Transcriptional Regulation & Expression Facility
Services & Pricing :
To place an order, please click here to lauch the sample submision portal (BRC account required).
General guidelines and Other info:
RNA Input Requirements
Data Distribution
RNA-Seq Standard package
- Sample Submission: 10ng — 1ug purified RNA (see RNA input requirements).
'Bioanalyzer QC' is highly recommended.
Contact us for information about RNA QC options. - Library Preparation: NEBNext Ultra II [Directional] RNA
PolyA* enrichment (included) or ribosomal RNA depletion (extra cost;
we can deplete animal and/or bacterial rRNA).
Directional (stranded, default) or non-directional (non-stranded, recommended for input < 20ng total RNA). - Sequencing: Minimum 20M raw reads. Deeper sequencing is available on request (extra cost).
- Standard analysis: Read preprocessing, mapping to reference genome, data QC reports including mapping rate and sample clustering analyses, differential gene expression analysis (DESeq2). Alternative analysis modes including pathogen discovery are also available; contact us for information.
To place an order, please click here to lauch the sample submision portal (BRC account required).
Small-RNA-Seq Standard package
- Sample Submission: 100ng - 1ug purified RNA (lower input is sufficient for cell-free RNA; see RNA input requirements).
'Bioanalyzer QC' is highly recommended; contact us for information about RNA QC options. - Library Preparation: NEBNext Small RNA.
- Sequencing: Minimum 10M raw reads. Deeper sequencing is available on request (extra cost).
- Standard analysis:
Read preprocessing, quantification of annotated microRNAs (miRdeep2 using miRBase annotations), data QC
reports including total microRNA counts and sample clustering analyses, differential microRNA detection analysis (DESeq2).
Optional: Reads can be mapped to a reference genome on request.
To place an order, please click here to lauch the sample submision portal (BRC account required).
RNA Input Requirements
| Library Type | Transcriptome | Recommended | Minimum |
| RNAseq - directional | polyA+
rRNA-depleted |
≥ 500ng total RNA, RIN > 8
100ng - 1µg total RNA |
10ng total RNA, RIN > 7
10ng total RNA |
| RNAseq - non-directional | polyA+
rRNA-depleted |
use directional RNAseq or 50-100ng
total RNA, RIN > 8 same as directional RNAseq |
1ng total RNA, RIN > 8
10ng total RNA |
| small-RNAseq | small RNAs |
≥ 500ng total RNA or
10ng cell-free RNA (e.g. serum) |
100ng total RNA or
10pg cell-free RNA (e.g. serum) |
Custom Services
Custom services are available on a limited basis for additional cost. Please contact us for more information.
- DNase Treatment and RNA Cleanup
- Nanodrop/Qubit Quantification
- RNA QC on Fragment Analyzer
Data Distribution
- Data analysis reports (html and xlsx formats) including data QC, raw count tables, and differential expression analysis results will be distributed when a project is complete via Box, Google Drive, and/or email.
- Large data files are available on request and will be distributed via Globus or on the BRC Bioinformatics network (user account required).
- Raw reads (fastq files) will be archived for at least 5 years by the TREx Facility.
- Mapped reads (bam files) will be retained only as required for standard analysis and will be purged on a quarterly basis.
- The first distribution of large data files is included in the standard package rates.
Repeat requests for distribution of large data files may incur additional fees.