NextGen DNA Sequencing

Overview

CORE OVERVIEW

Welcome to the UF ICBR NextGen DNA Sequencing core facility. The ICBR-NGS core provides researchers with quality, massively parallel, high-throughput sequencing data using the most current instrumentation, at a reasonable cost. We currently support the most popular platforms: Illumina NovaSeq6000 and MiSeq and the Pacific Biosciences SEQUEL IIe system. Together, these instruments cover a broad range of powerful applications. Our free consultation services aim to help researchers navigate through the complex matrix of experimental options represented by the available sequencing technologies. Some of these important considerations include: read length, error rate, predominant type of error, data output/run, speed, cost, etc. The ever-broadening range of applications include (but are not limited to) de novo sequencing of whole genomes, targeted sequencing, transcriptome sequencing (RNA-Seq), chromatin immunoprecipitation (ChIP) sequencing, methylation analysis and metagenomics.

Our sample prep and library construction services are offered through both the NGS and the GeneExpression/Genotyping Cores. Please contact us if the service of your interest is not listed. We strive to support most common applications.

SERVICES OVERVIEW

Don’t see the service you are looking for? Visit UF | ICBR Gene Expression & Genotyping for more options.

Sequencing Services

Library Construction Services

General Services

NovaSeq 6000 Sequencing

Request services for: Sequencing formats (S4 2×150, S4 2×100, S2 2×150, S2 2×100, S2 2×50, S1 2×150, S1 2×100, S1 2×50, SP 2×250, SP 2×150, SP 2×50)

MiSeq Illumina Sequencing

Request services for: Sequencing formats (2x300v3, 2x250v2, 2x150v2, 2x75v3, 1x300v2, 1x150v3, 1x50v2)

PacBio SEQUEL IIe Sequencing

Sequencing formats (10 to 30 hour movies). LR SMRT cells
Current chemistry (early 2021): SMRT Link 10.0
Reads per SMRT cell run: 4-5 million reads

Illumina Standard DNA-Seq
Illumina PCR-free DNA-Seq
Illumina Whole Genome Bisulfite-converted WGBS)
Illumina Reduced Representation Bisulfite converted (RRBS)
Illumina Ultra-low input DNA-Seq
Illumina ATAC-seq
Illumina COVID-Seq
10X Genomics ATAC-Seq
PacBio Long-insert DNA-Seq for de novo assemblies
PacBio Barcoded bacterial DNA for multiplex sequencing
PacBio Barcoded amplicon-Seq (up to 10 Kb)
PacBio IsoSeq for transcriptome/isoform analysis
PacBio Full-length 16S metagenomics

Project Consultation
Bioanalyzer, TapeStation
Qubit Assays
Assisted use of Covaris for sample fragmentation
Fragment Selection (ELF-based)
Sample/library clean-up
Load only sequencing instrument runs
Library pooling and pool quantitation

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

CORE NEWS

COVID Updates for UF | ICBR

Dear ICBR colleagues and customers, The COVID19 Delta Variant is causing many of the concerns we all had in the early stages of the pandemic, and as a consequence, there is a recognition that we as a community can help mitigate the spread by also returning to some of the precautions we adopted last year. Because ICBR and UF Health share work spaces, we will adopt the same masking policy that is currently being implemented within Shands/UF Health. This practice means that everyone within ICBR pub...

UF ICBR Launches New Self-Service Timer

UF | ICBR has launched their latest version of our self-service timer. Please see below, a guide on how the new timer can benefit your experience. Accessing the Application To access the application, follow these steps: Navigate to selfservice.biotech.ufl.edu Click on Access the Self Service Suite button Authenticate with your GatorLink credentials Click on Timer Browsing the Cores To browse the list of cores, follow these steps: On the navigation bar on top of the screen, click on C...

UF Researcher Dr. Marco Salemi Utilizes ICBR Genomics Expertise to Understand COVID19 Epidemiology

By Steven Madore, Ph.D. In recent years, public health emergencies caused by epidemics have led to the use of genome sequencing to identify and characterize viral pathogens. Rapid acquisition of high quality viral genomic sequences is critical for understanding viral pathogen origin, transmission and epidemiological spread. Ultimately deciphering the molecular characteristics of viruses accelerates the development of diagnostic assays and vaccine development and drug design and is important in u...

UF researchers use AI datasets to track feral pigs, minimize disease risk

Courtesy of UF/IFAS Written by Brad Buck Feral pigs cost the agriculture industry at least $1.5 billion in damage, disease and control costs around the United States annually, running rampant on large swaths of grazing lands. The swine root in soil and eat most everything in sight. Farmers and ranchers will benefit from research by University of Florida scientists who are using artificial intelligence to gather data on feral hog reproduction and movement. As they roam grazing land, feral swine ...

Extinct Caribbean bird’s closest relatives hail from Africa, South Pacific

Courtesy of the Florida Museum of Natural History Written by Natalie van Hoose In a genetic surprise, ancient DNA shows the closest family members of an extinct bird known as the Haitian cave-rail are not in the Americas, but Africa and the South Pacific, uncovering an unexpected link between Caribbean bird life and the Old World. Like many animals unique to the Caribbean, cave-rails became extinct soon after people settled the islands. The last of three known West Indian species of cave-rails...

UF | ICBR Scientists Contribute to Clinical Trial Testing Novel Treatment for Canine Atopic Dermatitis

Atopic dermatitis, or AD, is a common chronic inflammatory skin disease affecting dogs, causing defects of the skin barrier and modifications of the normal cutaneous microflora. While multiple treatment options are available, there is a growing interest in the use of alternative natural ingredient products. In human AD reports show the potential benefits of topical applications of heat-killed beneficial bacteria, with some studies demonstrating the efficacy of rapidly killed beneficial la...

UF Researchers to Use AI to Predict How Hurricanes Spread Invasive Plants

Courtesy of UF/IFAS Written by Brad Buck Scientists project hurricane intensity and frequency will increase with climate change. That leads researchers to want to better predict how storms will disperse and establish nonnative plant invaders. Knowing where invasive plants spread will always be useful. But it may become especially handy soon as the National Hurricane Center is considering moving the official start of the Atlantic hurricane season two weeks earlier, starting it May 15, instead of ...

World-Renowned UF Health Biochemistry Researcher Passes Away

Courtesy of College of Medicine News University of Florida Health biochemistry professor Mavis Agbandje-McKenna, Ph.D., whose world-renowned work on the detailed structure of viruses led to advances in gene therapy treatments for different diseases, died Wednesday at her home near Gainesville of the neurodegenerative disease amyotrophic lateral sclerosis. She was 57. Agbandje-McKenna’s work with the small, infectious particles had a worldwide impact, allowing other scientists to be more precise ...

CORE INSTRUMENTS