NextGen DNA Sequencing
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NEXTGEN DNA SEQUENCING: Home | Staff & Contact | Instruments | Services | 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
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
BI assistant scientist develops a tool for stratifying cancer patients
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 ... Read More
ICBR Proteomics & Mass Spectrometry (PM) aims to bring single-cell proteomics and metabolomics technologies to customers
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 a... Read More
Important Upcoming Billing Dates
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.
... Read More
A New Method to Examine Human Dopamine Transporter in Peripheral Blood
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 immunohistochemical a... 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 |