Many small-interfering (si)RNAs are toxic to cancer cells through a 6mer seed sequence (positions 2–7 of the guide strand). Here we performed an siRNA screen with all 4096 6mer seeds revealing a preference for guanine in positions 1 and 2 and a high overall G or C content in the ...
Functional RNAi based screening is affected by large numbers of false positive and negative hits due to prevalent sequence based off-target effects. We performed a druggable genome targeting siRNA screen intended to identify novel regulators of E-cadherin (CDH1) expression, a known key player in ep...
Pairing between the hexamer seed region of a small interfering RNA (siRNA) guide strand (nucleotides 2-7) and complementary sequences in the 3' UTR of mature transcripts has been implicated as an important element in off-target gene regulation and false positive phenotypes. To better understand ...
We present a crosstalk scenario, designated as ‘crosstalk with endogenous RBPs’ (ceRBP), in which small interfering RNAs or microRNAs with seed sequences that overlap RBP motifs have extended biological effects by perturbing endogenous RBP activity. Systematic analysis of small interfering RNA (...
常见的Databases有miRBase,PMRD和TargetScan等。其中,miRBase是最大的database。research时,可以通过cluster,expression或sequence判断未知核酸序列是否为miRNA。在查阅时,可查看改miRNA的树形发育图,如果是pri-miRNA则小写mir,pre-miRNA大写miR; PMRD是plant microRNA database,TargetScan用于预测可能的靶基因,靶基因就是mRN...
Many small-interfering (si)RNAs are toxic to cancer cells through a 6mer seed sequence (positions 2–7 of the guide strand). Here we performed an siRNA screen with all 4096 6mer seeds revealing a preference for guanine in positions 1 and 2 and a high overall G or C content in the se...
(see6merdb.org). To determine how much of miR-34a-5p’s cancer killing activity came from just its 6mer seed, we expressed the mir-34a-5p seed sequence in a neutral siRNA scaffold and compared its activity to that of the full length miR-34a-5p. Both activities were highly similar ...
the anticipated target site may be present in more than one mammalian mRNA (off-target effect). At least two or three mismatches between the prospective siRNA sequence and an mRNA are necessary to completely prevent siRNA-mediated RNA cleavage. A BLAST search of the siRNA sequen 因为siRNAs是相当...
We predict that interploidy crosses disrupt parental genome balance, leading to imbalance of siRNAs and expression of siRNA-associated genes in endosperm and consequently endosperm failure (Figure 2b). Since p4-siRNAs are highly divergent among species, and their abundance is largely dependent on the...
Furthermore, siRNA with two selected seed sequences, GUGUGUA and UGUUUGC, were shown to (1) reduce PCa cell growth and viability in vitro, (2) lower the expression of the AR (including AR-V7), as well as AR coregulatory and essential gene networks associated with 3′ UTR sequences ...