siRNA / miRNA gene silencing Human HNSCC cell line

Short hairpin or small hairpin RNA (shRNA) is artificial RNA, which has a hairpin loop structure, and uses inherent microRNA (miRNA) machinery to silence target gene expression. This is called RNA interference (RNAi). These can be delivered via plasmids or viral/bacterial vectors. Challenges in shRNA-mediated gene silencing include 1. Off-target silencing, 2. Packaging shRNA encoding lentivirus, and 3. Stable transduction in cells. RNAi has been designed to have anywhere from 19-27 bs, but the most effective design has 19 bp. In case commercial shRNAs are not available, potential target sites can be chosen within exon, 5’- or 3’ UTR, depending on which splice variants of the gene are desired. One should use the latest algorithms and choose at least two different sequences, targeting different regions, in order to have confidence in overcoming off-target effects. A BLAST search after selecting potential design will eliminate potential off-target sequences. For the second challenge, sequencing the vector using primers for either strand (50-100 bp upstream) is suggested, along with using enzymatic digestion on agarose gel for the vector. Next, once the shRNA-containing vector is packaged in a virus, it is important to check the viral titer before transduction. Finally, using a marker in the lentiviral vector (fluorescent protein or antibiotic resistance), along with qPCR for target gene expression can help in determining the efficacy of transduction and shRNA on its target site.

Get tips on using ON-TARGETplus Human PAK1 (5058) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - Caco-2 PAK1

Get tips on using ON-TARGETplus Human MCL1 (4170) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - M245 MCL-1

Get tips on using ON-TARGETplus Human FOXM1 (2305) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - MCF-7 FOXM1

Get tips on using ON-TARGETplus Human ERCC4 (2072) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - U2OS XPF/ERCC4

Get tips on using ON-TARGETplus Human MOAP1 (64112) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - A2780 MOAP-1

Get tips on using ON-TARGETplus Human RAB11FIP1 (80223) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - A431 RCP/RAB11FIP1

Get tips on using ON-TARGETplus Human ABCG2 (9429) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - BC-1 BCRP

Get tips on using ON-TARGETplus Human RRM2 (6241) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - BCBL-1 RRM2

Get tips on using ON-TARGETplus Human SLC7A11 (23657) siRNA - SMARTpool to perform siRNA / miRNA gene silencing Human - BCBL-1 xCT