NextGen DNA Sequencing

ICBR-NextGenSeq@ad.ufl.edu   ///  (352) 273-8050   ///    RRID:SCR_019152
High-throughput Sequencing Services, Library Construction, Fragmentation and More

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

UF/IFAS study: Forget the queen, kill the brood to eliminate subterranean termite colonies UF/IFAS study: Forget the queen, kill the brood to eliminate subterranean termite colonies
UF/IFAS study: Forget the queen, kill the brood to eliminate subterranean termite colonies
By Lourdes Mederos UF/IFAS DAVIE, Fla –  Taking an extended look inside a subterranean termite colony is a rare and almost non-existent opportunity unless you raise one. But scientists like Thomas Chouvenc rear colonies from a king and queen, allowing them to produce thousands of eggs that grow to full maturity. In doing so, Chouvenc sheds a world of light on the species, the colony’s social behaviors, survival tactics and weaknesses. Thomas Chouvenc of UF IFAS Fort Lauderdale Research and Educ...
Read More
UF/IFAS study: Forget the queen, kill the brood to eliminate subterranean termite colonies
Hippos’ Constant Defecating Turns African Pools into Communal Guts Hippos’ Constant Defecating Turns African Pools into Communal Guts
Hippos’ Constant Defecating Turns African Pools into Communal Guts
Lauren Barnett UF CLAS Hippopotamuses can eat nearly 100 pounds of food daily — and, as a result, they fill the pools where they spend much of their lives with huge amounts of poop. All that excrement, new research has found, turns the pools into extensions of the hippos’ guts, as bacteria and other microbes expelled into the water survive and are shared among the congregating animals. This “meta-gut,” as the researchers termed it, could have major impacts on the hippos’ ecosystems. The findings...
Read More
Hippos’ Constant Defecating Turns African Pools into Communal Guts
Hot Tumors: The Turbo Engine That Immunotherapy Needed Hot Tumors: The Turbo Engine That Immunotherapy Needed
Hot Tumors: The Turbo Engine That Immunotherapy Needed
by Maja Aganovic UF Innovate Immunotherapy is a hot topic of conversation when it comes to cancer treatment. Pediatric oncologist Dr. Elias Sayour and his team have found a way to make a hot tumor, their way to make immunotherapy, an alternative to chemotherapy, more effective. “I spend the bulk of my time doing research, 80 percent of my time trying to develop new therapies for childhood cancer,” said Sayour, an associate professor of neurosurgery and pediatrics and principal investigator of th...
Read More
Hot Tumors: The Turbo Engine That Immunotherapy Needed
UF Study: Consumers like Shelved Tomato Juice More than a Refrigerated Product UF Study: Consumers like Shelved Tomato Juice More than a Refrigerated Product
UF Study: Consumers like Shelved Tomato Juice More than a Refrigerated Product
by Brad Buck UF/IFAS Tempted by the tangy taste of tomato juice? Consumers may prefer a product sold from grocery store shelves over a minimally pasteurized refrigerated product, but only by a small margin, new University of Florida research shows. Researchers at the UF Institute of Food and Agricultural Sciences made four types of tomato juice, combining six UF/IFAS tomato varieties. In this study, scientists wanted to know how heat treatments impact flavor compounds in tomato juices. Generally...
Read More
UF Study: Consumers like Shelved Tomato Juice More than a Refrigerated Product
Even at the Cellular Level, Ancestry Matters Even at the Cellular Level, Ancestry Matters
Even at the Cellular Level, Ancestry Matters
by Emily Cardinali UF News Diseases impact different populations with varying prevalence, which is reflected in health disparities that are seen for illnesses like lupus, cancer, and cardiovascular disease. To create effective medical treatments, researchers need representative population samples. Even though disease impacts everybody, medical research samples are often not representative of diverse populations. In a new article published by Nature, UF professors Erika Moore, Josephine Allen and...
Read More
Even at the Cellular Level, Ancestry Matters
Two Common Compounds Show Effectiveness Against COVID-19 Virus in Early Testing Two Common Compounds Show Effectiveness Against COVID-19 Virus in Early Testing
Two Common Compounds Show Effectiveness Against COVID-19 Virus in Early Testing
by Doug Bennett UF Health A pair of over-the-counter compounds has been found in preliminary tests to inhibit the virus that causes COVID-19, University of Florida Health researchers have found. The combination includes diphenhydramine, an antihistamine used for allergy symptoms. When paired with lactoferrin, a protein found in cow and human milk, the compounds were found to hinder the SARS-CoV-2 virus during tests in monkey cells and human lung cells. The findings by David A. Ostrov, Ph.D., an ...
Read More
Two Common Compounds Show Effectiveness Against COVID-19 Virus in Early Testing
Stomata Molecular Switches and the Future of Agriculture with Dr. Sixue Chen Stomata Molecular Switches and the Future of Agriculture with Dr. Sixue Chen
Stomata Molecular Switches and the Future of Agriculture with Dr. Sixue Chen
By Rosie Kereston UF Genetics Institute Dr. Sixue Chen, professor in the Department of Biology and faculty director of the UF | ICBR Proteomics and Mass Spectrometry core, has dedicated his research to improving the future of agriculture and global food security. “I have always wanted to do something useful for other people. That keeps me going. Every day, I ask myself how I can make a positive difference in the lives of as many people as possible. That’s why I love my job- it is a perfect...
Read More
Stomata Molecular Switches and the Future of Agriculture with Dr. Sixue Chen
Underbite regained: Species feared extinct is the only frog with true teeth on its lower jaw Underbite regained: Species feared extinct is the only frog with true teeth on its lower jaw
Underbite regained: Species feared extinct is the only frog with true teeth on its lower jaw
By Jerald Pinson Florida Museum In a new study, biologists laid to rest a century-old debate by confirming that a single species of frog, out of the more than 7,000 living today, has true teeth on its lower jaw. The culprit, a large marsupial frog named Gastrotheca guentheri, has puzzled scientists since its discovery in 1882 for possessing what appeared to be a complete set of jagged, daggerlike teeth on the top and bottom of its mouth. Scientists have since waffled over the exact nature of the...
Read More
Underbite regained: Species feared extinct is the only frog with true teeth on its lower jaw

CORE INSTRUMENTS

NextGen DNA Sequencing

CORE PERSONNEL

NameTelephoneE-mailRoom

UF | ICBR Administration

Administration
Name/Title/DepartmentPhoneEmailLocationAdministration

Dr. Anna-Lisa Paul
Director, UF | ICBR

Administration

(352) 273-8029alp@ufl.edu160 CGRCAdministration

Dr. Steven Madore
Associate Director for Science, UF | ICBR
Administration

(352) 273-8038smadore@ufl.edu156 CGRCAdministration

Heather Voet
Associate Director of Operations
Administration

(352) 273-9461hvoet@ufl.edu161 CGRCAdministration



Administration

UF | ICBR Business Services

Business Services
Name/Title/DepartmentPhoneEmailLocationBusiness Services
Heather Voet
Associate Director of Operations
Business Services
(352) 273-9461hvoet@ufl.edu161 CGRCBusiness Services
Tim Hillmann
Finance Manager
Business Services
(352) 273-8027tjh4501@ufl.edu163 CGRCBusiness Services
Erica Boyd
Human Resources Generalist II
Business Services
(352) 273-8271ericalboyd@ufl.edu158 CGRCBusiness Services
Tina Hasko
Business Administrative Assistant III
Business Services
(352) 273-8048thasko@ufl.edu154 CGRCBusiness Services
Mackenzie Madore
Administrative Specialist II
Business Services
(352) 273-8065mmadore@ufl.edu157 CGRCBusiness Services
Tensi Krpan
Administrative Specialist II
Business Services
(352) 273-8026tenser9@ufl.edu181 CGRCBusiness Services

Kimberly Backer-Kelley
Core Research Facility Technician II
Administration

(352) 273-5341klbk@ufl.edu185 CGRCBusiness Services



Business Services

UF | ICBR Cyberinfrastructure

Cyberinfrastructure
Name/Title/DepartmentPhoneEmailLocationCyberinfrastructure
Jeremy Jensen
Cyberinfrastructure Section Director
Cyberinfrastructure
(352) 273-9274jeremy.jensen@ufl.edu188 CGRCCyberinfrastructure
Omar López
Senior Scientific Systems Developer
Cyberinfrastructure
(352) 273-8054omar.lopez@ufl.edu188 CGRCCyberinfrastructure
Ben Thebaut
Enterprise Systems Developer
Cyberinfrastructure
(352) 273-6814ben.thebaut@ufl.edu188 CGRCCyberinfrastructure
Cameron Smith
Systems Security Specialist
Cyberinfrastructure 
(352) 273-9651pc.smith@ufl.edu188 CGRCCyberinfrastructure
Daniel Tarlini 
Help Desk Specialist
Cyberinfrastructure 
(352) 273-8170tarlinid@ufl.edu188 CGRCCyberinfrastructure



Cyberinfrastructure

UF | ICBR Communications

Communications
Name/Title/DepartmentPhoneEmailLocationCommunications
Chris Dillon
Communications Section Director
Communications
(352) 273-8168csdillon@ufl.edu162 CGRCCommunications



Communications

UF | ICBR Bioinformatics

Email Core

Bioinformatics
Name/Title/DepartmentPhoneEmailLocationBioinformatics
Dr. Alberto Riva
Scientific Director
Bioinformatics
(352) 294-5475ariva@ufl.edu191 CGRCBioinformatics
Dr. Fahong Yu
Associate Scientist
Bioinformatics
(352) 273-8064fyu@ufl.edu191 CGRCBioinformatics
Dr. Tongjun Gu
Assistant Scientist
Bioinformatics
(352) 273-8058tgu@ufl.edu191 CGRCBioinformatics



Bioinformatics

UF | ICBR Cytometry

Email Core

Cytometry
Name/Title/DepartmentPhoneEmailLocationCytometry
Dr. Andria Doty
Scientific Director
Cytometry
(352) 273-8186sun30@ufl.edu292B CGRCCytometry
Dr. Mariza Miranda
Core Research Specialist II
Cytometry
(352) 273-6032marizamiranda@ufl.edu292 CGRCCytometry
Dr. Patrick Kellish
Core Research Specialist II
Cytometry
(352) 273-8550pckellish@ufl.edu292 CGRCCytometry
Doug Smith
CTAC Manager
Cytometry
(352) 392-1745dugsmith@ufl.eduLG-164Cytometry
Alexander Linares
OPS Lab Technician
Cytometry
(352) 273-6032a.linares@ufl.eduCGRC 292Cytometry



Cytometry

UF | ICBR Electron Microscopy

Email Core

Electron Microscopy
Name/Title/DepartmentPhoneEmailLocationElectron Microscopy
Paul R. Chipman
Scientific Director
Electron Microscopy
(352) 294-1790pchipman@ufl.edu1012 MCSElectron Microscopy
Karen Kelley
Scientific Research Manager
Electron Microscopy
(352) 273-5341vau@ufl.edu1012 MCS / 185 CGRCElectron Microscopy
Rudy Alvarado
Core Research Facility Technician III
Electron Microscopy
(352) 846-0251ralvaradojr@ufl.edu1012 MCSElectron Microscopy
Kimberly Backer-Kelley
Core Research Facility Technician II
Electron Microscopy
(352) 273-5341 klbk@ufl.edu185 CGRCElectron Microscopy
Nicole J. Machi
Core Research Facility Technician II
Electron Microscopy
(352) 392-1184njmachi@ufl.edu1012 MCSElectron Microscopy
Alejandra Bayer
Student Lab Technician 
Electron Microscopy
(352) 392-1184Alejandra.bayer@ufl.edu1012 MCSElectron Microscopy



Electron Microscopy

UF | ICBR Gene Expression & Genotyping

Email Core

Gene Expression & Genotyping
Name/Title/DepartmentPhoneEmailLocationGene Expression & Genotyping
Dr. Yanping Zhang
Scientific Director
Gene Expression & Genotyping
(352) 273-8043yanp@ufl.edu178F CGRCGene Expression & Genotyping
Brandon Pate
Core Research Facility Specialist II
Gene Expression & Genotyping
(352) 273-8036Bpate1@ufl.edu178 CGRCGene Expression & Genotyping
Dr. Junli Zhang
Core Research Facility Specialist II
Gene Expression & Genotyping
(352) 273-8036zjl1983@ufl.edu178 CGRCGene Expression & Genotyping
Leyna Xoi
Core Research Facility Technician III
Gene Expression & Genotyping
(352) 273-8036leynaxoi@ufl.edu178 CGRCGene Expression & Genotyping
Lesly Salgado
Student Assistant
Gene Expression & Genotyping
(352) 273-8036lesly.salgado@ufl.edu178 CGRCGene Expression & Genotyping



Gene Expression & Genotyping

UF | ICBR Monoclonal Antibody

Email Core

Monoclonal Antibody
Name/Title/DepartmentPhoneEmailLocationMonoclonal Antibody
Dr. Angel Sampson
Scientific Director
Monoclonal Antibody
(352) 273-8039angel.sampson@ufl.edu175 CGRCMonoclonal Antibody
Shadi Bootorabi
Senior Biological Scientist
Monoclonal Antibody
(352) 273-8041shb@ufl.edu171A CGRCMonoclonal Antibody
Katrina Kelly
Core Research Facility Technician III
Monoclonal Antibody
(352) 273-8040kaekelly@ufl.edu171 CGRCMonoclonal Antibody
Jesus Mendoza
OPS Lab Technician
Monoclonal Antibody
(352) 273-8040jesusmendoza@ufl.edu171 CGRCMonoclonal Antibody



Monoclonal Antibody

UF | ICBR NextGen DNA Sequencing

Email Core

NextGen DNA Sequencing
Name/Title/DepartmentPhoneEmailLocationNextGen DNA Sequencing
Dr. David Moraga
Scientific Director
NextGen DNA Sequencing
(352) 273-8053moraga@ufl.edu178J CGRCNextGen DNA Sequencing
Dr. Diansy Zincke
Core Research Facility Specialist II
NextGen DNA Sequencing
(352) 273-8050dzincke@ufl.edu178 CGRCNextGen DNA Sequencing
Dr. Liming Zhao
Core Research Facility Specialist II
NextGen DNA Sequencing
(352) 273-8050lmzhao@ufl.edu178 CGRCNextGen DNA Sequencing
Xiao Hui Zhou
Core Research Facility Technician III
NextGen DNA Sequencing
(352) 273-8050zxh@ufl.edu178 CGRCNextGen DNA Sequencing
Benjamin Hoffman
Core Research Facility Technician III
NextGen DNA Sequencing
(352) 273-8050semplar@ufl.edu178 CGRCNextGen DNA Sequencing



NextGen DNA Sequencing

UF | ICBR Proteomics & Mass Spectrometry

Email Core

Proteomics & Mass Spectrometry
Name/Title/DepartmentPhoneEmailLocationProteomics & Mass Spectrometry
Dr. Sixue Chen
Faculty Director
Proteomics & Mass Spectrometry
(352) 273-8057schen@ufl.edu169A CGRCProteomics & Mass Spectrometry
Dr. Jin Koh
Scientific Director
Proteomics & Mass Spectrometry
(352) 273-8059jinkoh@ufl.edu168A CGRCProteomics & Mass Spectrometry
Ran Zheng
Core Research Facility Specialist I
Proteomics & Mass Spectrometry
(352) 273-8061ranzheng@ufl.edu169 CGRCProteomics & Mass Spectrometry
Dr. Ning Zhu
Core Research Facility Specialist I
Proteomics & Mass Spectrometry
(352) 273-8067nzhu@ufl.edu169 CGRCProteomics & Mass Spectrometry
Fanchao Zhu
Core Research Facility Technician III
Proteomics & Mass Spectrometry
(352) 273-8060fzhu9482@ufl.edu169 CGRCProteomics & Mass Spectrometry