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Sample GSM2367511 Query DataSets for GSM2367511
Status Public on Jul 17, 2017
Title Sequencing of the transduced sgRNAs post-selection (Screen C)
Sample type SRA
Source name A549 Cells
Organism Mus musculus
Characteristics sample type: transduced sgRNAs post-selection (Screen C)
Treatment protocol Cells were transduced with sgRNA lentivirus and subsequently infected with influenza A virus (PR8 strain).
Growth protocol Cells were grown under standard laboratory conditions and stably transfected with CRISPR components.
Extracted molecule genomic DNA
Extraction protocol Cells were sorted via flow cytometry, genomic DNA was extracted, and PCR for the sgRNA sequences was performed.
Illumina adaptors and barcodes were incorporated into the PCR primers.
PCR amplified libraries were generated with independent barcodes to allow multiplexing. 50% PhiX DNA was included in the sequencing run, as low diversity libraries were expected.
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina MiSeq
Description Single Lane Sequencing
Neg C
Data processing The sgRNA reads (which had 5' and 3' flanking regions that matched the sgRNA expression lentivirus vector) were quality filtered and mapped to a reference table of sgRNA sequences provided in Konermann et al, Nature 2015 (supplementary table 6).
Read numbers were normalized by dividing by the total read depth to give a percentage of total reads (displayed in the "percentage of reads" column in the processed data tables).
Supplementary_files_format_and_content: Raw and normalized read numbers
Submission date Nov 01, 2016
Last update date May 15, 2019
Contact name Nicholas Heaton
Organization name Duke University School of Medicine
Department Molecular Genetics and Microbiology
Street address 213 Research Drive, 426 CARL Building
City Durham
State/province NC
ZIP/Postal code 27710
Country USA
Platform ID GPL16417
Series (1)
GSE89371 A genome-wide CRISPR activation screen identifies B4GALNT2 as an inhibitory host factor for influenza virus infection
BioSample SAMN05958563
SRA SRX2312506

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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