Ribodepletion Solutions
Gene expression studies lie at the heart of understanding cellular processes, disease mechanisms, and developmental pathways. However, profiling of gene expression requires overcoming significant challenges, one of which is the presence of abundant transcripts, in particular ribosomal RNA (rRNA). Ribosomal RNA constitutes a substantial portion of total RNA in cells, often exceeding 80%. During RNA sequencing (RNA-seq), rRNA reads dominate the dataset, overshadowing other RNA species. This dominance hampers the detection of low-abundance transcripts and distorts gene expression profiles.
Ribodepletion refers to the targeted removal of rRNA from RNA samples before sequencing. Ribodepletion improves the detection of low-abundance transcripts. Genes expressed at low levels become more visible, leading to a comprehensive view of the transcriptome. This allows researchers to focus on biologically relevant transcripts without interference from abundant rRNA. Ribodepletion minimizes false positives and false negatives, improving statistical power. In addition to rRNA depletion, removal of other commonly occurring transcripts that are not of interest in a study can further improve detection of biologically relevant transcripts.
Revvity offers depletion kits based on either CRISPR-Cas9 depletion or using a hybridization-probe approach to remove uninformative molecules prior to sequencing and improve your ability to detect biologically relevant transcripts in single cell sequencing, whole blood samples, and even complex communities containing host and bacteria RNA.
For research use only. Not for use in diagnostic procedures.
Focusing your sequencing reads
| Application | Type of sample | What do you want to remove? | Kit |
|---|---|---|---|
| Single cell RNA-seq | Any single cell sample. Both 5’ and 3’ gene expression libraries. | CRISPR-based removal of human rRNA, mtRNA, non-transcriptomics reads and (optional) non-variable genes to reallocate up to 50% of sequencing reads to informative clusters. The DepleteX® Single Cell RNA Boost Kit can be paired with CITE-Seq single-cell workflows that utilize TotalSeq™ oligo-conjugated antibodies from BioLegend for protein detection. |
DepleteX® Single Cell RNA Boost Kit |
| Gene expression (Transcriptomics) | Human whole blood | Selective CRISPR-based removal of highly expressed globin transcripts (HBA1, HBA2, HBB, & HBD), maximizing UMI and gene sensitivity | DepleteX® RNA Depletion (Globin) Kit |
| Human fibroblast or whole blood | CRISPR-based removal of common transcripts. Reallocates 70% of sequencing reads to biologically relevant transcripts, enhancing detection of low-expressing transcripts and rare isoforms | DepleteX® High Expressing RNA Depletion Kit | |
| Human sample (any type) | CRISPR-based removal of human rRNA sequences, increasing representation of relevant transcripts | CRISPRclean® Stranded Total RNA | |
| Human sample (any type) | Hybridization-based removal of human rRNA sequences, increasing representation of relevant transcripts | NEXTFLEX™ Ribonaut rRNA Depletion Kit | |
| Human sample (any type) | CRISPR-based removal of human mitochondrial DNA. Capture more information from samples with high mitochondrial content | DepleteX® Mitochondrial DNA Kit | |
| Metagenomics | Human origin (stool, saliva, etc) | CRISPR-based removal of human host rRNA sequences, increasing representation of relevant transcripts | CRISPRclean® Stranded Total RNA Kit |
| Human origin (stool, saliva, etc) | CRISPR-based removal of human and bacterial rRNA sequences, increasing representation of relevant transcripts. | CRISPRclean® Plus Stranded Total RNA Kit | |
| Human origin (nasopharyngeal swab) | CRISPR-based removal of human rRNA sequences, highly expressed human transcripts, and bacterial rRNA increasing representation of relevant transcripts. | DepleteX® Nasopharyngeal Microbial RNA Boost Kit |
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