Mission: DNA Technologies & Expression Analysis Cores

DNA_logo_bannerThe mission of the DNA Technologies Core at the UC Davis Genome Center is to provide DNA analytical services to campus and other researchers.  We are currently focused on Next-Gen Sequencing (NGS) and genotyping, using mainly Illumina (HiSeq 4000, NextSeq, and MiSeq), PacBio (Sequel and RSII), and Fluidigm (C1-single cell analysis and Access Array) , and 10X Genomics Chromium platforms (linked-read genome sequencing). Our goal is to enable access to high throughput genome-wide analyses at economical recharge rates, as a functional extension of your laboratory.

expression_analysis_core_banner The mission of the Expression Analysis Core at the UC Davis Genome Center is to provide services and technologies for gene expression analyses at the genomic level. We are focused on exploiting high throughput sequencing. We offer standard as well as specialized and custom RNA-seq library prep services for Illumina sequencing. The PacBio Iso-Seq protocol enables full-length transcript sequencing and thus the discovery new gene isoforms.  The 10X Genomics Chromium single-cell platform allows single-cell and single-nuclei gene expression profiling for up to 10,000 cells or nuclei.
Workshops in these technologies are an important part of facility operations. We also offer access to liquid handlers and nucleic acid analyzers to facilitate your experiments.

Read more about Getting Started in the Core.

Services and Equipment

 

Technology Platforms Facility Services
Illumina Sequencing HiSeq 4000, NextSeq & MiSeq
PacBio Sequencing PacBio RSII, Sequel
10X Genomics Chromium   Single-Cell Gene Expression; Whole Genome Linked Reads
Fluidigm C1 Single Cell Genomics Auto-Prep
Fluidigm Access Array Target Amplification
Infinium Genotyping
Fluidigm EP1 Genotyping
Next-Gen Sequencing (Illumina and PacBio)
Next-Gen Library Prep
DNA Quantification/Library QC
Single Cell Genomics
Genotyping
Expression Analysis
Equipment: Training & Access
Sample QC: Agilent Bioanalyzer, Nanodrop, Caliper LabChip GX
Sample Prep: Covaris E220, Diagenode Bioruptor & Bioruptor NGS, Sage Science BluePippin, Pippin HT
Automated Library Prep: Caliper Sciclone G3, IntegenX Apollo 324, Fluidigm Access Array

News

  • PacBio News – High Fidelity Long Reads – Sequel V3 Chemistry

    December 12, 2018
    PacBio News The new PacBio Sequel chemistry (V3) enables High-Fidelity Long Reads: The chemistry enables significantly longer polymerase reads which can be used to sequence molecules of 10 kb and 15 kb length with 99.9% accuracy.   The V2 reagents are discontinued. Thanks to the new chemistry the PacBio technology is now optimal for the sequencing of even the longest amplicons.  ...
  • Holiday Hours

    December 6, 2018
    HOLIDAY HOURS: We will be closed on the university holidays December 24th, 25th and 31st as well as January 1st. We expect difficulties with the receipt of shipments in the week between the holidays. Best arrange shipments to arrive by December 20th.
  • New online equipment reservation system ready-to go!

    October 11, 2018
    We finally have a new online equipment reservation system ready-to go! The new PPMS system will also be used by other Campus Cores in the near future. Stratocore PPMS is now used to book and reserve the folllowing shared instruments:  Bioanalyzer, Covaris and Bioruptor sonicators, BuePippin, PippinHT, Plate Reader, Fluidigm Access Array, Sciclone NGS liquid handling robot.  The instruments ...
  • Monthly Illumina Office Hours

    October 11, 2018
    Illumina Office Hours October 11th & each 2nd Thursday / month 9:30 AM – 11:30 AM Please join your local Illumina support team as they host office hours at UC Davis! What to expect: •Meet your local Illumina support team •Receive updates on the latest Illumina applications •Bring your experimental NGS or Array design questions for our Illumina experts such as: •RNA-Seq •Genotyping •Targeted sequencing •Coffee and ...
  • We now offer Nanopore Sequencing on the PromethION, HMW-DNA isolation & Hi-C

    September 26, 2018
    Summary UC Davis Genome Center DNA Technologies Core adds three key technologies: Nanopore sequencing on the PromethION sequencer High Molecular Weight-DNA isolation Hi-C Chromatin Conformation Capture Introduction The DNA Technologies Core at the Genome Center is adding three services that will be greatly enabling whole genome studies and de novo genome assembly projects. The Genome Center is expanding into the latest sequencing technology, Nanopore sequencing on ...
  • Single-Cell RNA-Seq Feasibility and Pilot Study Funding Available through the Office of Research

    September 5, 2018
    Please note that single-cell pilot and feasibility projects needs to be discussed with the participating cores before the application.  Our single-cell expert Diana Burkart-Waco, PhD, (dburkart@ucdavis.edu) is available for pilot grant project related discussions.  To include the other cores please contact Matt Settles (settles@ucdavis.edu ; Bioinformatics) and Bridget McLaughlin (bmclaughlin@ucdavis.edu; Flow-Cytometry).  The feasibility grant will support the analysis of one sample for ...
  • Wednesday is RNA-QC day – starting in September

    August 20, 2018
    Wednesday is RNA-QC day  – starting in September Assessing the integrity of RNA samples with the Bioanalyzer can be time consuming and expensive since each run takes an hour and only 12 RNA can samples can be run. To make RNA QC more convenient and affordable we will be running one or more batches of RNA samples every ...
  • Illumina Office Hours and Consultations on August 30th

    August 15, 2018
    Please join your local Illumina support team as they host office hours at UC Davis! What to expect: Meet your local Illumina support team Receive updates on the latest Illumina applications Bring your experimental NGS or Array design questions for our Illumina experts! Coffee and snacks Where: UC Davis Genome Center GBSF Bldg., Room #1314 451 Health Science Drive Davis, CA 95616 When: Thursday, Aug 30th, 2018 9:30 ...
  • Sequencing library prep queue longer than usual

    August 3, 2018
    August 3rd, 2018:    We have received an unexpected large number of submissions for library prep projects.  Thus, the library prep queue is currently longer than usual (about 8 weeks).   The sequencing queues are not affected and the sequencing turnaround times are fast (one to two weeks).  
  • Additional (2nd) DNA Re-Sequencing Workshop on July 25th: Library Prep and Data Analysis

    June 28, 2018
    2nd Illumina Hands-On DNA Re-Sequencing Workshop on July 25th Since the July 24th workshop was fully booked immediately, we are offering an additional workshop  on the following day.  Please join us for a hands-on workshop on DNA sequencing library preparation and data analysis using the Nextera DNA Flex library prep kit (focusing on re-sequencing). The workshop on July 25th (9am ...
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