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Series GSE118288 Query DataSets for GSE118288
Status Public on Oct 16, 2019
Title Characterization of the immune response to Mycobacterium marinum infection in zebrafish
Organism Danio rerio
Experiment type Expression profiling by high throughput sequencing
Summary Mycobacterium marinum infection in zebrafish (Danio rerio) has been widely used to study human tuberculosis because the bacteria causing these two diseases are close relatives. We studied the zebrafish immune response to M. marinum infection through a whole-genome level transcriptome analysis. As expected based on the literature, our results showed the induction of genes coding proteins associated to immune signaling, cell migration and acute phase response indicating that the immune response to M. marinum infection in zebrafish is similar than the response to tuberculosis causing Mycobacterium tuberculosis in humans.
 
Overall design Identification of the up- and downregulated genes in Mycobacterium marinum infection in zebrafish. 8 samples were analyzed, four biological replicates in each group.
 
Contributor(s) Harjula SE, Saralahti AK, Ojanen MJ, Rantapero T, Uusi-Mäkelä MI, Nykter M, Lohi O, Parikka M, Rämet M
Citation(s) 31626817
Submission date Aug 08, 2018
Last update date Jan 18, 2020
Contact name Sanna-Kaisa Emilia Harjula
E-mail(s) sanna.harjula@tuni.fi
Organization name University of Tampere
Street address Arvo Ylpön katu 34
City Tampere
ZIP/Postal code 33520
Country Finland
 
Platforms (1)
GPL23085 HiSeq X Ten (Danio rerio)
Samples (8)
GSM3324245 AB_1: WT_inf_rep1
GSM3324246 AB_2: WT_inf_rep2
GSM3324247 AB_3: WT_inf_rep3
Relations
BioProject PRJNA485080
SRA SRP156734

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE118288_normalized_expressions.tsv.gz 453.3 Kb (ftp)(http) TSV
GSE118288_raw_expressions.tsv.gz 448.5 Kb (ftp)(http) TSV
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Raw data are available in SRA
Processed data are available on Series record

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