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Gene expression analysis upon lncRNA DDSR1 knockdown in human fibroblasts.

Jia L, Sun Z, Wu X, Misteli T, Sharma V - Genom Data (2015)

Bottom Line: Since lncRNAs also modulate gene expression, we identified gene expression changes upon DDSR1 knockdown in human fibroblast cells.Gene expression analysis after RNAi treatment targeted against DDSR1 revealed 119 genes that show differential expression.Here we provide a detailed description of the microarray data (NCBI GEO accession number GSE67048) and the data analysis procedure associated with the publication by Sharma et al., 2015 in EMBO Reports [1].

View Article: PubMed Central - PubMed

Affiliation: CCR Collaborative Bioinformatics Resource (CCBR), National Cancer Institute, NIH, Bethesda, MD 20892, USA.

ABSTRACT
Long non-coding RNAs (lncRNAs) play important roles in regulating diverse biological processes including DNA damage and repair. We have recently reported that the DNA damage inducible lncRNA DNA damage-sensitive RNA1 (DDSR1) regulates DNA repair by homologous recombination (HR). Since lncRNAs also modulate gene expression, we identified gene expression changes upon DDSR1 knockdown in human fibroblast cells. Gene expression analysis after RNAi treatment targeted against DDSR1 revealed 119 genes that show differential expression. Here we provide a detailed description of the microarray data (NCBI GEO accession number GSE67048) and the data analysis procedure associated with the publication by Sharma et al., 2015 in EMBO Reports [1].

No MeSH data available.


Related in: MedlinePlus

Volcano plot of probe signals showing differential expression. X-axis represents log fold change on comparison between siDDSR1 and siNS and Y-axis is log10P-value of comparison between siDDSR1 and siNS. Blue color represents down-regulated probe sets, red color represents up-regulated probe sets and the black represents probe sets with no significant P-value.
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f0015: Volcano plot of probe signals showing differential expression. X-axis represents log fold change on comparison between siDDSR1 and siNS and Y-axis is log10P-value of comparison between siDDSR1 and siNS. Blue color represents down-regulated probe sets, red color represents up-regulated probe sets and the black represents probe sets with no significant P-value.

Mentions: Data were analyzed using Partek Genomics Suite 6.6 (Partek Incorporated) and differentially expressed genes (DEG) were defined as genes having ≥ 1.5-fold change of expression in pairwise comparisons, with a P-value of < 0.05 in Fig. 3. A more detailed discussion of data is published in Sharma et al. [1].


Gene expression analysis upon lncRNA DDSR1 knockdown in human fibroblasts.

Jia L, Sun Z, Wu X, Misteli T, Sharma V - Genom Data (2015)

Volcano plot of probe signals showing differential expression. X-axis represents log fold change on comparison between siDDSR1 and siNS and Y-axis is log10P-value of comparison between siDDSR1 and siNS. Blue color represents down-regulated probe sets, red color represents up-regulated probe sets and the black represents probe sets with no significant P-value.
© Copyright Policy - CC BY-NC-ND
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4664778&req=5

f0015: Volcano plot of probe signals showing differential expression. X-axis represents log fold change on comparison between siDDSR1 and siNS and Y-axis is log10P-value of comparison between siDDSR1 and siNS. Blue color represents down-regulated probe sets, red color represents up-regulated probe sets and the black represents probe sets with no significant P-value.
Mentions: Data were analyzed using Partek Genomics Suite 6.6 (Partek Incorporated) and differentially expressed genes (DEG) were defined as genes having ≥ 1.5-fold change of expression in pairwise comparisons, with a P-value of < 0.05 in Fig. 3. A more detailed discussion of data is published in Sharma et al. [1].

Bottom Line: Since lncRNAs also modulate gene expression, we identified gene expression changes upon DDSR1 knockdown in human fibroblast cells.Gene expression analysis after RNAi treatment targeted against DDSR1 revealed 119 genes that show differential expression.Here we provide a detailed description of the microarray data (NCBI GEO accession number GSE67048) and the data analysis procedure associated with the publication by Sharma et al., 2015 in EMBO Reports [1].

View Article: PubMed Central - PubMed

Affiliation: CCR Collaborative Bioinformatics Resource (CCBR), National Cancer Institute, NIH, Bethesda, MD 20892, USA.

ABSTRACT
Long non-coding RNAs (lncRNAs) play important roles in regulating diverse biological processes including DNA damage and repair. We have recently reported that the DNA damage inducible lncRNA DNA damage-sensitive RNA1 (DDSR1) regulates DNA repair by homologous recombination (HR). Since lncRNAs also modulate gene expression, we identified gene expression changes upon DDSR1 knockdown in human fibroblast cells. Gene expression analysis after RNAi treatment targeted against DDSR1 revealed 119 genes that show differential expression. Here we provide a detailed description of the microarray data (NCBI GEO accession number GSE67048) and the data analysis procedure associated with the publication by Sharma et al., 2015 in EMBO Reports [1].

No MeSH data available.


Related in: MedlinePlus