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deseq2 package  (Partek)

 
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    Partek deseq2 package
    Deseq2 Package, supplied by Partek, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/deseq2 package/product/Partek
    Average 86 stars, based on 1 article reviews
    deseq2 package - by Bioz Stars, 2026-05
    86/100 stars

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    Genes controlling fitness of M12 during growth in gallium nitrate. Transposon sequencing was used to track mutants passaged in Davis broth or Davis broth supplemented with 800 µM gallium nitrate. Each dot on the volcano plot represents a gene with log 2 -fold change (reads mapped in no gallium/gallium) on the x -axis and the −log 10 ( P value) on the y -axis. Genes with strong depletion (right) or enrichment (left) in the presence of gallium indicate loss or gain of fitness when disrupted by transposons, respectively. Orange dots indicate genes with a twofold change and P value <0.05 as determined by <t>DESeq2,</t> and the names of genes investigated further are indicated.
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    Genes controlling fitness of M12 during growth in gallium nitrate. Transposon sequencing was used to track mutants passaged in Davis broth or Davis broth supplemented with 800 µM gallium nitrate. Each dot on the volcano plot represents a gene with log 2 -fold change (reads mapped in no gallium/gallium) on the x -axis and the −log 10 ( P value) on the y -axis. Genes with strong depletion (right) or enrichment (left) in the presence of gallium indicate loss or gain of fitness when disrupted by transposons, respectively. Orange dots indicate genes with a twofold change and P value <0.05 as determined by DESeq2, and the names of genes investigated further are indicated.

    Journal: Journal of Bacteriology

    Article Title: Opposing roles for iron transport systems in gallium tolerance in extraintestinal pathogenic Escherichia coli

    doi: 10.1128/jb.00349-25

    Figure Lengend Snippet: Genes controlling fitness of M12 during growth in gallium nitrate. Transposon sequencing was used to track mutants passaged in Davis broth or Davis broth supplemented with 800 µM gallium nitrate. Each dot on the volcano plot represents a gene with log 2 -fold change (reads mapped in no gallium/gallium) on the x -axis and the −log 10 ( P value) on the y -axis. Genes with strong depletion (right) or enrichment (left) in the presence of gallium indicate loss or gain of fitness when disrupted by transposons, respectively. Orange dots indicate genes with a twofold change and P value <0.05 as determined by DESeq2, and the names of genes investigated further are indicated.

    Article Snippet: Raw count tables for each gene were analyzed using the DESeq2 package in Geneious (Biomatters).

    Techniques: Sequencing