TREx is now part of Biotechnology Resource Center. Please click here to visit the BRC affiliated site.
The TREx Lab is currently OPEN and is taking sample submissions by appointment only.
Please review our NEW SAMPLE SUBMISSION GUIDELINES for more information or Click Here to place an order.
To schedule a virtual meeting and or get in touch via e-mail: Click Here

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.