The Omics/Epigenetics Unit enables genomic, single-cell, epigenetic, and spatial multi-omic interrogation of defined cellular populations and intact tissue microenvironments. Platforms include transcriptomics, chromatin accessibility, DNA methylation, immune repertoire sequencing, and spatial approaches. The Unit leverages institutional platforms while providing HIV-specific integration, ensuring complementarity and avoiding duplication.
Genomics Unit Personnel
Pinyi Du
Research Associate
Harrold Amogan
Research Associate
Genomics Unit Services
- DNA isolation
- RNA isolation
- cDNA synthesis
- Nucleic acid quantification NanoDrop One
- Nucleic acid quantification Qubit 2.0 fluorometer
- Nucleic acid quality control Agilent Bioanalyzer 2100 / TapeStation
- Nucleic acid quality control Agilent Bioanalyzer 2200 / TapeStation
- RT-qPCR full service
- RT-qPCR run
- ddPCR full service
- ddPCR run
- Gene expression quantification consultation
- Primer / probe design
- SNP genotyping
- 10X Chromium Controller use
- 10X sample and library preparation
- Targeted sequencing (AmpliSeq)
- Targeted genome sequencing
- RNA-Seq consultation
- Data preparation for downstream analysis
- Bioinformatics training
The Genomics Unit is equipped with the following instruments:
Nucleic acid characterization:
- NanoDrop One, shared access to Qubit 2.0 Fluorometer
- Agilent Bioanalyzer 2100, shared access to Tape Station 2200
- 2 Bio-Rad T100 dedicated thermocyclers, shared access to Veriti thermocyclers
- Applied Biosystems 7500 and 7900HT Real-time PCR systems (with multiple block types)
- QuantStudio Flex7 system
- Bio-Rad (formerly QuantaLife) QX200 digital PCR instrument
Next generation sequencing:
- Ion S5/Ion Chef Sequencer
- Illumina MiSeq Desktop Sequencer
- 10X Genomics Chromium Controller
- PowerEdge T620 Tower Server (Ubuntu Linux)
Location & Contact Information
Stein Clinical Research Building, 3rd Floor Room 308
UC San Diego
9500 Gilman Drive, MC 0679
La Jolla, CA 92093-0679
Phone: 858-552-8585, ext. 2585
Email: cfargenomics@ucsd.edu
