NextGen DNA Sequencing
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NEXTGEN DNA SEQUENCING: Home | Staff & Contact | Instruments | Services & Prices | Getting Started | Sample Requirements | Core Resources
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 NextSeq500 and MiSeq, HiSeq3000 and the Pacific Biosciences SEQUEL 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.
ICBR NEXTGEN DNA Sequencing Services
Don't see the service you are looking for? Visit 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)
NextSeq500 Illumina Sequencing
- Request services for: Sequencing formats (HIGH output: 2×150, 2×75, 1×150, 1×75. MID output: 2×150, 2×75, 1×150)
PacBio SEQUEL Sequencing
- Sequencing formats (10-hour movies, 20-hour movies). LR v3 SMRT cells
- Current chemistry (early 2019): v3. SMRT Link 6.0
- Reads per SMRT cell run: 400k-600k 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
- 10X Genomics linked-reads
- 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.
NextGen DNA Sequencing News
Important Year-End Dates for UF | ICBR Users
Important Year-End Dates for UF | ICBR Users
As 2020 comes to a close, ICBR’s upcoming billing schedule will be altered as follows:
12/14/2020 – Last invoices generated in 2020
12/21/2020 at noon – Deadline to submit disputes for 2020 payment.
If you have expiring funds, please work with your core laboratory contact to make sure your project is completed and billed before the 12/14/2020 invoices are posted.
Core-Specific Dates and Deadlines
Cytometry
12/22/2020 – CY labs, both CGRC and MBI, will shut down for the holiday break and... Read More
Excessive Heat Stroke Induces Long‐term Physiological Changes That are Linked to Altered Epigenetic Profiles
Excessive Heat Stroke Induces Long‐term Physiological Changes That are Linked to Altered Epigenetic Profiles
Epigenetics is the study of heritable phenotypic change that involves chemical modifications to the DNA genome sequence or associated DNA-binding proteins. These specific alterations affect how cells turn genes off or on. Exertional heat stroke (EHS) can cause long-term negative effects on health. Although epigenetic “reprogramming” of the genome is involved in the response to heat acclimation, it is not known whether the long-term effects of EHS are mediated by epigenetic reprogramming.
In a st... Read More
Lots of Samples, Little Time? Try Protein Simple Wes
Lots of Samples, Little Time? Try Protein Simple Wes
Unlike traditional western blots, the Protein Simple Wes at ICBR Monoclonal Antibody runs up to 25 samples in 3 hours flat and gives you quantitative, size-based data including total protein. With a long list of applications, including cancer, SARS-CoV-2, cell & gene therapy, targeted degradation and more, there is no shortage of opportunities.
The same Protein Simple Wes appeared in a recent publication featured in Nature Communications from Dr. Shinichi Someya’s research group in the Depar... Read More
Are BPA Alternatives Safer? New Research Takes a Look
Are BPA Alternatives Safer? New Research Takes a Look
New research conducted at the University of Florida shows that a bisphenol A (BPA) alternative for making plastics, bisphenol S (BPS), could come with its own set of health risks. After past studies revealed the widely used BPA was contaminating food and water supplies, consumers quickly searched for alternatives. Market demand for BPA-free products led to the emergence of BPS as a commonly used bisphenol analog in plastic products.
The UF | ICBR Proteomics and Mass Spectrometry (PM) core contri... Read More
UPDATE: ICBR Continues to Provide Support to UF Community
UPDATE: ICBR Continues to Provide Support to UF Community
With the progression of recent events, there are a lot of questions about how it affects ICBR users. Please see below, important changes that could impact your experience at ICBR. These changes will be in place for the foreseeable future. Please refer back to this page for timely updates.
As always, check the UF dedicated site for campus-wide information and initiatives.
LATEST NEWS
ICBR is now open, Monday through Friday, to support research on the University of Florida campus. Please be... Read More
Dr. Anna-Lisa Paul Appointed Director of UF ICBR
Dr. Anna-Lisa Paul Appointed Director of UF ICBR
The University of Florida Interdisciplinary Center for Biotechnology Research recently announced the appointment of its new director, Anna-Lisa Paul, Ph.D. Dr. Paul assumed the position effective March 20, 2020.
For the past year, Dr. Paul has served as ICBR’s interim director. During that time, Dr. Paul spearheaded the center’s acquisition of state-of-the-art equipment and furthered ICBR’s collaborative relationship with UF Research departments.
“The University of Florida Health Cancer Center h... Read More
ICBR Contributes to First Genomic Sequence of COVID-19 in New Orleans, LA
ICBR Contributes to First Genomic Sequence of COVID-19 in New Orleans, LA
While clinicians are working on the front lines to treat patients with COVID-19, researchers are working behind the scenes, investigating the viral life cycle and advancing new developments in therapeutics and vaccines. Critical to this research effort is determining the genetic code the virus uses for infection and propagation.
UF | ICBR is doing its part to provide essential services to drive this research further; delivering support not only locally, but on a national scale. In a recent colla... Read More
New Publication from Bioinformatics’ Tongjun Gu
New Publication from Bioinformatics' Tongjun Gu
Bioinformatics assistant scientist Tongjun Gu Ph.D. has developed a two-step logistic regression model for association studies where known factors can serve as controls.
The model is helpful for studies seeking to identify novel regulators in the RNA editing process where the dominant enzyme was found in the first step and served as a control in the second step.
Advantages of the model:
It considered the sequencing depth in the analysis.
It can be validated in the first step by the association ... Read More
Instruments
Staff
| Name | Title | Telephone | Room | |
|---|---|---|---|---|
| David Moraga | NextGen DNA Sequencing Scientific Director | (352) 273-8053 | moraga@ufl.edu | 178J CGRC |
| Wayra Navia Gine | NextGen DNA Sequencing Core Research Specialist II | (352) 273-8068 | wnavia@ufl.edu | 178 CGRC |
| Nedka Panayotova | NextGen DNA Sequencing Senior Biological Scientist | (352) 273-8050 | nedpan@ufl.edu | 178 CGRC |
| Xiao Hui Zhou | NextGen DNA Sequencing Core Research Technician II | (352) 273-8050 | zxh@ufl.edu | 178 CGRC |
| Lydia Von Borstel, B.S. | NextGen DNA Sequencing Core Research Technician III | (352) 273-8050 | lvonborstel@ufl.edu | 178 CGRC |