Research Support

Letter of Support Requests

The Advanced Genomics Core is happy to provide letters of support for grant applications. Email advanced-genomics@umich.edu  to request a letter. Please include your name and affiliation, the type of application you are submitting, the title of your proposal, the core services you will be using, and a brief description of your project.

Facilities and Resources

The University of Michigan operates the Biomedical Research Core Facilities, a University-wide resource that provides state-of-the-art technical services for UM researchers.  These Core Facilities include: Advanced Genomics, Epigenomics, Bioinformatics, Transgenic Mouse Production, Embryonic Stem Cell Lab, Vector Core, Flow Cytometry Core, Molecular Biology Stores, and others. 

The Advanced Genomics Core is a shared resource that provides advanced molecular technologies to support the full range of biomedical research conducted at the University of Michigan. The core was created in 1993 as an automated Sanger sequencing facility, and since then has established an excellent reputation for high quality and cost-effective service work. Over the years, we have dramatically expanded to include a wide variety of other genetic analysis services, including microarray systems (Illumina), single cell platforms (10x Genomics, seqWell, Parse Biosciencess) and next generation sequencing (Illumina, Oxford Nanopore). We can prepare more than 10,000 libraries a year and can accommodate more than 1500 Single-Cell samples per year. The Core now occupies over 10,000 square feet of pre- and post-PCR laboratory space and employs 24 FTEs to provide researchers with access to next generation sequencing, genotyping, epigenetic, and gene expression analysis technologies on a recharge basis. Our people and processes are supported by a custom Laboratory Information Management System (LIMS), providing sample tracking, data Q/C, data processing and automated data distribution. Computational and informatics support is provided by a dedicated IT staff of five full-time individuals.

Major Core equipment:

ABI QuantStudio 12K Flex (1) Illumina NextSeq 500/550 (2) Qiagen QiaCube robotic prep (2)
ABI StepOne qPCR systems (1) Illumina MiSeq sequencer (2) Qubit 2.0 fluorimetric system
Agilent 2200 TapeStation LabChip GX Touch Qubit 4.0 fluorimetric system
Agilent 4200 TapeStation Life Technologies Countess II cell counter Qubit Flex fluorimetric system
Agilent Bioanalyzer 2100 (3) Low-speed tabletop centrifuges (numerous) Sage BluePippin preparative PFGE (2)
Biological Safety Cabinets (2) LUNA Fx7 Automated Cell Counter Savant speed-evaporator (2)
Covaris S2 DNA fragmentation system (1) MilliQ IQ-7000 Water Purification System Tabletop microfuges (numerous)
Eppendorf EpMotion 5075 robot (2) Molecular Dynamics 96-well Fluorimeter Tecan Freedom EVO robotic workstation
GeneAmp PCR 9700 dual head 384 well (2) nanoString GeoMx DSP Thermal Cyclers 96-well (20 various manuf.)
High Speed microplate shaker (2) Nanodrop ND1000 spectrophotometer (2) ThermoScientific Cryotome
Hybridization ovens (5) Olympus BX51 Epifluorescence Microscope UV PCR workstation hoods (2)
Illumina NovaSeq 6000 ONT GridION 10x Genomics Chromium System (2)
llumina iScan system with Autoloader 2X ProFlex PCR System (1)  

 

Rigor and Reproducibility Statement

The Advanced Genomics Core employs multiple mechanisms to ensure rigor and reproductivity in the daily operations of the facility. All samples are subjected to quality assessment upon entering the facility and customers are provided with guidelines for determining if they want to proceed with downstream assays. Core methods are well documented in the form of standard operating procedures (SOPs) and assays include appropriate positive and negative controls and contain at least one quality control step to verify success of the method.  AGC equipment are subjected to instrumentation management plans, which include preventative maintenance as recommended by the manufacturer. Before release of files, data are subjected to quality control steps, which include verifying that instrumentation performance met manufacturers specification and initial data processing steps that ensure assay reagents worked as expected.

Budget estimates

Next generation sequencing projects have lots of options, our website tool is excellent for playing with project parameters and obtaining estimates.

Experimental Design and Project Consultation

The Advanced Genomics Core holds weekly office hours for project planning and consultation. Please reach out to us if you would like to discuss how our technologies can be applied to your area of research.

Acknowledgements

Most core services use advanced technologies that are both complex and expensive. While we offer these in a fee-for-service format that typically does not warrant authorship, we appreciate the expertise our AGC Research Specialists bring to the University of Michigan Research Enterprise. Please support our team by acknowledging AGC services in your publication with a sentence such as the following: “Single cell processing and next-generation sequencing was carried out in the Advanced Genomics Core at the University of Michigan.”