LGALS8-AS1

Species: Homo sapiens

Position: chr1: 236523051-236524508

Known as:

Transcript: ENST00000487567

Sequence: Download

Description:

We report a high throughput genomic deletion strategy to screen for functional long non-coding RNAs (lncRNAs) that is based on a lentiviral paired-guide RNA (pgRNA) library. Applying our screening method, we identified 51 lncRNAs that can positively or negatively regulate human cancer cell growth. We used the MAGeCK algorithm to identify the top hits by comparing samples from day 30 with day-0 controls. The output of MAGeCK is a set of negatively (or positively) selected lncRNAs, or lncRNAs whose knockout disrupts (or stimulates) cell proliferation. In total, MAGeCK identified 43 negatively selected and 8 positively selected lncRNAs with statistical significance (false discovery rate < 0.25).



sgRNAs

sgRNA_ID Sequence Position (Chr) Position (Lnc) Length PAM Type Validity Cell line Note Ref.
sgRNA1 GTGGCGCTCGGCCTCAGGCT 236524412-236524431(-) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA2 AGCGACTGCCCCGCCACCCG 236524085-236524104(-) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA3 CGGTGAGGACCGGCGGGTCG 236524207-236524226(-) gene body (near 5') 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA4 TGTCACTACAAATTCCGGGA 236524463-236524482(-) gene body (near 5') 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA5 CAGTCCCGTACAATTACCAG 236525355-236525374(-) up stream 20 AGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA6 ACCCAGCCCCGGCTCTGCCG 236524227-236524246(-) gene body (near 5') 20 CGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA7 GACTTTAAGCAGAACTAAAG 236524998-236525017(-) up stream 20 GGG CRISPRko Partial validated Huh7.5 NA [1]
sgRNA8 CAACCCCCGAAGTATCCCCA 236524663-236524682(-) up stream 20 GGG CRISPRko Partial validated Huh7.5 NA [1]

GBrowser


Links

lncRNA Function:

sgRNA Design Tool:

Reference

1. Zhu S, Li W, Liu J, Chen CH, Liao Q, et al. (2016). Genome-scale deletion screening of human long non-coding RNAs using a paired-guide RNA CRISPR-Cas9 library. Nat Biotechnol 34(12): 1279-1286.