organs or a mixture of thousands of cells, where information at the single-cell level has been diluted and averaged. This problem has severely limited our understanding of the intricate signaling and metabolic pathways and networks in different cells. In recent years, single-cell biology has become...

Important Upcoming Billing Dates

University of Florida and ICBR core labs will be officially closed during the UF holiday: Wednesday, December 25, through Wednesday, January 1. No samples or other packages can be accepted during this holiday closure time. Please coordinate with individual core laboratories for delivery of samples or other packages either before or after the UF winter break. Due to the winter break, ICBR’s upcoming billing schedule will be altered as follows: 12/16/2019 – Last invoices generated in 2019...

A New Method to Examine Human Dopamine Transporter in Peripheral Blood

A team of UF neuroscientists led by Habibeh Khoshbouei, Ph.D., Pharm.D., Professor of Neuroscience and Psychiatry in the UF College of Medicine, has recently discovered a novel method using blood-borne immune cells to study the role of the neurotransmitter dopamine in the human brain. This finding was reported in a publication titled ”A novel approach to study markers of dopamine signaling in peripheral immune cells” appearing in the Journal of Immunological Methods. While immunohistochemi...

Dr. Tongjun Gu, from ICBR Bioinformatics, Improves Discovery Pipeline

Bioinformatics assistant scientist Tongjun Gu Ph.D. has improved the pipeline for discovering ncRNA editing sites from four human cancers. Published in JCO Clinical Cancer Informatics, Clinical Relevance of Noncoding Adenosine-to-Inosine RNA Editing in Multiple Human Cancers, Dr. Gu’s research also presents multiple advanced statistical methods for differential and survival analysis. More information: Bioinformatics Services Contact Bioinformatics ...

The Beast is Here! ICBR Launches the NovaSeq 6000 DNA Sequencer

Dr. Steven Madore, ICBR Associate Director for Science and UFHCC Associate Director for Shared Resources, next to the new NovaSeq6000 (“the Beast“) with ICBR NGS Core Scientific Director Dr. David Moraga. The ICBR NextGen DNA Sequencing Core provides cutting edge instrumentation and technical expertise required to support campus-wide research activites. Established in 1987, the NGS Core has contributed to significant scientific discoveries on campus. For example, did you know that the first...

The Luminex FLEXMAP 3D® System – A Multiplexed Analytical Platform for Novel Biomarker Discovery

Figure 1. Luminex bead architecture technology ICBR Proteomics & Mass Spectrometry (PM) Core is now offering access to the Luminex FLEXMAP 3D® analytical platform for discovering and validation of protein biomarkers across a wide range of diseases. The FLEXMAP 3D® system combines differentially dyed fluorescent microsphere sets with an innovative instrument design to enable simultaneous measurement of the concentration of a large number of different analytes in a rapid multiplexed as...