The CoreMarketplace: UF ICBR NextGen DNA Sequencing

University of Florida

2033 Mowry Road

CGRC 178

Gainesville, FL 32610

United States of America

https://biotech.ufl.edu/next-gen-dna/

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Facility LIMS Page

iLab

Primary Contact:

David Moraga Amador

Last Updated: 10/05/2021

Facility RRID

RRID:SCR_019152

Facility Details

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.

Facility Policies

Services are offerred outside of University of Florida

Consulting is offerred outside of University of Florida

Services offered:

10x Genomics

DNA Analysis

Library Services

Metagenomics Analysis

RNA analysis

RNAseq

Sequencing - DNA Sequencing

Sequencing - Next Generation Sequencing (NGS)

Facility Equipment

2100 Bioanalyzer Instrument

The 2100 Bioanalyzer system is an automated electrophoresis tool that provides precise analytical evaluation of various samples types in many workflows, including next generation sequencing (NGS), gene expression, biopharmaceutical, and gene editing research. Digital data is provided in a timely manner and delivers objective assessment of sizing, quantitation, integrity and purity from DNA, RNA, and proteins. Minimal sample volumes are required for an accurate result, and the data may be exported in a many different formats for ease-of-use. [Product Link]

RRID:SCR_018043

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Agilent 4200 Tapestation Genetic Analyzer

Benchtop genetic analyzer electrophoresis system for DNA and RNA sample quality control. It can be used for next generation sequencing or Biobank workflow. [Product Link]

RRID:SCR_018435

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10x Genomics Chromium
Agilent Tapestation 2200
Bio-Rad C1000 Touch Thermocycler
BMG Labtech Fluostar Omega
Covaris E220
Covaris S220
Illumina iSeq
Illumina MiSeq
Illumina NextSeq 500
Illumina NovaSeq 6000
PacBio Sequel
Sage ELF
Invitrogen Qubit 3.0

Publications

Publications associated with this facility (Click To View):

1.) Meyer JL, Gunasekera SP, Brown AL, Ding Y, Miller S, Teplitski M, Paul VJ (2023 Jan 22). Cryptic Diversity of Black Band Disease Cyanobacteria in Siderastrea siderea Corals Revealed by Chemical Ecology and Comparative Genome-Resolved Metagenomics Marine Drugs, 21(2), 76. . PMCID: 9967302.

2.) Wolff CA, Gutierrez-Monreal MA, Meng L, Zhang X, Douma LG, Costello HM, Douglas CM, Ebrahimi E, Pham A, Oliveira AC, Fu C, Nguyen A, Alava BR, Hesketh SJ, Morris AR, Endale MM, Crislip GR, Cheng KY, Schroder EA, Delisle BP, Bryant AJ, Gumz ML, Huo Z, Liu AC, Esser KA (2023 Jan 9). Defining the age-dependent and tissue-specific circadian transcriptome in male mice Cell reports, 42(1), 111982. . PMCID: 9929559.

3.) Haveman NJ, Zhou M, Callaham J, Strickland HF, Houze D, Manning-Roach S, Newsham G, Paul AL, Ferl RJ (2022 Nov 13). Utilizing the KSC Fixation Tube to Conduct Human-Tended Plant Biology Experiments on a Suborbital Spaceflight Life, 12(11), 1871. . PMCID: 9693084.

4.) Paul AL, Elardo SM, Ferl R (2022 May 12). Plants grown in Apollo lunar regolith present stress-associated transcriptomes that inform prospects for lunar exploration Communications Biology, 5(), 382. . PMCID: 9098553.

5.) Magalis BR, Mavian C, Tagliamonte M, Rich SN, Cash M, Riva A, Loeb JC, Norris M, Amador DM, Zhang Y, Shapiro J, Starostik P, Marini S, Myers P, Ostrov DA, Lednicky JA, Glenn Morris J Jr, Lauzardo M, Salemi M (2022 Apr 13). Low‐frequency variants in mildly symptomatic vaccine breakthrough infections presents a doubled‐edged sword Journal of Medical Virology, 94(7), 3192-3202. . PMCID: 9325371.

6.) Nguyen LT, Macaluso NC, Pizzano BL, Cash MN, Spacek J, Karasek J, Miller MR, Lednicky JA, Dinglasan RR, Salemi M, Jain PK (2022 Mar 13). A thermostable Cas12b from Brevibacillus leverages one-pot discrimination of SARS-CoV-2 variants of concern EBioMedicine, 77(), 103926. . PMCID: 8917962.

7.) Rife Magalis B, Rich S, Tagliamonte MS, Mavian C, Cash MN, Riva A, Marini S, Amador DM, Zhang Y, Shapiro J, Horine A, Starostik P, Pieretti M, Vega S, Paula Lacombe A, Salinas J, Stevenson M, Myers P, Glenn Morris J Jr, Lauzardo M, Prosperi M, Salemi M (2022 Mar 10). Severe Acute Respiratory Syndrome Coronavirus 2 Delta Vaccine Breakthrough Transmissibility in Alachua County, Florida Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America, 75(9), 1618-1627. . PMCID: 9617581.

8.) Nguyen LT, Macaluso NC, Pizzano BLM, Cash MN, Spacek J, Karasek J, Miller MR, Lednicky JA, Dinglasan RR, Salemi M, Jain PK (2022 Mar). A thermostable Cas12b from Brevibacillus leverages one-pot discrimination of SARS-CoV-2 variants of concern. EBioMedicine, 77(), 103926. . PMID: 35290826.

9.) Paul AL, Haveman N, Califar B, Ferl RJ (2021 Sep 13). Epigenomic Regulators Elongator Complex Subunit 2 and Methyltransferase 1 Differentially Condition the Spaceflight Response in Arabidopsis Frontiers in Plant Science, 12(), 691790. . PMCID: 8475764.

10.) Paul AL, Haveman N, Califar B, Ferl RJ (2021). Epigenomic Regulators Elongator Complex Subunit 2 and Methyltransferase 1 Differentially Condition the Spaceflight Response in Arabidopsis. Frontiers in plant science, 12(), 691790. doi: 10.3389/fpls.2021.691790. PMID: 34589093.

Associations

ABRF

Association of Biomolecular Resource Facilities

SEASR

Southeastern Association of Shared Resources

Metadata

Links

All the links listed resolve to this core listing

https://coremarketplace.org/?FacilityID=650
https://coremarketplace.org/RRID:SCR_019152

SciCrunch Data Imports (data maintained by https://scicrunch.org)

Keywords:

USEDit, sequencing technologies, de novo sequencing, whole genomes, targeted sequencing, transcriptome sequencing, chromatin immunoprecipitation sequencing, methylation analysis, metagenomics, ABRF, ABRF

Resource Type:

core facility, access service resource, service resource

Citation:

University of Florida ICBR NextGen DNA Sequencing Core Facility (RRID:SCR_019152)

UF ICBR NextGen DNA Sequencing (Sequencing)

Facility LIMS Page

Primary Contact:

Facility RRID

Facility Details

Facility Policies

(To see more facility information, click the in the upper right)

Services offered:

Facility Equipment

(To see more facility information, click the in the upper right)

Publications

(To see more facility information, click the in the upper right)

Associations

ABRF

SEASR

(To see more facility information, click the in the upper right)

Metadata

SciCrunch Data Imports (data maintained by https://scicrunch.org)

(To see more facility information, click the in the upper right)

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UF ICBR NextGen DNA Sequencing

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