Whole-genome Sequencing

Mini Echo DNA Prep

A very low-cost Nextera library prep miniaturized using our Echo liquid handler. Suitable for small to medium genomes and DNA of moderate quality or better (>50% of DNA fragments over 1000bp). Requires >25ng of DNA per sample suspended in 25-50ul of water or buffer that is free of EDTA.

Shotgun Prep

Whole-genome sequencing using enzymatic fragmentation. Our option for large genomes and DNA of any quality. A PCR-free workflow is available. Requires >50ng of DNA per sample suspended in 25-50ul of water or low-EDTA buffer.

RNA

Stranded RNA-seq

Stranded, high-complexity RNA-seq libraries for RNA of any quality. Available with or without bead-based mRNA capture. Requires >5ng of total or enriched RNA suspended in 25-50ul of RNase-free water. 

Small RNA-seq

RNA sequencing for miRNA and other small non-coding RNAs. Requires >5ng of total or enriched RNA suspended in 25ul of RNase-free water. 

16S

Amplification of the 16S region by PCR. We offer barcoded primers, allowing up to 768 samples to be pooled for sequencing.

Hi-C

Phase Genomics’ proximity ligation protocol, typically used alongside long-read data to reach chromosomal-level assemblies. Requires >50mg of flash-frozen tissue. Other preservation methods, such as RNAlater or ethanol, are acceptable but may impact library yield or complexity. 

Single-cell 

We offer single-cell library preps from Scale, ddSeq, and (until December 2025) 10X. 

Scale preps use combinatorial barcoding to identify individual cells within each sample. Scale preps are priced by the project, as the cells in each prep can be divided across multiple samples (maximum cells and samples varies by prep type). Cells must be fixed prior to submission.

ddSeq and 10X use microfluidics to isolate individual cells for barcoding and are priced per sample. Cells suspensions for ddSeq and 10X must have a high viability for successful prep; contact us to schedule a sample hand-off time.

3' Gene Expression

3' gene expression at the single-cell level. We offer GEX from Scale (125k fixed cells across up to 96 samples), ddSeq (up to 7k viable cells), and 10X (up to 10k viable cells). 

ATAC-seq

Chromosomal accessibility information at the single-cell level. We offer ATAC-seq from Scale (300k fixed cells across up to 24 samples), ddSeq (up to 7k viable cells), and 10X (up to 10k viable cells).

Multiome

Combined 3' GEX and ATAC seq data at the single-cell level. 10X is the only platform for this protocol at this time and accommodates up to 10k cells per sample.

If you don’t see the right prep or aren’t sure what you need, email us at genomics@uoregon.edu.