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Sample GSM8259167 Query DataSets for GSM8259167
Status Public on May 08, 2024
Title Mtb infected MAEA knockdown macrophages 4 days post infection_2
Sample type SRA
Source name Bone marrow macrophages
Organisms Mycobacterium tuberculosis; Mus musculus
Characteristics cell type: Bone marrow macrophages
genotype: MAEA knockdown
infection: Mtb infected - 4 days
Extracted molecule total RNA
Extraction protocol RNA was extracted using TRIZOL, total RNA from the aqueous phase was purified using the Zymo RNA clean and concentrator kit
Barcoded RNAseq libraries were generated with the NEBNext Ultra II [Directional] RNA Library Prep Kit after ribosomal rRNA depletion using the QIAseq FastSelect pan-bacterial and H/M/R kits
Novaseq 6000 S4
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Description MAEA_2
Data processing STAR-2.7.10b
Reads were mapped to GRCm39 and ASM19595v2 using STAR. Raw read counts were obtained from mapped reads using HTSeq count
Raw and normalised reads were analyzed using DESeq2
Assembly: mm10, ASM19595v2
Supplementary files format and content: txt files for both raw and normalized counts
Submission date May 08, 2024
Last update date May 08, 2024
Contact name Nelson Victor Simwela
Phone 6072619389
Organization name Cornell University
Department Microbiology and Immunology
Street address 930 Campus Rd
City Ithaca
State/province NY
ZIP/Postal code 14853
Country USA
Platform ID GPL34461
Series (1)
GSE267063 Genome-wide screening of Mycobacterium tuberculosis-infected macrophages identified the GID/CTLH complex as a determinant of intracellular bacterial growth
BioSample SAMN41271810
SRA SRX24502574

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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